diff options
| author | pjotrp | 2015-11-18 11:19:01 +0100 |
|---|---|---|
| committer | pjotrp | 2015-11-18 11:19:01 +0100 |
| commit | cb0f10fc4850b6b06f2237b532317a5c6668584a (patch) | |
| tree | d143662ecceac5e05bd06afee4c87b2beb88859b /wqflask | |
| parent | 28ec342362ba068b3d0b5b9a302bc279d251f160 (diff) | |
| parent | 0310301b30c59eca45235cd1bd1ff8e15923950a (diff) | |
| download | genenetwork2-cb0f10fc4850b6b06f2237b532317a5c6668584a.tar.gz | |
Merge branch 'master' of https://github.com/zsloan/genenetwork2 into zsloan
Diffstat (limited to 'wqflask')
134 files changed, 40289 insertions, 18089 deletions
diff --git a/wqflask/base/data_set.py b/wqflask/base/data_set.py index 489bd374..d6a46c2e 100755 --- a/wqflask/base/data_set.py +++ b/wqflask/base/data_set.py @@ -29,6 +29,7 @@ import json import gzip import cPickle as pickle import itertools +from operator import itemgetter from redis import Redis Redis = Redis() @@ -42,7 +43,7 @@ from base import species from dbFunction import webqtlDatabaseFunction from utility import webqtlUtil from utility.benchmark import Bench -from wqflask.my_pylmm.pyLMM import chunks +from utility import chunks from maintenance import get_group_samplelists @@ -88,7 +89,7 @@ class Dataset_Types(object): for group in data['datasets'][species]: for dataset_type in data['datasets'][species][group]: for dataset in data['datasets'][species][group][dataset_type]: - print("dataset is:", dataset) + #print("dataset is:", dataset) short_dataset_name = dataset[0] if dataset_type == "Phenotypes": @@ -162,8 +163,6 @@ class Markers(object): for marker in markers: if (marker['chr'] != "X") and (marker['chr'] != "Y"): marker['chr'] = int(marker['chr']) - #else: - # marker['chr'] = 20 print("Mb:", marker['Mb']) marker['Mb'] = float(marker['Mb']) @@ -278,7 +277,7 @@ class DatasetGroup(object): """ def __init__(self, dataset): """This sets self.group and self.group_id""" - print("dataset name:", dataset.name) + print("DATASET NAME2:", dataset.name) self.name, self.id = g.db.execute(dataset.query_for_group).fetchone() if self.name == 'BXD300': self.name = "BXD" @@ -292,6 +291,7 @@ class DatasetGroup(object): self.incparentsf1 = False self.allsamples = None + self._datasets = None def get_specified_markers(self, markers = []): self.markers = HumanMarkers(self.name, markers) @@ -305,6 +305,75 @@ class DatasetGroup(object): self.markers = marker_class(self.name) + def datasets(self): + key = "group_dataset_menu:v2:" + self.name + print("key is2:", key) + #with Bench("Loading cache"): + # result = Redis.get(key) + #if result: + # self._datasets = pickle.loads(result) + # return self._datasets + + dataset_menu = [] + print("[tape4] webqtlConfig.PUBLICTHRESH:", webqtlConfig.PUBLICTHRESH) + print("[tape4] type webqtlConfig.PUBLICTHRESH:", type(webqtlConfig.PUBLICTHRESH)) + results = g.db.execute(''' + (SELECT '#PublishFreeze',PublishFreeze.FullName,PublishFreeze.Name + FROM PublishFreeze,InbredSet + WHERE PublishFreeze.InbredSetId = InbredSet.Id + and InbredSet.Name = %s + and PublishFreeze.public > %s) + UNION + (SELECT '#GenoFreeze',GenoFreeze.FullName,GenoFreeze.Name + FROM GenoFreeze, InbredSet + WHERE GenoFreeze.InbredSetId = InbredSet.Id + and InbredSet.Name = %s + and GenoFreeze.public > %s) + UNION + (SELECT Tissue.Name, ProbeSetFreeze.FullName,ProbeSetFreeze.Name + FROM ProbeSetFreeze, ProbeFreeze, InbredSet, Tissue + WHERE ProbeSetFreeze.ProbeFreezeId = ProbeFreeze.Id + and ProbeFreeze.TissueId = Tissue.Id + and ProbeFreeze.InbredSetId = InbredSet.Id + and InbredSet.Name like %s + and ProbeSetFreeze.public > %s + ORDER BY Tissue.Name, ProbeSetFreeze.CreateTime desc, ProbeSetFreeze.AvgId) + ''', (self.name, webqtlConfig.PUBLICTHRESH, + self.name, webqtlConfig.PUBLICTHRESH, + "%" + self.name + "%", webqtlConfig.PUBLICTHRESH)) + + the_results = results.fetchall() + + #for tissue_name, dataset in itertools.groupby(the_results, itemgetter(0)): + for dataset_item in the_results: + tissue_name = dataset_item[0] + dataset = dataset_item[1] + dataset_short = dataset_item[2] + if tissue_name in ['#PublishFreeze', '#GenoFreeze']: + dataset_menu.append(dict(tissue=None, datasets=[(dataset, dataset_short)])) + else: + dataset_sub_menu = [item[1:] for item in dataset] + + tissue_already_exists = False + tissue_position = None + for i, tissue_dict in enumerate(dataset_menu): + if tissue_dict['tissue'] == tissue_name: + tissue_already_exists = True + tissue_position = i + break + + if tissue_already_exists: + print("dataset_menu:", dataset_menu[i]['datasets']) + dataset_menu[i]['datasets'].append((dataset, dataset_short)) + else: + dataset_menu.append(dict(tissue=tissue_name, + datasets=[(dataset, dataset_short)])) + + Redis.set(key, pickle.dumps(dataset_menu, pickle.HIGHEST_PROTOCOL)) + Redis.expire(key, 60*5) + self._datasets = dataset_menu + + return self._datasets def get_f1_parent_strains(self): try: @@ -319,7 +388,7 @@ class DatasetGroup(object): self.parlist = [maternal, paternal] def get_samplelist(self): - key = "samplelist:v4:" + self.name + key = "samplelist:v2:" + self.name print("key is:", key) with Bench("Loading cache"): result = Redis.get(key) @@ -332,14 +401,29 @@ class DatasetGroup(object): print(" self.samplelist: ", self.samplelist) else: print("Cache not hit") - try: - self.samplelist = get_group_samplelists.get_samplelist(self.name + ".geno") - except IOError: + + from utility.tools import plink_command + PLINK_PATH,PLINK_COMMAND = plink_command() + + geno_file_path = webqtlConfig.GENODIR+self.name+".geno" + plink_file_path = PLINK_PATH+"/"+self.name+".fam" + + if os.path.isfile(plink_file_path): + self.samplelist = get_group_samplelists.get_samplelist("plink", plink_file_path) + elif os.path.isfile(geno_file_path): + self.samplelist = get_group_samplelists.get_samplelist("geno", geno_file_path) + else: self.samplelist = None print("after get_samplelist") Redis.set(key, json.dumps(self.samplelist)) Redis.expire(key, 60*5) + def all_samples_ordered(self): + result = [] + lists = (self.parlist, self.f1list, self.samplelist) + [result.extend(l) for l in lists if l] + return result + def read_genotype_file(self): '''Read genotype from .geno file instead of database''' #if self.group == 'BXD300': @@ -434,6 +518,8 @@ class DataSet(object): self.group.get_samplelist() self.species = species.TheSpecies(self) + print("TESTING!!!") + def get_desc(self): """Gets overridden later, at least for Temp...used by trait's get_given_name""" @@ -473,29 +559,39 @@ class DataSet(object): This is not meant to retrieve the data set info if no name at all is passed. """ - - query_args = tuple(escape(x) for x in ( - (self.type + "Freeze"), - str(webqtlConfig.PUBLICTHRESH), - self.name, - self.name, - self.name)) - print("query_args are:", query_args) - - #print(""" - # SELECT Id, Name, FullName, ShortName - # FROM %s - # WHERE public > %s AND - # (Name = '%s' OR FullName = '%s' OR ShortName = '%s') - # """ % (query_args)) try: - self.id, self.name, self.fullname, self.shortname = g.db.execute(""" - SELECT Id, Name, FullName, ShortName - FROM %s - WHERE public > %s AND - (Name = '%s' OR FullName = '%s' OR ShortName = '%s') - """ % (query_args)).fetchone() + if self.type == "ProbeSet": + query_args = tuple(escape(x) for x in ( + str(webqtlConfig.PUBLICTHRESH), + self.name, + self.name, + self.name)) + + self.id, self.name, self.fullname, self.shortname, self.tissue = g.db.execute(""" + SELECT ProbeSetFreeze.Id, ProbeSetFreeze.Name, ProbeSetFreeze.FullName, ProbeSetFreeze.ShortName, Tissue.Name + FROM ProbeSetFreeze, ProbeFreeze, Tissue + WHERE ProbeSetFreeze.public > %s AND + ProbeSetFreeze.ProbeFreezeId = ProbeFreeze.Id AND + ProbeFreeze.TissueId = Tissue.Id AND + (ProbeSetFreeze.Name = '%s' OR ProbeSetFreeze.FullName = '%s' OR ProbeSetFreeze.ShortName = '%s') + """ % (query_args)).fetchone() + else: + query_args = tuple(escape(x) for x in ( + (self.type + "Freeze"), + str(webqtlConfig.PUBLICTHRESH), + self.name, + self.name, + self.name)) + + self.tissue = "N/A" + self.id, self.name, self.fullname, self.shortname = g.db.execute(""" + SELECT Id, Name, FullName, ShortName + FROM %s + WHERE public > %s AND + (Name = '%s' OR FullName = '%s' OR ShortName = '%s') + """ % (query_args)).fetchone() + except TypeError: print("Dataset {} is not yet available in GeneNetwork.".format(self.name)) pass @@ -633,14 +729,14 @@ class PhenotypeDataSet(DataSet): 'sequence', 'units', 'comments'] # Fields displayed in the search results table header - self.header_fields = ['', - 'ID', + self.header_fields = ['Index', + 'Record', 'Description', 'Authors', 'Year', 'Max LRS', 'Max LRS Location', - 'Add. Effect<a href="http://genenetwork.org//glossary.html#A" target="_blank"><sup style="color:#f00"> ?</sup></a>'] + 'Additive Effect'] self.type = 'Publish' @@ -719,7 +815,6 @@ class PhenotypeDataSet(DataSet): Geno.Name = %s and Geno.SpeciesId = Species.Id """, (species, this_trait.locus)).fetchone() - #result = self.cursor.fetchone() if result: if result[0] and result[1]: @@ -737,7 +832,7 @@ class PhenotypeDataSet(DataSet): this_trait.LRS_score_repr = LRS_score_repr = '%3.1f' % this_trait.lrs this_trait.LRS_score_value = LRS_score_value = this_trait.lrs - this_trait.LRS_location_repr = LRS_location_repr = 'Chr %s: %.4f Mb' % (LRS_Chr, float(LRS_Mb)) + this_trait.LRS_location_repr = LRS_location_repr = 'Chr%s: %.6f' % (LRS_Chr, float(LRS_Mb)) def retrieve_sample_data(self, trait): query = """ @@ -753,11 +848,11 @@ class PhenotypeDataSet(DataSet): WHERE PublishXRef.InbredSetId = PublishFreeze.InbredSetId AND PublishData.Id = PublishXRef.DataId AND PublishXRef.Id = %s AND - PublishFreeze.Id = %d AND PublishData.StrainId = Strain.Id + PublishFreeze.Id = %s AND PublishData.StrainId = Strain.Id Order BY Strain.Name - """ % (trait, self.id) - results = g.db.execute(query).fetchall() + """ + results = g.db.execute(query, (trait, self.id)).fetchall() return results @@ -777,7 +872,7 @@ class GenotypeDataSet(DataSet): 'sequence'] # Fields displayed in the search results table header - self.header_fields = ['', + self.header_fields = ['Index', 'ID', 'Location'] @@ -828,7 +923,7 @@ class GenotypeDataSet(DataSet): else: trait_location_value = ord(str(this_trait.chr).upper()[0])*1000 + this_trait.mb - this_trait.location_repr = 'Chr%s: %.4f' % (this_trait.chr, float(this_trait.mb) ) + this_trait.location_repr = 'Chr%s: %.6f' % (this_trait.chr, float(this_trait.mb) ) this_trait.location_value = trait_location_value def retrieve_sample_data(self, trait): @@ -840,15 +935,17 @@ class GenotypeDataSet(DataSet): left join GenoSE on (GenoSE.DataId = GenoData.Id AND GenoSE.StrainId = GenoData.StrainId) WHERE - Geno.SpeciesId = %s AND Geno.Name = '%s' AND GenoXRef.GenoId = Geno.Id AND + Geno.SpeciesId = %s AND Geno.Name = %s AND GenoXRef.GenoId = Geno.Id AND GenoXRef.GenoFreezeId = GenoFreeze.Id AND - GenoFreeze.Name = '%s' AND + GenoFreeze.Name = %s AND GenoXRef.DataId = GenoData.Id AND GenoData.StrainId = Strain.Id Order BY Strain.Name - """ % (webqtlDatabaseFunction.retrieve_species_id(self.group.name), trait, self.name) - results = g.db.execute(query).fetchall() + """ + results = g.db.execute(query, + (webqtlDatabaseFunction.retrieve_species_id(self.group.name), + trait, self.name)).fetchall() return results @@ -893,15 +990,15 @@ class MrnaAssayDataSet(DataSet): 'flag'] # Fields displayed in the search results table header - self.header_fields = ['', - 'ID', + self.header_fields = ['Index', + 'Record', 'Symbol', 'Description', 'Location', - 'Mean Expr', + 'Mean', 'Max LRS', 'Max LRS Location', - 'Add. Effect<a href="http://genenetwork.org//glossary.html#A" target="_blank"><sup style="color:#f00"> ?</sup></a>'] + 'Additive Effect'] # Todo: Obsolete or rename this field self.type = 'ProbeSet' @@ -1055,7 +1152,7 @@ class MrnaAssayDataSet(DataSet): # this_trait.mb) #ZS: Put this in function currently called "convert_location_to_value" - this_trait.location_repr = 'Chr %s: %.4f Mb' % (this_trait.chr, + this_trait.location_repr = 'Chr%s: %.6f' % (this_trait.chr, float(this_trait.mb)) this_trait.location_value = trait_location_value @@ -1074,7 +1171,8 @@ class MrnaAssayDataSet(DataSet): mean = result[0] if result else 0 - this_trait.mean = "%2.3f" % mean + if mean: + this_trait.mean = "%2.3f" % mean #LRS and its location this_trait.LRS_score_repr = 'N/A' @@ -1111,7 +1209,7 @@ class MrnaAssayDataSet(DataSet): this_trait.LRS_score_repr = '%3.1f' % this_trait.lrs this_trait.LRS_score_value = this_trait.lrs - this_trait.LRS_location_repr = 'Chr %s: %.4f Mb' % (lrs_chr, float(lrs_mb)) + this_trait.LRS_location_repr = 'Chr%s: %.6f' % (lrs_chr, float(lrs_mb)) def convert_location_to_value(self, chromosome, mb): @@ -1159,7 +1257,7 @@ class MrnaAssayDataSet(DataSet): Strain.Name """ % (escape(trait), escape(self.name)) results = g.db.execute(query).fetchall() - print("RETRIEVED RESULTS HERE:", results) + #print("RETRIEVED RESULTS HERE:", results) return results diff --git a/wqflask/base/mrna_assay_tissue_data.py b/wqflask/base/mrna_assay_tissue_data.py index 1a05fce7..54a7ce8e 100755 --- a/wqflask/base/mrna_assay_tissue_data.py +++ b/wqflask/base/mrna_assay_tissue_data.py @@ -40,7 +40,6 @@ class MrnaAssayTissueData(object): # with highest mean value # Due to the limit size of TissueProbeSetFreezeId table in DB, # performance of inner join is acceptable.MrnaAssayTissueData(gene_symbols=symbol_list) - #print("len(gene_symbols): ", len(gene_symbols)) if len(gene_symbols) == 0: query += '''Symbol!='' and Symbol Is Not Null group by Symbol) as x inner join TissueProbeSetXRef as t on t.Symbol = x.Symbol @@ -49,6 +48,8 @@ class MrnaAssayTissueData(object): else: in_clause = db_tools.create_in_clause(gene_symbols) + #ZS: This was in the query, not sure why: http://docs.python.org/2/library/string.html?highlight=lower#string.lower + query += ''' Symbol in {} group by Symbol) as x inner join TissueProbeSetXRef as t on t.Symbol = x.Symbol and t.Mean = x.maxmean; @@ -58,8 +59,8 @@ class MrnaAssayTissueData(object): for result in results: symbol = result[0] - if symbol in gene_symbols: - #gene_symbols.append(symbol) + if symbol.lower() in [gene_symbol.lower() for gene_symbol in gene_symbols]: + #gene_symbols.append(symbol) symbol = symbol.lower() self.data[symbol].gene_id = result.GeneId diff --git a/wqflask/base/trait.py b/wqflask/base/trait.py index 58bed865..ff80795c 100755 --- a/wqflask/base/trait.py +++ b/wqflask/base/trait.py @@ -53,7 +53,8 @@ class GeneralTrait(object): self.pvalue = None self.mean = None self.num_overlap = None - + self.strand_probe = None + self.symbol = None if kw.get('fullname'): name2 = value.split("::") @@ -250,14 +251,7 @@ class GeneralTrait(object): # Todo: is this necessary? If not remove self.data.clear() - if self.dataset.group.parlist: - all_samples_ordered = (self.dataset.group.parlist + - self.dataset.group.f1list + - self.dataset.group.samplelist) - elif self.dataset.group.f1list: - all_samples_ordered = self.dataset.group.f1list + self.dataset.group.samplelist - else: - all_samples_ordered = self.dataset.group.samplelist + all_samples_ordered = self.dataset.group.all_samples_ordered() if results: for item in results: @@ -297,7 +291,7 @@ class GeneralTrait(object): PublishFreeze.Id = %s """ % (self.name, self.dataset.id) - print("query is:", query) + print("query is:", query) trait_info = g.db.execute(query).fetchone() #XZ, 05/08/2009: Xiaodong add this block to use ProbeSet.Id to find the probeset instead of just using ProbeSet.Name @@ -336,10 +330,10 @@ class GeneralTrait(object): trait_info = g.db.execute(query).fetchone() #print("trait_info is: ", pf(trait_info)) else: #Temp type - query = """SELECT %s FROM %s WHERE Name = %s - """ % (string.join(self.dataset.display_fields,','), - self.dataset.type, self.name) - trait_info = g.db.execute(query).fetchone() + query = """SELECT %s FROM %s WHERE Name = %s""" + trait_info = g.db.execute(query, + (string.join(self.dataset.display_fields,','), + self.dataset.type, self.name)).fetchone() if trait_info: self.haveinfo = True @@ -422,6 +416,8 @@ class GeneralTrait(object): if result: self.locus_chr = result[0] self.locus_mb = result[1] + else: + self.locus = self.locus_chr = self.locus_mb = "" else: self.locus = self.locus_chr = self.locus_mb = "" else: @@ -533,12 +529,27 @@ class GeneralTrait(object): return setDescription @property + def name_header_fmt(self): + '''Return a human-readable name for use in page header''' + if self.dataset.type == 'ProbeSet': + return self.symbol + elif self.dataset.type == 'Geno': + return self.name + elif self.dataset.type == 'Publish': + return self.post_publication_abbreviation + else: + return "unnamed" + + @property def description_fmt(self): '''Return a text formated description''' - if self.description: - formatted = self.description - if self.probe_target_description: - formatted += "; " + self.probe_target_description + if self.dataset.type == 'ProbeSet': + if self.description: + formatted = self.description + if self.probe_target_description: + formatted += "; " + self.probe_target_description + elif self.dataset.type == 'Publish': + formatted = self.post_publication_description else: formatted = "Not available" return formatted.capitalize() @@ -549,6 +560,9 @@ class GeneralTrait(object): if self.alias: alias = string.replace(self.alias, ";", " ") alias = string.join(string.split(alias), ", ") + else: + alias = 'Not available' + return alias @@ -649,4 +663,4 @@ def get_sample_data(): # jsonable_sample_data[sample] = trait_ob.data[sample].value # #return jsonable_sample_data -
\ No newline at end of file + diff --git a/wqflask/base/webqtlCaseData.py b/wqflask/base/webqtlCaseData.py index 5927b0f4..42763aed 100755 --- a/wqflask/base/webqtlCaseData.py +++ b/wqflask/base/webqtlCaseData.py @@ -34,8 +34,6 @@ class webqtlCaseData(object): self.value = value # Trait Value self.variance = variance # Trait Variance self.num_cases = num_cases # Number of individuals/cases - self.prob_plot_value = None # Ordered value for probability plot; this is sort of wrong but not sure how else to do this - self.z_score = None self.extra_attributes = None self.this_id = None # Set a sane default (can't be just "id" cause that's a reserved word) self.outlier = None # Not set to True/False until later diff --git a/wqflask/base/webqtlConfig.py b/wqflask/base/webqtlConfig.py index 48d8cd0a..330fec56 100755 --- a/wqflask/base/webqtlConfig.py +++ b/wqflask/base/webqtlConfig.py @@ -53,7 +53,7 @@ GNROOT = "/home/zas1024/gene/" # Will remove this and dependent items later SECUREDIR = GNROOT + 'secure/' COMMON_LIB = GNROOT + 'support/admin' HTMLPATH = GNROOT + 'genotype_files/' -PYLMM_PATH = '/home/zas1024/plink/' +PYLMM_PATH = '/home/zas1024/plink_gemma/' SNP_PATH = '/home/zas1024/snps/' IMGDIR = GNROOT + '/wqflask/wqflask/images/' IMAGESPATH = HTMLPATH + 'images/' diff --git a/wqflask/cfg/default_settings.py b/wqflask/cfg/default_settings.py index 8b5d1313..88159321 100755 --- a/wqflask/cfg/default_settings.py +++ b/wqflask/cfg/default_settings.py @@ -14,4 +14,8 @@ SECURITY_EMAIL_SENDER = "no-reply@genenetwork.org" SECURITY_POST_LOGIN_VIEW = "/thank_you" -SQLALCHEMY_POOL_RECYCLE = 3600
\ No newline at end of file +SQLALCHEMY_POOL_RECYCLE = 3600 + +SECURITY_PASSWORD_HASH = "bcrypt" +SESSION_TYPE = "filesystem" +SECRET_KEY = "secretkey" diff --git a/wqflask/maintenance/gen_select_dataset.py b/wqflask/maintenance/gen_select_dataset.py index 694efeca..a2ad8c91 100755 --- a/wqflask/maintenance/gen_select_dataset.py +++ b/wqflask/maintenance/gen_select_dataset.py @@ -35,7 +35,9 @@ from __future__ import print_function, division #config = config.Config(cdict).from_envvar('WQFLASK_SETTINGS') #print("cdict is:", cdict) -import our_settings +import sys +sys.path.append("/home/zas1024/") +import zach_settings import MySQLdb @@ -47,7 +49,7 @@ import urlparse from pprint import pformat as pf -#Engine = sa.create_engine(our_settings.SQLALCHEMY_DATABASE_URI) +#Engine = sa.create_engine(zach_settings.SQLALCHEMY_DATABASE_URI) # build MySql database connection @@ -60,7 +62,7 @@ from pprint import pformat as pf def parse_db_uri(db_uri): """Converts a database URI to the db name, host name, user name, and password""" - parsed_uri = urlparse.urlparse(our_settings.DB_URI) + parsed_uri = urlparse.urlparse(zach_settings.DB_URI) db_conn_info = dict( db = parsed_uri.path[1:], @@ -104,12 +106,48 @@ def get_types(groups): types[species] = {} for group_name, _group_full_name in group_dict: # make group an alias to shorten the code - types[species][group_name] = [("Phenotypes", "Phenotypes"), ("Genotypes", "Genotypes")] - types[species][group_name] += build_types(species, group_name) + #types[species][group_name] = [("Phenotypes", "Phenotypes"), ("Genotypes", "Genotypes")] + if phenotypes_exist(group_name): + types[species][group_name] = [("Phenotypes", "Phenotypes")] + if genotypes_exist(group_name): + if group_name in types[species]: + types[species][group_name] += [("Genotypes", "Genotypes")] + else: + types[species][group_name] = [("Genotypes", "Genotypes")] + if group_name in types[species]: + types[species][group_name] += build_types(species, group_name) + else: + types[species][group_name] = build_types(species, group_name) return types +def phenotypes_exist(group_name): + print("group_name:", group_name) + Cursor.execute("""select Name from PublishFreeze + where PublishFreeze.Name = %s""", (group_name+"Publish")) + + results = Cursor.fetchone() + print("RESULTS:", results) + + if results != None: + return True + else: + return False + +def genotypes_exist(group_name): + print("group_name:", group_name) + Cursor.execute("""select Name from GenoFreeze + where GenoFreeze.Name = %s""", (group_name+"Geno")) + + results = Cursor.fetchone() + print("RESULTS:", results) + + if results != None: + return True + else: + return False + def build_types(species, group): """Fetches tissues @@ -196,7 +234,7 @@ def build_datasets(species, group, type_name): def main(): """Generates and outputs (as json file) the data for the main dropdown menus on the home page""" - parse_db_uri(our_settings.DB_URI) + parse_db_uri(zach_settings.DB_URI) species = get_species() groups = get_groups(species) @@ -236,6 +274,6 @@ def _test_it(): #print("build_datasets:", pf(datasets)) if __name__ == '__main__': - Conn = MySQLdb.Connect(**parse_db_uri(our_settings.DB_URI)) + Conn = MySQLdb.Connect(**parse_db_uri(zach_settings.DB_URI)) Cursor = Conn.cursor() main() diff --git a/wqflask/maintenance/get_group_samplelists.py b/wqflask/maintenance/get_group_samplelists.py index c9ec3872..b8397b47 100755 --- a/wqflask/maintenance/get_group_samplelists.py +++ b/wqflask/maintenance/get_group_samplelists.py @@ -17,8 +17,13 @@ def process_genofiles(geno_dir=webqtlConfig.GENODIR): sample_list = get_samplelist(geno_file) -def get_samplelist(geno_file): - genofilename = os.path.join(webqtlConfig.GENODIR, geno_file) +def get_samplelist(file_type, geno_file): + if file_type == "geno": + return get_samplelist_from_geno(geno_file) + elif file_type == "plink": + return get_samplelist_from_plink(geno_file) + +def get_samplelist_from_geno(genofilename): if os.path.isfile(genofilename + '.gz'): genofilename += '.gz' genofile = gzip.open(genofilename) @@ -41,3 +46,12 @@ def get_samplelist(geno_file): samplelist = headers[3:] return samplelist +def get_samplelist_from_plink(genofilename): + genofile = open(genofilename) + + samplelist = [] + for line in genofile: + line = line.split(" ") + samplelist.append(line[0]) + + return samplelist
\ No newline at end of file diff --git a/wqflask/other_config/nginx_conf/gn2_zach.conf b/wqflask/other_config/nginx_conf/gn2_zach.conf index e7284e8c..23f3995f 100755 --- a/wqflask/other_config/nginx_conf/gn2_zach.conf +++ b/wqflask/other_config/nginx_conf/gn2_zach.conf @@ -28,6 +28,11 @@ server { # root /gene/wqflask/wqflask/static/; #} + location /plink_gemma/ { + root /home/zas1024/gene/wqflask/wqflask/; + autoindex on; + } + location / { proxy_pass http://127.0.0.1:5002/; proxy_redirect off; diff --git a/wqflask/runserver.py b/wqflask/runserver.py index 9d5686a9..59ebf0d4 100755 --- a/wqflask/runserver.py +++ b/wqflask/runserver.py @@ -18,9 +18,10 @@ from wqflask import app #_ch = logging.StreamHandler() #_log.addHandler(_ch) +print app.config + import logging -#from themodule import TheHandlerYouWant -file_handler = logging.FileHandler("/tmp/flask_gn_log_danny_unsecure") +file_handler = logging.FileHandler(app.config['LOGFILE']) file_handler.setLevel(logging.DEBUG) app.logger.addHandler(file_handler) @@ -28,7 +29,8 @@ import logging_tree logging_tree.printout() app.run(host='0.0.0.0', - port=5003, - use_debugger=False, + port=app.config['SERVER_PORT'], + debug=True, + use_debugger=True, threaded=True, use_reloader=True) diff --git a/wqflask/secure_server.py b/wqflask/secure_server.py index 975c97c0..fc258578 100755 --- a/wqflask/secure_server.py +++ b/wqflask/secure_server.py @@ -66,11 +66,8 @@ def check_send_mail_running(): if __name__ == '__main__': #create_user() - - check_send_mail_running() - app.run(host='0.0.0.0', port=5002, use_debugger=True, diff --git a/wqflask/wqflask/my_pylmm/pyLMM/chunks.py b/wqflask/utility/chunks.py index 9565fb96..9565fb96 100644 --- a/wqflask/wqflask/my_pylmm/pyLMM/chunks.py +++ b/wqflask/utility/chunks.py diff --git a/wqflask/utility/tools.py b/wqflask/utility/tools.py new file mode 100644 index 00000000..760ded7c --- /dev/null +++ b/wqflask/utility/tools.py @@ -0,0 +1,84 @@ +# Tools/paths finder resolves external paths from settings and/or environment +# variables +# +# Currently supported: +# +# PYLMM_PATH finds the root of the git repository of the pylmm_gn2 tool + +import os +import sys +from wqflask import app + +def get_setting(id,default,guess,get_valid_path): + """ + Resolve a setting from the environment or the global settings in app.config + """ + # ---- Check whether environment exists + path = get_valid_path(os.environ.get(id)) + # ---- Check whether setting exists + setting = app.config.get(id) + if not path: + path = get_valid_path(setting) + # ---- Check whether default exists + if not path: + path = get_valid_path(default) + # ---- Guess directory + if not path: + if not setting: + setting = guess + path = get_valid_path(guess) + if not path: + raise Exception(id+' '+setting+' path unknown or faulty (update settings.py?). '+id+' should point to the root of the git repository') + + return path + +def pylmm_command(default=None): + """ + Return the path to the repository and the python command to call + """ + def get_valid_path(path): + """Test for a valid repository""" + if path: + sys.stderr.write("Trying PYLMM_PATH in "+path+"\n") + if path and os.path.isfile(path+'/pylmm_gn2/lmm.py'): + return path + else: + None + + guess = os.environ.get('HOME')+'/pylmm_gn2' + path = get_setting('PYLMM_PATH',default,guess,get_valid_path) + pylmm_command = 'python '+path+'/pylmm_gn2/lmm.py' + return path,pylmm_command + +def plink_command(default=None): + """ + Return the path to the repository and the python command to call + """ + def get_valid_path(path): + """Test for a valid repository""" + if path: + sys.stderr.write("Trying PLINK_PATH in "+path+"\n") + if path and os.path.isfile(path+'/plink'): + return path + else: + None + + guess = os.environ.get('HOME')+'/plink' + path = get_setting('PLINK_PATH',default,guess,get_valid_path) + plink_command = path+'/plink' + return path,plink_command + +def gemma_command(default=None): + def get_valid_path(path): + """Test for a valid repository""" + if path: + sys.stderr.write("Trying PLINK_PATH in "+path+"\n") + if path and os.path.isfile(path+'/plink'): + return path + else: + None + + guess = os.environ.get('HOME')+'/plink' + path = get_setting('PLINK_PATH',default,guess,get_valid_path) + gemma_command = path+'/gemma' + return path, gemma_command
\ No newline at end of file diff --git a/wqflask/utility/webqtlUtil.py b/wqflask/utility/webqtlUtil.py index 4d7981d9..f842dde0 100755 --- a/wqflask/utility/webqtlUtil.py +++ b/wqflask/utility/webqtlUtil.py @@ -43,6 +43,7 @@ ParInfo ={ 'BXH':['BHF1', 'HBF1', 'C57BL/6J', 'C3H/HeJ'], 'AKXD':['AKF1', 'KAF1', 'AKR/J', 'DBA/2J'], 'BXD':['B6D2F1', 'D2B6F1', 'C57BL/6J', 'DBA/2J'], +'C57BL-6JxC57BL-6NJF2':['', '', 'C57BL/6J', 'C57BL/6NJ'], 'BXD300':['B6D2F1', 'D2B6F1', 'C57BL/6J', 'DBA/2J'], 'B6BTBRF2':['B6BTBRF1', 'BTBRB6F1', 'C57BL/6J', 'BTBRT<+>tf/J'], 'BHHBF2':['B6HF2','HB6F2','C57BL/6J','C3H/HeJ'], @@ -880,22 +881,6 @@ def cmpGenoPos(A,B): except: return 0 -#XZhou: Must use "BINARY" to enable case sensitive comparison. -def authUser(name,password,db, encrypt=None): - try: - if encrypt: - query = 'SELECT privilege, id,name,password, grpName FROM User WHERE name= BINARY \'%s\' and password= BINARY \'%s\'' % (name,password) - else: - query = 'SELECT privilege, id,name,password, grpName FROM User WHERE name= BINARY \'%s\' and password= BINARY SHA(\'%s\')' % (name,password) - db.execute(query) - records = db.fetchone() - if not records: - raise ValueError - return records#(privilege,id,name,password,grpName) - except: - return (None, None, None, None, None) - - def hasAccessToConfidentialPhenotypeTrait(privilege, userName, authorized_users): access_to_confidential_phenotype_trait = 0 if webqtlConfig.USERDICT[privilege] > webqtlConfig.USERDICT['user']: diff --git a/wqflask/wqflask/__init__.py b/wqflask/wqflask/__init__.py index 8e648c63..478d0a71 100755 --- a/wqflask/wqflask/__init__.py +++ b/wqflask/wqflask/__init__.py @@ -6,16 +6,14 @@ print("sys.path is:", sys.path) import jinja2 from flask import Flask - from utility import formatting app = Flask(__name__) -app.config.SECURITY_PASSWORD_HASH='bcrypt' +app.config.from_object('cfg.default_settings') # Get the defaults from cfg.default_settings +app.config.from_envvar('WQFLASK_SETTINGS') # See http://flask.pocoo.org/docs/config/#configuring-from-files -# See http://flask.pocoo.org/docs/config/#configuring-from-files -app.config.from_object('cfg.default_settings') -app.config.from_envvar('WQFLASK_SETTINGS') +print("Current application configuration:", app.config) app.jinja_env.globals.update( undefined = jinja2.StrictUndefined, diff --git a/wqflask/wqflask/collect.py b/wqflask/wqflask/collect.py index df4507fb..750f4757 100755 --- a/wqflask/wqflask/collect.py +++ b/wqflask/wqflask/collect.py @@ -181,6 +181,8 @@ def collections_new(): if "anonymous_add" in params: AnonCollection().add_traits(params, "Default") return redirect(url_for('view_collection')) + elif "sign_in" in params: + return redirect(url_for('login')) collection_name = params['new_collection'] @@ -329,6 +331,8 @@ def view_collection(): # dis=trait_ob.description)) #json_version.append(trait_ob.__dict__th) + print("trait_obs:", trait_obs) + if "uc_id" in params: collection_info = dict(trait_obs=trait_obs, uc = uc) diff --git a/wqflask/wqflask/correlation/show_corr_results.py b/wqflask/wqflask/correlation/show_corr_results.py index aa37c29e..2612857f 100755 --- a/wqflask/wqflask/correlation/show_corr_results.py +++ b/wqflask/wqflask/correlation/show_corr_results.py @@ -104,6 +104,28 @@ class CorrelationResults(object): self.sample_data = {} self.corr_type = start_vars['corr_type'] self.corr_method = start_vars['corr_sample_method'] + if 'min_expr' in start_vars: + if start_vars['min_expr'] != "": + self.min_expr = float(start_vars['min_expr']) + else: + self.min_expr = None + self.p_range_lower = float(start_vars['p_range_lower']) + self.p_range_upper = float(start_vars['p_range_upper']) + + if ('loc_chr' in start_vars and + 'min_loc_mb' in start_vars and + 'max_loc_mb' in start_vars): + + self.location_chr = start_vars['loc_chr'] + if start_vars['min_loc_mb'].isdigit(): + self.min_location_mb = start_vars['min_loc_mb'] + else: + self.min_location_mb = None + if start_vars['max_loc_mb'].isdigit(): + self.max_location_mb = start_vars['max_loc_mb'] + else: + self.max_location_mb = None + self.get_formatted_corr_type() self.return_number = int(start_vars['corr_return_results']) @@ -127,7 +149,6 @@ class CorrelationResults(object): if corr_samples_group == 'samples_other': primary_samples = [x for x in primary_samples if x not in ( self.dataset.group.parlist + self.dataset.group.f1list)] - print("primary_samples:", primary_samples) self.process_samples(start_vars, self.this_trait.data.keys(), primary_samples) self.target_dataset = data_set.create_dataset(start_vars['corr_dataset']) @@ -161,31 +182,75 @@ class CorrelationResults(object): key=lambda t: -abs(t[1][0]))) + if self.dataset.type == "ProbeSet" or self.dataset.type == "Geno": + #ZS: Convert min/max chromosome to an int for the location range option + range_chr_as_int = None + for order_id, chr_info in self.dataset.species.chromosomes.chromosomes.iteritems(): + if chr_info.name == self.location_chr: + range_chr_as_int = order_id + for _trait_counter, trait in enumerate(self.correlation_data.keys()[:self.return_number]): - print("trait name:", trait) trait_object = GeneralTrait(dataset=self.target_dataset, name=trait, get_qtl_info=True) - (trait_object.sample_r, - trait_object.sample_p, - trait_object.num_overlap) = self.correlation_data[trait] + if self.dataset.type == "ProbeSet" or self.dataset.type == "Geno": + #ZS: Convert trait chromosome to an int for the location range option + chr_as_int = 0 + for order_id, chr_info in self.dataset.species.chromosomes.chromosomes.iteritems(): + if chr_info.name == trait_object.chr: + chr_as_int = order_id + + if (float(self.correlation_data[trait][0]) >= self.p_range_lower and + float(self.correlation_data[trait][0]) <= self.p_range_upper): + + if self.dataset.type == "ProbeSet" or self.dataset.type == "Geno": + + if (self.min_expr != None) and (float(trait_object.mean) < self.min_expr): + continue + elif range_chr_as_int != None and (chr_as_int != range_chr_as_int): + continue + elif (self.min_location_mb != None) and (float(trait_object.mb) < float(self.min_location_mb)): + continue + elif (self.max_location_mb != None) and (float(trait_object.mb) > float(self.max_location_mb)): + continue + + (trait_object.sample_r, + trait_object.sample_p, + trait_object.num_overlap) = self.correlation_data[trait] - #trait_object.sample_p = self.correlation_data[trait][1] - #trait_object.num_overlap = self.correlation_data[trait][2] + #Get symbol for trait and call function that gets each tissue value from the database (tables TissueProbeSetXRef, + #TissueProbeSetData, etc) and calculates the correlation (cal_zero_order_corr_for_tissue in correlation_functions) - #Get symbol for trait and call function that gets each tissue value from the database (tables TissueProbeSetXRef, - #TissueProbeSetData, etc) and calculates the correlation (cal_zero_order_corr_for_tissue in correlation_functions) + # Set some sane defaults + trait_object.tissue_corr = 0 + trait_object.tissue_pvalue = 0 + trait_object.lit_corr = 0 + if self.corr_type == "tissue": + trait_object.tissue_corr = tissue_corr_data[trait][1] + trait_object.tissue_pvalue = tissue_corr_data[trait][2] + elif self.corr_type == "lit": + trait_object.lit_corr = lit_corr_data[trait][1] + self.correlation_results.append(trait_object) + else: + (trait_object.sample_r, + trait_object.sample_p, + trait_object.num_overlap) = self.correlation_data[trait] - # Set some sane defaults - trait_object.tissue_corr = 0 - trait_object.tissue_pvalue = 0 - trait_object.lit_corr = 0 - if self.corr_type == "tissue": - trait_object.tissue_corr = tissue_corr_data[trait][1] - trait_object.tissue_pvalue = tissue_corr_data[trait][2] - elif self.corr_type == "lit": - trait_object.lit_corr = lit_corr_data[trait][1] - self.correlation_results.append(trait_object) - + #Get symbol for trait and call function that gets each tissue value from the database (tables TissueProbeSetXRef, + #TissueProbeSetData, etc) and calculates the correlation (cal_zero_order_corr_for_tissue in correlation_functions) + + # Set some sane defaults + trait_object.tissue_corr = 0 + trait_object.tissue_pvalue = 0 + trait_object.lit_corr = 0 + if self.corr_type == "tissue": + trait_object.tissue_corr = tissue_corr_data[trait][1] + trait_object.tissue_pvalue = tissue_corr_data[trait][2] + elif self.corr_type == "lit": + trait_object.lit_corr = lit_corr_data[trait][1] + self.correlation_results.append(trait_object) + + self.target_dataset.get_trait_info(self.correlation_results, self.target_dataset.group.species) + if self.corr_type != "lit" and self.dataset.type == "ProbeSet" and self.target_dataset.type == "ProbeSet": self.do_lit_correlation_for_trait_list() @@ -431,8 +496,6 @@ class CorrelationResults(object): FROM GeneIDXRef WHERE rat='%s'""" % escape(gene_id) - print("GENE_ID QUERY: ", query) - result = g.db.execute(query).fetchone() if result != None: mouse_gene_id = result.mouse @@ -443,13 +506,9 @@ class CorrelationResults(object): FROM GeneIDXRef WHERE human='%s'""" % escape(gene_id) - print("GENE_ID QUERY: ", query) - result = g.db.execute(query).fetchone() if result != None: mouse_gene_id = result.mouse - - print("mouse_geneid:", mouse_gene_id) return mouse_gene_id @@ -476,6 +535,7 @@ class CorrelationResults(object): this_trait_vals, target_vals, num_overlap = corr_result_helpers.normalize_values( this_trait_vals, target_vals) + #ZS: 2015 could add biweight correlation, see http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3465711/ if self.corr_method == 'pearson': sample_r, sample_p = scipy.stats.pearsonr(this_trait_vals, target_vals) else: diff --git a/wqflask/wqflask/correlation_matrix/show_corr_matrix.py b/wqflask/wqflask/correlation_matrix/show_corr_matrix.py index e1df5b24..2cdd989f 100755 --- a/wqflask/wqflask/correlation_matrix/show_corr_matrix.py +++ b/wqflask/wqflask/correlation_matrix/show_corr_matrix.py @@ -72,7 +72,7 @@ class CorrelationMatrix(object): self.traits = [] for trait_db in self.trait_list: this_trait = trait_db[0] - self.traits.append(this_trait.name) + self.traits.append(this_trait) this_sample_data = this_trait.data for sample in this_sample_data: @@ -96,7 +96,7 @@ class CorrelationMatrix(object): self.sample_data.append(this_trait_vals) self.corr_results = [] - self.corr_rseults_for_pca = [] + self.corr_results_for_pca = [] for trait_db in self.trait_list: this_trait = trait_db[0] this_db = trait_db[1] @@ -115,14 +115,15 @@ class CorrelationMatrix(object): # self.all_sample_list.append(sample) corr_result_row = [] + is_spearman = False #ZS: To determine if it's above or below the diagonal for target in self.trait_list: target_trait = target[0] target_db = target[1] target_samples = target_db.group.samplelist - if this_trait == target_trait and this_db == target_db: - corr_result_row.append(1) - continue + #if this_trait == target_trait and this_db == target_db: + # corr_result_row.append(1) + # continue target_sample_data = target_trait.data print("target_samples", len(target_samples)) @@ -137,12 +138,18 @@ class CorrelationMatrix(object): this_trait_vals.append(sample_value) target_vals.append(target_sample_value) - this_trait_vals, target_vals, num_overlap = corr_result_helpers.normalize_values( - this_trait_vals, target_vals) - - sample_r, sample_p = scipy.stats.pearsonr(this_trait_vals, target_vals) - - corr_result_row.append(sample_r) + this_trait_vals, target_vals, num_overlap = corr_result_helpers.normalize_values(this_trait_vals, target_vals) + if num_overlap == 0: + corr_result_row.append([target_trait, 0, num_overlap]) + else: + if is_spearman == False: + sample_r, sample_p = scipy.stats.pearsonr(this_trait_vals, target_vals) + if sample_r == 1: + is_spearman = True + else: + sample_r, sample_p = scipy.stats.spearmanr(this_trait_vals, target_vals) + + corr_result_row.append([target_trait, sample_r, num_overlap]) self.corr_results.append(corr_result_row) @@ -152,15 +159,25 @@ class CorrelationMatrix(object): for sample in self.all_sample_list: groups.append(1) - pca = self.calculate_pca(self.corr_results, range(len(self.traits))) + #pca = self.calculate_pca(self.corr_results, range(len(self.traits))) - self.js_data = dict(traits = self.traits, + + self.js_data = dict(traits = [trait.name for trait in self.traits], groups = groups, cols = range(len(self.traits)), rows = range(len(self.traits)), samples = self.all_sample_list, - sample_data = self.sample_data, - corr_results = self.corr_results,) + sample_data = self.sample_data,) + # corr_results = [result[1] for result in result_row for result_row in self.corr_results]) + + + #self.js_data = dict(traits = self.traits, + # groups = groups, + # cols = range(len(self.traits)), + # rows = range(len(self.traits)), + # samples = self.all_sample_list, + # sample_data = self.sample_data, + # corr_results = self.corr_results,) @@ -194,21 +211,8 @@ class CorrelationMatrix(object): print("eigen:", eigen) pca = stats.princomp(m, cor = "TRUE") print("pca:", pca) + print("loadings:", pca.rx('loadings')) + print("scores:", pca.rx('scores')) + print("scale:", pca.rx('scale')) - return pca - - - - - - - - - - - - - - - - + return pca
\ No newline at end of file diff --git a/wqflask/wqflask/database.py b/wqflask/wqflask/database.py index e55f06a7..159c5d6c 100755 --- a/wqflask/wqflask/database.py +++ b/wqflask/wqflask/database.py @@ -13,6 +13,11 @@ db_session = scoped_session(sessionmaker(autocommit=False, Base = declarative_base() Base.query = db_session.query_property() +#import logging +# +#logging.basicConfig() +#logging.getLogger('sqlalchemy.engine').setLevel(logging.INFO) + def init_db(): # import all modules here that might define models so that # they will be registered properly on the metadata. Otherwise @@ -23,4 +28,4 @@ def init_db(): Base.metadata.create_all(bind=engine) print("Done creating all...") -init_db()
\ No newline at end of file +init_db() diff --git a/wqflask/wqflask/do_search.py b/wqflask/wqflask/do_search.py index 921a4a47..617d7942 100755 --- a/wqflask/wqflask/do_search.py +++ b/wqflask/wqflask/do_search.py @@ -3,6 +3,8 @@ from __future__ import print_function, division +import string + from flask import Flask, g from MySQLdb import escape_string as escape @@ -40,6 +42,13 @@ class DoSearch(object): results = g.db.execute(query, no_parameters=True).fetchall() return results + def handle_wildcard(self, str): + keyword = str.strip() + keyword.replace("*",".*") + keyword.replace("?",".") + + return keyword + #def escape(self, stringy): # """Shorter name than self.db_conn.escape_string""" # return escape(str(stringy)) @@ -58,7 +67,17 @@ class DoSearch(object): @classmethod def get_search(cls, search_type): print("search_types are:", pf(cls.search_types)) - return cls.search_types[search_type] + + search_type_string = search_type['dataset_type'] + if 'key' in search_type: + search_type_string += '_' + search_type['key'] + + print("search_type_string is:", search_type_string) + + if search_type_string in cls.search_types: + return cls.search_types[search_type_string] + else: + return None class QuickMrnaAssaySearch(DoSearch): """A general search for mRNA assays""" @@ -73,7 +92,7 @@ class QuickMrnaAssaySearch(DoSearch): ProbeSet.name_num as ProbeSet_name_num FROM ProbeSet """ - header_fields = ['', + header_fields = ['Index', 'Record', 'Symbol', 'Location'] @@ -99,7 +118,7 @@ class MrnaAssaySearch(DoSearch): DoSearch.search_types['ProbeSet'] = "MrnaAssaySearch" - base_query = """SELECT ProbeSet.Name as TNAME, + base_query = """SELECT distinct ProbeSet.Name as TNAME, 0 as thistable, ProbeSetXRef.Mean as TMEAN, ProbeSetXRef.LRS as TLRS, @@ -110,7 +129,7 @@ class MrnaAssaySearch(DoSearch): ProbeSet.name_num as TNAME_NUM FROM ProbeSetXRef, ProbeSet """ - header_fields = ['', + header_fields = ['Index', 'Record', 'Symbol', 'Description', @@ -120,6 +139,28 @@ class MrnaAssaySearch(DoSearch): 'Max LRS Location', 'Additive Effect'] + def get_where_clause(self): + + if self.search_term[0] != "*": + match_clause = """(MATCH (ProbeSet.Name, + ProbeSet.description, + ProbeSet.symbol, + alias, + GenbankId, + UniGeneId, + Probe_Target_Description) + AGAINST ('%s' IN BOOLEAN MODE)) and + """ % (escape(self.search_term[0])) + else: + match_clause = "" + + where_clause = (match_clause + + """ProbeSet.Id = ProbeSetXRef.ProbeSetId + and ProbeSetXRef.ProbeSetFreezeId = %s + """ % (escape(str(self.dataset.id)))) + + return where_clause + def compile_final_query(self, from_clause = '', where_clause = ''): """Generates the final query string""" @@ -138,23 +179,7 @@ class MrnaAssaySearch(DoSearch): return query - def get_where_clause(self): - where_clause = """(MATCH (ProbeSet.Name, - ProbeSet.description, - ProbeSet.symbol, - alias, - GenbankId, - UniGeneId, - Probe_Target_Description) - AGAINST ('%s' IN BOOLEAN MODE)) - and ProbeSet.Id = ProbeSetXRef.ProbeSetId - and ProbeSetXRef.ProbeSetFreezeId = %s - """ % (escape(self.search_term[0]), - escape(str(self.dataset.id))) - - return where_clause - - def run_combined(self, from_clause, where_clause): + def run_combined(self, from_clause = '', where_clause = ''): """Generates and runs a combined search of an mRNA expression dataset""" print("Running ProbeSetSearch") @@ -173,7 +198,6 @@ class MrnaAssaySearch(DoSearch): print("final query is:", pf(query)) - return self.execute(query) def run(self): @@ -210,7 +234,7 @@ class PhenotypeSearch(DoSearch): 'Publication.Authors', 'PublishXRef.Id') - header_fields = ['', + header_fields = ['Index', 'Record', 'Description', 'Authors', @@ -219,28 +243,62 @@ class PhenotypeSearch(DoSearch): 'Max LRS Location', 'Additive Effect'] - def get_fields_clause(self): + def get_where_clause(self): """Generate clause for WHERE portion of query""" #Todo: Zach will figure out exactly what both these lines mean #and comment here if "'" not in self.search_term[0]: - search_term = "[[:<:]]" + self.search_term[0] + "[[:>:]]" + search_term = "[[:<:]]" + self.handle_wildcard(self.search_term[0]) + "[[:>:]]" # This adds a clause to the query that matches the search term # against each field in the search_fields tuple - fields_clause = [] + where_clause_list = [] for field in self.search_fields: - fields_clause.append('''%s REGEXP "%s"''' % (field, search_term)) - fields_clause = "(%s) and " % ' OR '.join(fields_clause) + where_clause_list.append('''%s REGEXP "%s"''' % (field, search_term)) + where_clause = "(%s) " % ' OR '.join(where_clause_list) - return fields_clause + return where_clause def compile_final_query(self, from_clause = '', where_clause = ''): """Generates the final query string""" from_clause = self.normalize_spaces(from_clause) + if self.search_term[0] == "*": + query = (self.base_query + + """%s + WHERE PublishXRef.InbredSetId = %s + and PublishXRef.PhenotypeId = Phenotype.Id + and PublishXRef.PublicationId = Publication.Id + and PublishFreeze.Id = %s""" % ( + from_clause, + escape(str(self.dataset.group.id)), + escape(str(self.dataset.id)))) + else: + query = (self.base_query + + """%s + WHERE %s + and PublishXRef.InbredSetId = %s + and PublishXRef.PhenotypeId = Phenotype.Id + and PublishXRef.PublicationId = Publication.Id + and PublishFreeze.Id = %s""" % ( + from_clause, + where_clause, + escape(str(self.dataset.group.id)), + escape(str(self.dataset.id)))) + + print("query is:", pf(query)) + + return query + + def run_combined(self, from_clause, where_clause): + """Generates and runs a combined search of an phenotype dataset""" + + print("Running PhenotypeSearch") + + from_clause = self.normalize_spaces(from_clause) + query = (self.base_query + """%s WHERE %s @@ -253,14 +311,15 @@ class PhenotypeSearch(DoSearch): escape(str(self.dataset.group.id)), escape(str(self.dataset.id)))) - print("query is:", pf(query)) + print("final query is:", pf(query)) - return query + + return self.execute(query) def run(self): """Generates and runs a simple search of a phenotype dataset""" - query = self.compile_final_query(where_clause = self.get_fields_clause()) + query = self.compile_final_query(where_clause = self.get_where_clause()) return self.execute(query) @@ -310,7 +369,7 @@ class QuickPhenotypeSearch(PhenotypeSearch): def run(self): """Generates and runs a search across all phenotype datasets""" - query = self.compile_final_query(where_clause = self.get_fields_clause()) + query = self.compile_final_query(where_clause = self.get_where_clause()) return self.execute(query) @@ -329,40 +388,47 @@ class GenotypeSearch(DoSearch): search_fields = ('Name', 'Chr') - header_fields = ['', + header_fields = ['Index', 'Record', 'Location'] - def get_fields_clause(self): + def get_where_clause(self): """Generate clause for part of the WHERE portion of query""" # This adds a clause to the query that matches the search term # against each field in search_fields (above) - fields_clause = [] + where_clause = [] if "'" not in self.search_term[0]: self.search_term = "[[:<:]]" + self.search_term[0] + "[[:>:]]" for field in self.search_fields: - fields_clause.append('''%s REGEXP "%s"''' % ("%s.%s" % self.mescape(self.dataset.type, + where_clause.append('''%s REGEXP "%s"''' % ("%s.%s" % self.mescape(self.dataset.type, field), self.search_term)) - print("hello ;where_clause is:", pf(fields_clause)) - fields_clause = "(%s)" % ' OR '.join(fields_clause) + print("hello ;where_clause is:", pf(where_clause)) + where_clause = "(%s) " % ' OR '.join(where_clause) - return fields_clause + return where_clause def compile_final_query(self, from_clause = '', where_clause = ''): """Generates the final query string""" from_clause = self.normalize_spaces(from_clause) - query = (self.base_query + - """WHERE %s and - Geno.Id = GenoXRef.GenoId and - GenoXRef.GenoFreezeId = GenoFreeze.Id and - GenoFreeze.Id = %s"""% (where_clause, - escape(str(self.dataset.id)))) + + if self.search_term[0] == "*": + query = (self.base_query + + """WHERE Geno.Id = GenoXRef.GenoId + and GenoXRef.GenoFreezeId = GenoFreeze.Id + and GenoFreeze.Id = %s"""% (escape(str(self.dataset.id)))) + else: + query = (self.base_query + + """WHERE %s + and Geno.Id = GenoXRef.GenoId + and GenoXRef.GenoFreezeId = GenoFreeze.Id + and GenoFreeze.Id = %s"""% (where_clause, + escape(str(self.dataset.id)))) print("query is:", pf(query)) @@ -373,14 +439,20 @@ class GenotypeSearch(DoSearch): #Todo: Zach will figure out exactly what both these lines mean #and comment here - self.query = self.compile_final_query(where_clause = self.get_fields_clause()) + if self.search_term[0] == "*": + self.query = self.compile_final_query() + else: + self.query = self.compile_final_query(where_clause = self.get_where_clause()) return self.execute(self.query) class RifSearch(MrnaAssaySearch): """Searches for traits with a Gene RIF entry including the search term.""" - DoSearch.search_types['RIF'] = "RifSearch" + DoSearch.search_types['ProbeSet_RIF'] = "RifSearch" + + def get_from_clause(self): + return ", GeneRIF_BASIC " def get_where_clause(self): where_clause = """( %s.symbol = GeneRIF_BASIC.symbol and @@ -390,13 +462,9 @@ class RifSearch(MrnaAssaySearch): return where_clause def run(self): - #where_clause = """( %s.symbol = GeneRIF_BASIC.symbol and - # MATCH (GeneRIF_BASIC.comment) - # AGAINST ('+%s' IN BOOLEAN MODE)) """ % (self.dataset.type, self.search_term[0]) - + from_clause = self.get_from_clause() where_clause = self.get_where_clause() - from_clause = ", GeneRIF_BASIC " query = self.compile_final_query(from_clause, where_clause) return self.execute(query) @@ -404,7 +472,10 @@ class RifSearch(MrnaAssaySearch): class WikiSearch(MrnaAssaySearch): """Searches GeneWiki for traits other people have annotated""" - DoSearch.search_types['WIKI'] = "WikiSearch" + DoSearch.search_types['ProbeSet_WIKI'] = "WikiSearch" + + def get_from_clause(self): + return ", GeneRIF " def get_where_clause(self): where_clause = """%s.symbol = GeneRIF.symbol @@ -416,16 +487,9 @@ class WikiSearch(MrnaAssaySearch): return where_clause def run(self): - #where_clause = """%s.symbol = GeneRIF.symbol - # and GeneRIF.versionId=0 and GeneRIF.display>0 - # and (GeneRIF.comment REGEXP '%s' or GeneRIF.initial = '%s') - # """ % (self.dataset.type, - # "[[:<:]]"+str(self.search_term[0])+"[[:>:]]", - # str(self.search_term[0])) - + from_clause = self.get_from_clause() where_clause = self.get_where_clause() - from_clause = ", GeneRIF " query = self.compile_final_query(from_clause, where_clause) return self.execute(query) @@ -433,9 +497,16 @@ class WikiSearch(MrnaAssaySearch): class GoSearch(MrnaAssaySearch): """Searches for synapse-associated genes listed in the Gene Ontology.""" - DoSearch.search_types['GO'] = "GoSearch" + DoSearch.search_types['ProbeSet_GO'] = "GoSearch" - def run(self): + def get_from_clause(self): + from_clause = """, db_GeneOntology.term as GOterm, + db_GeneOntology.association as GOassociation, + db_GeneOntology.gene_product as GOgene_product """ + + return from_clause + + def get_where_clause(self): field = 'GOterm.acc' go_id = 'GO:' + ('0000000'+self.search_term[0])[-7:] @@ -446,16 +517,18 @@ class GoSearch(MrnaAssaySearch): where_clause = " %s = '%s' and %s " % (field, go_id, statements) - from_clause = """ , db_GeneOntology.term as GOterm, - db_GeneOntology.association as GOassociation, - db_GeneOntology.gene_product as GOgene_product """ + return where_clause + + def run(self): + from_clause = self.get_from_clause() + where_clause = self.get_where_clause() query = self.compile_final_query(from_clause, where_clause) return self.execute(query) #ZS: Not sure what the best way to deal with LRS searches is -class LrsSearch(MrnaAssaySearch): +class LrsSearch(DoSearch): """Searches for genes with a QTL within the given LRS values LRS searches can take 3 different forms: @@ -470,163 +543,162 @@ class LrsSearch(MrnaAssaySearch): DoSearch.search_types['LRS'] = 'LrsSearch' def get_from_clause(self): - if self.search_operator == "=": - return ", Geno" - else: - return "" + #If the user typed, for example "Chr4", the "Chr" substring needs to be removed so that all search elements can be converted to floats + if len(self.search_term) > 2 and "Chr" in self.search_term[2]: + chr_num = self.search_term[2].replace("Chr", "") + self.search_term[2] = chr_num - def get_where_clause(self): self.search_term = [float(value) for value in self.search_term] + if len(self.search_term) > 2: + from_clause = ", Geno" + else: + from_clause = "" + + return from_clause + + def get_where_clause(self): if self.search_operator == "=": assert isinstance(self.search_term, (list, tuple)) - self.lrs_min, self.lrs_max = self.search_term[:2] + lrs_min, lrs_max = self.search_term[:2] - self.sub_clause = """ %sXRef.LRS > %s and - %sXRef.LRS < %s and """ % self.mescape(self.dataset.type, - min(self.lrs_min, self.lrs_max), + where_clause = """ %sXRef.LRS > %s and + %sXRef.LRS < %s """ % self.mescape(self.dataset.type, + min(lrs_min, lrs_max), self.dataset.type, - max(self.lrs_min, self.lrs_max)) + max(lrs_min, lrs_max)) if len(self.search_term) > 2: - self.chr_num = self.search_term[2] - self.sub_clause += """ Geno.Chr = %s and """ % (self.chr_num) + chr_num = self.search_term[2] + where_clause += """ and Geno.Chr = %s """ % (chr_num) if len(self.search_term) == 5: - self.mb_low, self.mb_high = self.search_term[3:] - self.sub_clause += """ Geno.Mb > %s and - Geno.Mb < %s and - """ % self.mescape(min(self.mb_low, self.mb_high), - max(self.mb_low, self.mb_high)) - print("self.sub_clause is:", pf(self.sub_clause)) - - #%s.Chr = Geno.Chr - where_clause = self.sub_clause + """ %sXRef.Locus = Geno.name and + mb_low, mb_high = self.search_term[3:] + where_clause += """ and Geno.Mb > %s and + Geno.Mb < %s + """ % self.mescape(min(mb_low, mb_high), + max(mb_low, mb_high)) + + where_clause += """ and %sXRef.Locus = Geno.name and Geno.SpeciesId = %s """ % self.mescape(self.dataset.type, self.species_id) else: # Deal with >, <, >=, and <= print("self.search_term is:", self.search_term) - self.sub_clause = """ %sXRef.LRS %s %s """ % self.mescape(self.dataset.type, + where_clause = """ %sXRef.LRS %s %s """ % self.mescape(self.dataset.type, self.search_operator, self.search_term[0]) - where_clause = self.sub_clause - - + return where_clause - def get_final_query(self): + + def run(self): + self.from_clause = self.get_from_clause() self.where_clause = self.get_where_clause() + self.query = self.compile_final_query(self.from_clause, self.where_clause) - return self.query + return self.execute(self.query) + +class MrnaLrsSearch(LrsSearch, MrnaAssaySearch): + + DoSearch.search_types['ProbeSet_LRS'] = 'MrnaLrsSearch' def run(self): self.from_clause = self.get_from_clause() + self.where_clause = self.get_where_clause() + + self.query = self.compile_final_query(from_clause = self.from_clause, where_clause = self.where_clause) + + return self.execute(self.query) - #self.search_term = [float(value) for value in self.search_term] - # - #if self.search_operator == "=": - # assert isinstance(self.search_term, (list, tuple)) - # self.lrs_min, self.lrs_max = self.search_term[:2] - # - # self.sub_clause = """ %sXRef.LRS > %s and - # %sXRef.LRS < %s and """ % self.mescape(self.dataset.type, - # min(self.lrs_min, self.lrs_max), - # self.dataset.type, - # max(self.lrs_min, self.lrs_max)) - # - # if len(self.search_term) > 2: - # self.chr_num = self.search_term[2] - # self.sub_clause += """ Geno.Chr = %s and """ % (escape(self.chr_num)) - # if len(self.search_term) == 5: - # self.mb_low, self.mb_high = self.search_term[3:] - # self.sub_clause += """ Geno.Mb > %s and - # Geno.Mb < %s and - # """ % self.mescape(min(self.mb_low, self.mb_high), - # max(self.mb_low, self.mb_high)) - # print("self.sub_clause is:", pf(self.sub_clause)) - #else: - # # Deal with >, <, >=, and <= - # print("self.search_term is:", self.search_term) - # self.sub_clause = """ %sXRef.LRS %s %s and """ % self.mescape(self.dataset.type, - # self.search_operator, - # self.search_term[0]) - # - #self.where_clause = self.sub_clause + """ %sXRef.Locus = Geno.name and - # Geno.SpeciesId = %s and - # %s.Chr = Geno.Chr - # """ % self.mescape(self.dataset.type, - # self.species_id, - # self.dataset.type) +class PhenotypeLrsSearch(LrsSearch, PhenotypeSearch): + + DoSearch.search_types['Publish_LRS'] = 'PhenotypeLrsSearch' + def run(self): + + self.from_clause = self.get_from_clause() self.where_clause = self.get_where_clause() - self.query = self.compile_final_query(self.from_clause, self.where_clause) + self.query = self.compile_final_query(from_clause = self.from_clause, where_clause = self.where_clause) return self.execute(self.query) -class CisTransLrsSearch(LrsSearch): - def real_run(self, the_operator): - #if isinstance(self.search_term, basestring): - # self.search_term = [self.search_term] - print("self.search_term is:", self.search_term) +class CisTransLrsSearch(DoSearch): + + def get_from_clause(self): + return ", Geno" + + def get_where_clause(self, cis_trans): self.search_term = [float(value) for value in self.search_term] self.mb_buffer = 5 # default - - self.from_clause = ", Geno " + if cis_trans == "cis": + the_operator = "<" + else: + the_operator = ">" if self.search_operator == "=": if len(self.search_term) == 2: - self.lrs_min, self.lrs_max = self.search_term + lrs_min, lrs_max = self.search_term #[int(value) for value in self.search_term] elif len(self.search_term) == 3: - self.lrs_min, self.lrs_max, self.mb_buffer = self.search_term + lrs_min, lrs_max, self.mb_buffer = self.search_term else: SomeError - self.sub_clause = """ %sXRef.LRS > %s and + sub_clause = """ %sXRef.LRS > %s and %sXRef.LRS < %s and """ % ( escape(self.dataset.type), - escape(min(self.lrs_min, self.lrs_max)), + escape(str(min(lrs_min, lrs_max))), escape(self.dataset.type), - escape(max(self.lrs_min, self.lrs_max)) + escape(str(max(lrs_min, lrs_max))) ) else: # Deal with >, <, >=, and <= - self.sub_clause = """ %sXRef.LRS %s %s and """ % ( + sub_clause = """ %sXRef.LRS %s %s and """ % ( escape(self.dataset.type), escape(self.search_operator), escape(self.search_term[0]) ) - self.where_clause = self.sub_clause + """ - ABS(%s.Mb-Geno.Mb) %s %s and - %sXRef.Locus = Geno.name and - Geno.SpeciesId = %s and - %s.Chr = Geno.Chr""" % ( - escape(self.dataset.type), - the_operator, - escape(self.mb_buffer), - escape(self.dataset.type), - escape(self.species_id), - escape(self.dataset.type) - ) - - print("where_clause is:", pf(self.where_clause)) - - self.query = self.compile_final_query(self.from_clause, self.where_clause) - - return self.execute(self.query) - + if cis_trans == "cis": + where_clause = sub_clause + """ + ABS(%s.Mb-Geno.Mb) %s %s and + %sXRef.Locus = Geno.name and + Geno.SpeciesId = %s and + %s.Chr = Geno.Chr""" % ( + escape(self.dataset.type), + the_operator, + escape(str(self.mb_buffer)), + escape(self.dataset.type), + escape(str(self.species_id)), + escape(self.dataset.type) + ) + else: + where_clause = sub_clause + """ + %sXRef.Locus = Geno.name and + Geno.SpeciesId = %s and + ((ABS(%s.Mb-Geno.Mb) %s %s and %s.Chr = Geno.Chr) or + (%s.Chr != Geno.Chr))""" % ( + escape(self.dataset.type), + escape(str(self.species_id)), + escape(self.dataset.type), + the_operator, + escape(str(self.mb_buffer)), + escape(self.dataset.type), + escape(self.dataset.type) + ) -class CisLrsSearch(CisTransLrsSearch): + return where_clause + +class CisLrsSearch(CisTransLrsSearch, MrnaAssaySearch): """ Searches for genes on a particular chromosome with a cis-eQTL within the given LRS values @@ -643,12 +715,20 @@ class CisLrsSearch(CisTransLrsSearch): """ - DoSearch.search_types['CISLRS'] = "CisLrsSearch" + DoSearch.search_types['ProbeSet_CISLRS'] = 'CisLrsSearch' + + def get_where_clause(self): + return CisTransLrsSearch.get_where_clause(self, "cis") def run(self): - return self.real_run("<") + self.from_clause = self.get_from_clause() + self.where_clause = self.get_where_clause() + + self.query = self.compile_final_query(self.from_clause, self.where_clause) + + return self.execute(self.query) -class TransLrsSearch(CisTransLrsSearch): +class TransLrsSearch(CisTransLrsSearch, MrnaAssaySearch): """Searches for genes on a particular chromosome with a cis-eQTL within the given LRS values A transLRS search can take 3 forms: @@ -664,16 +744,24 @@ class TransLrsSearch(CisTransLrsSearch): """ - DoSearch.search_types['TRANSLRS'] = "TransLrsSearch" + DoSearch.search_types['ProbeSet_TRANSLRS'] = 'TransLrsSearch' + + def get_where_clause(self): + return CisTransLrsSearch.get_where_clause(self, "trans") def run(self): - return self.real_run(">") + self.from_clause = self.get_from_clause() + self.where_clause = self.get_where_clause() + + self.query = self.compile_final_query(self.from_clause, self.where_clause) + + return self.execute(self.query) class MeanSearch(MrnaAssaySearch): """Searches for genes expressed within an interval (log2 units) determined by the user""" - DoSearch.search_types['MEAN'] = "MeanSearch" + DoSearch.search_types['ProbeSet_MEAN'] = "MeanSearch" def get_where_clause(self): self.search_term = [float(value) for value in self.search_term] @@ -704,24 +792,6 @@ class MeanSearch(MrnaAssaySearch): return self.query def run(self): - - #self.search_term = [float(value) for value in self.search_term] - # - #if self.search_operator == "=": - # assert isinstance(self.search_term, (list, tuple)) - # self.mean_min, self.mean_max = self.search_term[:2] - # - # self.where_clause = """ %sXRef.mean > %s and - # %sXRef.mean < %s """ % self.mescape(self.dataset.type, - # min(self.mean_min, self.mean_max), - # self.dataset.type, - # max(self.mean_min, self.mean_max)) - #else: - # # Deal with >, <, >=, and <= - # self.where_clause = """ %sXRef.mean %s %s """ % self.mescape(self.dataset.type, - # self.search_operator, - # self.search_term[0]) - self.where_clause = self.get_where_clause() print("where_clause is:", pf(self.where_clause)) @@ -732,7 +802,7 @@ class MeanSearch(MrnaAssaySearch): class RangeSearch(MrnaAssaySearch): """Searches for genes with a range of expression varying between two values""" - DoSearch.search_types['RANGE'] = "RangeSearch" + DoSearch.search_types['ProbeSet_RANGE'] = "RangeSearch" def get_where_clause(self): if self.search_operator == "=": @@ -758,27 +828,6 @@ class RangeSearch(MrnaAssaySearch): return where_clause def run(self): - - #self.search_term = [float(value) for value in self.search_term] - # - #if self.search_operator == "=": - # assert isinstance(self.search_term, (list, tuple)) - # self.range_min, self.range_max = self.search_term[:2] - # self.where_clause = """ (SELECT Pow(2, max(value) -min(value)) - # FROM ProbeSetData - # WHERE ProbeSetData.Id = ProbeSetXRef.dataId) > %s AND - # (SELECT Pow(2, max(value) -min(value)) - # FROM ProbeSetData - # WHERE ProbeSetData.Id = ProbeSetXRef.dataId) < %s - # """ % self.mescape(min(self.range_min, self.range_max), - # max(self.range_min, self.range_max)) - #else: - # # Deal with >, <, >=, and <= - # self.where_clause = """ (SELECT Pow(2, max(value) -min(value)) - # FROM ProbeSetData - # WHERE ProbeSetData.Id = ProbeSetXRef.dataId) > %s - # """ % (escape(self.search_term[0])) - self.where_clause = self.get_where_clause() self.query = self.compile_final_query(where_clause = self.where_clause) @@ -791,10 +840,12 @@ class PositionSearch(DoSearch): for search_key in ('POSITION', 'POS', 'MB'): DoSearch.search_types[search_key] = "PositionSearch" - def setup(self): - self.search_term = [float(value) for value in self.search_term] + def get_where_clause(self): + self.search_term = [float(value) if is_number(value) else value for value in self.search_term] self.chr, self.mb_min, self.mb_max = self.search_term[:3] - self.where_clause = """ %s.Chr = '%s' and + self.get_chr() + + where_clause = """ %s.Chr = %s and %s.Mb > %s and %s.Mb < %s """ % self.mescape(self.dataset.type, self.chr, @@ -803,29 +854,44 @@ class PositionSearch(DoSearch): self.dataset.type, max(self.mb_min, self.mb_max)) + + return where_clause + + def get_chr(self): + try: + self.chr = int(self.chr) + except: + self.chr = int(self.chr.replace('chr', '')) + def run(self): - self.setup() + self.get_where_clause() self.query = self.compile_final_query(where_clause = self.where_clause) return self.execute(self.query) -class MrnaPositionSearch(MrnaAssaySearch, PositionSearch): +class MrnaPositionSearch(PositionSearch, MrnaAssaySearch): """Searches for genes located within a specified range on a specified chromosome""" + for search_key in ('POSITION', 'POS', 'MB'): + DoSearch.search_types['ProbeSet_'+search_key] = "MrnaPositionSearch" + def run(self): - self.setup() + self.where_clause = self.get_where_clause() self.query = self.compile_final_query(where_clause = self.where_clause) return self.execute(self.query) -class GenotypePositionSearch(GenotypeSearch, PositionSearch): +class GenotypePositionSearch(PositionSearch, GenotypeSearch): """Searches for genes located within a specified range on a specified chromosome""" + for search_key in ('POSITION', 'POS', 'MB'): + DoSearch.search_types['Geno_'+search_key] = "GenotypePositionSearch" + def run(self): - self.setup() + self.where_clause = self.get_where_clause() self.query = self.compile_final_query(where_clause = self.where_clause) return self.execute(self.query) @@ -833,6 +899,8 @@ class GenotypePositionSearch(GenotypeSearch, PositionSearch): class PvalueSearch(MrnaAssaySearch): """Searches for traits with a permutationed p-value between low and high""" + DoSearch.search_types['ProbeSet_PVALUE'] = "PvalueSearch" + def run(self): self.search_term = [float(value) for value in self.search_term] @@ -863,7 +931,7 @@ class PvalueSearch(MrnaAssaySearch): class AuthorSearch(PhenotypeSearch): """Searches for phenotype traits with specified author(s)""" - DoSearch.search_types["NAME"] = "AuthorSearch" + DoSearch.search_types["Publish_NAME"] = "AuthorSearch" def run(self): @@ -875,6 +943,12 @@ class AuthorSearch(PhenotypeSearch): return self.execute(self.query) +def is_number(s): + try: + float(s) + return True + except ValueError: + return False if __name__ == "__main__": ### Usually this will be used as a library, but call it from the command line for testing diff --git a/wqflask/wqflask/docs.py b/wqflask/wqflask/docs.py index 07b0b81a..a8363a1f 100755 --- a/wqflask/wqflask/docs.py +++ b/wqflask/wqflask/docs.py @@ -8,9 +8,9 @@ class Docs(object): sql = """ SELECT Docs.title, Docs.content FROM Docs - WHERE Docs.entry LIKE '%s' + WHERE Docs.entry LIKE %s """ - result = g.db.execute(sql % (entry)).fetchone() + result = g.db.execute(sql, str(entry)).fetchone() self.entry = entry self.title = result[0] self.content = result[1] diff --git a/wqflask/wqflask/gsearch.py b/wqflask/wqflask/gsearch.py new file mode 100755 index 00000000..3d693a4c --- /dev/null +++ b/wqflask/wqflask/gsearch.py @@ -0,0 +1,92 @@ +from __future__ import absolute_import, print_function, division + +from flask import Flask, g +from base.data_set import create_dataset +from base.trait import GeneralTrait +from dbFunction import webqtlDatabaseFunction + +class GSearch(object): + + def __init__(self, kw): + self.type = kw['type'] + self.terms = kw['terms'] + if self.type == "gene": + sql = """ + SELECT + Species.`Name` AS species_name, + InbredSet.`Name` AS inbredset_name, + Tissue.`Name` AS tissue_name, + ProbeSetFreeze.Name AS probesetfreeze_name, + ProbeSet.Name AS probeset_name, + ProbeSet.Symbol AS probeset_symbol, + ProbeSet.`description` AS probeset_description, + ProbeSet.Chr AS chr, + ProbeSet.Mb AS mb, + ProbeSetXRef.Mean AS mean, + ProbeSetXRef.LRS AS lrs, + ProbeSetXRef.`Locus` AS locus, + ProbeSetXRef.`pValue` AS pvalue, + ProbeSetXRef.`additive` AS additive + FROM Species, InbredSet, ProbeSetXRef, ProbeSet, ProbeFreeze, ProbeSetFreeze, Tissue + WHERE InbredSet.`SpeciesId`=Species.`Id` + AND ProbeFreeze.InbredSetId=InbredSet.`Id` + AND ProbeFreeze.`TissueId`=Tissue.`Id` + AND ProbeSetFreeze.ProbeFreezeId=ProbeFreeze.Id + AND ( MATCH (ProbeSet.Name,ProbeSet.description,ProbeSet.symbol,alias,GenbankId, UniGeneId, Probe_Target_Description) AGAINST ('%s' IN BOOLEAN MODE) ) + AND ProbeSet.Id = ProbeSetXRef.ProbeSetId + AND ProbeSetXRef.ProbeSetFreezeId=ProbeSetFreeze.Id + AND ProbeSetFreeze.public > 0 + ORDER BY species_name, inbredset_name, tissue_name, probesetfreeze_name, probeset_name + LIMIT 1000 + """ % (self.terms) + re = g.db.execute(sql).fetchall() + self.trait_list = [] + for line in re: + dataset = create_dataset(line[3], "ProbeSet") + trait_id = line[4] + this_trait = GeneralTrait(dataset=dataset, name=trait_id, get_qtl_info=True) + self.trait_list.append(this_trait) + species = webqtlDatabaseFunction.retrieve_species(dataset.group.name) + dataset.get_trait_info([this_trait], species) + + elif self.type == "phenotype": + sql = """ + SELECT + Species.`Name`, + InbredSet.`Name`, + PublishFreeze.`Name`, + PublishXRef.`Id`, + Phenotype.`Post_publication_description`, + Publication.`Authors`, + Publication.`Year`, + PublishXRef.`LRS`, + PublishXRef.`Locus`, + PublishXRef.`additive` + FROM Species,InbredSet,PublishFreeze,PublishXRef,Phenotype,Publication + WHERE PublishXRef.`InbredSetId`=InbredSet.`Id` + AND PublishFreeze.`InbredSetId`=InbredSet.`Id` + AND InbredSet.`SpeciesId`=Species.`Id` + AND PublishXRef.`PhenotypeId`=Phenotype.`Id` + AND PublishXRef.`PublicationId`=Publication.`Id` + AND (Phenotype.Post_publication_description REGEXP "[[:<:]]%s[[:>:]]" + OR Phenotype.Pre_publication_description REGEXP "[[:<:]]%s[[:>:]]" + OR Phenotype.Pre_publication_abbreviation REGEXP "[[:<:]]%s[[:>:]]" + OR Phenotype.Post_publication_abbreviation REGEXP "[[:<:]]%s[[:>:]]" + OR Phenotype.Lab_code REGEXP "[[:<:]]%s[[:>:]]" + OR Publication.PubMed_ID REGEXP "[[:<:]]%s[[:>:]]" + OR Publication.Abstract REGEXP "[[:<:]]%s[[:>:]]" + OR Publication.Title REGEXP "[[:<:]]%s[[:>:]]" + OR Publication.Authors REGEXP "[[:<:]]%s[[:>:]]" + OR PublishXRef.Id REGEXP "[[:<:]]%s[[:>:]]") + ORDER BY Species.`Name`, InbredSet.`Name`, PublishXRef.`Id` + LIMIT 1000 + """ % (self.terms, self.terms, self.terms, self.terms, self.terms, self.terms, self.terms, self.terms, self.terms, self.terms) + re = g.db.execute(sql).fetchall() + self.trait_list = [] + for line in re: + dataset = create_dataset(line[2], "Publish") + trait_id = line[3] + this_trait = GeneralTrait(dataset=dataset, name=trait_id, get_qtl_info=True) + self.trait_list.append(this_trait) + species = webqtlDatabaseFunction.retrieve_species(dataset.group.name) + dataset.get_trait_info([this_trait], species) diff --git a/wqflask/wqflask/heatmap/heatmap.py b/wqflask/wqflask/heatmap/heatmap.py index 9b6b1b69..035736fd 100644 --- a/wqflask/wqflask/heatmap/heatmap.py +++ b/wqflask/wqflask/heatmap/heatmap.py @@ -1,317 +1,318 @@ -from __future__ import absolute_import, print_function, division
-
-import sys
-sys.path.append(".")
-
-import gc
-import string
-import cPickle
-import os
-import datetime
-import time
-import pp
-import math
-import collections
-import resource
-
-import scipy
-import numpy as np
-from scipy import linalg
-
-from pprint import pformat as pf
-
-from htmlgen import HTMLgen2 as HT
-import reaper
-
-from base.trait import GeneralTrait
-from base import data_set
-from base import species
-from base import webqtlConfig
-from utility import webqtlUtil
-from wqflask.my_pylmm.data import prep_data
-from wqflask.my_pylmm.pyLMM import lmm
-from wqflask.my_pylmm.pyLMM import input
-from utility import helper_functions
-from utility import Plot, Bunch
-from utility import temp_data
-
-from MySQLdb import escape_string as escape
-
-import cPickle as pickle
-import simplejson as json
-
-from pprint import pformat as pf
-
-from redis import Redis
-Redis = Redis()
-
-from flask import Flask, g
-
-class Heatmap(object):
-
- def __init__(self, start_vars, temp_uuid):
-
- trait_db_list = [trait.strip() for trait in start_vars['trait_list'].split(',')]
-
- helper_functions.get_trait_db_obs(self, trait_db_list)
-
- self.temp_uuid = temp_uuid
- self.num_permutations = 5000
- self.dataset = self.trait_list[0][1]
-
- self.json_data = {} #The dictionary that will be used to create the json object that contains all the data needed to create the figure
-
- self.all_sample_list = []
- self.traits = []
-
- chrnames = []
- self.species = species.TheSpecies(dataset=self.trait_list[0][1])
- for key in self.species.chromosomes.chromosomes.keys():
- chrnames.append([self.species.chromosomes.chromosomes[key].name, self.species.chromosomes.chromosomes[key].mb_length])
-
- for trait_db in self.trait_list:
-
- this_trait = trait_db[0]
- self.traits.append(this_trait.name)
- this_sample_data = this_trait.data
-
- for sample in this_sample_data:
- if sample not in self.all_sample_list:
- self.all_sample_list.append(sample)
-
- self.sample_data = []
- for trait_db in self.trait_list:
- this_trait = trait_db[0]
- this_sample_data = this_trait.data
-
- #self.sample_data[this_trait.name] = []
- this_trait_vals = []
- for sample in self.all_sample_list:
- if sample in this_sample_data:
- this_trait_vals.append(this_sample_data[sample].value)
- #self.sample_data[this_trait.name].append(this_sample_data[sample].value)
- else:
- this_trait_vals.append('')
- #self.sample_data[this_trait.name].append('')
- self.sample_data.append(this_trait_vals)
-
- self.gen_reaper_results()
- #self.gen_pylmm_results()
-
- #chrnames = []
- lodnames = []
- chr_pos = []
- pos = []
- markernames = []
-
- for trait in self.trait_results.keys():
- lodnames.append(trait)
-
- for marker in self.dataset.group.markers.markers:
- #if marker['chr'] not in chrnames:
- # chr_ob = [marker['chr'], "filler"]
- # chrnames.append(chr_ob)
- chr_pos.append(marker['chr'])
- pos.append(marker['Mb'])
- markernames.append(marker['name'])
-
- self.json_data['chrnames'] = chrnames
- self.json_data['lodnames'] = lodnames
- self.json_data['chr'] = chr_pos
- self.json_data['pos'] = pos
- self.json_data['markernames'] = markernames
-
- for trait in self.trait_results:
- self.json_data[trait] = self.trait_results[trait]
-
- self.js_data = dict(
- json_data = self.json_data
- )
-
- print("self.js_data:", self.js_data)
-
-
- def gen_reaper_results(self):
- self.trait_results = {}
- for trait_db in self.trait_list:
- self.dataset.group.get_markers()
- this_trait = trait_db[0]
- #this_db = trait_db[1]
- genotype = self.dataset.group.read_genotype_file()
- samples, values, variances = this_trait.export_informative()
-
- trimmed_samples = []
- trimmed_values = []
- for i in range(0, len(samples)):
- if samples[i] in self.dataset.group.samplelist:
- trimmed_samples.append(samples[i])
- trimmed_values.append(values[i])
-
- self.lrs_array = genotype.permutation(strains = trimmed_samples,
- trait = trimmed_values,
- nperm= self.num_permutations)
-
- #self.suggestive = self.lrs_array[int(self.num_permutations*0.37-1)]
- #self.significant = self.lrs_array[int(self.num_permutations*0.95-1)]
-
- reaper_results = genotype.regression(strains = trimmed_samples,
- trait = trimmed_values)
-
-
- lrs_values = [float(qtl.lrs) for qtl in reaper_results]
- print("lrs_values:", lrs_values)
- #self.dataset.group.markers.add_pvalues(p_values)
-
- self.trait_results[this_trait.name] = []
- for qtl in reaper_results:
- if qtl.additive > 0:
- self.trait_results[this_trait.name].append(-float(qtl.lrs))
- else:
- self.trait_results[this_trait.name].append(float(qtl.lrs))
- #for lrs in lrs_values:
- # if
- # self.trait_results[this_trait.name].append(lrs)
-
-
- #this_db_samples = self.dataset.group.samplelist
- #this_sample_data = this_trait.data
- ##print("this_sample_data", this_sample_data)
- #this_trait_vals = []
- #for index, sample in enumerate(this_db_samples):
- # if sample in this_sample_data:
- # sample_value = this_sample_data[sample].value
- # this_trait_vals.append(sample_value)
- # else:
- # this_trait_vals.append("x")
-
- #pheno_vector = np.array([val == "x" and np.nan or float(val) for val in this_trait_vals])
-
- #key = "pylmm:input:" + str(self.temp_uuid)
- #print("key is:", pf(key))
-
- #genotype_data = [marker['genotypes'] for marker in self.dataset.group.markers.markers]
-
- #no_val_samples = self.identify_empty_samples(this_trait_vals)
- #trimmed_genotype_data = self.trim_genotypes(genotype_data, no_val_samples)
-
- #genotype_matrix = np.array(trimmed_genotype_data).T
-
- #print("genotype_matrix:", str(genotype_matrix.tolist()))
- #print("pheno_vector:", str(pheno_vector.tolist()))
-
- #params = dict(pheno_vector = pheno_vector.tolist(),
- # genotype_matrix = genotype_matrix.tolist(),
- # restricted_max_likelihood = True,
- # refit = False,
- # temp_uuid = str(self.temp_uuid),
- #
- # # meta data
- # timestamp = datetime.datetime.now().isoformat(),
- # )
- #
- #json_params = json.dumps(params)
- ##print("json_params:", json_params)
- #Redis.set(key, json_params)
- #Redis.expire(key, 60*60)
- #print("before printing command")
- #
- #command = 'python /home/zas1024/gene/wqflask/wqflask/my_pylmm/pyLMM/lmm.py --key {} --species {}'.format(key,
- # "other")
- #print("command is:", command)
- #print("after printing command")
- #
- #os.system(command)
- #
- #json_results = Redis.blpop("pylmm:results:" + str(self.temp_uuid), 45*60)
-
- def gen_pylmm_results(self):
- self.trait_results = {}
- for trait_db in self.trait_list:
- this_trait = trait_db[0]
- #this_db = trait_db[1]
- self.dataset.group.get_markers()
-
- this_db_samples = self.dataset.group.samplelist
- this_sample_data = this_trait.data
- #print("this_sample_data", this_sample_data)
- this_trait_vals = []
- for index, sample in enumerate(this_db_samples):
- if sample in this_sample_data:
- sample_value = this_sample_data[sample].value
- this_trait_vals.append(sample_value)
- else:
- this_trait_vals.append("x")
-
- pheno_vector = np.array([val == "x" and np.nan or float(val) for val in this_trait_vals])
-
- key = "pylmm:input:" + str(self.temp_uuid)
- #print("key is:", pf(key))
-
- genotype_data = [marker['genotypes'] for marker in self.dataset.group.markers.markers]
-
- no_val_samples = self.identify_empty_samples(this_trait_vals)
- trimmed_genotype_data = self.trim_genotypes(genotype_data, no_val_samples)
-
- genotype_matrix = np.array(trimmed_genotype_data).T
-
- #print("genotype_matrix:", str(genotype_matrix.tolist()))
- #print("pheno_vector:", str(pheno_vector.tolist()))
-
- params = dict(pheno_vector = pheno_vector.tolist(),
- genotype_matrix = genotype_matrix.tolist(),
- restricted_max_likelihood = True,
- refit = False,
- temp_uuid = str(self.temp_uuid),
-
- # meta data
- timestamp = datetime.datetime.now().isoformat(),
- )
-
- json_params = json.dumps(params)
- #print("json_params:", json_params)
- Redis.set(key, json_params)
- Redis.expire(key, 60*60)
- print("before printing command")
-
- command = 'python /home/zas1024/gene/wqflask/wqflask/my_pylmm/pyLMM/lmm.py --key {} --species {}'.format(key,
- "other")
- print("command is:", command)
- print("after printing command")
-
- os.system(command)
-
- json_results = Redis.blpop("pylmm:results:" + str(self.temp_uuid), 45*60)
- results = json.loads(json_results[1])
- p_values = [float(result) for result in results['p_values']]
- #print("p_values:", p_values)
- self.dataset.group.markers.add_pvalues(p_values)
-
- self.trait_results[this_trait.name] = []
- for marker in self.dataset.group.markers.markers:
- self.trait_results[this_trait.name].append(marker['lod_score'])
-
-
- def identify_empty_samples(self, values):
- no_val_samples = []
- for sample_count, val in enumerate(values):
- if val == "x":
- no_val_samples.append(sample_count)
- return no_val_samples
-
- def trim_genotypes(self, genotype_data, no_value_samples):
- trimmed_genotype_data = []
- for marker in genotype_data:
- new_genotypes = []
- for item_count, genotype in enumerate(marker):
- if item_count in no_value_samples:
- continue
- try:
- genotype = float(genotype)
- except ValueError:
- genotype = np.nan
- pass
- new_genotypes.append(genotype)
- trimmed_genotype_data.append(new_genotypes)
- return trimmed_genotype_data
-
-
\ No newline at end of file +from __future__ import absolute_import, print_function, division + +import sys +sys.path.append(".") + +import gc +import string +import cPickle +import os +import datetime +import time +import pp +import math +import collections +import resource + +import scipy +import numpy as np +from scipy import linalg + +from pprint import pformat as pf + +from htmlgen import HTMLgen2 as HT +import reaper + +from base.trait import GeneralTrait +from base import data_set +from base import species +from base import webqtlConfig +from utility import webqtlUtil +from wqflask.my_pylmm.data import prep_data +# from wqflask.my_pylmm.pyLMM import lmm +# from wqflask.my_pylmm.pyLMM import input +from utility import helper_functions +from utility import Plot, Bunch +from utility import temp_data + +from MySQLdb import escape_string as escape + +import cPickle as pickle +import simplejson as json + +from pprint import pformat as pf + +from redis import Redis +Redis = Redis() + +from flask import Flask, g + +class Heatmap(object): + + def __init__(self, start_vars, temp_uuid): + + trait_db_list = [trait.strip() for trait in start_vars['trait_list'].split(',')] + + helper_functions.get_trait_db_obs(self, trait_db_list) + + self.temp_uuid = temp_uuid + self.num_permutations = 5000 + self.dataset = self.trait_list[0][1] + + self.json_data = {} #The dictionary that will be used to create the json object that contains all the data needed to create the figure + + self.all_sample_list = [] + self.traits = [] + + chrnames = [] + self.species = species.TheSpecies(dataset=self.trait_list[0][1]) + for key in self.species.chromosomes.chromosomes.keys(): + chrnames.append([self.species.chromosomes.chromosomes[key].name, self.species.chromosomes.chromosomes[key].mb_length]) + + for trait_db in self.trait_list: + + this_trait = trait_db[0] + self.traits.append(this_trait.name) + this_sample_data = this_trait.data + + for sample in this_sample_data: + if sample not in self.all_sample_list: + self.all_sample_list.append(sample) + + self.sample_data = [] + for trait_db in self.trait_list: + this_trait = trait_db[0] + this_sample_data = this_trait.data + + #self.sample_data[this_trait.name] = [] + this_trait_vals = [] + for sample in self.all_sample_list: + if sample in this_sample_data: + this_trait_vals.append(this_sample_data[sample].value) + #self.sample_data[this_trait.name].append(this_sample_data[sample].value) + else: + this_trait_vals.append('') + #self.sample_data[this_trait.name].append('') + self.sample_data.append(this_trait_vals) + + self.gen_reaper_results() + #self.gen_pylmm_results() + + #chrnames = [] + lodnames = [] + chr_pos = [] + pos = [] + markernames = [] + + for trait in self.trait_results.keys(): + lodnames.append(trait) + + for marker in self.dataset.group.markers.markers: + #if marker['chr'] not in chrnames: + # chr_ob = [marker['chr'], "filler"] + # chrnames.append(chr_ob) + chr_pos.append(marker['chr']) + pos.append(marker['Mb']) + markernames.append(marker['name']) + + self.json_data['chrnames'] = chrnames + self.json_data['lodnames'] = lodnames + self.json_data['chr'] = chr_pos + self.json_data['pos'] = pos + self.json_data['markernames'] = markernames + + for trait in self.trait_results: + self.json_data[trait] = self.trait_results[trait] + + self.js_data = dict( + json_data = self.json_data + ) + + print("self.js_data:", self.js_data) + + + def gen_reaper_results(self): + self.trait_results = {} + for trait_db in self.trait_list: + self.dataset.group.get_markers() + this_trait = trait_db[0] + #this_db = trait_db[1] + genotype = self.dataset.group.read_genotype_file() + samples, values, variances = this_trait.export_informative() + + trimmed_samples = [] + trimmed_values = [] + for i in range(0, len(samples)): + if samples[i] in self.dataset.group.samplelist: + trimmed_samples.append(samples[i]) + trimmed_values.append(values[i]) + + self.lrs_array = genotype.permutation(strains = trimmed_samples, + trait = trimmed_values, + nperm= self.num_permutations) + + #self.suggestive = self.lrs_array[int(self.num_permutations*0.37-1)] + #self.significant = self.lrs_array[int(self.num_permutations*0.95-1)] + + reaper_results = genotype.regression(strains = trimmed_samples, + trait = trimmed_values) + + + lrs_values = [float(qtl.lrs) for qtl in reaper_results] + print("lrs_values:", lrs_values) + #self.dataset.group.markers.add_pvalues(p_values) + + self.trait_results[this_trait.name] = [] + for qtl in reaper_results: + if qtl.additive > 0: + self.trait_results[this_trait.name].append(-float(qtl.lrs)) + else: + self.trait_results[this_trait.name].append(float(qtl.lrs)) + #for lrs in lrs_values: + # if + # self.trait_results[this_trait.name].append(lrs) + + + #this_db_samples = self.dataset.group.samplelist + #this_sample_data = this_trait.data + ##print("this_sample_data", this_sample_data) + #this_trait_vals = [] + #for index, sample in enumerate(this_db_samples): + # if sample in this_sample_data: + # sample_value = this_sample_data[sample].value + # this_trait_vals.append(sample_value) + # else: + # this_trait_vals.append("x") + + #pheno_vector = np.array([val == "x" and np.nan or float(val) for val in this_trait_vals]) + + #key = "pylmm:input:" + str(self.temp_uuid) + #print("key is:", pf(key)) + + #genotype_data = [marker['genotypes'] for marker in self.dataset.group.markers.markers] + + #no_val_samples = self.identify_empty_samples(this_trait_vals) + #trimmed_genotype_data = self.trim_genotypes(genotype_data, no_val_samples) + + #genotype_matrix = np.array(trimmed_genotype_data).T + + #print("genotype_matrix:", str(genotype_matrix.tolist())) + #print("pheno_vector:", str(pheno_vector.tolist())) + + #params = dict(pheno_vector = pheno_vector.tolist(), + # genotype_matrix = genotype_matrix.tolist(), + # restricted_max_likelihood = True, + # refit = False, + # temp_uuid = str(self.temp_uuid), + # + # # meta data + # timestamp = datetime.datetime.now().isoformat(), + # ) + # + #json_params = json.dumps(params) + ##print("json_params:", json_params) + #Redis.set(key, json_params) + #Redis.expire(key, 60*60) + #print("before printing command") + # + #command = 'python /home/zas1024/gene/wqflask/wqflask/my_pylmm/pyLMM/lmm.py --key {} --species {}'.format(key, + # "other") + #print("command is:", command) + #print("after printing command") + # + #os.system(command) + # + #json_results = Redis.blpop("pylmm:results:" + str(self.temp_uuid), 45*60) + + def gen_pylmm_results(self): + # This function is NOT used. If it is, we should use a shared function with marker_regression.py + self.trait_results = {} + for trait_db in self.trait_list: + this_trait = trait_db[0] + #this_db = trait_db[1] + self.dataset.group.get_markers() + + this_db_samples = self.dataset.group.samplelist + this_sample_data = this_trait.data + #print("this_sample_data", this_sample_data) + this_trait_vals = [] + for index, sample in enumerate(this_db_samples): + if sample in this_sample_data: + sample_value = this_sample_data[sample].value + this_trait_vals.append(sample_value) + else: + this_trait_vals.append("x") + + pheno_vector = np.array([val == "x" and np.nan or float(val) for val in this_trait_vals]) + + key = "pylmm:input:" + str(self.temp_uuid) + #print("key is:", pf(key)) + + genotype_data = [marker['genotypes'] for marker in self.dataset.group.markers.markers] + + no_val_samples = self.identify_empty_samples(this_trait_vals) + trimmed_genotype_data = self.trim_genotypes(genotype_data, no_val_samples) + + genotype_matrix = np.array(trimmed_genotype_data).T + + #print("genotype_matrix:", str(genotype_matrix.tolist())) + #print("pheno_vector:", str(pheno_vector.tolist())) + + params = dict(pheno_vector = pheno_vector.tolist(), + genotype_matrix = genotype_matrix.tolist(), + restricted_max_likelihood = True, + refit = False, + temp_uuid = str(self.temp_uuid), + + # meta data + timestamp = datetime.datetime.now().isoformat(), + ) + + json_params = json.dumps(params) + #print("json_params:", json_params) + Redis.set(key, json_params) + Redis.expire(key, 60*60) + print("before printing command") + + command = 'python /home/zas1024/gene/wqflask/wqflask/my_pylmm/pyLMM/lmm.py --key {} --species {}'.format(key, + "other") + print("command is:", command) + print("after printing command") + + os.system(command) + + json_results = Redis.blpop("pylmm:results:" + str(self.temp_uuid), 45*60) + results = json.loads(json_results[1]) + p_values = [float(result) for result in results['p_values']] + #print("p_values:", p_values) + self.dataset.group.markers.add_pvalues(p_values) + + self.trait_results[this_trait.name] = [] + for marker in self.dataset.group.markers.markers: + self.trait_results[this_trait.name].append(marker['lod_score']) + + + def identify_empty_samples(self, values): + no_val_samples = [] + for sample_count, val in enumerate(values): + if val == "x": + no_val_samples.append(sample_count) + return no_val_samples + + def trim_genotypes(self, genotype_data, no_value_samples): + trimmed_genotype_data = [] + for marker in genotype_data: + new_genotypes = [] + for item_count, genotype in enumerate(marker): + if item_count in no_value_samples: + continue + try: + genotype = float(genotype) + except ValueError: + genotype = np.nan + pass + new_genotypes.append(genotype) + trimmed_genotype_data.append(new_genotypes) + return trimmed_genotype_data + + diff --git a/wqflask/wqflask/interval_mapping/interval_mapping.py b/wqflask/wqflask/interval_mapping/interval_mapping.py index 5eb901f7..46aac86c 100755 --- a/wqflask/wqflask/interval_mapping/interval_mapping.py +++ b/wqflask/wqflask/interval_mapping/interval_mapping.py @@ -24,9 +24,6 @@ from base import data_set from base import species from base import webqtlConfig from utility import webqtlUtil -from wqflask.my_pylmm.data import prep_data -from wqflask.my_pylmm.pyLMM import lmm -from wqflask.my_pylmm.pyLMM import input from utility import helper_functions from utility import Plot, Bunch from utility import temp_data @@ -56,14 +53,12 @@ class IntervalMapping(object): self.set_options(start_vars) + self.score_type = "LRS" + self.cutoff = 3 + self.json_data = {} - - #if self.method == "qtl_reaper": self.json_data['lodnames'] = ['lod.hk'] self.gen_reaper_results(tempdata) - #else: - # self.gen_pylmm_results(tempdata) - #self.gen_qtl_results(tempdata) #Get chromosome lengths for drawing the interval map plot chromosome_mb_lengths = {} @@ -73,48 +68,39 @@ class IntervalMapping(object): chromosome_mb_lengths[key] = self.species.chromosomes.chromosomes[key].mb_length - #print("self.qtl_results:", self.qtl_results) - print("JSON DATA:", self.json_data) - #os.chdir(webqtlConfig.TMPDIR) json_filename = webqtlUtil.genRandStr(prefix="intmap_") json.dumps(self.json_data, webqtlConfig.TMPDIR + json_filename) - + self.js_data = dict( + result_score_type = self.score_type, manhattan_plot = self.manhattan_plot, - additive = self.additive, chromosomes = chromosome_mb_lengths, qtl_results = self.qtl_results, json_data = self.json_data - #lrs_lod = self.lrs_lod, ) def set_options(self, start_vars): """Sets various options (physical/genetic mapping, # permutations, which chromosome""" - #self.plot_scale = start_vars['scale'] - #if self.plotScale == 'physic' and not fd.genotype.Mbmap: - # self.plotScale = 'morgan' - #self.method = start_vars['mapping_method'] - self.num_permutations = int(start_vars['num_perm']) - #self.do_bootstrap = start_vars['do_bootstrap'] - #self.selected_chr = start_vars['chromosome'] + if start_vars['num_perm'] == "": + self.num_permutations = 0 + else: + self.num_permutations = int(start_vars['num_perm']) if start_vars['manhattan_plot'] == "true": self.manhattan_plot = True else: self.manhattan_plot = False - if start_vars['display_additive'] == "yes": - self.additive = True - else: - self.additive = False + #ZS: Commenting this out until we can fix the issue with positive/negative additive effects being colored properly + #if start_vars['display_additive'] == "yes": + # self.additive = True + #else: + self.additive = False if 'control_locus' in start_vars: self.control_locus = start_vars['control_locus'] else: self.control_locus = None - #self.weighted_regression = start_vars['weighted'] - #self.lrs_lod = start_vars['lrs_lod'] - def gen_qtl_results(self, tempdata): """Generates qtl results for plotting interval map""" @@ -134,7 +120,7 @@ class IntervalMapping(object): #if self.weighted_regression: # self.lrs_array = self.genotype.permutation(strains = trimmed_samples, # trait = trimmed_values, - # variance = _vars, + # variance = variances, # nperm=self.num_permutations) #else: self.lrs_array = genotype.permutation(strains = trimmed_samples, @@ -171,20 +157,14 @@ class IntervalMapping(object): self.json_data['chr'] = [] self.json_data['pos'] = [] self.json_data['lod.hk'] = [] - self.json_data['additive'] = [] self.json_data['markernames'] = [] for qtl in reaper_results: reaper_locus = qtl.locus - #if reaper_locus.chr == "20": - # print("changing to X") - # self.json_data['chr'].append("X") - #else: - # self.json_data['chr'].append(reaper_locus.chr) - ##self.json_data['chr'].append(reaper_locus.chr) self.json_data['pos'].append(reaper_locus.Mb) self.json_data['lod.hk'].append(qtl.lrs) self.json_data['markernames'].append(reaper_locus.name) if self.additive: + self.json_data['additive'] = [] self.json_data['additive'].append(qtl.additive) locus = {"name":reaper_locus.name, "chr":reaper_locus.chr, "cM":reaper_locus.cM, "Mb":reaper_locus.Mb} qtl = {"lrs": qtl.lrs, "locus": locus, "additive": qtl.additive} @@ -225,8 +205,9 @@ class IntervalMapping(object): self.json_data['chr'] = [] self.json_data['pos'] = [] self.json_data['lod.hk'] = [] - self.json_data['additive'] = [] self.json_data['markernames'] = [] + if self.additive: + self.json_data['additive'] = [] #Need to convert the QTL objects that qtl reaper returns into a json serializable dictionary self.qtl_results = [] @@ -240,65 +221,8 @@ class IntervalMapping(object): self.json_data['additive'].append(qtl.additive) locus = {"name":reaper_locus.name, "chr":reaper_locus.chr, "cM":reaper_locus.cM, "Mb":reaper_locus.Mb} qtl = {"lrs_value": qtl.lrs, "chr":reaper_locus.chr, "Mb":reaper_locus.Mb, - "cM":reaper_locus.cM, "name":reaper_locus.name, "additive":qtl.additive} + "cM":reaper_locus.cM, "name":reaper_locus.name, "additive":qtl.additive, "dominance":qtl.dominance} self.qtl_results.append(qtl) - - def gen_pylmm_results(self, tempdata): - print("USING PYLMM") - self.dataset.group.get_markers() - - pheno_vector = np.array([val == "x" and np.nan or float(val) for val in self.vals]) - if self.dataset.group.species == "human": - p_values, t_stats = self.gen_human_results(pheno_vector, tempdata) - else: - genotype_data = [marker['genotypes'] for marker in self.dataset.group.markers.markers] - - no_val_samples = self.identify_empty_samples() - trimmed_genotype_data = self.trim_genotypes(genotype_data, no_val_samples) - - genotype_matrix = np.array(trimmed_genotype_data).T - - t_stats, p_values = lmm.run( - pheno_vector, - genotype_matrix, - restricted_max_likelihood=True, - refit=False, - temp_data=tempdata - ) - - print("p_values:", p_values) - self.dataset.group.markers.add_pvalues(p_values) - self.qtl_results = self.dataset.group.markers.markers - - def gen_qtl_results_2(self, tempdata): - """Generates qtl results for plotting interval map""" - - self.dataset.group.get_markers() - self.dataset.read_genotype_file() - - pheno_vector = np.array([val == "x" and np.nan or float(val) for val in self.vals]) - - #if self.dataset.group.species == "human": - # p_values, t_stats = self.gen_human_results(pheno_vector, tempdata) - #else: - genotype_data = [marker['genotypes'] for marker in self.dataset.group.markers.markers] - - no_val_samples = self.identify_empty_samples() - trimmed_genotype_data = self.trim_genotypes(genotype_data, no_val_samples) - - genotype_matrix = np.array(trimmed_genotype_data).T - - t_stats, p_values = lmm.run( - pheno_vector, - genotype_matrix, - restricted_max_likelihood=True, - refit=False, - temp_data=tempdata - ) - - self.dataset.group.markers.add_pvalues(p_values) - - self.qtl_results = self.dataset.group.markers.markers def identify_empty_samples(self): diff --git a/wqflask/wqflask/marker_regression/gemma_mapping.py b/wqflask/wqflask/marker_regression/gemma_mapping.py new file mode 100644 index 00000000..b1ab780c --- /dev/null +++ b/wqflask/wqflask/marker_regression/gemma_mapping.py @@ -0,0 +1,44 @@ +import os + +from base import webqtlConfig + +def run_gemma(this_dataset, samples, vals): + """Generates p-values for each marker using GEMMA""" + + print("INSIDE GEMMA_MAPPING") + + gen_pheno_txt_file(this_dataset, samples, vals) + + os.chdir("{}gemma".format(webqtlConfig.HTMLPATH)) + + gemma_command = './gemma -bfile %s -k output_%s.cXX.txt -lmm 1 -o output/%s_output' % (this_dataset.group.name, + this_dataset.group.name, + this_dataset.group.name) + print("gemma_command:" + gemma_command) + + os.system(gemma_command) + + included_markers, p_values = parse_gemma_output(this_dataset) + + return included_markers, p_values + +def gen_pheno_txt_file(this_dataset, samples, vals): + """Generates phenotype file for GEMMA""" + + with open("{}gemma/{}.fam".format(webqtlConfig.HTMLPATH, this_dataset.group.name), "w") as outfile: + for i, sample in enumerate(samples): + outfile.write(str(sample) + " " + str(sample) + " 0 0 0 " + str(vals[i]) + "\n") + +def parse_gemma_output(this_dataset): + included_markers = [] + p_values = [] + with open("{}gemma/output/{}_output.assoc.txt".format(webqtlConfig.HTMLPATH, this_dataset.group.name)) as output_file: + for line in output_file: + if line.startswith("chr"): + continue + else: + included_markers.append(line.split("\t")[1]) + p_values.append(float(line.split("\t")[10])) + + print("p_values: ", p_values) + return included_markers, p_values
\ No newline at end of file diff --git a/wqflask/wqflask/marker_regression/marker_regression.py b/wqflask/wqflask/marker_regression/marker_regression.py index 7708356b..b33efc1f 100755 --- a/wqflask/wqflask/marker_regression/marker_regression.py +++ b/wqflask/wqflask/marker_regression/marker_regression.py @@ -31,15 +31,18 @@ from base import data_set from base import species from base import webqtlConfig from utility import webqtlUtil -from wqflask.my_pylmm.data import prep_data -from wqflask.my_pylmm.pyLMM import lmm -from wqflask.my_pylmm.pyLMM import input +#from wqflask.marker_regression import qtl_reaper_mapping +#from wqflask.marker_regression import plink_mapping +from wqflask.marker_regression import gemma_mapping +#from wqflask.marker_regression import rqtl_mapping from utility import helper_functions from utility import Plot, Bunch from utility import temp_data - from utility.benchmark import Bench +from utility.tools import pylmm_command, plink_command +PYLMM_PATH,PYLMM_COMMAND = pylmm_command() +PLINK_PATH,PLINK_COMMAND = plink_command() class MarkerRegression(object): @@ -70,97 +73,132 @@ class MarkerRegression(object): self.suggestive = "" self.significant = "" self.pair_scan = False # Initializing this since it is checked in views to determine which template to use + self.score_type = "LRS" #ZS: LRS or LOD self.dataset.group.get_markers() if self.mapping_method == "gemma": - qtl_results = self.run_gemma() + self.score_type = "LOD" + included_markers, p_values = gemma_mapping.run_gemma(self.dataset, self.samples, self.vals) + self.dataset.group.get_specified_markers(markers = included_markers) + self.dataset.group.markers.add_pvalues(p_values) + results = self.dataset.group.markers.markers elif self.mapping_method == "rqtl_plink": - qtl_results = self.run_rqtl_plink() + results = self.run_rqtl_plink() elif self.mapping_method == "rqtl_geno": + self.score_type = "LOD" if start_vars['num_perm'] == "": self.num_perm = 0 else: self.num_perm = start_vars['num_perm'] self.control = start_vars['control_marker'] + self.do_control = start_vars['do_control'] print("StartVars:", start_vars) self.method = start_vars['mapmethod_rqtl_geno'] self.model = start_vars['mapmodel_rqtl_geno'] if start_vars['pair_scan'] == "true": self.pair_scan = True - print("pair scan:", self.pair_scan) - print("DOING RQTL GENO") - qtl_results = self.run_rqtl_geno() - print("qtl_results:", qtl_results) + results = self.run_rqtl_geno() + print("qtl_results:", results) elif self.mapping_method == "plink": - qtl_results = self.run_plink() - #print("qtl_results:", pf(qtl_results)) + results = self.run_plink() + #print("qtl_results:", pf(results)) elif self.mapping_method == "pylmm": print("RUNNING PYLMM") self.num_perm = start_vars['num_perm'] if self.num_perm != "": if int(self.num_perm) > 0: self.run_permutations(str(temp_uuid)) - qtl_results = self.gen_data(str(temp_uuid)) + results = self.gen_data(str(temp_uuid)) else: print("RUNNING NOTHING") - self.lod_cutoff = 2 - self.filtered_markers = [] - highest_chr = 1 #This is needed in order to convert the highest chr to X/Y - for marker in qtl_results: - if marker['chr'] > 0 or marker['chr'] == "X" or marker['chr'] == "X/Y": - if marker['chr'] > highest_chr or marker['chr'] == "X" or marker['chr'] == "X/Y": - highest_chr = marker['chr'] - if 'lod_score' in marker: - self.filtered_markers.append(marker) - - self.json_data['chr'] = [] - self.json_data['pos'] = [] - self.json_data['lod.hk'] = [] - self.json_data['markernames'] = [] - - self.json_data['suggestive'] = self.suggestive - self.json_data['significant'] = self.significant - - #Need to convert the QTL objects that qtl reaper returns into a json serializable dictionary - self.qtl_results = [] - for qtl in self.filtered_markers: - print("lod score is:", qtl['lod_score']) - if qtl['chr'] == highest_chr and highest_chr != "X" and highest_chr != "X/Y": - print("changing to X") - self.json_data['chr'].append("X") - else: - self.json_data['chr'].append(str(qtl['chr'])) - self.json_data['pos'].append(qtl['Mb']) - self.json_data['lod.hk'].append(str(qtl['lod_score'])) - self.json_data['markernames'].append(qtl['name']) - - #Get chromosome lengths for drawing the interval map plot - chromosome_mb_lengths = {} - self.json_data['chrnames'] = [] - for key in self.species.chromosomes.chromosomes.keys(): - self.json_data['chrnames'].append([self.species.chromosomes.chromosomes[key].name, self.species.chromosomes.chromosomes[key].mb_length]) - chromosome_mb_lengths[key] = self.species.chromosomes.chromosomes[key].mb_length - - print("json_data:", self.json_data) - - - self.js_data = dict( - json_data = self.json_data, - this_trait = self.this_trait.name, - data_set = self.dataset.name, - maf = self.maf, - manhattan_plot = self.manhattan_plot, - chromosomes = chromosome_mb_lengths, - qtl_results = self.filtered_markers, - ) + if self.pair_scan == True: + self.qtl_results = [] + highest_chr = 1 #This is needed in order to convert the highest chr to X/Y + for marker in results: + if marker['chr1'] > 0 or marker['chr1'] == "X" or marker['chr1'] == "X/Y": + if marker['chr1'] > highest_chr or marker['chr1'] == "X" or marker['chr1'] == "X/Y": + highest_chr = marker['chr1'] + if 'lod_score' in marker: + self.qtl_results.append(marker) + + for qtl in enumerate(self.qtl_results): + self.json_data['chr1'].append(str(qtl['chr1'])) + self.json_data['chr2'].append(str(qtl['chr2'])) + self.json_data['Mb'].append(qtl['Mb']) + self.json_data['markernames'].append(qtl['name']) + + self.js_data = dict( + json_data = self.json_data, + this_trait = self.this_trait.name, + data_set = self.dataset.name, + maf = self.maf, + manhattan_plot = self.manhattan_plot, + qtl_results = self.qtl_results, + ) + + else: + self.cutoff = 2 + self.qtl_results = [] + highest_chr = 1 #This is needed in order to convert the highest chr to X/Y + for marker in results: + if marker['chr'] > 0 or marker['chr'] == "X" or marker['chr'] == "X/Y": + if marker['chr'] > highest_chr or marker['chr'] == "X" or marker['chr'] == "X/Y": + highest_chr = marker['chr'] + if 'lod_score' in marker: + self.qtl_results.append(marker) + + self.json_data['chr'] = [] + self.json_data['pos'] = [] + self.json_data['lod.hk'] = [] + self.json_data['markernames'] = [] + + self.json_data['suggestive'] = self.suggestive + self.json_data['significant'] = self.significant + + #Need to convert the QTL objects that qtl reaper returns into a json serializable dictionary + for index, qtl in enumerate(self.qtl_results): + if index<40: + print("lod score is:", qtl['lod_score']) + if qtl['chr'] == highest_chr and highest_chr != "X" and highest_chr != "X/Y": + print("changing to X") + self.json_data['chr'].append("X") + else: + self.json_data['chr'].append(str(qtl['chr'])) + self.json_data['pos'].append(qtl['Mb']) + if 'lrs_value' in qtl: + self.json_data['lod.hk'].append(str(qtl['lrs_value'])) + else: + self.json_data['lod.hk'].append(str(qtl['lod_score'])) + self.json_data['markernames'].append(qtl['name']) + + #Get chromosome lengths for drawing the interval map plot + chromosome_mb_lengths = {} + self.json_data['chrnames'] = [] + for key in self.species.chromosomes.chromosomes.keys(): + self.json_data['chrnames'].append([self.species.chromosomes.chromosomes[key].name, self.species.chromosomes.chromosomes[key].mb_length]) + chromosome_mb_lengths[key] = self.species.chromosomes.chromosomes[key].mb_length + + # print("json_data:", self.json_data) + + + self.js_data = dict( + result_score_type = self.score_type, + json_data = self.json_data, + this_trait = self.this_trait.name, + data_set = self.dataset.name, + maf = self.maf, + manhattan_plot = self.manhattan_plot, + chromosomes = chromosome_mb_lengths, + qtl_results = self.qtl_results, + ) + def run_gemma(self): """Generates p-values for each marker using GEMMA""" - #filename = webqtlUtil.genRandStr("{}_{}_".format(self.dataset.group.name, self.this_trait.name)) self.gen_pheno_txt_file() os.chdir("/home/zas1024/gene/web/gemma") @@ -272,7 +310,7 @@ class MarkerRegression(object): """) def run_rqtl_geno(self): - print("Calling R/qtl from python") + print("Calling R/qtl") self.geno_to_rqtl_function() @@ -315,7 +353,7 @@ class MarkerRegression(object): covar = self.create_covariates(cross_object) # Create the additive covariate matrix if self.pair_scan: - if(r_sum(covar)[0] > 0): # If sum(covar) > 0 we have a covariate matrix + if self.do_control == "true": # If sum(covar) > 0 we have a covariate matrix print("Using covariate"); result_data_frame = scantwo(cross_object, pheno = "the_pheno", addcovar = covar, model=self.model, method=self.method, n_cluster = 16) else: print("No covariates"); result_data_frame = scantwo(cross_object, pheno = "the_pheno", model=self.model, method=self.method, n_cluster = 16) @@ -330,13 +368,13 @@ class MarkerRegression(object): return self.process_pair_scan_results(result_data_frame) else: - if(r_sum(covar)[0] > 0): + if self.do_control == "true": print("Using covariate"); result_data_frame = scanone(cross_object, pheno = "the_pheno", addcovar = covar, model=self.model, method=self.method) else: print("No covariates"); result_data_frame = scanone(cross_object, pheno = "the_pheno", model=self.model, method=self.method) if int(self.num_perm) > 0: # Do permutation (if requested by user) - if(r_sum(covar)[0] > 0): + if self.do_control == "true": perm_data_frame = scanone(cross_object, pheno_col = "the_pheno", addcovar = covar, n_perm = int(self.num_perm), model=self.model, method=self.method) else: perm_data_frame = scanone(cross_object, pheno_col = "the_pheno", n_perm = int(self.num_perm), model=self.model, method=self.method) @@ -381,9 +419,23 @@ class MarkerRegression(object): return pheno_as_string def process_pair_scan_results(self, result): - results = [] + pair_scan_results = [] - return results + result = result[1] + output = [tuple([result[j][i] for j in range(result.ncol)]) for i in range(result.nrow)] + print("R/qtl scantwo output:", output) + + for i, line in enumerate(result.iter_row()): + marker = {} + marker['name'] = result.rownames[i] + marker['chr1'] = output[i][0] + marker['Mb'] = output[i][1] + marker['chr2'] = int(output[i][2]) + pair_scan_results.append(marker) + + print("pair_scan_results:", pair_scan_results) + + return pair_scan_results def process_rqtl_results(self, result): # TODO: how to make this a one liner and not copy the stuff in a loop qtl_results = [] @@ -414,29 +466,16 @@ class MarkerRegression(object): def run_plink(self): - - os.chdir("/home/zas1024/plink") - plink_output_filename = webqtlUtil.genRandStr("%s_%s_"%(self.dataset.group.name, self.this_trait.name)) self.gen_pheno_txt_file_plink(pheno_filename = plink_output_filename) - plink_command = './plink --noweb --ped %s.ped --no-fid --no-parents --no-sex --no-pheno --map %s.map --pheno %s/%s.txt --pheno-name %s --maf %s --missing-phenotype -9999 --out %s%s --assoc ' % (self.dataset.group.name, self.dataset.group.name, webqtlConfig.TMPDIR, plink_output_filename, self.this_trait.name, self.maf, webqtlConfig.TMPDIR, plink_output_filename) - + plink_command = PLINK_COMMAND + ' --noweb --ped %s/%s.ped --no-fid --no-parents --no-sex --no-pheno --map %s/%s.map --pheno %s%s.txt --pheno-name %s --maf %s --missing-phenotype -9999 --out %s%s --assoc ' % (PLINK_PATH, self.dataset.group.name, PLINK_PATH, self.dataset.group.name, webqtlConfig.TMPDIR, plink_output_filename, self.this_trait.name, self.maf, webqtlConfig.TMPDIR, plink_output_filename) + print("plink_command:", plink_command) + os.system(plink_command) count, p_values = self.parse_plink_output(plink_output_filename) - #gemma_command = './gemma -bfile %s -k output_%s.cXX.txt -lmm 1 -o %s_output' % ( - # self.dataset.group.name, - # self.dataset.group.name, - # self.dataset.group.name) - #print("gemma_command:" + gemma_command) - # - #os.system(gemma_command) - # - #included_markers, p_values = self.parse_gemma_output() - # - #self.dataset.group.get_specified_markers(markers = included_markers) #for marker in self.dataset.group.markers.markers: # if marker['name'] not in included_markers: @@ -523,10 +562,7 @@ class MarkerRegression(object): # get strain name from ped file in order def get_samples_from_ped_file(self): - - os.chdir("/home/zas1024/plink") - - ped_file= open("{}.ped".format(self.dataset.group.name),"r") + ped_file= open("{}/{}.ped".format(PLINK_PATH, self.dataset.group.name),"r") line = ped_file.readline() sample_list=[] @@ -655,8 +691,7 @@ class MarkerRegression(object): Redis.set(key, json_params) Redis.expire(key, 60*60) - command = 'python /home/zas1024/gene/wqflask/wqflask/my_pylmm/pyLMM/lmm.py --key {} --species {}'.format(key, - "other") + command = PYLMM_COMMAND+' --key {} --species {}'.format(key,"other") os.system(command) @@ -713,8 +748,8 @@ class MarkerRegression(object): # "refit": False, # "temp_data": tempdata} - print("genotype_matrix:", str(genotype_matrix.tolist())) - print("pheno_vector:", str(pheno_vector.tolist())) + # print("genotype_matrix:", str(genotype_matrix.tolist())) + # print("pheno_vector:", str(pheno_vector.tolist())) params = dict(pheno_vector = pheno_vector.tolist(), genotype_matrix = genotype_matrix.tolist(), @@ -732,7 +767,7 @@ class MarkerRegression(object): Redis.expire(key, 60*60) print("before printing command") - command = 'python /home/zas1024/gene/wqflask/wqflask/my_pylmm/pyLMM/lmm.py --key {} --species {}'.format(key, + command = PYLMM_COMMAND + ' --key {} --species {}'.format(key, "other") print("command is:", command) print("after printing command") @@ -745,7 +780,7 @@ class MarkerRegression(object): json_results = Redis.blpop("pylmm:results:" + temp_uuid, 45*60) results = json.loads(json_results[1]) p_values = [float(result) for result in results['p_values']] - print("p_values:", p_values) + print("p_values:", p_values[:10]) #p_values = self.trim_results(p_values) t_stats = results['t_stats'] @@ -806,7 +841,7 @@ class MarkerRegression(object): print("Before creating the command") - command = 'python /home/zas1024/gene/wqflask/wqflask/my_pylmm/pyLMM/lmm.py --key {} --species {}'.format(key, + command = PYLMM_COMMAND+' --key {} --species {}'.format(key, "human") print("command is:", command) diff --git a/wqflask/wqflask/marker_regression/marker_regression_old.py b/wqflask/wqflask/marker_regression/marker_regression_old.py deleted file mode 100644 index 36331250..00000000 --- a/wqflask/wqflask/marker_regression/marker_regression_old.py +++ /dev/null @@ -1,576 +0,0 @@ -from __future__ import absolute_import, print_function, division - -from base.trait import GeneralTrait -from base import data_set #import create_dataset - -from pprint import pformat as pf - -import string -import sys -import datetime -import os -import collections -import uuid - -import numpy as np -from scipy import linalg - -import cPickle as pickle - -import simplejson as json - -from redis import Redis -Redis = Redis() - -from flask import Flask, g - -from base.trait import GeneralTrait -from base import data_set -from base import species -from base import webqtlConfig -from utility import webqtlUtil -from wqflask.my_pylmm.data import prep_data -from wqflask.my_pylmm.pyLMM import lmm -from wqflask.my_pylmm.pyLMM import input -from utility import helper_functions -from utility import Plot, Bunch -from utility import temp_data - -from utility.benchmark import Bench - - -class MarkerRegression(object): - - def __init__(self, start_vars, temp_uuid): - - helper_functions.get_species_dataset_trait(self, start_vars) - - #tempdata = temp_data.TempData(temp_uuid) - - self.samples = [] # Want only ones with values - self.vals = [] - - for sample in self.dataset.group.samplelist: - value = start_vars['value:' + sample] - self.samples.append(str(sample)) - self.vals.append(value) - - self.mapping_method = start_vars['method'] - self.maf = start_vars['maf'] # Minor allele frequency - print("self.maf:", self.maf) - - self.dataset.group.get_markers() - if self.mapping_method == "gemma": - qtl_results = self.run_gemma() - elif self.mapping_method == "plink": - qtl_results = self.run_plink() - #print("qtl_results:", pf(qtl_results)) - elif self.mapping_method == "pylmm": - print("RUNNING PYLMM") - #self.qtl_results = self.gen_data(tempdata) - qtl_results = self.gen_data(str(temp_uuid)) - else: - print("RUNNING NOTHING") - - self.lod_cutoff = 2 - self.filtered_markers = [] - for marker in qtl_results: - if marker['chr'] > 0: - self.filtered_markers.append(marker) - - #Get chromosome lengths for drawing the manhattan plot - chromosome_mb_lengths = {} - for key in self.species.chromosomes.chromosomes.keys(): - chromosome_mb_lengths[key] = self.species.chromosomes.chromosomes[key].mb_length - - self.js_data = dict( - this_trait = self.this_trait.name, - data_set = self.dataset.name, - maf = self.maf, - chromosomes = chromosome_mb_lengths, - qtl_results = self.filtered_markers, - ) - - def run_gemma(self): - """Generates p-values for each marker using GEMMA""" - - #filename = webqtlUtil.genRandStr("{}_{}_".format(self.dataset.group.name, self.this_trait.name)) - self.gen_pheno_txt_file() - - os.chdir("/home/zas1024/gene/web/gemma") - - gemma_command = './gemma -bfile %s -k output_%s.cXX.txt -lmm 1 -o %s_output' % ( - self.dataset.group.name, - self.dataset.group.name, - self.dataset.group.name) - print("gemma_command:" + gemma_command) - - os.system(gemma_command) - - included_markers, p_values = self.parse_gemma_output() - - self.dataset.group.get_specified_markers(markers = included_markers) - - #for marker in self.dataset.group.markers.markers: - # if marker['name'] not in included_markers: - # print("marker:", marker) - # self.dataset.group.markers.markers.remove(marker) - # #del self.dataset.group.markers.markers[marker] - - self.dataset.group.markers.add_pvalues(p_values) - - return self.dataset.group.markers.markers - - - def parse_gemma_output(self): - included_markers = [] - p_values = [] - with open("/home/zas1024/gene/web/gemma/output/{}_output.assoc.txt".format(self.dataset.group.name)) as output_file: - for line in output_file: - if line.startswith("chr"): - continue - else: - included_markers.append(line.split("\t")[1]) - p_values.append(float(line.split("\t")[10])) - #p_values[line.split("\t")[1]] = float(line.split("\t")[10]) - print("p_values: ", p_values) - return included_markers, p_values - - def gen_pheno_txt_file(self): - """Generates phenotype file for GEMMA""" - - #with open("/home/zas1024/gene/web/gemma/tmp_pheno/{}.txt".format(filename), "w") as outfile: - # for sample, i in enumerate(self.samples): - # print("sample:" + str(i)) - # print("self.vals[i]:" + str(self.vals[sample])) - # outfile.write(str(i) + "\t" + str(self.vals[sample]) + "\n") - - with open("/home/zas1024/gene/web/gemma/{}.fam".format(self.dataset.group.name), "w") as outfile: - for i, sample in enumerate(self.samples): - outfile.write(str(sample) + " " + str(sample) + " 0 0 0 " + str(self.vals[i]) + "\n") - - #def gen_plink_for_gemma(self, filename): - # - # make_bed = "/home/zas1024/plink/plink --file /home/zas1024/plink/%s --noweb --no-fid --no-parents --no-sex --no-pheno --pheno %s%s.txt --out %s%s --make-bed" % (webqtlConfig.HTMLPATH, - # webqtlConfig.HTMLPATH, - # self.dataset.group.name, - # webqtlConfig.TMPDIR, - # filename, - # webqtlConfig.TMPDIR, - # filename) - # - # - - def run_plink(self): - - os.chdir("/home/zas1024/plink") - - plink_output_filename = webqtlUtil.genRandStr("%s_%s_"%(self.dataset.group.name, self.this_trait.name)) - - self.gen_pheno_txt_file_plink(pheno_filename = plink_output_filename) - - plink_command = './plink --noweb --ped %s.ped --no-fid --no-parents --no-sex --no-pheno --map %s.map --pheno %s/%s.txt --pheno-name %s --maf %s --missing-phenotype -9999 --out %s%s --assoc ' % (self.dataset.group.name, self.dataset.group.name, webqtlConfig.TMPDIR, plink_output_filename, self.this_trait.name, self.maf, webqtlConfig.TMPDIR, plink_output_filename) - - os.system(plink_command) - - count, p_values = self.parse_plink_output(plink_output_filename) - #gemma_command = './gemma -bfile %s -k output_%s.cXX.txt -lmm 1 -o %s_output' % ( - # self.dataset.group.name, - # self.dataset.group.name, - # self.dataset.group.name) - #print("gemma_command:" + gemma_command) - # - #os.system(gemma_command) - # - #included_markers, p_values = self.parse_gemma_output() - # - #self.dataset.group.get_specified_markers(markers = included_markers) - - #for marker in self.dataset.group.markers.markers: - # if marker['name'] not in included_markers: - # print("marker:", marker) - # self.dataset.group.markers.markers.remove(marker) - # #del self.dataset.group.markers.markers[marker] - - print("p_values:", pf(p_values)) - - self.dataset.group.markers.add_pvalues(p_values) - - return self.dataset.group.markers.markers - - - def gen_pheno_txt_file_plink(self, pheno_filename = ''): - ped_sample_list = self.get_samples_from_ped_file() - output_file = open("%s%s.txt" % (webqtlConfig.TMPDIR, pheno_filename), "wb") - header = 'FID\tIID\t%s\n' % self.this_trait.name - output_file.write(header) - - new_value_list = [] - - #if valueDict does not include some strain, value will be set to -9999 as missing value - for i, sample in enumerate(ped_sample_list): - try: - value = self.vals[i] - value = str(value).replace('value=','') - value = value.strip() - except: - value = -9999 - - new_value_list.append(value) - - - new_line = '' - for i, sample in enumerate(ped_sample_list): - j = i+1 - value = new_value_list[i] - new_line += '%s\t%s\t%s\n'%(sample, sample, value) - - if j%1000 == 0: - output_file.write(newLine) - new_line = '' - - if new_line: - output_file.write(new_line) - - output_file.close() - - # get strain name from ped file in order - def get_samples_from_ped_file(self): - - os.chdir("/home/zas1024/plink") - - ped_file= open("{}.ped".format(self.dataset.group.name),"r") - line = ped_file.readline() - sample_list=[] - - while line: - lineList = string.split(string.strip(line), '\t') - lineList = map(string.strip, lineList) - - sample_name = lineList[0] - sample_list.append(sample_name) - - line = ped_file.readline() - - return sample_list - - ################################################################ - # Generate Chr list, Chr OrderId and Retrieve Length Information - ################################################################ - #def getChrNameOrderIdLength(self,RISet=''): - # try: - # query = """ - # Select - # Chr_Length.Name,Chr_Length.OrderId,Length from Chr_Length, InbredSet - # where - # Chr_Length.SpeciesId = InbredSet.SpeciesId AND - # InbredSet.Name = '%s' - # Order by OrderId - # """ % (self.dataset.group.name) - # results =g.db.execute(query).fetchall() - # ChrList=[] - # ChrLengthMbList=[] - # ChrNameOrderIdDict={} - # ChrOrderIdNameDict={} - # - # for item in results: - # ChrList.append(item[0]) - # ChrNameOrderIdDict[item[0]]=item[1] # key is chr name, value is orderId - # ChrOrderIdNameDict[item[1]]=item[0] # key is orderId, value is chr name - # ChrLengthMbList.append(item[2]) - # - # except: - # ChrList=[] - # ChrNameOrderIdDict={} - # ChrLengthMbList=[] - # - # return ChrList,ChrNameOrderIdDict,ChrOrderIdNameDict,ChrLengthMbList - - - def parse_plink_output(self, output_filename): - plink_results={} - - threshold_p_value = 0.01 - - result_fp = open("%s%s.qassoc"% (webqtlConfig.TMPDIR, output_filename), "rb") - - header_line = result_fp.readline()# read header line - line = result_fp.readline() - - value_list = [] # initialize value list, this list will include snp, bp and pvalue info - p_value_dict = {} - count = 0 - - while line: - #convert line from str to list - line_list = self.build_line_list(line=line) - - # only keep the records whose chromosome name is in db - if self.species.chromosomes.chromosomes.has_key(int(line_list[0])) and line_list[-1] and line_list[-1].strip()!='NA': - - chr_name = self.species.chromosomes.chromosomes[int(line_list[0])] - snp = line_list[1] - BP = line_list[2] - p_value = float(line_list[-1]) - if threshold_p_value >= 0 and threshold_p_value <= 1: - if p_value < threshold_p_value: - p_value_dict[snp] = p_value - - if plink_results.has_key(chr_name): - value_list = plink_results[chr_name] - - # pvalue range is [0,1] - if threshold_p_value >=0 and threshold_p_value <= 1: - if p_value < threshold_p_value: - value_list.append((snp, BP, p_value)) - count += 1 - - plink_results[chr_name] = value_list - value_list = [] - else: - if threshold_p_value >= 0 and threshold_p_value <= 1: - if p_value < threshold_p_value: - value_list.append((snp, BP, p_value)) - count += 1 - - if value_list: - plink_results[chr_name] = value_list - - value_list=[] - - line = result_fp.readline() - else: - line = result_fp.readline() - - #if p_value_list: - # min_p_value = min(p_value_list) - #else: - # min_p_value = 0 - - return count, p_value_dict - - ###################################################### - # input: line: str,one line read from file - # function: convert line from str to list; - # output: lineList list - ####################################################### - def build_line_list(self, line=None): - - line_list = string.split(string.strip(line),' ')# irregular number of whitespaces between columns - line_list = [item for item in line_list if item <>''] - line_list = map(string.strip, line_list) - - return line_list - - #def gen_data(self, tempdata): - def gen_data(self, temp_uuid): - """Generates p-values for each marker""" - - pheno_vector = np.array([val == "x" and np.nan or float(val) for val in self.vals]) - - #lmm_uuid = str(uuid.uuid4()) - - key = "pylmm:input:" + temp_uuid - print("key is:", pf(key)) - #with Bench("Loading cache"): - # result = Redis.get(key) - - if self.dataset.group.species == "human": - p_values, t_stats = self.gen_human_results(pheno_vector, key, temp_uuid) - #p_values = self.trim_results(p_values) - - else: - print("NOW CWD IS:", os.getcwd()) - genotype_data = [marker['genotypes'] for marker in self.dataset.group.markers.markers] - - no_val_samples = self.identify_empty_samples() - trimmed_genotype_data = self.trim_genotypes(genotype_data, no_val_samples) - - genotype_matrix = np.array(trimmed_genotype_data).T - - #print("pheno_vector: ", pf(pheno_vector)) - #print("genotype_matrix: ", pf(genotype_matrix)) - #print("genotype_matrix.shape: ", pf(genotype_matrix.shape)) - - #params = {"pheno_vector": pheno_vector, - # "genotype_matrix": genotype_matrix, - # "restricted_max_likelihood": True, - # "refit": False, - # "temp_data": tempdata} - - params = dict(pheno_vector = pheno_vector.tolist(), - genotype_matrix = genotype_matrix.tolist(), - restricted_max_likelihood = True, - refit = False, - temp_uuid = temp_uuid, - - # meta data - timestamp = datetime.datetime.now().isoformat(), - ) - - json_params = json.dumps(params) - #print("json_params:", json_params) - Redis.set(key, json_params) - Redis.expire(key, 60*60) - print("before printing command") - - command = 'python /home/zas1024/gene/wqflask/wqflask/my_pylmm/pyLMM/lmm.py --key {} --species {}'.format(key, - "other") - print("command is:", command) - print("after printing command") - - os.system(command) - - #t_stats, p_values = lmm.run(key) - #lmm.run(key) - - json_results = Redis.blpop("pylmm:results:" + temp_uuid, 45*60) - results = json.loads(json_results[1]) - p_values = [float(result) for result in results['p_values']] - print("p_values:", p_values) - #p_values = self.trim_results(p_values) - t_stats = results['t_stats'] - - #t_stats, p_values = lmm.run( - # pheno_vector, - # genotype_matrix, - # restricted_max_likelihood=True, - # refit=False, - # temp_data=tempdata - #) - #print("p_values:", p_values) - - self.dataset.group.markers.add_pvalues(p_values) - - #self.get_lod_score_cutoff() - - return self.dataset.group.markers.markers - - def trim_results(self, p_values): - print("len_p_values:", len(p_values)) - if len(p_values) > 500: - p_values.sort(reverse=True) - trimmed_values = p_values[:500] - - return trimmed_values - - #def gen_human_results(self, pheno_vector, tempdata): - def gen_human_results(self, pheno_vector, key, temp_uuid): - file_base = os.path.join(webqtlConfig.PYLMM_PATH, self.dataset.group.name) - - plink_input = input.plink(file_base, type='b') - input_file_name = os.path.join(webqtlConfig.SNP_PATH, self.dataset.group.name + ".snps.gz") - - pheno_vector = pheno_vector.reshape((len(pheno_vector), 1)) - covariate_matrix = np.ones((pheno_vector.shape[0],1)) - kinship_matrix = np.fromfile(open(file_base + '.kin','r'),sep=" ") - kinship_matrix.resize((len(plink_input.indivs),len(plink_input.indivs))) - - print("Before creating params") - - params = dict(pheno_vector = pheno_vector.tolist(), - covariate_matrix = covariate_matrix.tolist(), - input_file_name = input_file_name, - kinship_matrix = kinship_matrix.tolist(), - refit = False, - temp_uuid = temp_uuid, - - # meta data - timestamp = datetime.datetime.now().isoformat(), - ) - - print("After creating params") - - json_params = json.dumps(params) - Redis.set(key, json_params) - Redis.expire(key, 60*60) - - print("Before creating the command") - - command = 'python /home/zas1024/gene/wqflask/wqflask/my_pylmm/pyLMM/lmm.py --key {} --species {}'.format(key, - "human") - - print("command is:", command) - - os.system(command) - - json_results = Redis.blpop("pylmm:results:" + temp_uuid, 45*60) - results = json.loads(json_results[1]) - t_stats = results['t_stats'] - p_values = results['p_values'] - - - #p_values, t_stats = lmm.run_human(key) - - #p_values, t_stats = lmm.run_human( - # pheno_vector, - # covariate_matrix, - # input_file_name, - # kinship_matrix, - # loading_progress=tempdata - # ) - - return p_values, t_stats - - def get_lod_score_cutoff(self): - print("INSIDE GET LOD CUTOFF") - high_qtl_count = 0 - for marker in self.dataset.group.markers.markers: - if marker['lod_score'] > 1: - high_qtl_count += 1 - - if high_qtl_count > 1000: - return 1 - else: - return 0 - - def identify_empty_samples(self): - no_val_samples = [] - for sample_count, val in enumerate(self.vals): - if val == "x": - no_val_samples.append(sample_count) - return no_val_samples - - def trim_genotypes(self, genotype_data, no_value_samples): - trimmed_genotype_data = [] - for marker in genotype_data: - new_genotypes = [] - for item_count, genotype in enumerate(marker): - if item_count in no_value_samples: - continue - try: - genotype = float(genotype) - except ValueError: - genotype = np.nan - pass - new_genotypes.append(genotype) - trimmed_genotype_data.append(new_genotypes) - return trimmed_genotype_data - -def create_snp_iterator_file(group): - plink_file_base = os.path.join(webqtlConfig.PYLMM_PATH, group) - plink_input = input.plink(plink_file_base, type='b') - - data = dict(plink_input = list(plink_input), - numSNPs = plink_input.numSNPs) - - #input_dict = {} - # - #input_dict['plink_input'] = list(plink_input) - #input_dict['numSNPs'] = plink_input.numSNPs - # - - snp_file_base = os.path.join(webqtlConfig.SNP_PATH, group + ".snps.gz") - - with gzip.open(snp_file_base, "wb") as fh: - pickle.dump(data, fh, pickle.HIGHEST_PROTOCOL) - -#if __name__ == '__main__': -# import cPickle as pickle -# import gzip -# create_snp_iterator_file("HLC") - -if __name__ == '__main__': - import cPickle as pickle - import gzip - create_snp_iterator_file("HLC") diff --git a/wqflask/wqflask/model.py b/wqflask/wqflask/model.py index fa8c1aab..5ea32e1f 100755 --- a/wqflask/wqflask/model.py +++ b/wqflask/wqflask/model.py @@ -172,8 +172,11 @@ class UserCollection(Base): @property def num_members(self): - print("members are:", json.loads(self.members)) - return len(json.loads(self.members)) + try: + return len(json.loads(self.members)) + except: + return 0 + #@property #def display_num_members(self): @@ -194,4 +197,4 @@ def display_collapsible(number): def user_uuid(): """Unique cookie for a user""" user_uuid = request.cookies.get('user_uuid') -
\ No newline at end of file + diff --git a/wqflask/wqflask/my_pylmm/README.md b/wqflask/wqflask/my_pylmm/README.md index f6b0e72d..b844c845 100644 --- a/wqflask/wqflask/my_pylmm/README.md +++ b/wqflask/wqflask/my_pylmm/README.md @@ -1,21 +1,37 @@ -# RELEASE NOTES - -## 0.50-gn2-pre1 release - -This is the first test release of multi-core pylmm into GN2. Both -kinship calculation and GWAS have been made multi-threaded by -introducing the Python multiprocessing module. Note that only -run_other has been updated to use the new routines (so human is still -handled the old way). I have taken care that we can still run both -old-style and new-style LMM (through passing the 'new_code' -boolean). This could be an option in the web server for users to -select and test for any unexpected differences (of which there should -be none, naturally ;). - -The current version can handle missing phenotypes, but as they are -removed there is no way for GN2 to know what SNPs the P-values belong -to. A future version will pass a SNP index to allow for missing -phenotypes. +# Genenetwork2/pylmm RELEASE NOTES + +## 0.51-gn2 (April 19, 2015) + +- Improved GN2 integration +- Less matrix transposes +- Able to run pylmm standalone without Redis again (still requires + the modules) + +## 0.50-gn2 (April 2nd, 2015) + +- Replaced the GN2 genotype normalization + +## 0.50-gn2-pre2 (March 18, 2015) + +- Added abstractions for progress meter and info/debug statements; + Redis perc_complete is now updated through a lambda + +## 0.50-gn2-pre1 (release, March 17, 2015) + +- This is the first test release of multi-core pylmm into GN2. Both + kinship calculation and GWAS have been made multi-threaded by + introducing the Python multiprocessing module. Note that only + run_other has been updated to use the new routines (so human is + still handled the old way). I have taken care that we can still run + both old-style and new-style LMM (through passing the 'new_code' + boolean). This could be an option in the web server for users to + select and test for any unexpected differences (of which there + should be none, naturally ;). + +- The current version can handle missing phenotypes, but as they are + removed there is no way for GN2 to know what SNPs the P-values + belong to. A future version will pass a SNP index to allow for + missing phenotypes.
\ No newline at end of file diff --git a/wqflask/wqflask/my_pylmm/data/genofile_parser.py b/wqflask/wqflask/my_pylmm/data/genofile_parser.py index 1f4760a9..9191f345 100755 --- a/wqflask/wqflask/my_pylmm/data/genofile_parser.py +++ b/wqflask/wqflask/my_pylmm/data/genofile_parser.py @@ -78,26 +78,19 @@ class ConvertGenoFile(object): # self.process_snps_file() - #def process_row(self, row): - # counter = 0 - # for char in row: - # if char - # counter += 1 - - def process_csv(self): for row_count, row in enumerate(self.process_rows()): - #self.latest_row_pos = row_count - - row_items = row.split() + row_items = row.split("\t") this_marker = Marker() this_marker.name = row_items[1] this_marker.chr = row_items[0] - #this_marker.cM = row_items[2] if self.cm_exists and self.mb_exists: - #print("cm and mb exists") - this_marker.Mb = row_items[2] + this_marker.cM = row_items[2] + this_marker.Mb = row_items[3] + genotypes = row_items[4:] + elif self.cm_exists: + this_marker.cM = row_items[2] genotypes = row_items[3:] elif self.mb_exists: this_marker.Mb = row_items[2] @@ -190,13 +183,13 @@ class ConvertGenoFile(object): if __name__=="__main__": - Old_Geno_Directory = """/home/zas1024/gene/web/genotypes/""" - New_Geno_Directory = """/home/zas1024/gene/web/new_genotypes/""" - #Input_File = """/home/zas1024/gene/web/genotypes/BXD.geno""" + Old_Geno_Directory = """/home/zas1024/gene/genotype_files/genotypes/""" + New_Geno_Directory = """/home/zas1024/gene/genotype_files/new_genotypes/""" + #Input_File = """/home/zas1024/gene/genotype_files/genotypes/BXD.geno""" #Output_File = """/home/zas1024/gene/wqflask/wqflask/pylmm/data/bxd.snps""" - convertob = ConvertGenoFile("/home/zas1024/gene/web/genotypes/HSNIH.geno", "/home/zas1024/gene/web/new_genotypes/HSNIH.json") - convertob.convert() - #ConvertGenoFile.process_all(Old_Geno_Directory, New_Geno_Directory) + #convertob = ConvertGenoFile("/home/zas1024/gene/genotype_files/genotypes/SRxSHRSPF2.geno", "/home/zas1024/gene/genotype_files/new_genotypes/SRxSHRSPF2.json") + #convertob.convert() + ConvertGenoFile.process_all(Old_Geno_Directory, New_Geno_Directory) #ConvertGenoFiles(Geno_Directory) #process_csv(Input_File, Output_File)
\ No newline at end of file diff --git a/wqflask/wqflask/my_pylmm/pyLMM/__init__.py b/wqflask/wqflask/my_pylmm/pyLMM/__init__.py deleted file mode 100644 index c40c3221..00000000 --- a/wqflask/wqflask/my_pylmm/pyLMM/__init__.py +++ /dev/null @@ -1 +0,0 @@ -PYLMM_VERSION="0.50-gn2-pre1" diff --git a/wqflask/wqflask/my_pylmm/pyLMM/convertlmm.py b/wqflask/wqflask/my_pylmm/pyLMM/convertlmm.py deleted file mode 100644 index 3b6b5d70..00000000 --- a/wqflask/wqflask/my_pylmm/pyLMM/convertlmm.py +++ /dev/null @@ -1,178 +0,0 @@ -# This is a converter for common LMM formats, so as to keep complexity -# outside the main routines. - -# Copyright (C) 2015 Pjotr Prins (pjotr.prins@thebird.nl) -# -# This program is free software: you can redistribute it and/or modify -# it under the terms of the GNU Affero General Public License as -# published by the Free Software Foundation, either version 3 of the -# License, or (at your option) any later version. - -# This program is distributed in the hope that it will be useful, -# but WITHOUT ANY WARRANTY; without even the implied warranty of -# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the -# GNU Affero General Public License for more details. - -# You should have received a copy of the GNU Affero General Public License -# along with this program. If not, see <http://www.gnu.org/licenses/>. - -from __future__ import print_function -from optparse import OptionParser -import sys -import os -import numpy as np -# from lmm import LMM, run_other -# import input -import plink - -usage = """ -python convertlmm.py [--plink] [--prefix out_basename] [--kinship kfile] [--pheno pname] [--geno gname] - - Convert files for runlmm.py processing. Writes to stdout by default. - - try --help for more information -""" - -# if len(args) == 0: -# print usage -# sys.exit(1) - -option_parser = OptionParser(usage=usage) -option_parser.add_option("--kinship", dest="kinship", - help="Parse a kinship file. This is an nxn plain text file and can be computed with the pylmmKinship program") -option_parser.add_option("--pheno", dest="pheno", - help="Parse a phenotype file (use with --plink only)") -option_parser.add_option("--geno", dest="geno", - help="Parse a genotype file (use with --plink only)") -option_parser.add_option("--plink", dest="plink", action="store_true", default=False, - help="Parse PLINK style") -# option_parser.add_option("--kinship",action="store_false", dest="kinship", default=True, -# help="Parse a kinship file. This is an nxn plain text file and can be computed with the pylmmKinship program.") -option_parser.add_option("--prefix", dest="prefix", - help="Output prefix for output file(s)") -option_parser.add_option("-q", "--quiet", - action="store_false", dest="verbose", default=True, - help="don't print status messages to stdout") -option_parser.add_option("-v", "--verbose", - action="store_true", dest="verbose", default=False, - help="Print extra info") - -(options, args) = option_parser.parse_args() - -writer = None -num_inds = None -snp_names = [] -ind_names = [] - -def msg(s): - sys.stderr.write("INFO: ") - sys.stderr.write(s) - sys.stderr.write("\n") - -def wr(s): - if writer: - writer.write(s) - else: - sys.stdout.write(s) - -def wrln(s): - wr(s) - wr("\n") - - -if options.pheno: - if not options.plink: - raise Exception("Use --plink switch") - # Because plink does not track size we need to read the whole thing first - msg("Converting pheno "+options.pheno) - phenos = [] - count = 0 - count_pheno = None - for line in open(options.pheno,'r'): - count += 1 - list = line.split() - pcount = len(list)-2 - assert(pcount > 0) - if count_pheno == None: - count_pheno = pcount - assert(count_pheno == pcount) - row = [list[0]]+list[2:] - phenos.append(row) - - writer = None - if options.prefix: - writer = open(options.prefix+".pheno","w") - wrln("# Phenotype format version 1.0") - wrln("# Individuals = "+str(count)) - wrln("# Phenotypes = "+str(count_pheno)) - for i in range(count_pheno): - wr("\t"+str(i+1)) - wr("\n") - for i in range(count): - wr("\t".join(phenos[i])) - wr("\n") - num_inds = count - msg(str(count)+" pheno lines written") - -if options.kinship: - is_header = True - count = 0 - msg("Converting kinship "+options.kinship) - writer = None - if options.prefix: - writer = open(options.prefix+".kin","w") - for line in open(options.kinship,'r'): - count += 1 - if is_header: - size = len(line.split()) - wrln("# Kinship format version 1.0") - wrln("# Size="+str(size)) - for i in range(size): - wr("\t"+str(i+1)) - wr("\n") - is_header = False - wr(str(count)) - wr("\t") - wr("\t".join(line.split())) - wr("\n") - num_inds = count - msg(str(count)+" kinship lines written") - -if options.geno: - msg("Converting geno "+options.geno+'.bed') - if not options.plink: - raise Exception("Use --plink switch") - if not num_inds: - raise Exception("Can not figure out the number of individuals, use --pheno or --kinship") - bim_snps = plink.readbim(options.geno+'.bim') - num_snps = len(bim_snps) - writer = None - if options.prefix: - writer = open(options.prefix+".geno","w") - wrln("# Genotype format version 1.0") - wrln("# Individuals = "+str(num_inds)) - wrln("# SNPs = "+str(num_snps)) - wrln("# Encoding = HAB") - for i in range(num_inds): - wr("\t"+str(i+1)) - wr("\n") - - m = [] - def out(i,x): - # wr(str(i)+"\t") - # wr("\t".join(x)) - # wr("\n") - m.append(x) - - snps = plink.readbed(options.geno+'.bed',num_inds, ('A','H','B','-'), out) - - msg("Write transposed genotype matrix") - for g in range(num_snps): - wr(bim_snps[g][1]+"\t") - for i in range(num_inds): - wr(m[g][i]) - wr("\n") - - msg(str(count)+" geno lines written (with "+str(snps)+" snps)") - -msg("Converting done") diff --git a/wqflask/wqflask/my_pylmm/pyLMM/genotype.py b/wqflask/wqflask/my_pylmm/pyLMM/genotype.py deleted file mode 100644 index 315fd824..00000000 --- a/wqflask/wqflask/my_pylmm/pyLMM/genotype.py +++ /dev/null @@ -1,50 +0,0 @@ -# Genotype routines - -# Copyright (C) 2013 Nicholas A. Furlotte (nick.furlotte@gmail.com) -# Copyright (C) 2015 Pjotr Prins (pjotr.prins@thebird.nl) -# -# This program is free software: you can redistribute it and/or modify -# it under the terms of the GNU Affero General Public License as -# published by the Free Software Foundation, either version 3 of the -# License, or (at your option) any later version. - -# This program is distributed in the hope that it will be useful, -# but WITHOUT ANY WARRANTY; without even the implied warranty of -# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the -# GNU Affero General Public License for more details. - -# You should have received a copy of the GNU Affero General Public License -# along with this program. If not, see <http://www.gnu.org/licenses/>. - -import numpy as np -from collections import Counter -import operator - -def replace_missing_with_MAF(snp_g): - """ - Replace the missing genotype with the minor allele frequency (MAF) - in the snp row. It is rather slow! - """ - cnt = Counter(snp_g) - tuples = sorted(cnt.items(), key=operator.itemgetter(1)) - l2 = [t for t in tuples if not np.isnan(t[0])] - maf = l2[0][0] - res = np.array([maf if np.isnan(snp) else snp for snp in snp_g]) - return res - -def normalize(ind_g): - """ - Run for every SNP list (for one individual) and return - normalized SNP genotype values with missing data filled in - """ - g1 = np.copy(ind_g) # avoid side effects - x = True - np.isnan(ind_g) # Matrix of True/False - m = ind_g[x].mean() # Global mean value - s = np.sqrt(ind_g[x].var()) # Global stddev - g1[np.isnan(ind_g)] = m # Plug-in mean values for missing data - if s == 0: - g1 = g1 - m # Subtract the mean - else: - g1 = (g1 - m) / s # Normalize the deviation - return g1 - diff --git a/wqflask/wqflask/my_pylmm/pyLMM/gwas.py b/wqflask/wqflask/my_pylmm/pyLMM/gwas.py deleted file mode 100644 index b901c0e2..00000000 --- a/wqflask/wqflask/my_pylmm/pyLMM/gwas.py +++ /dev/null @@ -1,173 +0,0 @@ -# pylmm-based GWAS calculation -# -# Copyright (C) 2013 Nicholas A. Furlotte (nick.furlotte@gmail.com) -# Copyright (C) 2015 Pjotr Prins (pjotr.prins@thebird.nl) -# -# This program is free software: you can redistribute it and/or modify -# it under the terms of the GNU Affero General Public License as -# published by the Free Software Foundation, either version 3 of the -# License, or (at your option) any later version. - -# This program is distributed in the hope that it will be useful, -# but WITHOUT ANY WARRANTY; without even the implied warranty of -# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the -# GNU Affero General Public License for more details. - -# You should have received a copy of the GNU Affero General Public License -# along with this program. If not, see <http://www.gnu.org/licenses/>. -#!/usr/bin/python - -import pdb -import time -import sys -# from utility import temp_data -import lmm2 - -import os -import numpy as np -import input -from optmatrix import matrix_initialize -from lmm2 import LMM2 - -import multiprocessing as mp # Multiprocessing is part of the Python stdlib -import Queue - -def formatResult(id,beta,betaSD,ts,ps): - return "\t".join([str(x) for x in [id,beta,betaSD,ts,ps]]) + "\n" - -def compute_snp(j,n,snp_ids,lmm2,REML,q = None): - # print("COMPUTE SNP",j,snp_ids,"\n") - result = [] - for snp_id in snp_ids: - snp,id = snp_id - x = snp.reshape((n,1)) # all the SNPs - # print "X=",x - # if refit: - # L.fit(X=snp,REML=REML) - ts,ps,beta,betaVar = lmm2.association(x,REML=REML,returnBeta=True) - # result.append(formatResult(id,beta,np.sqrt(betaVar).sum(),ts,ps)) - result.append( (ts,ps) ) - if not q: - q = compute_snp.q - q.put([j,result]) - return j - # PS.append(ps) - # TS.append(ts) - # return len(result) - # compute.q.put(result) - # return None - -def f_init(q): - compute_snp.q = q - -def gwas(Y,G,K,restricted_max_likelihood=True,refit=False,verbose=True): - """ - Execute a GWAS. The G matrix should be n inds (cols) x m snps (rows) - """ - matrix_initialize() - cpu_num = mp.cpu_count() - numThreads = None # for now use all available threads - kfile2 = False - reml = restricted_max_likelihood - - sys.stderr.write(str(G.shape)+"\n") - n = G.shape[1] # inds - inds = n - m = G.shape[0] # snps - snps = m - sys.stderr.write(str(m)+" SNPs\n") - # print "***** GWAS: G",G.shape,G - assert snps>inds, "snps should be larger than inds (snps=%d,inds=%d)" % (snps,inds) - - # CREATE LMM object for association - # if not kfile2: L = LMM(Y,K,Kva,Kve,X0,verbose=verbose) - # else: L = LMM_withK2(Y,K,Kva,Kve,X0,verbose=verbose,K2=K2) - - lmm2 = LMM2(Y,K) # ,Kva,Kve,X0,verbose=verbose) - if not refit: - if verbose: sys.stderr.write("Computing fit for null model\n") - lmm2.fit() # follow GN model in run_other - if verbose: sys.stderr.write("\t heritability=%0.3f, sigma=%0.3f\n" % (lmm2.optH,lmm2.optSigma)) - - # outFile = "test.out" - # out = open(outFile,'w') - out = sys.stderr - - def outputResult(id,beta,betaSD,ts,ps): - out.write(formatResult(id,beta,betaSD,ts,ps)) - def printOutHead(): out.write("\t".join(["SNP_ID","BETA","BETA_SD","F_STAT","P_VALUE"]) + "\n") - - # printOutHead() - res = [] - - # Set up the pool - # mp.set_start_method('spawn') - q = mp.Queue() - p = mp.Pool(numThreads, f_init, [q]) - collect = [] - - # Buffers for pvalues and t-stats - # PS = [] - # TS = [] - count = 0 - job = 0 - jobs_running = 0 - for snp in G: - snp_id = (snp,'SNPID') - count += 1 - if count % 1000 == 0: - job += 1 - if verbose: - sys.stderr.write("Job %d At SNP %d\n" % (job,count)) - if numThreads == 1: - print "Running on 1 THREAD" - compute_snp(job,n,collect,lmm2,reml,q) - collect = [] - j,lst = q.get() - if verbose: - sys.stderr.write("Job "+str(j)+" finished\n") - res.append((j,lst)) - else: - p.apply_async(compute_snp,(job,n,collect,lmm2,reml)) - jobs_running += 1 - collect = [] - while jobs_running > cpu_num: - try: - j,lst = q.get_nowait() - if verbose: - sys.stderr.write("Job "+str(j)+" finished\n") - res.append((j,lst)) - jobs_running -= 1 - except Queue.Empty: - time.sleep(0.1) - pass - if jobs_running > cpu_num*2: - time.sleep(1.0) - else: - break - - collect.append(snp_id) - - if numThreads==1 or count<1000 or len(collect)>0: - job += 1 - print "Collect final batch size %i job %i @%i: " % (len(collect), job, count) - compute_snp(job,n,collect,lmm2,reml,q) - collect = [] - j,lst = q.get() - res.append((j,lst)) - print "count=",count," running=",jobs_running," collect=",len(collect) - for job in range(jobs_running): - j,lst = q.get(True,15) # time out - if verbose: - sys.stderr.write("Job "+str(j)+" finished\n") - res.append((j,lst)) - - print "Before sort",[res1[0] for res1 in res] - res = sorted(res,key=lambda x: x[0]) - # if verbose: - # print "res=",res[0][0:10] - print "After sort",[res1[0] for res1 in res] - print [len(res1[1]) for res1 in res] - ts = [item[0] for j,res1 in res for item in res1] - ps = [item[1] for j,res1 in res for item in res1] - return ts,ps diff --git a/wqflask/wqflask/my_pylmm/pyLMM/input.py b/wqflask/wqflask/my_pylmm/pyLMM/input.py deleted file mode 100644 index 7063fedf..00000000 --- a/wqflask/wqflask/my_pylmm/pyLMM/input.py +++ /dev/null @@ -1,267 +0,0 @@ -# pylmm is a python-based linear mixed-model solver with applications to GWAS - -# Copyright (C) 2013 Nicholas A. Furlotte (nick.furlotte@gmail.com) - -#The program is free for academic use. Please contact Nick Furlotte -#<nick.furlotte@gmail.com> if you are interested in using the software for -#commercial purposes. - -#The software must not be modified and distributed without prior -#permission of the author. - -#THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS -#"AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT -#LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR -#A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR -#CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, -#EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, -#PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR -#PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF -#LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING -#NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS -#SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. - -import os -import sys -import numpy as np -import struct -import pdb - -class plink: - def __init__(self,fbase,kFile=None,phenoFile=None,type='b',normGenotype=True,readKFile=False): - self.fbase = fbase - self.type = type - self.indivs = self.getIndivs(self.fbase,type) - self.kFile = kFile - self.phenos = None - self.normGenotype = normGenotype - self.phenoFile = phenoFile - # Originally I was using the fastLMM style that has indiv IDs embedded. - # NOW I want to use this module to just read SNPs so I'm allowing - # the programmer to turn off the kinship reading. - self.readKFile = readKFile - - if self.kFile: - self.K = self.readKinship(self.kFile) - elif os.path.isfile("%s.kin" % fbase): - self.kFile = "%s.kin" %fbase - if self.readKFile: - self.K = self.readKinship(self.kFile) - else: - self.kFile = None - self.K = None - - self.getPhenos(self.phenoFile) - - self.fhandle = None - self.snpFileHandle = None - - def __del__(self): - if self.fhandle: self.fhandle.close() - if self.snpFileHandle: self.snpFileHandle.close() - - def getSNPIterator(self): - if not self.type == 'b': - sys.stderr.write("Have only implemented this for binary plink files (bed)\n") - return - - # get the number of snps - file = self.fbase + '.bim' - i = 0 - f = open(file,'r') - for line in f: i += 1 - f.close() - self.numSNPs = i - self.have_read = 0 - self.snpFileHandle = open(file,'r') - - self.BytestoRead = self.N / 4 + (self.N % 4 and 1 or 0) - self._formatStr = 'c'*self.BytestoRead - - file = self.fbase + '.bed' - self.fhandle = open(file,'rb') - - magicNumber = self.fhandle.read(2) - order = self.fhandle.read(1) - if not order == '\x01': - sys.stderr.write("This is not in SNP major order - you did not handle this case\n") - raise StopIteration - - return self - - def __iter__(self): - return self.getSNPIterator() - - def next(self): - if self.have_read == self.numSNPs: - raise StopIteration - X = self.fhandle.read(self.BytestoRead) - XX = [bin(ord(x)) for x in struct.unpack(self._formatStr,X)] - self.have_read += 1 - return self.formatBinaryGenotypes(XX,self.normGenotype),self.snpFileHandle.readline().strip().split()[1] - - def formatBinaryGenotypes(self,X,norm=True): - D = { \ - '00': 0.0, \ - '10': 0.5, \ - '11': 1.0, \ - '01': np.nan \ - } - - D_tped = { \ - '00': '1 1', \ - '10': '1 2', \ - '11': '2 2', \ - '01': '0 0' \ - } - - #D = D_tped - - G = [] - for x in X: - if not len(x) == 10: - xx = x[2:] - x = '0b' + '0'*(8 - len(xx)) + xx - a,b,c,d = (x[8:],x[6:8],x[4:6],x[2:4]) - L = [D[y] for y in [a,b,c,d]] - G += L - # only take the leading values because whatever is left should be null - G = G[:self.N] - G = np.array(G) - if norm: - G = self.normalizeGenotype(G) - return G - - def normalizeGenotype(self,G): - # print "Before",G - # print G.shape - print "call input.normalizeGenotype" - raise "This should not be used" - x = True - np.isnan(G) - m = G[x].mean() - s = np.sqrt(G[x].var()) - G[np.isnan(G)] = m - if s == 0: G = G - m - else: G = (G - m) / s - # print "After",G - return G - - def getPhenos(self,phenoFile=None): - if not phenoFile: - self.phenoFile = phenoFile = self.fbase+".phenos" - if not os.path.isfile(phenoFile): - sys.stderr.write("Could not find phenotype file: %s\n" % (phenoFile)) - return - f = open(phenoFile,'r') - keys = [] - P = [] - for line in f: - v = line.strip().split() - keys.append((v[0],v[1])) - P.append([(x == 'NA' or x == '-9') and np.nan or float(x) for x in v[2:]]) - f.close() - P = np.array(P) - - # reorder to match self.indivs - D = {} - L = [] - for i in range(len(keys)): - D[keys[i]] = i - for i in range(len(self.indivs)): - if not D.has_key(self.indivs[i]): - continue - L.append(D[self.indivs[i]]) - P = P[L,:] - - self.phenos = P - return P - - def getIndivs(self,base,type='b'): - if type == 't': - famFile = "%s.tfam" % base - else: - famFile = "%s.fam" % base - keys = [] - i = 0 - f = open(famFile,'r') - for line in f: - v = line.strip().split() - famId = v[0] - indivId = v[1] - k = (famId.strip(),indivId.strip()) - keys.append(k) - i += 1 - f.close() - - self.N = len(keys) - sys.stderr.write("Read %d individuals from %s\n" % (self.N, famFile)) - - return keys - - def readKinship(self,kFile): - # Assume the fastLMM style - # This will read in the kinship matrix and then reorder it - # according to self.indivs - additionally throwing out individuals - # that are not in both sets - if self.indivs == None or len(self.indivs) == 0: - sys.stderr.write("Did not read any individuals so can't load kinship\n") - return - - sys.stderr.write("Reading kinship matrix from %s\n" % (kFile) ) - - f = open(kFile,'r') - # read indivs - v = f.readline().strip().split("\t")[1:] - keys = [tuple(y.split()) for y in v] - D = {} - for i in range(len(keys)): D[keys[i]] = i - - # read matrix - K = [] - for line in f: - K.append([float(x) for x in line.strip().split("\t")[1:]]) - f.close() - K = np.array(K) - - # reorder to match self.indivs - L = [] - KK = [] - X = [] - for i in range(len(self.indivs)): - if not D.has_key(self.indivs[i]): - X.append(self.indivs[i]) - else: - KK.append(self.indivs[i]) - L.append(D[self.indivs[i]]) - K = K[L,:][:,L] - self.indivs = KK - self.indivs_removed = X - if len(self.indivs_removed): - sys.stderr.write("Removed %d individuals that did not appear in Kinship\n" % (len(self.indivs_removed))) - return K - - def getCovariates(self,covFile=None): - if not os.path.isfile(covFile): - sys.stderr.write("Could not find covariate file: %s\n" % (phenoFile)) - return - f = open(covFile,'r') - keys = [] - P = [] - for line in f: - v = line.strip().split() - keys.append((v[0],v[1])) - P.append([x == 'NA' and np.nan or float(x) for x in v[2:]]) - f.close() - P = np.array(P) - - # reorder to match self.indivs - D = {} - L = [] - for i in range(len(keys)): - D[keys[i]] = i - for i in range(len(self.indivs)): - if not D.has_key(self.indivs[i]): continue - L.append(D[self.indivs[i]]) - P = P[L,:] - - return P diff --git a/wqflask/wqflask/my_pylmm/pyLMM/kinship.py b/wqflask/wqflask/my_pylmm/pyLMM/kinship.py deleted file mode 100644 index 0c43587e..00000000 --- a/wqflask/wqflask/my_pylmm/pyLMM/kinship.py +++ /dev/null @@ -1,177 +0,0 @@ -# pylmm kinship calculation -# -# Copyright (C) 2013 Nicholas A. Furlotte (nick.furlotte@gmail.com) -# Copyright (C) 2015 Pjotr Prins (pjotr.prins@thebird.nl) -# -# This program is free software: you can redistribute it and/or modify -# it under the terms of the GNU Affero General Public License as -# published by the Free Software Foundation, either version 3 of the -# License, or (at your option) any later version. - -# This program is distributed in the hope that it will be useful, -# but WITHOUT ANY WARRANTY; without even the implied warranty of -# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the -# GNU Affero General Public License for more details. - -# You should have received a copy of the GNU Affero General Public License -# along with this program. If not, see <http://www.gnu.org/licenses/>. - -# env PYTHONPATH=$pylmm_lib_path:./lib python $pylmm_lib_path/runlmm.py --pheno test.pheno --geno test9000.geno kinship --test - -import sys -import os -import numpy as np -from scipy import linalg -import multiprocessing as mp # Multiprocessing is part of the Python stdlib -import Queue -import time - -from optmatrix import matrix_initialize, matrixMultT - -def kinship_full(G): - """ - Calculate the Kinship matrix using a full dot multiplication - """ - print G.shape - m = G.shape[0] # snps - n = G.shape[1] # inds - sys.stderr.write(str(m)+" SNPs\n") - assert m>n, "n should be larger than m (snps>inds)" - m = np.dot(G.T,G) - m = m/G.shape[0] - return m - -def compute_W(job,G,n,snps,compute_size): - """ - Read 1000 SNPs at a time into matrix and return the result - """ - m = compute_size - W = np.ones((n,m)) * np.nan # W matrix has dimensions individuals x SNPs (initially all NaNs) - for j in range(0,compute_size): - pos = job*m + j # real position - if pos >= snps: - W = W[:,range(0,j)] - break - snp = G[job*compute_size+j] - if snp.var() == 0: - continue - W[:,j] = snp # set row to list of SNPs - return W - -def compute_matrixMult(job,W,q = None): - """ - Compute Kinship(W)*j - - For every set of SNPs matrixMult is used to multiply matrices T(W)*W - """ - res = matrixMultT(W) - if not q: q=compute_matrixMult.q - q.put([job,res]) - return job - -def f_init(q): - compute_matrixMult.q = q - -# Calculate the kinship matrix from G (SNPs as rows!), returns K -# -def kinship(G,computeSize=1000,numThreads=None,useBLAS=False,verbose=True): - numThreads = None - if numThreads: - numThreads = int(numThreads) - matrix_initialize(useBLAS) - - sys.stderr.write(str(G.shape)+"\n") - n = G.shape[1] # inds - inds = n - m = G.shape[0] # snps - snps = m - sys.stderr.write(str(m)+" SNPs\n") - assert snps>inds, "snps should be larger than inds (%i snps, %i inds)" % (snps,inds) - - q = mp.Queue() - p = mp.Pool(numThreads, f_init, [q]) - cpu_num = mp.cpu_count() - print "CPU cores:",cpu_num - print snps,computeSize - iterations = snps/computeSize+1 - # if testing: - # iterations = 8 - # jobs = range(0,8) # range(0,iterations) - - results = [] - - K = np.zeros((n,n)) # The Kinship matrix has dimension individuals x individuals - - completed = 0 - for job in range(iterations): - if verbose: - sys.stderr.write("Processing job %d first %d SNPs\n" % (job, ((job+1)*computeSize))) - W = compute_W(job,G,n,snps,computeSize) - if numThreads == 1: - # Single-core - compute_matrixMult(job,W,q) - j,x = q.get() - if verbose: sys.stderr.write("Job "+str(j)+" finished\n") - K_j = x - # print j,K_j[:,0] - K = K + K_j - else: - # Multi-core - results.append(p.apply_async(compute_matrixMult, (job,W))) - # Do we have a result? - while (len(results)-completed>cpu_num*2): - time.sleep(0.1) - try: - j,x = q.get_nowait() - if verbose: sys.stderr.write("Job "+str(j)+" finished\n") - K_j = x - # print j,K_j[:,0] - K = K + K_j - completed += 1 - except Queue.Empty: - pass - - if numThreads == None or numThreads > 1: - # results contains the growing result set - for job in range(len(results)-completed): - j,x = q.get(True,15) - if verbose: sys.stderr.write("Job "+str(j)+" finished\n") - K_j = x - # print j,K_j[:,0] - K = K + K_j - completed += 1 - - K = K / float(snps) - - # outFile = 'runtest.kin' - # if verbose: sys.stderr.write("Saving Kinship file to %s\n" % outFile) - # np.savetxt(outFile,K) - - # if saveKvaKve: - # if verbose: sys.stderr.write("Obtaining Eigendecomposition\n") - # Kva,Kve = linalg.eigh(K) - # if verbose: sys.stderr.write("Saving eigendecomposition to %s.[kva | kve]\n" % outFile) - # np.savetxt(outFile+".kva",Kva) - # np.savetxt(outFile+".kve",Kve) - return K - -def kvakve(K, verbose=True): - """ - Obtain eigendecomposition for K and return Kva,Kve where Kva is cleaned - of small values < 1e-6 (notably smaller than zero) - """ - if verbose: sys.stderr.write("Obtaining eigendecomposition for %dx%d matrix\n" % (K.shape[0],K.shape[1]) ) - - Kva,Kve = linalg.eigh(K) - if verbose: - print("Kva is: ", Kva.shape, Kva) - print("Kve is: ", Kve.shape, Kve) - - if sum(Kva < 1e-6): - if verbose: sys.stderr.write("Cleaning %d eigen values (Kva<0)\n" % (sum(Kva < 0))) - Kva[Kva < 1e-6] = 1e-6 - return Kva,Kve - - - - diff --git a/wqflask/wqflask/my_pylmm/pyLMM/lmm.py b/wqflask/wqflask/my_pylmm/pyLMM/lmm.py deleted file mode 100644 index 53689071..00000000 --- a/wqflask/wqflask/my_pylmm/pyLMM/lmm.py +++ /dev/null @@ -1,900 +0,0 @@ -# pylmm is a python-based linear mixed-model solver with applications to GWAS - -# Copyright (C) 2013 Nicholas A. Furlotte (nick.furlotte@gmail.com) -# -# This program is free software: you can redistribute it and/or modify -# it under the terms of the GNU Affero General Public License as -# published by the Free Software Foundation, either version 3 of the -# License, or (at your option) any later version. - -# This program is distributed in the hope that it will be useful, -# but WITHOUT ANY WARRANTY; without even the implied warranty of -# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the -# GNU Affero General Public License for more details. - -# You should have received a copy of the GNU Affero General Public License -# along with this program. If not, see <http://www.gnu.org/licenses/>. - -from __future__ import absolute_import, print_function, division - -import sys -import time -import argparse -import uuid - -import numpy as np -from scipy import linalg -from scipy import optimize -from scipy import stats -import pdb - -import simplejson as json - -import gzip -import zlib -import datetime -import cPickle as pickle -import simplejson as json - -from pprint import pformat as pf - -from redis import Redis -Redis = Redis() - -import sys -sys.path.append("/home/zas1024/gene/wqflask/") - -has_gn2=True - -from utility.benchmark import Bench -from utility import temp_data - -sys.path.append("/home/zas1024/gene/wqflask/wqflask/my_pylmm/pyLMM/") - -from kinship import kinship, kinship_full, kvakve -import genotype -import phenotype -import gwas - -try: - from wqflask.my_pylmm.pyLMM import chunks -except ImportError: - print("WARNING: Standalone version missing the Genenetwork2 environment\n") - has_gn2=False - pass - -#np.seterr('raise') - -#def run_human(pheno_vector, -# covariate_matrix, -# plink_input_file, -# kinship_matrix, -# refit=False, -# loading_progress=None): - -def run_human(pheno_vector, - covariate_matrix, - plink_input_file, - kinship_matrix, - refit=False, - tempdata=None): - - v = np.isnan(pheno_vector) - keep = True - v - keep = keep.reshape((len(keep),)) - - identifier = str(uuid.uuid4()) - - #print("pheno_vector: ", pf(pheno_vector)) - #print("kinship_matrix: ", pf(kinship_matrix)) - #print("kinship_matrix.shape: ", pf(kinship_matrix.shape)) - - #lmm_vars = pickle.dumps(dict( - # pheno_vector = pheno_vector, - # covariate_matrix = covariate_matrix, - # kinship_matrix = kinship_matrix - #)) - #Redis.hset(identifier, "lmm_vars", lmm_vars) - #Redis.expire(identifier, 60*60) - - if v.sum(): - pheno_vector = pheno_vector[keep] - print("pheno_vector shape is now: ", pf(pheno_vector.shape)) - covariate_matrix = covariate_matrix[keep,:] - print("kinship_matrix shape is: ", pf(kinship_matrix.shape)) - print("keep is: ", pf(keep.shape)) - kinship_matrix = kinship_matrix[keep,:][:,keep] - - print("kinship_matrix:", pf(kinship_matrix)) - - n = kinship_matrix.shape[0] - print("n is:", n) - lmm_ob = LMM(pheno_vector, - kinship_matrix, - covariate_matrix) - lmm_ob.fit() - - - # Buffers for pvalues and t-stats - p_values = [] - t_stats = [] - - #print("input_file: ", plink_input_file) - - with Bench("Opening and loading pickle file"): - with gzip.open(plink_input_file, "rb") as input_file: - data = pickle.load(input_file) - - plink_input = data['plink_input'] - - #plink_input.getSNPIterator() - with Bench("Calculating numSNPs"): - total_snps = data['numSNPs'] - - with Bench("snp iterator loop"): - count = 0 - - with Bench("Create list of inputs"): - inputs = list(plink_input) - - with Bench("Divide into chunks"): - results = chunks.divide_into_chunks(inputs, 64) - - result_store = [] - - key = "plink_inputs" - - # Todo: Delete below line when done testing - Redis.delete(key) - - timestamp = datetime.datetime.utcnow().isoformat() - - # Pickle chunks of input SNPs (from Plink interator) and compress them - #print("Starting adding loop") - for part, result in enumerate(results): - #data = pickle.dumps(result, pickle.HIGHEST_PROTOCOL) - holder = pickle.dumps(dict( - identifier = identifier, - part = part, - timestamp = timestamp, - result = result - ), pickle.HIGHEST_PROTOCOL) - - #print("Adding:", part) - Redis.rpush(key, zlib.compress(holder)) - #print("End adding loop") - #print("***** Added to {} queue *****".format(key)) - for snp, this_id in plink_input: - #with Bench("part before association"): - #if count > 1000: - # break - count += 1 - - percent_complete = (float(count) / total_snps) * 100 - #print("percent_complete: ", percent_complete) - tempdata.store("percent_complete", percent_complete) - - #with Bench("actual association"): - ps, ts = human_association(snp, - n, - keep, - lmm_ob, - pheno_vector, - covariate_matrix, - kinship_matrix, - refit) - - #with Bench("after association"): - p_values.append(ps) - t_stats.append(ts) - - return p_values, t_stats - - -#class HumanAssociation(object): -# def __init__(self): -# - -def human_association(snp, - n, - keep, - lmm_ob, - pheno_vector, - covariate_matrix, - kinship_matrix, - refit): - - x = snp[keep].reshape((n,1)) - #x[[1,50,100,200,3000],:] = np.nan - v = np.isnan(x).reshape((-1,)) - - # Check SNPs for missing values - if v.sum(): - keeps = True - v - xs = x[keeps,:] - # If no variation at this snp or all genotypes missing - if keeps.sum() <= 1 or xs.var() <= 1e-6: - return np.nan, np.nan - #p_values.append(np.nan) - #t_stats.append(np.nan) - #continue - - # Its ok to center the genotype - I used options.normalizeGenotype to - # force the removal of missing genotypes as opposed to replacing them with MAF. - - #if not options.normalizeGenotype: - # xs = (xs - xs.mean()) / np.sqrt(xs.var()) - - filtered_pheno = pheno_vector[keeps] - filtered_covariate_matrix = covariate_matrix[keeps,:] - - print("kinship_matrix shape is: ", pf(kinship_matrix.shape)) - print("keeps is: ", pf(keeps.shape)) - filtered_kinship_matrix = kinship_matrix[keeps,:][:,keeps] - filtered_lmm_ob = lmm.LMM(filtered_pheno,filtered_kinship_matrix,X0=filtered_covariate_matrix) - if refit: - filtered_lmm_ob.fit(X=xs) - else: - #try: - filtered_lmm_ob.fit() - #except: pdb.set_trace() - ts,ps,beta,betaVar = Ls.association(xs,returnBeta=True) - else: - if x.var() == 0: - return np.nan, np.nan - #p_values.append(np.nan) - #t_stats.append(np.nan) - #continue - if refit: - lmm_ob.fit(X=x) - ts, ps, beta, betaVar = lmm_ob.association(x) - return ps, ts - - -#def run(pheno_vector, -# genotype_matrix, -# restricted_max_likelihood=True, -# refit=False, -# temp_data=None): - -def run_other_old(pheno_vector, - genotype_matrix, - restricted_max_likelihood=True, - refit=False, - tempdata=None # <---- can not be None - ): - - """Takes the phenotype vector and genotype matrix and returns a set of p-values and t-statistics - - restricted_max_likelihood -- whether to use restricted max likelihood; True or False - refit -- whether to refit the variance component for each marker - temp_data -- TempData object that stores the progress for each major step of the - calculations ("calculate_kinship" and "GWAS" take the majority of time) - - """ - - print("Running the original LMM engine in run_other (old)") - print("REML=",restricted_max_likelihood," REFIT=",refit) - with Bench("Calculate Kinship"): - kinship_matrix,genotype_matrix = calculate_kinship(genotype_matrix, tempdata) - - print("kinship_matrix: ", pf(kinship_matrix)) - print("kinship_matrix.shape: ", pf(kinship_matrix.shape)) - - # with Bench("Create LMM object"): - # lmm_ob = LMM(pheno_vector, kinship_matrix) - - # with Bench("LMM_ob fitting"): - # lmm_ob.fit() - - print("run_other_old genotype_matrix: ", genotype_matrix.shape) - print(genotype_matrix) - - with Bench("Doing GWAS"): - t_stats, p_values = GWAS(pheno_vector, - genotype_matrix, - kinship_matrix, - restricted_max_likelihood=True, - refit=False, - temp_data=tempdata) - Bench().report() - return p_values, t_stats - -def run_other_new(pheno_vector, - genotype_matrix, - restricted_max_likelihood=True, - refit=False, - tempdata=None # <---- can not be None - ): - - """Takes the phenotype vector and genotype matrix and returns a set of p-values and t-statistics - - restricted_max_likelihood -- whether to use restricted max likelihood; True or False - refit -- whether to refit the variance component for each marker - temp_data -- TempData object that stores the progress for each major step of the - calculations ("calculate_kinship" and "GWAS" take the majority of time) - - """ - - print("Running the new LMM2 engine in run_other_new") - print("REML=",restricted_max_likelihood," REFIT=",refit) - - # Adjust phenotypes - Y,G,keep = phenotype.remove_missing(pheno_vector,genotype_matrix,verbose=True) - print("Removed missing phenotypes",Y.shape) - - # if options.maf_normalization: - # G = np.apply_along_axis( genotype.replace_missing_with_MAF, axis=0, arr=g ) - # print "MAF replacements: \n",G - # if not options.skip_genotype_normalization: - # G = np.apply_along_axis( genotype.normalize, axis=1, arr=G) - - with Bench("Calculate Kinship"): - K,G = calculate_kinship(G, tempdata) - - print("kinship_matrix: ", pf(K)) - print("kinship_matrix.shape: ", pf(K.shape)) - - # with Bench("Create LMM object"): - # lmm_ob = lmm2.LMM2(Y,K) - # with Bench("LMM_ob fitting"): - # lmm_ob.fit() - - print("run_other_new genotype_matrix: ", G.shape) - print(G) - - with Bench("Doing GWAS"): - t_stats, p_values = gwas.gwas(Y, - G.T, - K, - restricted_max_likelihood=True, - refit=False,verbose=True) - Bench().report() - return p_values, t_stats - -# def matrixMult(A,B): -# return np.dot(A,B) - -def matrixMult(A,B): - - # If there is no fblas then we will revert to np.dot() - - try: - linalg.fblas - except AttributeError: - return np.dot(A,B) - - #print("A is:", pf(A.shape)) - #print("B is:", pf(B.shape)) - - # If the matrices are in Fortran order then the computations will be faster - # when using dgemm. Otherwise, the function will copy the matrix and that takes time. - if not A.flags['F_CONTIGUOUS']: - AA = A.T - transA = True - else: - AA = A - transA = False - - if not B.flags['F_CONTIGUOUS']: - BB = B.T - transB = True - else: - BB = B - transB = False - - return linalg.fblas.dgemm(alpha=1.,a=AA,b=BB,trans_a=transA,trans_b=transB) - - -def calculate_kinship_new(genotype_matrix, temp_data=None): - """ - Call the new kinship calculation where genotype_matrix contains - inds (columns) by snps (rows). - """ - print("call genotype.normalize") - G = np.apply_along_axis( genotype.normalize, axis=0, arr=genotype_matrix) - print("call calculate_kinship_new") - return kinship(G.T),G # G gets transposed, we'll turn this into an iterator (FIXME) - -def calculate_kinship_old(genotype_matrix, temp_data=None): - """ - genotype_matrix is an n x m matrix encoding SNP minor alleles. - - This function takes a matrix oF SNPs, imputes missing values with the maf, - normalizes the resulting vectors and returns the RRM matrix. - - """ - print("call calculate_kinship_old") - n = genotype_matrix.shape[0] - m = genotype_matrix.shape[1] - print("genotype 2D matrix n (inds) is:", n) - print("genotype 2D matrix m (snps) is:", m) - assert m>n, "n should be larger than m (snps>inds)" - keep = [] - for counter in range(m): - #print("type of genotype_matrix[:,counter]:", pf(genotype_matrix[:,counter])) - #Checks if any values in column are not numbers - not_number = np.isnan(genotype_matrix[:,counter]) - - #Gets vector of values for column (no values in vector if not all values in col are numbers) - marker_values = genotype_matrix[True - not_number, counter] - #print("marker_values is:", pf(marker_values)) - - #Gets mean of values in vector - values_mean = marker_values.mean() - - genotype_matrix[not_number,counter] = values_mean - vr = genotype_matrix[:,counter].var() - if vr == 0: - continue - keep.append(counter) - genotype_matrix[:,counter] = (genotype_matrix[:,counter] - values_mean) / np.sqrt(vr) - - percent_complete = int(round((counter/m)*45)) - if temp_data != None: - temp_data.store("percent_complete", percent_complete) - - genotype_matrix = genotype_matrix[:,keep] - print("After kinship (old) genotype_matrix: ", pf(genotype_matrix)) - kinship_matrix = np.dot(genotype_matrix, genotype_matrix.T) * 1.0/float(m) - return kinship_matrix,genotype_matrix - -calculate_kinship = calculate_kinship_new # alias - -def GWAS(pheno_vector, - genotype_matrix, - kinship_matrix, - kinship_eigen_vals=None, - kinship_eigen_vectors=None, - covariate_matrix=None, - restricted_max_likelihood=True, - refit=False, - temp_data=None): - """ - Performs a basic GWAS scan using the LMM. This function - uses the LMM module to assess association at each SNP and - does some simple cleanup, such as removing missing individuals - per SNP and re-computing the eigen-decomp - - pheno_vector - n x 1 phenotype vector - genotype_matrix - n x m SNP matrix - kinship_matrix - n x n kinship matrix - kinship_eigen_vals, kinship_eigen_vectors = linalg.eigh(K) - or the eigen vectors and values for K - covariate_matrix - n x q covariate matrix - restricted_max_likelihood - use restricted maximum likelihood - refit - refit the variance component for each SNP - - """ - if kinship_eigen_vals == None: - kinship_eigen_vals = [] - if kinship_eigen_vectors == None: - kinship_eigen_vectors = [] - - n = genotype_matrix.shape[0] - m = genotype_matrix.shape[1] - - if covariate_matrix == None: - covariate_matrix = np.ones((n,1)) - - # Remove missing values in pheno_vector and adjust associated parameters - v = np.isnan(pheno_vector) - if v.sum(): - keep = True - v - print(pheno_vector.shape,pheno_vector) - print(keep.shape,keep) - pheno_vector = pheno_vector[keep] - #genotype_matrix = genotype_matrix[keep,:] - #covariate_matrix = covariate_matrix[keep,:] - #kinship_matrix = kinship_matrix[keep,:][:,keep] - kinship_eigen_vals = [] - kinship_eigen_vectors = [] - - lmm_ob = LMM(pheno_vector, - kinship_matrix, - kinship_eigen_vals, - kinship_eigen_vectors, - covariate_matrix) - if not refit: - lmm_ob.fit() - - p_values = [] - t_statistics = [] - - n = genotype_matrix.shape[0] - m = genotype_matrix.shape[1] - - for counter in range(m): - x = genotype_matrix[:,counter].reshape((n, 1)) - v = np.isnan(x).reshape((-1,)) - if v.sum(): - keep = True - v - xs = x[keep,:] - if xs.var() == 0: - p_values.append(0) - t_statistics.append(np.nan) - continue - - print(genotype_matrix.shape,pheno_vector.shape,keep.shape) - - pheno_vector = pheno_vector[keep] - covariate_matrix = covariate_matrix[keep,:] - kinship_matrix = kinship_matrix[keep,:][:,keep] - lmm_ob_2 = LMM(pheno_vector, - kinship_matrix, - X0=covariate_matrix) - if refit: - lmm_ob_2.fit(X=xs) - else: - lmm_ob_2.fit() - ts, ps, beta, betaVar = lmm_ob_2.association(xs, REML=restricted_max_likelihood) - else: - if x.var() == 0: - p_values.append(0) - t_statistics.append(np.nan) - continue - - if refit: - lmm_ob.fit(X=x) - ts, ps, beta, betaVar = lmm_ob.association(x, REML=restricted_max_likelihood) - - percent_complete = 45 + int(round((counter/m)*55)) - temp_data.store("percent_complete", percent_complete) - - p_values.append(ps) - t_statistics.append(ts) - - return t_statistics, p_values - - -class LMM: - - """ - This is a simple version of EMMA/fastLMM. - The main purpose of this module is to take a phenotype vector (Y), a set of covariates (X) and a kinship matrix (K) - and to optimize this model by finding the maximum-likelihood estimates for the model parameters. - There are three model parameters: heritability (h), covariate coefficients (beta) and the total - phenotypic variance (sigma). - Heritability as defined here is the proportion of the total variance (sigma) that is attributed to - the kinship matrix. - - For simplicity, we assume that everything being input is a numpy array. - If this is not the case, the module may throw an error as conversion from list to numpy array - is not done consistently. - - """ - def __init__(self,Y,K,Kva=[],Kve=[],X0=None,verbose=True): - - """ - The constructor takes a phenotype vector or array of size n. - It takes a kinship matrix of size n x n. Kva and Kve can be computed as Kva,Kve = linalg.eigh(K) and cached. - If they are not provided, the constructor will calculate them. - X0 is an optional covariate matrix of size n x q, where there are q covariates. - When this parameter is not provided, the constructor will set X0 to an n x 1 matrix of all ones to represent a mean effect. - """ - - if X0 == None: X0 = np.ones(len(Y)).reshape(len(Y),1) - self.verbose = verbose - - #x = Y != -9 - x = True - np.isnan(Y) - #pdb.set_trace() - if not x.sum() == len(Y): - print("Removing %d missing values from Y\n" % ((True - x).sum())) - if self.verbose: sys.stderr.write("Removing %d missing values from Y\n" % ((True - x).sum())) - Y = Y[x] - print("x: ", len(x)) - print("K: ", K.shape) - #K = K[x,:][:,x] - X0 = X0[x,:] - Kva = [] - Kve = [] - self.nonmissing = x - - print("this K is:", K.shape, pf(K)) - - if len(Kva) == 0 or len(Kve) == 0: - # if self.verbose: sys.stderr.write("Obtaining eigendecomposition for %dx%d matrix\n" % (K.shape[0],K.shape[1]) ) - begin = time.time() - # Kva,Kve = linalg.eigh(K) - Kva,Kve = kvakve(K) - end = time.time() - if self.verbose: sys.stderr.write("Total time: %0.3f\n" % (end - begin)) - print("sum(Kva),sum(Kve)=",sum(Kva),sum(Kve)) - - self.K = K - self.Kva = Kva - self.Kve = Kve - print("self.Kva is: ", self.Kva.shape, pf(self.Kva)) - print("self.Kve is: ", self.Kve.shape, pf(self.Kve)) - self.Y = Y - self.X0 = X0 - self.N = self.K.shape[0] - - # ----> Below moved to kinship.kvakve(K) - # if sum(self.Kva < 1e-6): - # if self.verbose: sys.stderr.write("Cleaning %d eigen values\n" % (sum(self.Kva < 0))) - # self.Kva[self.Kva < 1e-6] = 1e-6 - - self.transform() - - def transform(self): - - """ - Computes a transformation on the phenotype vector and the covariate matrix. - The transformation is obtained by left multiplying each parameter by the transpose of the - eigenvector matrix of K (the kinship). - """ - - self.Yt = matrixMult(self.Kve.T, self.Y) - self.X0t = matrixMult(self.Kve.T, self.X0) - self.X0t_stack = np.hstack([self.X0t, np.ones((self.N,1))]) - self.q = self.X0t.shape[1] - - def getMLSoln(self,h,X): - - """ - Obtains the maximum-likelihood estimates for the covariate coefficients (beta), - the total variance of the trait (sigma) and also passes intermediates that can - be utilized in other functions. The input parameter h is a value between 0 and 1 and represents - the heritability or the proportion of the total variance attributed to genetics. The X is the - covariate matrix. - """ - - S = 1.0/(h*self.Kva + (1.0 - h)) - Xt = X.T*S - XX = matrixMult(Xt,X) - XX_i = linalg.inv(XX) - beta = matrixMult(matrixMult(XX_i,Xt),self.Yt) - Yt = self.Yt - matrixMult(X,beta) - Q = np.dot(Yt.T*S,Yt) - sigma = Q * 1.0 / (float(self.N) - float(X.shape[1])) - return beta,sigma,Q,XX_i,XX - - def LL_brent(self,h,X=None,REML=False): - #brent will not be bounded by the specified bracket. - # I return a large number if we encounter h < 0 to avoid errors in LL computation during the search. - if h < 0: return 1e6 - return -self.LL(h,X,stack=False,REML=REML)[0] - - def LL(self,h,X=None,stack=True,REML=False): - - """ - Computes the log-likelihood for a given heritability (h). If X==None, then the - default X0t will be used. If X is set and stack=True, then X0t will be matrix concatenated with - the input X. If stack is false, then X is used in place of X0t in the LL calculation. - REML is computed by adding additional terms to the standard LL and can be computed by setting REML=True. - """ - - if X == None: - X = self.X0t - elif stack: - self.X0t_stack[:,(self.q)] = matrixMult(self.Kve.T,X)[:,0] - X = self.X0t_stack - - n = float(self.N) - q = float(X.shape[1]) - beta,sigma,Q,XX_i,XX = self.getMLSoln(h,X) - LL = n*np.log(2*np.pi) + np.log(h*self.Kva + (1.0-h)).sum() + n + n*np.log(1.0/n * Q) - LL = -0.5 * LL - - if REML: - LL_REML_part = q*np.log(2.0*np.pi*sigma) + np.log(linalg.det(matrixMult(X.T,X))) - np.log(linalg.det(XX)) - LL = LL + 0.5*LL_REML_part - - return LL,beta,sigma,XX_i - - def getMax(self,H, X=None,REML=False): - - """ - Helper functions for .fit(...). - This function takes a set of LLs computed over a grid and finds possible regions - containing a maximum. Within these regions, a Brent search is performed to find the - optimum. - - """ - n = len(self.LLs) - HOpt = [] - for i in range(1,n-2): - if self.LLs[i-1] < self.LLs[i] and self.LLs[i] > self.LLs[i+1]: - HOpt.append(optimize.brent(self.LL_brent,args=(X,REML),brack=(H[i-1],H[i+1]))) - if np.isnan(HOpt[-1][0]): - HOpt[-1][0] = [self.LLs[i-1]] - - if len(HOpt) > 1: - if self.verbose: - sys.stderr.write("NOTE: Found multiple optima. Returning first...\n") - return HOpt[0] - elif len(HOpt) == 1: - return HOpt[0] - elif self.LLs[0] > self.LLs[n-1]: - return H[0] - else: - return H[n-1] - - def fit(self,X=None,ngrids=100,REML=True): - - """ - Finds the maximum-likelihood solution for the heritability (h) given the current parameters. - X can be passed and will transformed and concatenated to X0t. Otherwise, X0t is used as - the covariate matrix. - - This function calculates the LLs over a grid and then uses .getMax(...) to find the optimum. - Given this optimum, the function computes the LL and associated ML solutions. - """ - - if X == None: - X = self.X0t - else: - #X = np.hstack([self.X0t,matrixMult(self.Kve.T, X)]) - self.X0t_stack[:,(self.q)] = matrixMult(self.Kve.T,X)[:,0] - X = self.X0t_stack - - H = np.array(range(ngrids)) / float(ngrids) - L = np.array([self.LL(h,X,stack=False,REML=REML)[0] for h in H]) - self.LLs = L - - hmax = self.getMax(H,X,REML) - L,beta,sigma,betaSTDERR = self.LL(hmax,X,stack=False,REML=REML) - - self.H = H - self.optH = hmax - self.optLL = L - self.optBeta = beta - self.optSigma = sigma - - return hmax,beta,sigma,L - - def association(self,X, h = None, stack=True,REML=True, returnBeta=True): - - """ - Calculates association statitics for the SNPs encoded in the vector X of size n. - If h == None, the optimal h stored in optH is used. - - """ - if stack: - #X = np.hstack([self.X0t,matrixMult(self.Kve.T, X)]) - self.X0t_stack[:,(self.q)] = matrixMult(self.Kve.T,X)[:,0] - X = self.X0t_stack - - if h == None: - h = self.optH - - L,beta,sigma,betaVAR = self.LL(h,X,stack=False,REML=REML) - q = len(beta) - ts,ps = self.tstat(beta[q-1],betaVAR[q-1,q-1],sigma,q) - - if returnBeta: - return ts,ps,beta[q-1].sum(),betaVAR[q-1,q-1].sum()*sigma - return ts,ps - - def tstat(self,beta,var,sigma,q): - - """ - Calculates a t-statistic and associated p-value given the estimate of beta and its standard error. - This is actually an F-test, but when only one hypothesis is being performed, it reduces to a t-test. - """ - - ts = beta / np.sqrt(var * sigma) - ps = 2.0*(1.0 - stats.t.cdf(np.abs(ts), self.N-q)) - if not len(ts) == 1 or not len(ps) == 1: - print("ts=",ts) - print("ps=",ps) - raise Exception("Something bad happened :(") - return ts.sum(),ps.sum() - - def plotFit(self,color='b-',title=''): - - """ - Simple function to visualize the likelihood space. It takes the LLs - calcualted over a grid and normalizes them by subtracting off the mean and exponentiating. - The resulting "probabilities" are normalized to one and plotted against heritability. - This can be seen as an approximation to the posterior distribuiton of heritability. - - For diagnostic purposes this lets you see if there is one distinct maximum or multiple - and what the variance of the parameter looks like. - """ - import matplotlib.pyplot as pl - - mx = self.LLs.max() - p = np.exp(self.LLs - mx) - p = p/p.sum() - - pl.plot(self.H,p,color) - pl.xlabel("Heritability") - pl.ylabel("Probability of data") - pl.title(title) - - -def gn2_redis(key,species,new_code=True): - """ - Invoke pylmm using Redis as a container. new_code runs the new - version - """ - json_params = Redis.get(key) - - params = json.loads(json_params) - - tempdata = temp_data.TempData(params['temp_uuid']) - - - print('pheno', np.array(params['pheno_vector'])) - - if species == "human" : - print('kinship', np.array(params['kinship_matrix'])) - ps, ts = run_human(pheno_vector = np.array(params['pheno_vector']), - covariate_matrix = np.array(params['covariate_matrix']), - plink_input_file = params['input_file_name'], - kinship_matrix = np.array(params['kinship_matrix']), - refit = params['refit'], - tempdata = tempdata) - else: - geno = np.array(params['genotype_matrix']) - print('geno', geno.shape, geno) - - if new_code: - ps, ts = run_other_new(pheno_vector = np.array(params['pheno_vector']), - genotype_matrix = geno, - restricted_max_likelihood = params['restricted_max_likelihood'], - refit = params['refit'], - tempdata = tempdata) - else: - ps, ts = run_other_old(pheno_vector = np.array(params['pheno_vector']), - genotype_matrix = geno, - restricted_max_likelihood = params['restricted_max_likelihood'], - refit = params['refit'], - tempdata = tempdata) - - results_key = "pylmm:results:" + params['temp_uuid'] - - json_results = json.dumps(dict(p_values = ps, - t_stats = ts)) - - #Pushing json_results into a list where it is the only item because blpop needs a list - Redis.rpush(results_key, json_results) - Redis.expire(results_key, 60*60) - return ps, ts - -# This is the main function used by Genenetwork2 (with environment) -def gn2_main(): - parser = argparse.ArgumentParser(description='Run pyLMM') - parser.add_argument('-k', '--key') - parser.add_argument('-s', '--species') - - opts = parser.parse_args() - - key = opts.key - species = opts.species - - gn2_redis(key,species) - -def gn2_load_redis(key,species,kinship,pheno,geno,new_code=True): - print("Loading Redis from parsed data") - if kinship == None: - k = None - else: - k = kinship.tolist() - params = dict(pheno_vector = pheno.tolist(), - genotype_matrix = geno.tolist(), - kinship_matrix= k, - restricted_max_likelihood = True, - refit = False, - temp_uuid = "testrun_temp_uuid", - - # meta data - timestamp = datetime.datetime.now().isoformat(), - ) - - json_params = json.dumps(params) - Redis.set(key, json_params) - Redis.expire(key, 60*60) - - return gn2_redis(key,species,new_code) - -if __name__ == '__main__': - print("WARNING: Calling pylmm from lmm.py will become OBSOLETE, use runlmm.py instead!") - if has_gn2: - gn2_main() - else: - print("Run from runlmm.py instead") - - diff --git a/wqflask/wqflask/my_pylmm/pyLMM/lmm2.py b/wqflask/wqflask/my_pylmm/pyLMM/lmm2.py deleted file mode 100644 index d4b3ac82..00000000 --- a/wqflask/wqflask/my_pylmm/pyLMM/lmm2.py +++ /dev/null @@ -1,410 +0,0 @@ -# pylmm is a python-based linear mixed-model solver with applications to GWAS - -# Copyright (C) 2013,2014 Nicholas A. Furlotte (nick.furlotte@gmail.com) -# -# This program is free software: you can redistribute it and/or modify -# it under the terms of the GNU Affero General Public License as -# published by the Free Software Foundation, either version 3 of the -# License, or (at your option) any later version. - -# This program is distributed in the hope that it will be useful, -# but WITHOUT ANY WARRANTY; without even the implied warranty of -# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the -# GNU Affero General Public License for more details. - -# You should have received a copy of the GNU Affero General Public License -# along with this program. If not, see <http://www.gnu.org/licenses/>. - -import sys -import time -import numpy as np -from scipy.linalg import eigh, inv, det -import scipy.stats as stats # t-tests -from scipy import optimize -from optmatrix import matrixMult -import kinship - -def calculateKinship(W,center=False): - """ - W is an n x m matrix encoding SNP minor alleles. - - This function takes a matrix oF SNPs, imputes missing values with the maf, - normalizes the resulting vectors and returns the RRM matrix. - """ - n = W.shape[0] - m = W.shape[1] - keep = [] - for i in range(m): - mn = W[True - np.isnan(W[:,i]),i].mean() - W[np.isnan(W[:,i]),i] = mn - vr = W[:,i].var() - if vr == 0: continue - - keep.append(i) - W[:,i] = (W[:,i] - mn) / np.sqrt(vr) - - W = W[:,keep] - K = matrixMult(W,W.T) * 1.0/float(m) - if center: - P = np.diag(np.repeat(1,n)) - 1/float(n) * np.ones((n,n)) - S = np.trace(matrixMult(matrixMult(P,K),P)) - K_n = (n - 1)*K / S - return K_n - return K - -def GWAS(Y, X, K, Kva=[], Kve=[], X0=None, REML=True, refit=False): - """ - - Performs a basic GWAS scan using the LMM. This function - uses the LMM module to assess association at each SNP and - does some simple cleanup, such as removing missing individuals - per SNP and re-computing the eigen-decomp - - Y - n x 1 phenotype vector - X - n x m SNP matrix (genotype matrix) - K - n x n kinship matrix - Kva,Kve = linalg.eigh(K) - or the eigen vectors and values for K - X0 - n x q covariate matrix - REML - use restricted maximum likelihood - refit - refit the variance component for each SNP - - """ - n = X.shape[0] - m = X.shape[1] - prins("Initialize GWAS") - print("genotype matrix n is:", n) - print("genotype matrix m is:", m) - - if X0 == None: - X0 = np.ones((n,1)) - - # Remove missing values in Y and adjust associated parameters - v = np.isnan(Y) - if v.sum(): - keep = True - v - keep = keep.reshape((-1,)) - Y = Y[keep] - X = X[keep,:] - X0 = X0[keep,:] - K = K[keep,:][:,keep] - Kva = [] - Kve = [] - - if len(Y) == 0: - return np.ones(m)*np.nan,np.ones(m)*np.nan - - L = LMM(Y,K,Kva,Kve,X0) - if not refit: L.fit() - - PS = [] - TS = [] - - n = X.shape[0] - m = X.shape[1] - - for i in range(m): - x = X[:,i].reshape((n,1)) - v = np.isnan(x).reshape((-1,)) - if v.sum(): - keep = True - v - xs = x[keep,:] - if xs.var() == 0: - PS.append(np.nan) - TS.append(np.nan) - continue - - Ys = Y[keep] - X0s = X0[keep,:] - Ks = K[keep,:][:,keep] - Ls = LMM(Ys,Ks,X0=X0s) - if refit: - Ls.fit(X=xs) - else: - Ls.fit() - ts,ps = Ls.association(xs,REML=REML) - else: - if x.var() == 0: - PS.append(np.nan) - TS.append(np.nan) - continue - - if refit: - L.fit(X=x) - ts,ps = L.association(x,REML=REML) - - PS.append(ps) - TS.append(ts) - - return TS,PS - -class LMM2: - - """ - This is a simple version of EMMA/fastLMM. - The main purpose of this module is to take a phenotype vector (Y), a set of covariates (X) and a kinship matrix (K) - and to optimize this model by finding the maximum-likelihood estimates for the model parameters. - There are three model parameters: heritability (h), covariate coefficients (beta) and the total - phenotypic variance (sigma). - Heritability as defined here is the proportion of the total variance (sigma) that is attributed to - the kinship matrix. - - For simplicity, we assume that everything being input is a numpy array. - If this is not the case, the module may throw an error as conversion from list to numpy array - is not done consistently. - - """ - def __init__(self,Y,K,Kva=[],Kve=[],X0=None,verbose=False): - - """ - The constructor takes a phenotype vector or array Y of size n. - It takes a kinship matrix K of size n x n. Kva and Kve can be computed as Kva,Kve = linalg.eigh(K) and cached. - If they are not provided, the constructor will calculate them. - X0 is an optional covariate matrix of size n x q, where there are q covariates. - When this parameter is not provided, the constructor will set X0 to an n x 1 matrix of all ones to represent a mean effect. - """ - - if X0 == None: - X0 = np.ones(len(Y)).reshape(len(Y),1) - self.verbose = verbose - - x = True - np.isnan(Y) - x = x.reshape(-1,) - if not x.sum() == len(Y): - if self.verbose: sys.stderr.write("Removing %d missing values from Y\n" % ((True - x).sum())) - Y = Y[x] - K = K[x,:][:,x] - X0 = X0[x,:] - Kva = [] - Kve = [] - self.nonmissing = x - - print("this K is:", K.shape, K) - - if len(Kva) == 0 or len(Kve) == 0: - # if self.verbose: sys.stderr.write("Obtaining eigendecomposition for %dx%d matrix\n" % (K.shape[0],K.shape[1]) ) - begin = time.time() - # Kva,Kve = linalg.eigh(K) - Kva,Kve = kinship.kvakve(K) - end = time.time() - if self.verbose: sys.stderr.write("Total time: %0.3f\n" % (end - begin)) - print("sum(Kva),sum(Kve)=",sum(Kva),sum(Kve)) - - self.K = K - self.Kva = Kva - self.Kve = Kve - self.N = self.K.shape[0] - self.Y = Y.reshape((self.N,1)) - self.X0 = X0 - - if sum(self.Kva < 1e-6): - if self.verbose: sys.stderr.write("Cleaning %d eigen values\n" % (sum(self.Kva < 0))) - self.Kva[self.Kva < 1e-6] = 1e-6 - - self.transform() - - def transform(self): - - """ - Computes a transformation on the phenotype vector and the covariate matrix. - The transformation is obtained by left multiplying each parameter by the transpose of the - eigenvector matrix of K (the kinship). - """ - - self.Yt = matrixMult(self.Kve.T, self.Y) - self.X0t = matrixMult(self.Kve.T, self.X0) - self.X0t_stack = np.hstack([self.X0t, np.ones((self.N,1))]) - self.q = self.X0t.shape[1] - - def getMLSoln(self,h,X): - - """ - Obtains the maximum-likelihood estimates for the covariate coefficients (beta), - the total variance of the trait (sigma) and also passes intermediates that can - be utilized in other functions. The input parameter h is a value between 0 and 1 and represents - the heritability or the proportion of the total variance attributed to genetics. The X is the - covariate matrix. - """ - - S = 1.0/(h*self.Kva + (1.0 - h)) - Xt = X.T*S - XX = matrixMult(Xt,X) - XX_i = inv(XX) - beta = matrixMult(matrixMult(XX_i,Xt),self.Yt) - Yt = self.Yt - matrixMult(X,beta) - Q = np.dot(Yt.T*S,Yt) - sigma = Q * 1.0 / (float(self.N) - float(X.shape[1])) - return beta,sigma,Q,XX_i,XX - - def LL_brent(self,h,X=None,REML=False): - #brent will not be bounded by the specified bracket. - # I return a large number if we encounter h < 0 to avoid errors in LL computation during the search. - if h < 0: return 1e6 - return -self.LL(h,X,stack=False,REML=REML)[0] - - def LL(self,h,X=None,stack=True,REML=False): - - """ - Computes the log-likelihood for a given heritability (h). If X==None, then the - default X0t will be used. If X is set and stack=True, then X0t will be matrix concatenated with - the input X. If stack is false, then X is used in place of X0t in the LL calculation. - REML is computed by adding additional terms to the standard LL and can be computed by setting REML=True. - """ - - if X == None: X = self.X0t - elif stack: - self.X0t_stack[:,(self.q)] = matrixMult(self.Kve.T,X)[:,0] - X = self.X0t_stack - - n = float(self.N) - q = float(X.shape[1]) - beta,sigma,Q,XX_i,XX = self.getMLSoln(h,X) - LL = n*np.log(2*np.pi) + np.log(h*self.Kva + (1.0-h)).sum() + n + n*np.log(1.0/n * Q) - LL = -0.5 * LL - - if REML: - LL_REML_part = q*np.log(2.0*np.pi*sigma) + np.log(det(matrixMult(X.T,X))) - np.log(det(XX)) - LL = LL + 0.5*LL_REML_part - - - LL = LL.sum() - return LL,beta,sigma,XX_i - - def getMax(self,H, X=None,REML=False): - - """ - Helper functions for .fit(...). - This function takes a set of LLs computed over a grid and finds possible regions - containing a maximum. Within these regions, a Brent search is performed to find the - optimum. - - """ - n = len(self.LLs) - HOpt = [] - for i in range(1,n-2): - if self.LLs[i-1] < self.LLs[i] and self.LLs[i] > self.LLs[i+1]: - HOpt.append(optimize.brent(self.LL_brent,args=(X,REML),brack=(H[i-1],H[i+1]))) - if np.isnan(HOpt[-1]): HOpt[-1] = H[i-1] - #if np.isnan(HOpt[-1]): HOpt[-1] = self.LLs[i-1] - #if np.isnan(HOpt[-1][0]): HOpt[-1][0] = [self.LLs[i-1]] - - if len(HOpt) > 1: - if self.verbose: sys.stderr.write("NOTE: Found multiple optima. Returning first...\n") - return HOpt[0] - elif len(HOpt) == 1: return HOpt[0] - elif self.LLs[0] > self.LLs[n-1]: return H[0] - else: return H[n-1] - - - def fit(self,X=None,ngrids=100,REML=True): - - """ - Finds the maximum-likelihood solution for the heritability (h) given the current parameters. - X can be passed and will transformed and concatenated to X0t. Otherwise, X0t is used as - the covariate matrix. - - This function calculates the LLs over a grid and then uses .getMax(...) to find the optimum. - Given this optimum, the function computes the LL and associated ML solutions. - """ - - if X == None: X = self.X0t - else: - #X = np.hstack([self.X0t,matrixMult(self.Kve.T, X)]) - self.X0t_stack[:,(self.q)] = matrixMult(self.Kve.T,X)[:,0] - X = self.X0t_stack - - H = np.array(range(ngrids)) / float(ngrids) - L = np.array([self.LL(h,X,stack=False,REML=REML)[0] for h in H]) - self.LLs = L - - hmax = self.getMax(H,X,REML) - L,beta,sigma,betaSTDERR = self.LL(hmax,X,stack=False,REML=REML) - - self.H = H - self.optH = hmax.sum() - self.optLL = L - self.optBeta = beta - self.optSigma = sigma.sum() - - return hmax,beta,sigma,L - - def association(self,X,h=None,stack=True,REML=True,returnBeta=False): - """ - Calculates association statitics for the SNPs encoded in the vector X of size n. - If h == None, the optimal h stored in optH is used. - - """ - if False: - print "X=",X - print "h=",h - print "q=",self.q - print "self.Kve=",self.Kve - print "X0t_stack=",self.X0t_stack.shape,self.X0t_stack - - if stack: - # X = np.hstack([self.X0t,matrixMult(self.Kve.T, X)]) - m = matrixMult(self.Kve.T,X) - # print "m=",m - m = m[:,0] - self.X0t_stack[:,(self.q)] = m - X = self.X0t_stack - - if h == None: h = self.optH - - L,beta,sigma,betaVAR = self.LL(h,X,stack=False,REML=REML) - q = len(beta) - ts,ps = self.tstat(beta[q-1],betaVAR[q-1,q-1],sigma,q) - - if returnBeta: return ts,ps,beta[q-1].sum(),betaVAR[q-1,q-1].sum()*sigma - return ts,ps - - def tstat(self,beta,var,sigma,q,log=False): - - """ - Calculates a t-statistic and associated p-value given the estimate of beta and its standard error. - This is actually an F-test, but when only one hypothesis is being performed, it reduces to a t-test. - """ - - ts = beta / np.sqrt(var * sigma) - #ps = 2.0*(1.0 - stats.t.cdf(np.abs(ts), self.N-q)) - # sf == survival function - this is more accurate -- could also use logsf if the precision is not good enough - if log: - ps = 2.0 + (stats.t.logsf(np.abs(ts), self.N-q)) - else: - ps = 2.0*(stats.t.sf(np.abs(ts), self.N-q)) - if not len(ts) == 1 or not len(ps) == 1: - raise Exception("Something bad happened :(") - return ts.sum(),ps.sum() - - def plotFit(self,color='b-',title=''): - - """ - Simple function to visualize the likelihood space. It takes the LLs - calcualted over a grid and normalizes them by subtracting off the mean and exponentiating. - The resulting "probabilities" are normalized to one and plotted against heritability. - This can be seen as an approximation to the posterior distribuiton of heritability. - - For diagnostic purposes this lets you see if there is one distinct maximum or multiple - and what the variance of the parameter looks like. - """ - import matplotlib.pyplot as pl - - mx = self.LLs.max() - p = np.exp(self.LLs - mx) - p = p/p.sum() - - pl.plot(self.H,p,color) - pl.xlabel("Heritability") - pl.ylabel("Probability of data") - pl.title(title) - - def meanAndVar(self): - - mx = self.LLs.max() - p = np.exp(self.LLs - mx) - p = p/p.sum() - - mn = (self.H * p).sum() - vx = ((self.H - mn)**2 * p).sum() - - return mn,vx - diff --git a/wqflask/wqflask/my_pylmm/pyLMM/optmatrix.py b/wqflask/wqflask/my_pylmm/pyLMM/optmatrix.py deleted file mode 100644 index 5c71db6a..00000000 --- a/wqflask/wqflask/my_pylmm/pyLMM/optmatrix.py +++ /dev/null @@ -1,55 +0,0 @@ -import sys -import time -import numpy as np -from numpy.distutils.system_info import get_info; -from scipy import linalg -from scipy import optimize -from scipy import stats - -useNumpy = None -hasBLAS = None - -def matrix_initialize(useBLAS=True): - global useNumpy # module based variable - if useBLAS and useNumpy == None: - print get_info('blas_opt') - try: - linalg.fblas - sys.stderr.write("INFO: using linalg.fblas\n") - useNumpy = False - hasBLAS = True - except AttributeError: - sys.stderr.write("WARNING: linalg.fblas not found, using numpy.dot instead!\n") - useNumpy = True - else: - sys.stderr.write("INFO: using numpy.dot\n") - useNumpy=True - -def matrixMult(A,B): - global useNumpy # module based variable - - if useNumpy: - return np.dot(A,B) - - # If the matrices are in Fortran order then the computations will be faster - # when using dgemm. Otherwise, the function will copy the matrix and that takes time. - if not A.flags['F_CONTIGUOUS']: - AA = A.T - transA = True - else: - AA = A - transA = False - - if not B.flags['F_CONTIGUOUS']: - BB = B.T - transB = True - else: - BB = B - transB = False - - return linalg.fblas.dgemm(alpha=1.,a=AA,b=BB,trans_a=transA,trans_b=transB) - -def matrixMultT(M): - # res = np.dot(W,W.T) - # return linalg.fblas.dgemm(alpha=1.,a=M.T,b=M.T,trans_a=True,trans_b=False) - return matrixMult(M,M.T) diff --git a/wqflask/wqflask/my_pylmm/pyLMM/phenotype.py b/wqflask/wqflask/my_pylmm/pyLMM/phenotype.py deleted file mode 100644 index 682ba371..00000000 --- a/wqflask/wqflask/my_pylmm/pyLMM/phenotype.py +++ /dev/null @@ -1,40 +0,0 @@ -# Phenotype routines - -# Copyright (C) 2013 Nicholas A. Furlotte (nick.furlotte@gmail.com) -# Copyright (C) 2015 Pjotr Prins (pjotr.prins@thebird.nl) -# -# This program is free software: you can redistribute it and/or modify -# it under the terms of the GNU Affero General Public License as -# published by the Free Software Foundation, either version 3 of the -# License, or (at your option) any later version. - -# This program is distributed in the hope that it will be useful, -# but WITHOUT ANY WARRANTY; without even the implied warranty of -# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the -# GNU Affero General Public License for more details. - -# You should have received a copy of the GNU Affero General Public License -# along with this program. If not, see <http://www.gnu.org/licenses/>. - -import sys -import numpy as np - -def remove_missing(y,g,verbose=False): - """ - Remove missing data from matrices, make sure the genotype data has - individuals as rows - """ - assert(y!=None) - assert(y.shape[0] == g.shape[0]) - - y1 = y - g1 = g - v = np.isnan(y) - keep = True - v - if v.sum(): - if verbose: - sys.stderr.write("runlmm.py: Cleaning the phenotype vector and genotype matrix by removing %d individuals...\n" % (v.sum())) - y1 = y[keep] - g1 = g[keep,:] - return y1,g1,keep - diff --git a/wqflask/wqflask/my_pylmm/pyLMM/plink.py b/wqflask/wqflask/my_pylmm/pyLMM/plink.py deleted file mode 100644 index 7bd2df91..00000000 --- a/wqflask/wqflask/my_pylmm/pyLMM/plink.py +++ /dev/null @@ -1,107 +0,0 @@ -# Plink module -# -# Copyright (C) 2015 Pjotr Prins (pjotr.prins@thebird.nl) -# Some of the BED file parsing came from pylmm: -# Copyright (C) 2013 Nicholas A. Furlotte (nick.furlotte@gmail.com) - -# This program is free software: you can redistribute it and/or modify -# it under the terms of the GNU Affero General Public License as -# published by the Free Software Foundation, either version 3 of the -# License, or (at your option) any later version. - -# This program is distributed in the hope that it will be useful, -# but WITHOUT ANY WARRANTY; without even the implied warranty of -# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the -# GNU Affero General Public License for more details. - -# You should have received a copy of the GNU Affero General Public License -# along with this program. If not, see <http://www.gnu.org/licenses/>. - -# According to the PLINK information - -# Parse a textual BIM file and return the contents as a list of tuples -# -# Extended variant information file accompanying a .bed binary genotype table. -# -# A text file with no header line, and one line per variant with the following six fields: -# -# Chromosome code (either an integer, or 'X'/'Y'/'XY'/'MT'; '0' indicates unknown) or name -# Variant identifier -# Position in morgans or centimorgans (safe to use dummy value of '0') -# Base-pair coordinate (normally 1-based, but 0 ok; limited to 231-2) -# Allele 1 (corresponding to clear bits in .bed; usually minor) -# Allele 2 (corresponding to set bits in .bed; usually major) -# -# Allele codes can contain more than one character. Variants with negative bp coordinates are ignored by PLINK. Example -# -# 1 mm37-1-3125499 0 3125499 1 2 -# 1 mm37-1-3125701 0 3125701 1 2 -# 1 mm37-1-3187481 0 3187481 1 2 - -import struct -# import numpy as np - -def readbim(fn): - res = [] - for line in open(fn): - list = line.split() - if len([True for e in list if e == 'nan']) == 0: - res.append( (list[0],list[1],int(list[2]),int(list[3]),int(list[4]),int(list[5])) ) - else: - res.append( (list[0],list[1],list[2],float('nan'),float('nan'),float('nan')) ) - return res - -# .bed (PLINK binary biallelic genotype table) -# -# Primary representation of genotype calls at biallelic variants. Must -# be accompanied by .bim and .fam files. Basically contains num SNP -# blocks containing IND (compressed 4 IND into a byte) -# -# Since it is a biallelic format it supports for every individual -# whether the first allele is homozygous (b00), the second allele is -# homozygous (b11), it is heterozygous (b10) or that it is missing -# (b01). - -# http://pngu.mgh.harvard.edu/~purcell/plink2/formats.html#bed -# http://pngu.mgh.harvard.edu/~purcell/plink2/formats.html#fam -# http://pngu.mgh.harvard.edu/~purcell/plink2/formats.html#bim - -def readbed(fn,inds,encoding,func=None): - - # For every SNP block fetch the individual genotypes using values - # 0.0 and 1.0 for homozygous and 0.5 for heterozygous alleles - def fetchGenotypes(X): - # D = { \ - # '00': 0.0, \ - # '10': 0.5, \ - # '11': 1.0, \ - # '01': float('nan') \ - # } - - Didx = { '00': 0, '10': 1, '11': 2, '01': 3 } - G = [] - for x in X: - if not len(x) == 10: - xx = x[2:] - x = '0b' + '0'*(8 - len(xx)) + xx - a,b,c,d = (x[8:],x[6:8],x[4:6],x[2:4]) - L = [encoding[Didx[y]] for y in [a,b,c,d]] - G += L - G = G[:inds] - # G = np.array(G) - return G - - bytes = inds / 4 + (inds % 4 and 1 or 0) - format = 'c'*bytes - count = 0 - with open(fn,'rb') as f: - magic = f.read(3) - assert( ":".join("{:02x}".format(ord(c)) for c in magic) == "6c:1b:01") - while True: - count += 1 - X = f.read(bytes) - if not X: - return(count-1) - XX = [bin(ord(x)) for x in struct.unpack(format,X)] - xs = fetchGenotypes(XX) - func(count,xs) diff --git a/wqflask/wqflask/my_pylmm/pyLMM/runlmm.py b/wqflask/wqflask/my_pylmm/pyLMM/runlmm.py deleted file mode 100644 index 324c4f2c..00000000 --- a/wqflask/wqflask/my_pylmm/pyLMM/runlmm.py +++ /dev/null @@ -1,212 +0,0 @@ -# This is the LMM runner that calls the possible methods using command line -# switches. It acts as a multiplexer where all the invocation complexity -# is kept outside the main LMM routines. -# -# Copyright (C) 2015 Pjotr Prins (pjotr.prins@thebird.nl) -# -# This program is free software: you can redistribute it and/or modify -# it under the terms of the GNU Affero General Public License as -# published by the Free Software Foundation, either version 3 of the -# License, or (at your option) any later version. - -# This program is distributed in the hope that it will be useful, -# but WITHOUT ANY WARRANTY; without even the implied warranty of -# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the -# GNU Affero General Public License for more details. - -# You should have received a copy of the GNU Affero General Public License -# along with this program. If not, see <http://www.gnu.org/licenses/>. - -from optparse import OptionParser -import sys -import tsvreader -import numpy as np -from lmm import gn2_load_redis, calculate_kinship_old -from kinship import kinship, kinship_full -import genotype -import phenotype - -usage = """ -python runlmm.py [options] command - - runlmm.py processing multiplexer reads standardised input formats - and calls the different routines (writes to stdout) - - Current commands are: - - parse : only parse input files - redis : use Redis to call into GN2 - kinship : calculate (new) kinship matrix - - try --help for more information -""" - - -parser = OptionParser(usage=usage) -# parser.add_option("-f", "--file", dest="input file", -# help="In", metavar="FILE") -parser.add_option("--kinship",dest="kinship", - help="Kinship file format 1.0") -parser.add_option("--pheno",dest="pheno", - help="Phenotype file format 1.0") -parser.add_option("--geno",dest="geno", - help="Genotype file format 1.0") -parser.add_option("--maf-normalization", - action="store_true", dest="maf_normalization", default=False, - help="Apply MAF genotype normalization") -parser.add_option("--genotype-normalization", - action="store_true", dest="genotype_normalization", default=False, - help="Force genotype normalization") -parser.add_option("--remove-missing-phenotypes", - action="store_true", dest="remove_missing_phenotypes", default=False, - help="Remove missing phenotypes") -parser.add_option("-q", "--quiet", - action="store_false", dest="verbose", default=True, - help="don't print status messages to stdout") -parser.add_option("--blas", action="store_true", default=False, dest="useBLAS", help="Use BLAS instead of numpy matrix multiplication") -parser.add_option("-t", "--threads", - type="int", dest="numThreads", - help="Threads to use") -parser.add_option("--saveKvaKve", - action="store_true", dest="saveKvaKve", default=False, - help="Testing mode") -parser.add_option("--test", - action="store_true", dest="testing", default=False, - help="Testing mode") -parser.add_option("--test-kinship", - action="store_true", dest="test_kinship", default=False, - help="Testing mode for Kinship calculation") - -(options, args) = parser.parse_args() - -if len(args) != 1: - print usage - sys.exit(1) - -cmd = args[0] -print "Command: ",cmd - -k = None -y = None -g = None - -if options.kinship: - k = tsvreader.kinship(options.kinship) - print k.shape - -if options.pheno: - y = tsvreader.pheno(options.pheno) - print y.shape - -if options.geno: - g = tsvreader.geno(options.geno) - print g.shape - -if cmd == 'redis_new': - # The main difference between redis_new and redis is that missing - # phenotypes are handled by the first - Y = y - G = g - print "Original G",G.shape, "\n", G - - gt = G.T - G = None - ps, ts = gn2_load_redis('testrun','other',k,Y,gt,new_code=True) - print np.array(ps) - print len(ps),sum(ps) - # Test results - p1 = round(ps[0],4) - p2 = round(ps[-1],4) - sys.stderr.write(options.geno+"\n") - if options.geno == 'data/small.geno': - assert p1==0.0708, "p1=%f" % p1 - assert p2==0.1417, "p2=%f" % p2 - if options.geno == 'data/small_na.geno': - assert p1==0.0897, "p1=%f" % p1 - assert p2==0.0405, "p2=%f" % p2 - if options.geno == 'data/test8000.geno': - # assert p1==0.8984, "p1=%f" % p1 - # assert p2==0.9621, "p2=%f" % p2 - assert round(sum(ps)) == 4070 - assert len(ps) == 8000 -elif cmd == 'redis': - # Emulating the redis setup of GN2 - G = g - print "Original G",G.shape, "\n", G - if y != None and options.remove_missing_phenotypes: - gnt = np.array(g).T - Y,g,keep = phenotype.remove_missing(y,g.T,options.verbose) - G = g.T - print "Removed missing phenotypes",G.shape, "\n", G - else: - Y = y - if options.maf_normalization: - G = np.apply_along_axis( genotype.replace_missing_with_MAF, axis=0, arr=g ) - print "MAF replacements: \n",G - if options.genotype_normalization: - G = np.apply_along_axis( genotype.normalize, axis=1, arr=G) - g = None - gnt = None - - gt = G.T - G = None - ps, ts = gn2_load_redis('testrun','other',k,Y,gt, new_code=False) - print np.array(ps) - print len(ps),sum(ps) - # Test results 4070.02346579 - p1 = round(ps[0],4) - p2 = round(ps[-1],4) - sys.stderr.write(options.geno+"\n") - if options.geno == 'data/small.geno': - assert p1==0.0708, "p1=%f" % p1 - assert p2==0.1417, "p2=%f" % p2 - if options.geno == 'data/small_na.geno': - assert p1==0.0897, "p1=%f" % p1 - assert p2==0.0405, "p2=%f" % p2 - if options.geno == 'data/test8000.geno': - assert round(sum(ps)) == 4070 - assert len(ps) == 8000 -elif cmd == 'kinship': - G = g - print "Original G",G.shape, "\n", G - if y != None and options.remove_missing_phenotypes: - gnt = np.array(g).T - Y,g = phenotype.remove_missing(y,g.T,options.verbose) - G = g.T - print "Removed missing phenotypes",G.shape, "\n", G - if options.maf_normalization: - G = np.apply_along_axis( genotype.replace_missing_with_MAF, axis=0, arr=g ) - print "MAF replacements: \n",G - if options.genotype_normalization: - G = np.apply_along_axis( genotype.normalize, axis=1, arr=G) - g = None - gnt = None - - if options.test_kinship: - K = kinship_full(np.copy(G)) - print "Genotype",G.shape, "\n", G - print "first Kinship method",K.shape,"\n",K - k1 = round(K[0][0],4) - K2,G = calculate_kinship_old(np.copy(G).T,temp_data=None) - print "Genotype",G.shape, "\n", G - print "GN2 Kinship method",K2.shape,"\n",K2 - k2 = round(K2[0][0],4) - - print "Genotype",G.shape, "\n", G - K3 = kinship(G.T) - print "third Kinship method",K3.shape,"\n",K3 - sys.stderr.write(options.geno+"\n") - k3 = round(K3[0][0],4) - if options.geno == 'data/small.geno': - assert k1==0.8, "k1=%f" % k1 - assert k2==0.7939, "k2=%f" % k2 - assert k3==0.7939, "k3=%f" % k3 - if options.geno == 'data/small_na.geno': - assert k1==0.8333, "k1=%f" % k1 - assert k2==0.7172, "k2=%f" % k2 - assert k3==0.7172, "k3=%f" % k3 - if options.geno == 'data/test8000.geno': - assert k3==1.4352, "k3=%f" % k3 - -else: - print "Doing nothing" diff --git a/wqflask/wqflask/my_pylmm/pyLMM/tsvreader.py b/wqflask/wqflask/my_pylmm/pyLMM/tsvreader.py deleted file mode 100644 index b4027fa3..00000000 --- a/wqflask/wqflask/my_pylmm/pyLMM/tsvreader.py +++ /dev/null @@ -1,76 +0,0 @@ -# Standard file readers -# -# Copyright (C) 2015 Pjotr Prins (pjotr.prins@thebird.nl) -# -# This program is free software: you can redistribute it and/or modify -# it under the terms of the GNU Affero General Public License as -# published by the Free Software Foundation, either version 3 of the -# License, or (at your option) any later version. - -# This program is distributed in the hope that it will be useful, -# but WITHOUT ANY WARRANTY; without even the implied warranty of -# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the -# GNU Affero General Public License for more details. - -# You should have received a copy of the GNU Affero General Public License -# along with this program. If not, see <http://www.gnu.org/licenses/>. - -import sys -import os -import numpy as np -import csv - -def kinship(fn): - K1 = [] - print fn - with open(fn,'r') as tsvin: - assert(tsvin.readline().strip() == "# Kinship format version 1.0") - tsvin.readline() - tsvin.readline() - tsv = csv.reader(tsvin, delimiter='\t') - for row in tsv: - ns = np.genfromtxt(row[1:]) - K1.append(ns) # <--- slow - K = np.array(K1) - return K - -def pheno(fn): - Y1 = [] - print fn - with open(fn,'r') as tsvin: - assert(tsvin.readline().strip() == "# Phenotype format version 1.0") - tsvin.readline() - tsvin.readline() - tsvin.readline() - tsv = csv.reader(tsvin, delimiter='\t') - for row in tsv: - ns = np.genfromtxt(row[1:]) - Y1.append(ns) # <--- slow - Y = np.array(Y1) - return Y - -def geno(fn): - G1 = [] - hab_mapper = {'A':0,'H':1,'B':2,'-':3} - pylmm_mapper = [ 0.0, 0.5, 1.0, float('nan') ] - - print fn - with open(fn,'r') as tsvin: - assert(tsvin.readline().strip() == "# Genotype format version 1.0") - tsvin.readline() - tsvin.readline() - tsvin.readline() - tsvin.readline() - tsv = csv.reader(tsvin, delimiter='\t') - for row in tsv: - # print(row) - id = row[0] - gs = list(row[1]) - # print id,gs - gs2 = [pylmm_mapper[hab_mapper[g]] for g in gs] - # print id,gs2 - # ns = np.genfromtxt(row[1:]) - G1.append(gs2) # <--- slow - G = np.array(G1) - return G - diff --git a/wqflask/wqflask/search_results.py b/wqflask/wqflask/search_results.py index df1edb13..12ea44d8 100755 --- a/wqflask/wqflask/search_results.py +++ b/wqflask/wqflask/search_results.py @@ -77,10 +77,15 @@ class SearchResultPage(object): self.trait_type = kw['trait_type'] self.quick_search() else: - self.results = [] print("kw is:", kw) - #self.quick_search = False - self.search_terms = kw['search_terms'] + if kw['search_terms_or']: + self.and_or = "or" + self.search_terms = kw['search_terms_or'] + else: + self.and_or = "and" + self.search_terms = kw['search_terms_and'] + self.search_term_exists = True + self.results = [] if kw['type'] == "Phenotypes": dataset_type = "Publish" elif kw['type'] == "Genotypes": @@ -114,8 +119,7 @@ class SearchResultPage(object): print("foo locals are:", locals()) trait_id = result[0] - this_trait = GeneralTrait(dataset=self.dataset, name=trait_id) - this_trait.retrieve_info(get_qtl_info=True) + this_trait = GeneralTrait(dataset=self.dataset, name=trait_id, get_qtl_info=True) self.trait_list.append(this_trait) self.dataset.get_trait_info(self.trait_list, species) @@ -222,60 +226,61 @@ class SearchResultPage(object): if len(self.search_terms) > 1: combined_from_clause = "" combined_where_clause = "" + previous_from_clauses = [] #The same table can't be referenced twice in the from clause for i, a_search in enumerate(self.search_terms): - print("[kodak] item is:", pf(a_search)) - search_term = a_search['search_term'] - search_operator = a_search['separator'] - if a_search['key']: - search_type = a_search['key'].upper() + the_search = self.get_search_ob(a_search) + if the_search != None: + get_from_clause = getattr(the_search, "get_from_clause", None) + if callable(get_from_clause): + from_clause = the_search.get_from_clause() + if from_clause in previous_from_clauses: + pass + else: + previous_from_clauses.append(from_clause) + combined_from_clause += from_clause + where_clause = the_search.get_where_clause() + combined_where_clause += "(" + where_clause + ")" + if (i+1) < len(self.search_terms): + if self.and_or == "and": + combined_where_clause += "AND" + else: + combined_where_clause += "OR" else: - # We fall back to the dataset type as the key to get the right object - search_type = self.dataset.type - - print("search_type is:", pf(search_type)) - - search_ob = do_search.DoSearch.get_search(search_type) - search_class = getattr(do_search, search_ob) - the_search = search_class(search_term, - search_operator, - self.dataset, - ) - - #search_query = the_search.get_final_query() - - get_from_clause = getattr(the_search, "get_from_clause", None) - if callable(get_from_clause): - from_clause = the_search.get_from_clause() - combined_from_clause += from_clause - where_clause = the_search.get_where_clause() - combined_where_clause += "(" + where_clause + ")" - if (i+1) < len(self.search_terms): - combined_where_clause += "AND" - - results = the_search.run_combined(combined_from_clause, combined_where_clause) - self.results.extend(results) - + self.search_term_exists = False + if self.search_term_exists: + combined_where_clause = "(" + combined_where_clause + ")" + final_query = the_search.compile_final_query(combined_from_clause, combined_where_clause) + results = the_search.execute(final_query) + self.results.extend(results) else: for a_search in self.search_terms: - print("[kodak] item is:", pf(a_search)) - search_term = a_search['search_term'] - search_operator = a_search['separator'] - if a_search['key']: - search_type = a_search['key'].upper() + the_search = self.get_search_ob(a_search) + if the_search != None: + self.results.extend(the_search.run()) else: - # We fall back to the dataset type as the key to get the right object - search_type = self.dataset.type - - print("search_type is:", pf(search_type)) - - search_ob = do_search.DoSearch.get_search(search_type) - search_class = getattr(do_search, search_ob) - print("search_class is: ", pf(search_class)) - the_search = search_class(search_term, - search_operator, - self.dataset, - ) - self.results.extend(the_search.run()) - #print("in the search results are:", self.results) - - self.header_fields = the_search.header_fields + self.search_term_exists = False + + if the_search != None: + self.header_fields = the_search.header_fields + + def get_search_ob(self, a_search): + print("[kodak] item is:", pf(a_search)) + search_term = a_search['search_term'] + search_operator = a_search['separator'] + search_type = {} + search_type['dataset_type'] = self.dataset.type + if a_search['key']: + search_type['key'] = a_search['key'].upper() + print("search_type is:", pf(search_type)) + + search_ob = do_search.DoSearch.get_search(search_type) + if search_ob: + search_class = getattr(do_search, search_ob) + print("search_class is: ", pf(search_class)) + the_search = search_class(search_term, + search_operator, + self.dataset, + ) + return the_search + else: + return None diff --git a/wqflask/wqflask/show_trait/SampleList.py b/wqflask/wqflask/show_trait/SampleList.py index d196e722..367bd2dd 100755 --- a/wqflask/wqflask/show_trait/SampleList.py +++ b/wqflask/wqflask/show_trait/SampleList.py @@ -10,6 +10,8 @@ import numpy as np from scipy import stats from pprint import pformat as pf +import itertools + class SampleList(object): def __init__(self, dataset, @@ -24,11 +26,14 @@ class SampleList(object): self.header = header self.sample_list = [] # The actual list + self.sample_attribute_values = {} self.get_attributes() - print("camera: attributes are:", pf(self.attributes)) + if self.this_trait and self.dataset and self.dataset.type == 'ProbeSet': + self.get_extra_attribute_values() + for counter, sample_name in enumerate(sample_names, 1): sample_name = sample_name.replace("_2nd_", "") @@ -55,15 +60,14 @@ class SampleList(object): sample.this_id = "Other_" + str(counter) #### For extra attribute columns; currently only used by several datasets - Zach - if self.this_trait and self.dataset and self.dataset.type == 'ProbeSet': - sample.extra_attributes = self.get_extra_attribute_values(sample_name) + if self.sample_attribute_values: + sample.extra_attributes = self.sample_attribute_values.get(sample_name, {}) print("sample.extra_attributes is", pf(sample.extra_attributes)) self.sample_list.append(sample) print("self.attributes is", pf(self.attributes)) - self.get_z_scores() self.do_outliers() #do_outliers(the_samples) print("*the_samples are [%i]: %s" % (len(self.sample_list), pf(self.sample_list))) @@ -74,50 +78,6 @@ class SampleList(object): def __repr__(self): return "<SampleList> --> %s" % (pf(self.__dict__)) - #def get_z_scores(self): - # values = [sample.value for sample in self.sample_list if sample.value != None] - # dataX = values[:] - # dataX.sort(webqtlUtil.cmpOrder) - # dataY=webqtlUtil.U(len(dataX)) - # z_scores=map(webqtlUtil.inverseCumul, dataY) - # - # print("self.sample_list:", [sample for sample in self.sample_list if sample.value != None]) - # print("z_scores:", len(z_scores)) - # for i, sample in enumerate([sample for sample in self.sample_list if sample.value != None]): - # print("sample is:", sample) - # sample.z_score = z_scores[i] - - - #def get_z_scores(self): - # values = [sample.value for sample in self.sample_list if sample.value != None] - # z_scores = z_score(values) - # - # print("self.sample_list:", [sample for sample in self.sample_list if sample.value != None]) - # print("z_scores:", len(z_scores)) - # for i, sample in enumerate([sample for sample in self.sample_list if sample.value != None]): - # print("sample is:", sample) - # sample.z_score = z_scores[i] - - - def get_z_scores(self): - - - values = [sample.value for sample in self.sample_list if sample.value != None] - numpy_array = np.array(values) - prob_plot = stats.probplot(numpy_array)[0] - print("prob_plot:", prob_plot) - - values = prob_plot[1] - z_scores = prob_plot[0] - print("z_scores:", z_scores) - - - print("self.sample_list:", [sample for sample in self.sample_list if sample.value != None]) - for i, sample in enumerate([sample for sample in self.sample_list if sample.value != None]): - print("sample is:", sample) - sample.z_score = z_scores[i] - sample.prob_plot_value = values[i] - def do_outliers(self): values = [sample.value for sample in self.sample_list if sample.value != None] upper_bound, lower_bound = Plot.find_outliers(values) @@ -131,75 +91,54 @@ class SampleList(object): else: sample.outlier = False - def get_attributes(self): """Finds which extra attributes apply to this dataset""" - - #ZS: Id and name values for this trait's extra attributes - case_attributes = g.db.execute('''SELECT CaseAttribute.Id, CaseAttribute.Name - FROM CaseAttribute, CaseAttributeXRef - WHERE CaseAttributeXRef.ProbeSetFreezeId = %s AND - CaseAttribute.Id = CaseAttributeXRef.CaseAttributeId - group by CaseAttributeXRef.CaseAttributeId''', - (str(self.dataset.id),)) + # Get attribute names and distinct values for each attribute + results = g.db.execute(''' + SELECT DISTINCT CaseAttribute.Id, CaseAttribute.Name, CaseAttributeXRef.Value + FROM CaseAttribute, CaseAttributeXRef + WHERE CaseAttributeXRef.CaseAttributeId = CaseAttribute.Id + AND CaseAttributeXRef.ProbeSetFreezeId = %s + ORDER BY CaseAttribute.Name''', (str(self.dataset.id),)) self.attributes = {} - for key, value in case_attributes.fetchall(): - print("radish: %s - %s" % (key, value)) + for attr, values in itertools.groupby(results.fetchall(), lambda row: (row.Id, row.Name)): + key, name = attr + print("radish: %s - %s" % (key, name)) self.attributes[key] = Bunch() - self.attributes[key].name = value - - attribute_values = g.db.execute('''SELECT DISTINCT CaseAttributeXRef.Value - FROM CaseAttribute, CaseAttributeXRef - WHERE CaseAttribute.Name = %s AND - CaseAttributeXRef.CaseAttributeId = CaseAttribute.Id''', (value,)) - - self.attributes[key].distinct_values = [item[0] for item in attribute_values.fetchall()] + self.attributes[key].name = name + self.attributes[key].distinct_values = [item.Value for item in values] self.attributes[key].distinct_values.sort(key=natural_sort_key) - - def get_extra_attribute_values(self, sample_name): - - attribute_values = {} - + def get_extra_attribute_values(self): if self.attributes: + results = g.db.execute(''' + SELECT Strain.Name AS SampleName, CaseAttributeId AS Id, CaseAttributeXRef.Value + FROM Strain, StrainXRef, InbredSet, CaseAttributeXRef + WHERE StrainXRef.StrainId = Strain.Id + AND InbredSet.Id = StrainXRef.InbredSetId + AND CaseAttributeXRef.StrainId = Strain.Id + AND InbredSet.Name = %s + AND CaseAttributeXRef.ProbeSetFreezeId = %s + ORDER BY SampleName''', + (self.dataset.group.name, self.this_trait.dataset.id)) + + for sample_name, items in itertools.groupby(results.fetchall(), lambda row: row.SampleName): + attribute_values = {} + for item in items: + attribute_value = item.Value + + #ZS: If it's an int, turn it into one for sorting + #(for example, 101 would be lower than 80 if they're strings instead of ints) + try: + attribute_value = int(attribute_value) + except ValueError: + pass + + attribute_values[self.attributes[item.Id].name] = attribute_value + self.sample_attribute_values[sample_name] = attribute_values - #ZS: Get StrainId value for the next query - result = g.db.execute("""SELECT Strain.Id - FROM Strain, StrainXRef, InbredSet - WHERE Strain.Name = %s and - StrainXRef.StrainId = Strain.Id and - InbredSet.Id = StrainXRef.InbredSetId and - InbredSet.Name = %s""", (sample_name, - self.dataset.group.name)) - - sample_id = result.fetchone().Id - - for attribute in self.attributes: - - #ZS: Add extra case attribute values (if any) - result = g.db.execute("""SELECT Value - FROM CaseAttributeXRef - WHERE ProbeSetFreezeId = %s AND - StrainId = %s AND - CaseAttributeId = %s - group by CaseAttributeXRef.CaseAttributeId""", ( - self.this_trait.dataset.id, sample_id, str(attribute))) - - attribute_value = result.fetchone().Value #Trait-specific attributes, if any - - #ZS: If it's an int, turn it into one for sorting - #(for example, 101 would be lower than 80 if they're strings instead of ints) - try: - attribute_value = int(attribute_value) - except ValueError: - pass - - attribute_values[self.attributes[attribute].name] = attribute_value - - return attribute_values - def se_exists(self): """Returns true if SE values exist for any samples, otherwise false""" @@ -243,4 +182,4 @@ def natural_sort_key(x): x = int(x) except ValueError: pass - return x
\ No newline at end of file + return x diff --git a/wqflask/wqflask/show_trait/show_trait.py b/wqflask/wqflask/show_trait/show_trait.py index 929f5abb..850c99a7 100755 --- a/wqflask/wqflask/show_trait/show_trait.py +++ b/wqflask/wqflask/show_trait/show_trait.py @@ -16,6 +16,7 @@ from base import webqtlConfig from base import webqtlCaseData from wqflask.show_trait.SampleList import SampleList from utility import webqtlUtil, Plot, Bunch, helper_functions +from utility.tools import pylmm_command, plink_command from base.trait import GeneralTrait from base import data_set from dbFunction import webqtlDatabaseFunction @@ -23,6 +24,9 @@ from basicStatistics import BasicStatisticsFunctions from pprint import pformat as pf +PYLMM_PATH,PYLMM_COMMAND = pylmm_command() +PLINK_PATH,PLINK_COMMAND = plink_command() + ############################################### # # Todo: Put in security to ensure that user has permission to access confidential data sets @@ -98,11 +102,13 @@ class ShowTrait(object): print("self.dataset.type:", self.dataset.type) if hasattr(self.this_trait, 'locus_chr') and self.this_trait.locus_chr != "" and self.dataset.type != "Geno" and self.dataset.type != "Publish": - self.nearest_marker1 = get_nearest_marker(self.this_trait, self.dataset)[0] - self.nearest_marker2 = get_nearest_marker(self.this_trait, self.dataset)[1] + self.nearest_marker = get_nearest_marker(self.this_trait, self.dataset) + #self.nearest_marker1 = get_nearest_marker(self.this_trait, self.dataset)[0] + #self.nearest_marker2 = get_nearest_marker(self.this_trait, self.dataset)[1] else: - self.nearest_marker1 = "" - self.nearest_marker2 = "" + self.nearest_marker = "" + #self.nearest_marker1 = "" + #self.nearest_marker2 = "" self.make_sample_lists(self.this_trait) @@ -116,13 +122,16 @@ class ShowTrait(object): hddn['mapping_display_all'] = True hddn['suggestive'] = 0 hddn['num_perm'] = 0 - hddn['manhattan_plot'] = False + hddn['manhattan_plot'] = "" if hasattr(self.this_trait, 'locus_chr') and self.this_trait.locus_chr != "" and self.dataset.type != "Geno" and self.dataset.type != "Publish": - hddn['control_marker'] = self.nearest_marker1+","+self.nearest_marker2 + hddn['control_marker'] = self.nearest_marker + #hddn['control_marker'] = self.nearest_marker1+","+self.nearest_marker2 else: hddn['control_marker'] = "" + hddn['do_control'] = False hddn['maf'] = 0.01 hddn['compare_traits'] = [] + hddn['export_data'] = "" # We'll need access to this_trait and hddn in the Jinja2 Template, so we put it inside self self.hddn = hddn @@ -130,30 +139,43 @@ class ShowTrait(object): self.temp_uuid = uuid.uuid4() self.sample_group_types = OrderedDict() - self.sample_group_types['samples_primary'] = self.dataset.group.name + " Only" - self.sample_group_types['samples_other'] = "Non-" + self.dataset.group.name - self.sample_group_types['samples_all'] = "All Cases" + if len(self.sample_groups) > 1: + self.sample_group_types['samples_primary'] = self.dataset.group.name + " Only" + self.sample_group_types['samples_other'] = "Non-" + self.dataset.group.name + self.sample_group_types['samples_all'] = "All Cases" + else: + self.sample_group_types['samples_primary'] = self.dataset.group.name sample_lists = [group.sample_list for group in self.sample_groups] print("sample_lists is:", pf(sample_lists)) - probability_plot_data = [] - sample_vals = [] - sample_z_scores = [] - for sample_list in sample_lists: - for sample in sample_list: - sample_vals.append(sample.prob_plot_value) - sample_z_scores.append(sample.z_score) - probability_plot_data.append(sample_z_scores) - probability_plot_data.append(sample_vals) + self.get_mapping_methods() - js_data = dict(sample_group_types = self.sample_group_types, sample_lists = sample_lists, - probability_plot_data = probability_plot_data, attribute_names = self.sample_groups[0].attributes, temp_uuid = self.temp_uuid) self.js_data = js_data + def get_mapping_methods(self): + '''Only display mapping methods when the dataset group's genotype file exists''' + def check_plink_gemma(): + if (os.path.isfile(PLINK_PATH+"/"+self.dataset.group.name+".bed") and + os.path.isfile(PLINK_PATH+"/"+self.dataset.group.name+".map")): + + return True + else: + return False + + def check_pylmm_rqtl(): + if os.path.isfile(webqtlConfig.GENODIR+self.dataset.group.name+".geno"): + return True + else: + return False + + self.use_plink_gemma = check_plink_gemma() + self.use_pylmm_rqtl = check_pylmm_rqtl() + + def read_data(self, include_f1=False): '''read user input data or from trait data and analysis form''' @@ -236,7 +258,7 @@ class ShowTrait(object): def dispTraitInformation(self, args, title1Body, hddn, this_trait): - _Species = webqtlDatabaseFunction.retrieve_species(group=self.dataset.group.name) + self.species_name = webqtlDatabaseFunction.retrieve_species(group=self.dataset.group.name) #tbl = HT.TableLite(cellpadding=2, Class="collap", style="margin-left:20px;", width="840", valign="top", id="target1") @@ -283,13 +305,13 @@ class ShowTrait(object): # else: # pass - g.db.execute("SELECT Name FROM InbredSet WHERE Name=%s", self.dataset.group.name) + result = g.db.execute("SELECT Name FROM InbredSet WHERE Name=%s", self.dataset.group.name) if this_trait: addSelectionButton = HT.Href(url="#redirect", onClick="addRmvSelection('%s', document.getElementsByName('%s')[0], 'addToSelection');" % (self.dataset.group.name, 'dataInput')) addSelectionButton_img = HT.Image("/images/add_icon.jpg", name="addselect", alt="Add To Collection", title="Add To Collection", style="border:none;") #addSelectionButton.append(addSelectionButton_img) addSelectionText = "Add" - elif self.cursor.fetchall(): + elif result.fetchall(): addSelectionButton = HT.Href(url="#redirect", onClick="dataEditingFunc(document.getElementsByName('%s')[0], 'addRecord');" % ('dataInput')) addSelectionButton_img = HT.Image("/images/add_icon.jpg", name="", alt="Add To Collection", title="Add To Collection", style="border:none;") #addSelectionButton.append(addSelectionButton_img) @@ -310,7 +332,7 @@ class ShowTrait(object): #XZ: Gene Symbol if this_trait.symbol: #XZ: Show SNP Browser only for mouse - if _Species == 'mouse': + if self.species_name == 'mouse': geneName = g.db.execute("SELECT geneSymbol FROM GeneList WHERE geneSymbol = %s", this_trait.symbol).fetchone() if geneName: snpurl = os.path.join(webqtlConfig.CGIDIR, "main.py?FormID=SnpBrowserResultPage&submitStatus=1&diffAlleles=True&customStrain=True") + "&geneName=%s" % geneName[0] @@ -333,8 +355,8 @@ class ShowTrait(object): #XZ: display similar traits in other selected datasets if this_trait and this_trait.dataset and this_trait.dataset.type=="ProbeSet" and this_trait.symbol: - if _Species in ("mouse", "rat", "human"): - similarUrl = "%s?cmd=sch&gene=%s&alias=1&species=%s" % (os.path.join(webqtlConfig.CGIDIR, webqtlConfig.SCRIPTFILE), this_trait.symbol, _Species) + if self.species_name in ("mouse", "rat", "human"): + similarUrl = "%s?cmd=sch&gene=%s&alias=1&species=%s" % (os.path.join(webqtlConfig.CGIDIR, webqtlConfig.SCRIPTFILE), this_trait.symbol, self.species_name) similarButton = HT.Href(url="#redirect", onClick="openNewWin('%s')" % similarUrl) similarButton_img = HT.Image("/images/find_icon.jpg", name="similar", alt=" Find similar expression data ", title=" Find similar expression data ", style="border:none;") similarText = "Find" @@ -368,45 +390,46 @@ class ShowTrait(object): blatsequence = '' for seqt in seqs: if int(seqt[1][-1]) % 2 == 1: - blatsequence += string.strip(seqt[0]) + blatsequence += string.strip(seqt[0])## NEEDED FOR UCSC GENOME BROWSER LINK #--------Hongqiang add this part in order to not only blat ProbeSet, but also blat Probe blatsequence = '%3E'+this_trait.name+'%0A'+blatsequence+'%0A' #XZ, 06/03/2009: ProbeSet name is not unique among platforms. We should use ProbeSet Id instead. - self.cursor.execute("""SELECT Probe.Sequence, Probe.Name + query = """SELECT Probe.Sequence, Probe.Name FROM Probe, ProbeSet, ProbeSetFreeze, ProbeSetXRef WHERE ProbeSetXRef.ProbeSetFreezeId = ProbeSetFreeze.Id AND ProbeSetXRef.ProbeSetId = ProbeSet.Id AND - ProbeSetFreeze.Name = '%s' AND - ProbeSet.Name = '%s' AND - Probe.ProbeSetId = ProbeSet.Id order by Probe.SerialOrder""" % (this_trait.dataset.name, this_trait.name) ) + ProbeSetFreeze.Name = '{}' AND + ProbeSet.Name = '{}' AND + Probe.ProbeSetId = ProbeSet.Id order by Probe.SerialOrder""".format(this_trait.dataset.name, this_trait.name) + + seqs = g.db.execute(query).fetchall() - seqs = self.cursor.fetchall() for seqt in seqs: if int(seqt[1][-1]) %2 == 1: blatsequence += '%3EProbe_'+string.strip(seqt[1])+'%0A'+string.strip(seqt[0])+'%0A' #XZ: Pay attention to the parameter of version (rn, mm, hg). They need to be changed if necessary. - if _Species == "rat": - UCSC_BLAT_URL = webqtlConfig.UCSC_BLAT % ('rat', 'rn3', blatsequence) - UTHSC_BLAT_URL = "" - elif _Species == "mouse": - UCSC_BLAT_URL = webqtlConfig.UCSC_BLAT % ('mouse', 'mm9', blatsequence) - UTHSC_BLAT_URL = webqtlConfig.UTHSC_BLAT % ('mouse', 'mm9', blatsequence) - elif _Species == "human": - UCSC_BLAT_URL = webqtlConfig.UCSC_BLAT % ('human', 'hg19', blatsequence) - UTHSC_BLAT_URL = "" + if self.species_name == "rat": + self.UCSC_BLAT_URL = webqtlConfig.UCSC_BLAT % ('rat', 'rn3', blatsequence) + self.UTHSC_BLAT_URL = "" + elif self.species_name == "mouse": + self.UCSC_BLAT_URL = webqtlConfig.UCSC_BLAT % ('mouse', 'mm9', blatsequence) + self.UTHSC_BLAT_URL = webqtlConfig.UTHSC_BLAT % ('mouse', 'mm9', blatsequence) + elif self.species_name == "human": + self.UCSC_BLAT_URL = webqtlConfig.UCSC_BLAT % ('human', 'hg19', blatsequence) + self.UTHSC_BLAT_URL = "" else: - UCSC_BLAT_URL = "" - UTHSC_BLAT_URL = "" + self.UCSC_BLAT_URL = "" + self.UTHSC_BLAT_URL = "" - if UCSC_BLAT_URL: + if self.UCSC_BLAT_URL != "": verifyButton = HT.Href(url="#", onClick="javascript:openNewWin('%s'); return false;" % UCSC_BLAT_URL) verifyButtonImg = HT.Image("/images/verify_icon.jpg", name="verify", alt=" Check probe locations at UCSC ", title=" Check probe locations at UCSC ", style="border:none;") verifyButton.append(verifyButtonImg) verifyText = 'Verify' - if UTHSC_BLAT_URL: + if self.UTHSC_BLAT_URL != "": rnaseqButton = HT.Href(url="#", onClick="javascript:openNewWin('%s'); return false;" % UTHSC_BLAT_URL) rnaseqButtonImg = HT.Image("/images/rnaseq_icon.jpg", name="rnaseq", alt=" View probes, SNPs, and RNA-seq at UTHSC ", title=" View probes, SNPs, and RNA-seq at UTHSC ", style="border:none;") @@ -426,6 +449,7 @@ class ShowTrait(object): #query database for number of probes associated with trait; if count > 0, set probe tool button and text probeResult = g.db.execute(query).fetchone() if probeResult[0] > 0: + self.show_probes = "True" probeurl = "%s?FormID=showProbeInfo&database=%s&ProbeSetID=%s&CellID=%s&group=%s&incparentsf1=ON" \ % (os.path.join(webqtlConfig.CGIDIR, webqtlConfig.SCRIPTFILE), this_trait.dataset, this_trait.name, this_trait.cellid, self.dataset.group.name) probeButton = HT.Href(url="#", onClick="javascript:openNewWin('%s'); return false;" % probeurl) @@ -433,7 +457,7 @@ class ShowTrait(object): #probeButton.append(probeButton_img) probeText = "Probes" - this_trait.species = _Species # We need this in the template, so we tuck it into this_trait + this_trait.species = self.species_name # We need this in the template, so we tuck it into this_trait this_trait.database = this_trait.get_database() #XZ: ID links @@ -469,62 +493,35 @@ class ShowTrait(object): #XZ: Resource Links: if this_trait.symbol: - linkStyle = "background:#dddddd;padding:2" - tSpan = HT.Span(style="font-family:verdana,serif;font-size:13px") - #XZ,12/26/2008: Gene symbol may contain single quotation mark. #For example, Affymetrix, mouse430v2, 1440338_at, the symbol is 2'-Pde (geneid 211948) #I debug this by using double quotation marks. - if _Species == "rat": - - #XZ, 7/16/2009: The url for SymAtlas (renamed as BioGPS) has changed. We don't need this any more - #symatlas_species = "Rattus norvegicus" - - #self.cursor.execute("SELECT kgID, chromosome,txStart,txEnd FROM GeneList_rn33 WHERE geneSymbol = '%s'" % this_trait.symbol) - self.cursor.execute('SELECT kgID, chromosome,txStart,txEnd FROM GeneList_rn33 WHERE geneSymbol = "%s"' % this_trait.symbol) - try: - kgId, chr, txst, txen = self.cursor.fetchall()[0] + if self.species_name == "rat": + result = g.db.execute("SELECT kgID, chromosome,txStart,txEnd FROM GeneList_rn33 WHERE geneSymbol = %s", (this_trait.symbol)).fetchone() + if result != None: + kgId, chr, txst, txen = result[0], result[1], result[2], result[3] if chr and txst and txen and kgId: txst = int(txst*1000000) txen = int(txen*1000000) - #tSpan.append(HT.Span(HT.Href(text= 'UCSC',target="mainFrame",\ - # title= 'Info from UCSC Genome Browser', url = webqtlConfig.UCSC_REFSEQ % ('rn3',kgId,chr,txst,txen),Class="fs14 fwn"), style=linkStyle) - # , " "*2) - except: - pass - if _Species == "mouse": - - #XZ, 7/16/2009: The url for SymAtlas (renamed as BioGPS) has changed. We don't need this any more - #symatlas_species = "Mus musculus" - - #self.cursor.execute("SELECT chromosome,txStart,txEnd FROM GeneList WHERE geneSymbol = '%s'" % this_trait.symbol) - #try: + if self.species_name == "mouse": print("this_trait.symbol:", this_trait.symbol) result = g.db.execute("SELECT chromosome,txStart,txEnd FROM GeneList WHERE geneSymbol = %s", (this_trait.symbol)).fetchone() if result != None: this_chr, txst, txen = result[0], result[1], result[2] - #this_chr, txst, txen = g.db.execute("SELECT chromosome,txStart,txEnd FROM GeneList WHERE geneSymbol = %s", (this_trait.symbol)).fetchone() if this_chr and txst and txen and this_trait.refseq_transcriptid : txst = int(txst*1000000) txen = int(txen*1000000) - #tSpan.append(HT.Span(HT.Href(text= 'UCSC',target="mainFrame",\ - # title= 'Info from UCSC Genome Browser', url = webqtlConfig.UCSC_REFSEQ % ('mm9', - # this_trait.refseq_transcriptid, - # this_chr, - # txst, - # txen), - # Class="fs14 fwn"), style=linkStyle) - # , " "*2) + ## NEEDED FOR UCSC GENOME BROWSER LINK #XZ, 7/16/2009: The url for SymAtlas (renamed as BioGPS) has changed. We don't need this any more #tSpan.append(HT.Span(HT.Href(text= 'SymAtlas',target="mainFrame",\ # url="http://symatlas.gnf.org/SymAtlas/bioentry?querytext=%s&query=14&species=%s&type=Expression" \ # % (this_trait.symbol,symatlas_species),Class="fs14 fwn", \ # title="Expression across many tissues and cell types"), style=linkStyle), " "*2) - if this_trait.geneid and (_Species == "mouse" or _Species == "rat" or _Species == "human"): + if this_trait.geneid and (self.species_name == "mouse" or self.species_name == "rat" or self.species_name == "human"): #tSpan.append(HT.Span(HT.Href(text= 'BioGPS',target="mainFrame",\ # url="http://biogps.gnf.org/?org=%s#goto=genereport&id=%s" \ - # % (_Species, this_trait.geneid),Class="fs14 fwn", \ + # % (self.species_name, this_trait.geneid),Class="fs14 fwn", \ # title="Expression across many tissues and cell types"), style=linkStyle), " "*2) pass #tSpan.append(HT.Span(HT.Href(text= 'STRING',target="mainFrame",\ @@ -534,13 +531,13 @@ class ShowTrait(object): if this_trait.symbol: #ZS: The "species scientific" converts the plain English species names we're using to their scientific names, which are needed for PANTHER's input #We should probably use the scientific name along with the English name (if not instead of) elsewhere as well, given potential non-English speaking users - if _Species == "mouse": + if self.species_name == "mouse": species_scientific = "Mus%20musculus" - elif _Species == "rat": + elif self.species_name == "rat": species_scientific = "Rattus%20norvegicus" - elif _Species == "human": + elif self.species_name == "human": species_scientific = "Homo%20sapiens" - elif _Species == "drosophila": + elif self.species_name == "drosophila": species_scientific = "Drosophila%20melanogaster" else: species_scientific = "all" @@ -556,7 +553,7 @@ class ShowTrait(object): # url="http://bind.ca/?textquery=%s" \ # % this_trait.symbol,Class="fs14 fwn", \ # title="Protein interactions"), style=linkStyle), " "*2) - #if this_trait.geneid and (_Species == "mouse" or _Species == "rat" or _Species == "human"): + #if this_trait.geneid and (self.species_name == "mouse" or self.species_name == "rat" or self.species_name == "human"): # tSpan.append(HT.Span(HT.Href(text= 'Gemma',target="mainFrame",\ # url="http://www.chibi.ubc.ca/Gemma/gene/showGene.html?ncbiid=%s" \ # % this_trait.geneid, Class="fs14 fwn", \ @@ -565,19 +562,19 @@ class ShowTrait(object): # url="http://lily.uthsc.edu:8080/20091027_GNInterfaces/20091027_redirectSynDB.jsp?query=%s" \ # % this_trait.symbol, Class="fs14 fwn", \ # title="Brain synapse database"), style=linkStyle), " "*2) - #if _Species == "mouse": + #if self.species_name == "mouse": # tSpan.append(HT.Span(HT.Href(text= 'ABA',target="mainFrame",\ # url="http://mouse.brain-map.org/brain/%s.html" \ # % this_trait.symbol, Class="fs14 fwn", \ # title="Allen Brain Atlas"), style=linkStyle), " "*2) if this_trait.geneid: - #if _Species == "mouse": + #if self.species_name == "mouse": # tSpan.append(HT.Span(HT.Href(text= 'ABA',target="mainFrame",\ # url="http://www.brain-map.org/search.do?queryText=egeneid=%s" \ # % this_trait.geneid, Class="fs14 fwn", \ # title="Allen Brain Atlas"), style=linkStyle), " "*2) - if _Species == "human": + if self.species_name == "human": #tSpan.append(HT.Span(HT.Href(text= 'ABA',target="mainFrame",\ # url="http://humancortex.alleninstitute.org/has/human/imageseries/search/1.html?searchSym=t&searchAlt=t&searchName=t&gene_term=&entrez_term=%s" \ # % this_trait.geneid, Class="fs14 fwn", \ @@ -680,13 +677,13 @@ class ShowTrait(object): location = "not available" #if this_trait.sequence and len(this_trait.sequence) > 100: - # if _Species == "rat": + # if self.species_name == "rat": # UCSC_BLAT_URL = webqtlConfig.UCSC_BLAT % ('rat', 'rn3', this_trait.sequence) # UTHSC_BLAT_URL = webqtlConfig.UTHSC_BLAT % ('rat', 'rn3', this_trait.sequence) - # elif _Species == "mouse": + # elif self.species_name == "mouse": # UCSC_BLAT_URL = webqtlConfig.UCSC_BLAT % ('mouse', 'mm9', this_trait.sequence) # UTHSC_BLAT_URL = webqtlConfig.UTHSC_BLAT % ('mouse', 'mm9', this_trait.sequence) - # elif _Species == "human": + # elif self.species_name == "human": # UCSC_BLAT_URL = webqtlConfig.UCSC_BLAT % ('human', 'hg19', blatsequence) # UTHSC_BLAT_URL = webqtlConfig.UTHSC_BLAT % ('human', 'hg19', this_trait.sequence) # else: @@ -914,40 +911,7 @@ class ShowTrait(object): this_group = 'BXD' if this_group: - - dataset_menu = [] - print("[tape4] webqtlConfig.PUBLICTHRESH:", webqtlConfig.PUBLICTHRESH) - print("[tape4] type webqtlConfig.PUBLICTHRESH:", type(webqtlConfig.PUBLICTHRESH)) - results = g.db.execute("""SELECT PublishFreeze.FullName,PublishFreeze.Name FROM - PublishFreeze,InbredSet WHERE PublishFreeze.InbredSetId = InbredSet.Id - and InbredSet.Name = %s and PublishFreeze.public > %s""", - (this_group, webqtlConfig.PUBLICTHRESH)) - for item in results.fetchall(): - dataset_menu.append(dict(tissue=None, - datasets=[item])) - - results = g.db.execute("""SELECT GenoFreeze.FullName,GenoFreeze.Name FROM GenoFreeze, - InbredSet WHERE GenoFreeze.InbredSetId = InbredSet.Id and InbredSet.Name = - %s and GenoFreeze.public > %s""", - (this_group, webqtlConfig.PUBLICTHRESH)) - for item in results.fetchall(): - dataset_menu.append(dict(tissue=None, - datasets=[item])) - - #03/09/2009: Xiaodong changed the SQL query to order by Name as requested by Rob. - tissues = g.db.execute("SELECT Id, Name FROM Tissue order by Name") - for item in tissues.fetchall(): - tissue_id, tissue_name = item - data_sets = g.db.execute('''SELECT ProbeSetFreeze.FullName,ProbeSetFreeze.Name FROM ProbeSetFreeze, ProbeFreeze, - InbredSet WHERE ProbeSetFreeze.ProbeFreezeId = ProbeFreeze.Id and ProbeFreeze.TissueId = %s and - ProbeSetFreeze.public > %s and ProbeFreeze.InbredSetId = InbredSet.Id and InbredSet.Name like %s - order by ProbeSetFreeze.CreateTime desc, ProbeSetFreeze.AvgId ''', - (tissue_id, webqtlConfig.PUBLICTHRESH, "%" + this_group + "%")) - dataset_sub_menu = [item for item in data_sets.fetchall() if item] - if dataset_sub_menu: - dataset_menu.append(dict(tissue=tissue_name, - datasets=dataset_sub_menu)) - + dataset_menu = self.dataset.group.datasets() dataset_menu_selected = None if len(dataset_menu): if this_trait and this_trait.dataset: @@ -965,7 +929,7 @@ class ShowTrait(object): def build_mapping_tools(self, this_trait): - _Species = webqtlDatabaseFunction.retrieveSpecies(cursor=self.cursor, group=fd.group) + #_Species = webqtlDatabaseFunction.retrieveSpecies(cursor=self.cursor, group=fd.group) this_group = fd.group if this_group[:3] == 'BXD': @@ -1217,18 +1181,9 @@ class ShowTrait(object): def make_sample_lists(self, this_trait): - if self.dataset.group.parlist: - all_samples_ordered = (self.dataset.group.parlist + - self.dataset.group.f1list + - self.dataset.group.samplelist) - elif self.dataset.group.f1list: - all_samples_ordered = self.dataset.group.f1list + self.dataset.group.samplelist - else: - all_samples_ordered = self.dataset.group.samplelist - - this_trait_samples = set(this_trait.data.keys()) + all_samples_ordered = self.dataset.group.all_samples_ordered() - primary_sample_names = all_samples_ordered + primary_sample_names = list(all_samples_ordered) print("self.dataset.group", pf(self.dataset.group.__dict__)) print("-*- primary_samplelist is:", pf(primary_sample_names)) @@ -1239,14 +1194,10 @@ class ShowTrait(object): all_samples_ordered.append(sample) other_sample_names.append(sample) - other_sample_names, all_samples_ordered = get_samplelist_from_trait_data(this_trait, - all_samples_ordered) - - print("species:", self.dataset.group.species) if self.dataset.group.species == "human": primary_sample_names += other_sample_names - + primary_samples = SampleList(dataset = self.dataset, sample_names=primary_sample_names, this_trait=this_trait, @@ -1282,36 +1233,29 @@ class ShowTrait(object): # print("hjs") self.dataset.group.allsamples = all_samples_ordered - -def get_samplelist_from_trait_data(this_trait, all_samples_ordered): - other_sample_names = [] - for sample in this_trait.data.keys(): - if sample not in all_samples_ordered: - all_samples_ordered.append(sample) - other_sample_names.append(sample) - - return other_sample_names, all_samples_ordered - def get_nearest_marker(this_trait, this_db): this_chr = this_trait.locus_chr print("this_chr:", this_chr) this_mb = this_trait.locus_mb print("this_mb:", this_mb) + #One option is to take flanking markers, another is to take the two (or one) closest query = """SELECT Geno.Name FROM Geno, GenoXRef, GenoFreeze WHERE Geno.Chr = '{}' AND GenoXRef.GenoId = Geno.Id AND GenoFreeze.Id = GenoXRef.GenoFreezeId AND GenoFreeze.Name = '{}' - ORDER BY ABS( Geno.Mb - {}) LIMIT 2""".format(this_chr, this_db.group.name+"Geno", this_mb) + ORDER BY ABS( Geno.Mb - {}) LIMIT 1""".format(this_chr, this_db.group.name+"Geno", this_mb) print("query:", query) result = g.db.execute(query).fetchall() print("result:", result) if result == []: - return "", "" + return "" + #return "", "" else: - return result[0][0], result[1][0] + return result[0][0] + #return result[0][0], result[1][0] diff --git a/wqflask/wqflask/static/new/css/bar_chart.css b/wqflask/wqflask/static/new/css/bar_chart.css index 78d31eee..20730c2f 100755 --- a/wqflask/wqflask/static/new/css/bar_chart.css +++ b/wqflask/wqflask/static/new/css/bar_chart.css @@ -1,15 +1,23 @@ -.barchart .axis path,
-.barchart .axis line {
- fill: none;
- stroke: #000;
- shape-rendering: crispEdges;
-}
-
-.bar {
- fill: steelblue;
- shape-rendering: crispEdges;
-}
-/*
-.x.axis path {
- display: none;
-}*/
\ No newline at end of file +.barchart .axis path, +.barchart .axis line { + fill: none; + stroke: #000; + shape-rendering: crispEdges; +} + +.bar { + fill: steelblue; + shape-rendering: crispEdges; +} + +#legend-left, #legend-right { + font-size: 20px; +} + +.nvd3 .nv-group { + fill-opacity: .9 !important; +} + +.nvtooltip table td.legend-color-guide div { + display: none; +}
\ No newline at end of file diff --git a/wqflask/wqflask/static/new/css/charts.css b/wqflask/wqflask/static/new/css/charts.css index 5f2d4d23..0ce88c15 100644 --- a/wqflask/wqflask/static/new/css/charts.css +++ b/wqflask/wqflask/static/new/css/charts.css @@ -25,4 +25,4 @@ p { p#caption {
margin-left: 100px;
width: 500px;
-}
+}
\ No newline at end of file diff --git a/wqflask/wqflask/static/new/css/prob_plot.css b/wqflask/wqflask/static/new/css/prob_plot.css new file mode 100644 index 00000000..2a1f8f53 --- /dev/null +++ b/wqflask/wqflask/static/new/css/prob_plot.css @@ -0,0 +1,3 @@ +#prob_plot_title { + text-align: center; +}
\ No newline at end of file diff --git a/wqflask/wqflask/static/new/css/scatter-matrix.css b/wqflask/wqflask/static/new/css/scatter-matrix.css index 147903be..58150b26 100644 --- a/wqflask/wqflask/static/new/css/scatter-matrix.css +++ b/wqflask/wqflask/static/new/css/scatter-matrix.css @@ -1,9 +1,9 @@ #scatter-matrix { font-size: 14px; } -.axis { shape-rendering: crispEdges; } -.axis line { stroke: #ddd; stroke-width: 1px; } -.axis path { display: none; } -.axis text { font-size: 0.8em; } +#scatter-matrix .axis { shape-rendering: crispEdges; } +#scatter-matrix .axis line { stroke: #ddd; stroke-width: 1px; } +#scatter-matrix .axis path { display: none; } +#scatter-matrix .axis text { font-size: 0.8em; } rect.extent { fill: #000; fill-opacity: .125; stroke: #fff; } rect.frame { fill: #fff; fill-opacity: .7; stroke: #aaa; } diff --git a/wqflask/wqflask/static/new/css/show_trait.css b/wqflask/wqflask/static/new/css/show_trait.css index 9fc82a85..1e9fd4df 100644 --- a/wqflask/wqflask/static/new/css/show_trait.css +++ b/wqflask/wqflask/static/new/css/show_trait.css @@ -4,4 +4,8 @@ tr .outlier { #bar_chart_container { overflow-x:scroll; +} + +div.sample_group { + overflow: auto; # needed because it contains float dataTable wrapper }
\ No newline at end of file diff --git a/wqflask/wqflask/static/new/javascript/bar_chart.coffee b/wqflask/wqflask/static/new/javascript/bar_chart.coffee index c83de64e..7558de80 100755 --- a/wqflask/wqflask/static/new/javascript/bar_chart.coffee +++ b/wqflask/wqflask/static/new/javascript/bar_chart.coffee @@ -1,191 +1,159 @@ root = exports ? this class Bar_Chart - constructor: (@sample_list) -> + constructor: (sample_lists) -> + @sample_lists = {} + l1 = @sample_lists['samples_primary'] = sample_lists[0] or [] + l2 = @sample_lists['samples_other'] = sample_lists[1] or [] + + l1_names = (x.name for x in l1) + l3 = l1.concat((x for x in l2 when x.name not in l1_names)) + @sample_lists['samples_all'] = l3 + longest_sample_name_len = d3.max(sample.name.length for sample in l3) + @margin = { + top: 20, + right: 20, + bottom: longest_sample_name_len * 6, + left: 40 + } + + @attributes = (key for key of sample_lists[0][0]["extra_attributes"]) + @sample_attr_vals = (@extra(s) for s in @sample_lists['samples_all']\ + when s.value != null) + @get_distinct_attr_vals() + @get_attr_color_dict(@distinct_attr_vals) + @attribute_name = "None" + @sort_by = "name" - @get_samples() - console.log("sample names:", @sample_names) - if @sample_attr_vals.length > 0 - @get_distinct_attr_vals() - @get_attr_color_dict(@distinct_attr_vals) - - #Used to calculate the bottom margin so sample names aren't cut off - longest_sample_name = d3.max(sample.length for sample in @sample_names) - - @margin = {top: 20, right: 20, bottom: longest_sample_name * 7, left: 40} - @plot_width = @sample_vals.length * 20 - @margin.left - @margin.right - @range = @sample_vals.length * 20 - @plot_height = 500 - @margin.top - @margin.bottom - - @x_buffer = @plot_width/20 - @y_buffer = @plot_height/20 - - @y_min = d3.min(@sample_vals) - @y_max = d3.max(@sample_vals) * 1.1 - - @svg = @create_svg() - - @plot_height -= @y_buffer - @create_scales() - @create_graph() + @chart = null + + @select_attribute_box = $ "#color_attribute" d3.select("#color_attribute").on("change", => - @attribute = $("#color_attribute").val() - console.log("attr_color_dict:", @attr_color_dict) - #if $("#update_bar_chart").html() == 'Sort By Name' - if @sort_by = "name" - @svg.selectAll(".bar") - .data(@sorted_samples()) - .transition() - .duration(1000) - .style("fill", (d) => - if @attribute == "None" - return "steelblue" - else - return @attr_color_dict[@attribute][d[2][@attribute]] - ) - .select("title") - .text((d) => - return d[1] - ) - else - @svg.selectAll(".bar") - .data(@samples) - .transition() - .duration(1000) - .style("fill", (d) => - if @attribute == "None" - return "steelblue" - else - return @attr_color_dict[@attribute][d[2][@attribute]] - ) - @draw_legend() - @add_legend(@attribute, @distinct_attr_vals[@attribute]) + @attribute_name = @select_attribute_box.val() + @rebuild_bar_graph() ) $(".sort_by_value").on("click", => console.log("sorting by value") @sort_by = "value" - if @attributes.length > 0 - @attribute = $("#color_attribute").val() - #sortItems = (a, b) -> - # return a[1] - b[1] - @rebuild_bar_graph(@sorted_samples()) - #@svg.selectAll(".bar") - # .data(@sorted_samples()) - # .transition() - # .duration(1000) - # .attr("y", (d) => - # return @y_scale(d[1]) - # ) - # .attr("height", (d) => - # return @plot_height - @y_scale(d[1]) - # ) - # .select("title") - # .text((d) => - # return d[1] - # ) - # #.style("fill", (d) => - # # if @attributes.length > 0 - # # return @attr_color_dict[attribute][d[2][attribute]] - # # else - # # return "steelblue" - # #) - #sorted_sample_names = (sample[0] for sample in @sorted_samples()) - #x_scale = d3.scale.ordinal() - # .domain(sorted_sample_names) - # .rangeBands([0, @plot_width], .1) - #$('.x.axis').remove() - #@add_x_axis(x_scale) + @rebuild_bar_graph() ) - + $(".sort_by_name").on("click", => console.log("sorting by name") @sort_by = "name" - if @attributes.length > 0 - @attribute = $("#color_attribute").val() - @rebuild_bar_graph(@samples) - #@svg.selectAll(".bar") - # .data(@samples) - # .transition() - # .duration(1000) - # .attr("y", (d) => - # return @y_scale(d[1]) - # ) - # .attr("height", (d) => - # return @plot_height - @y_scale(d[1]) - # ) - # .select("title") - # .text((d) => - # return d[1] - # ) - # .style("fill", (d) => - # if @attributes.length > 0 - # return @attr_color_dict[attribute][d[2][attribute]] - # else - # return "steelblue" - # ) - #x_scale = d3.scale.ordinal() - # .domain(@sample_names) - # .rangeBands([0, @plot_width], .1) - #$('.x.axis').remove() - #@add_x_axis(x_scale) + @rebuild_bar_graph() ) d3.select("#color_by_trait").on("click", => @open_trait_selection() ) - rebuild_bar_graph: (samples) -> - console.log("samples:", samples) - @svg.selectAll(".bar") - .data(samples) - .transition() - .duration(1000) - .style("fill", (d) => - if @attributes.length == 0 and @trait_color_dict? - console.log("SAMPLE:", d[0]) - console.log("CHECKING:", @trait_color_dict[d[0]]) - #return "steelblue" - return @trait_color_dict[d[0]] - else if @attributes.length > 0 and @attribute != "None" - console.log("@attribute:", @attribute) - console.log("d[2]", d[2]) - console.log("the_color:", @attr_color_dict[@attribute][d[2][@attribute]]) - return @attr_color_dict[@attribute][d[2][@attribute]] - else - return "steelblue" - ) - .attr("y", (d) => - return @y_scale(d[1]) - ) - .attr("height", (d) => - return @plot_height - @y_scale(d[1]) + value: (sample) -> + @value_dict[sample.name].value + + variance: (sample) -> + @value_dict[sample.name].variance + + extra: (sample) -> + attr_vals = {} + for attribute in @attributes + attr_vals[attribute] = sample["extra_attributes"][attribute] + attr_vals + + # takes a dict: name -> value and rebuilds the graph + redraw: (samples_dict, selected_group) -> + @value_dict = samples_dict[selected_group] + @raw_data = (x for x in @sample_lists[selected_group] when\ + x.name of @value_dict and @value(x) != null) + @rebuild_bar_graph() + + rebuild_bar_graph: -> + raw_data = @raw_data.slice() + if @sort_by == 'value' + raw_data = raw_data.sort((x, y) => @value(x) - @value(y)) + console.log("raw_data: ", raw_data) + + h = 600 + container = $("#bar_chart_container") + container.height(h + @margin.top + @margin.bottom) + if @chart is null + @chart = nv.models.multiBarChart() + .height(h) + .errorBarColor(=> 'red') + .reduceXTicks(false) + .staggerLabels(false) + .showControls(false) + .showLegend(false) + + # show value, sd, and attributes in tooltip + @chart.multibar.dispatch.on('elementMouseover.tooltip', + (evt) => + evt.value = @chart.x()(evt.data); + evt['series'] = [{ + key: 'Value', + value: evt.data.y, + color: evt.color + }]; + if evt.data.yErr + evt['series'].push({key: 'SE', value: evt.data.yErr}) + if evt.data.attr + for k, v of evt.data.attr + evt['series'].push({key: k, value: v}) + @chart.tooltip.data(evt).hidden(false); ) - .select("title") - .text((d) => - return d[1] + + @chart.tooltip.valueFormatter((d, i) -> d) + + nv.addGraph(() => + @remove_legend() + values = ({x: s.name, y: @value(s), yErr: @variance(s) or 0,\ + attr: s.extra_attributes}\ + for s in raw_data) + + if @attribute_name != "None" + @color_dict = @attr_color_dict[@attribute_name] + @chart.barColor((d) => @color_dict[d.attr[@attribute_name]]) + @add_legend() + else + @chart.barColor(=> 'steelblue') + + @chart.width(raw_data.length * 20) + @chart.yDomain([0.9 * _.min((d.y - 1.5 * d.yErr for d in values)), + 1.05 * _.max((d.y + 1.5 * d.yErr for d in values))]) + console.log("values: ", values) + d3.select("#bar_chart_container svg") + .datum([{values: values}]) + .style('width', raw_data.length * 20 + 'px') + .transition().duration(1000) + .call(@chart) + + d3.select("#bar_chart_container .nv-x") + .selectAll('.tick text') + .style("font-size", "12px") + .style("text-anchor", "end") + .attr("dx", "-.8em") + .attr("dy", "-.3em") + .attr("transform", (d) => + return "rotate(-90)" + ) + + return @chart ) - #.style("fill", (d) => - # return @trait_color_dict[d[0]] - # #return @attr_color_dict["collection_trait"][trimmed_samples[d[0]]] - #) - sample_names = (sample[0] for sample in samples) - console.log("sample_names2:", sample_names) - x_scale = d3.scale.ordinal() - .domain(sample_names) - .rangeRoundBands([0, @range], 0.1, 0) - $('.bar_chart').find('.x.axis').remove() - @add_x_axis(x_scale) get_attr_color_dict: (vals) -> @attr_color_dict = {} + @is_discrete = {} + @minimum_values = {} + @maximum_values = {} console.log("vals:", vals) for own key, distinct_vals of vals @min_val = d3.min(distinct_vals) @max_val = d3.max(distinct_vals) this_color_dict = {} - if distinct_vals.length < 10 + discrete = distinct_vals.length < 10 + if discrete color = d3.scale.category10() for value, i in distinct_vals this_color_dict[value] = color(i) @@ -200,8 +168,7 @@ class Bar_Chart return true ) color_range = d3.scale.linear() - .domain([min_val, - max_val]) + .domain([@min_val, @max_val]) .range([0,255]) for value, i in distinct_vals console.log("color_range(value):", parseInt(color_range(value))) @@ -209,79 +176,12 @@ class Bar_Chart #this_color_dict[value] = d3.rgb("lightblue").darker(color_range(parseInt(value))) #this_color_dict[value] = "rgb(0, 0, " + color_range(parseInt(value)) + ")" @attr_color_dict[key] = this_color_dict - - - - draw_legend: () -> - $('#legend-left').html(@min_val) - $('#legend-right').html(@max_val) - svg_html = '<svg height="10" width="90"> \ - <rect x="0" width="15" height="10" style="fill: rgb(0, 0, 0);"></rect> \ - <rect x="15" width="15" height="10" style="fill: rgb(50, 0, 0);"></rect> \ - <rect x="30" width="15" height="10" style="fill: rgb(100, 0, 0);"></rect> \ - <rect x="45" width="15" height="10" style="fill: rgb(150, 0, 0);"></rect> \ - <rect x="60" width="15" height="10" style="fill: rgb(200, 0, 0);"></rect> \ - <rect x="75" width="15" height="10" style="fill: rgb(255, 0, 0);"></rect> \ - </svg>' - console.log("svg_html:", svg_html) - $('#legend-colors').html(svg_html) - - get_trait_color_dict: (samples, vals) -> - @trait_color_dict = {} - console.log("vals:", vals) - for own key, distinct_vals of vals - this_color_dict = {} - @min_val = d3.min(distinct_vals) - @max_val = d3.max(distinct_vals) - if distinct_vals.length < 10 - color = d3.scale.category10() - for value, i in distinct_vals - this_color_dict[value] = color(i) - else - console.log("distinct_values:", distinct_vals) - #Check whether all values are numbers, and if they are get a corresponding - #color gradient - if _.every(distinct_vals, (d) => - if isNaN(d) - return false - else - return true - ) - color_range = d3.scale.linear() - .domain([d3.min(distinct_vals), - d3.max(distinct_vals)]) - .range([0,255]) - for value, i in distinct_vals - console.log("color_range(value):", parseInt(color_range(value))) - this_color_dict[value] = d3.rgb(parseInt(color_range(value)),0, 0) - for own sample, value of samples - @trait_color_dict[sample] = this_color_dict[value] - - convert_into_colors: (values) -> - color_range = d3.scale.linear() - .domain([d3.min(values), - d3.max(values)]) - .range([0,255]) - for value, i in values - console.log("color_range(value):", color_range(parseInt(value))) - this_color_dict[value] = d3.rgb(color_range(parseInt(value)),0, 0) - #this_color_dict[value] = d3.rgb("lightblue").darker(color_range(parseInt(value))) - - get_samples: () -> - @sample_names = (sample.name for sample in @sample_list when sample.value != null) - @sample_vals = (sample.value for sample in @sample_list when sample.value != null) - @attributes = (key for key of @sample_list[0]["extra_attributes"]) - console.log("attributes:", @attributes) - @sample_attr_vals = [] - if @attributes.length > 0 - for sample in @sample_list - attr_vals = {} - for attribute in @attributes - attr_vals[attribute] = sample["extra_attributes"][attribute] - @sample_attr_vals.push(attr_vals) - @samples = _.zip(@sample_names, @sample_vals, @sample_attr_vals) + @is_discrete[key] = discrete + @minimum_values[key] = @min_val + @maximum_values[key] = @max_val get_distinct_attr_vals: () -> + # FIXME: this has quadratic behaviour, may cause issues with many samples and continuous attributes @distinct_attr_vals = {} for sample in @sample_attr_vals for attribute of sample @@ -290,134 +190,45 @@ class Bar_Chart if sample[attribute] not in @distinct_attr_vals[attribute] @distinct_attr_vals[attribute].push(sample[attribute]) #console.log("distinct_attr_vals:", @distinct_attr_vals) - - create_svg: () -> - svg = d3.select("#bar_chart") - .append("svg") - .attr("class", "bar_chart") - .attr("width", @plot_width + @margin.left + @margin.right) - .attr("height", @plot_height + @margin.top + @margin.bottom) - .append("g") - .attr("transform", "translate(" + @margin.left + "," + @margin.top + ")") - - return svg - - create_scales: () -> - @x_scale = d3.scale.ordinal() - .domain(@sample_names) - .rangeRoundBands([0, @range], 0.1, 0) - - @y_scale = d3.scale.linear() - .domain([@y_min * 0.75, @y_max]) - .range([@plot_height, @y_buffer]) - - create_graph: () -> - - #@add_border() - @add_x_axis(@x_scale) - @add_y_axis() - - @add_bars() - - add_x_axis: (scale) -> - xAxis = d3.svg.axis() - .scale(scale) - .orient("bottom"); - - @svg.append("g") - .attr("class", "x axis") - .attr("transform", "translate(0," + @plot_height + ")") - .call(xAxis) - .selectAll("text") - .style("text-anchor", "end") - .style("font-size", "12px") - .attr("dx", "-.8em") - .attr("dy", "-.3em") - .attr("transform", (d) => - return "rotate(-90)" - ) - add_y_axis: () -> - yAxis = d3.svg.axis() - .scale(@y_scale) - .orient("left") - .ticks(5) - - @svg.append("g") - .attr("class", "y axis") - .call(yAxis) - .append("text") - .attr("transform", "rotate(-90)") - .attr("y", 6) - .attr("dy", ".71em") - .style("text-anchor", "end") - - add_bars: () -> - @svg.selectAll(".bar") - .data(@samples) - .enter().append("rect") - .style("fill", "steelblue") - .attr("class", "bar") - .attr("x", (d) => - return @x_scale(d[0]) - ) - .attr("width", @x_scale.rangeBand()) - .attr("y", (d) => - return @y_scale(d[1]) - ) - .attr("height", (d) => - return @plot_height - @y_scale(d[1]) - ) - .append("svg:title") - .text((d) => - return d[1] + add_legend: => + if @is_discrete[@attribute_name] + @add_legend_discrete() + else + @add_legend_continuous() + + remove_legend: => + $(".legend").remove() + $("#legend-left,#legend-right,#legend-colors").empty() + + add_legend_continuous: => + $('#legend-left').html(@minimum_values[@attribute_name]) + $('#legend-right').html(@maximum_values[@attribute_name]) + svg_html = '<svg height="15" width="120"> \ + <rect x="0" width="20" height="15" style="fill: rgb(0, 0, 0);"></rect> \ + <rect x="20" width="20" height="15" style="fill: rgb(50, 0, 0);"></rect> \ + <rect x="40" width="20" height="15" style="fill: rgb(100, 0, 0);"></rect> \ + <rect x="60" width="20" height="15" style="fill: rgb(150, 0, 0);"></rect> \ + <rect x="80" width="20" height="15" style="fill: rgb(200, 0, 0);"></rect> \ + <rect x="100" width="20" height="15" style="fill: rgb(255, 0, 0);"></rect> \ + </svg>' + console.log("svg_html:", svg_html) + $('#legend-colors').html(svg_html) + + add_legend_discrete: => + legend_span = d3.select('#bar_chart_legend') + .append('div').style('word-wrap', 'break-word') + .attr('class', 'legend').selectAll('span') + .data(@distinct_attr_vals[@attribute_name]) + .enter().append('span').style({'word-wrap': 'normal', 'display': 'inline-block'}) + + legend_span.append('span') + .style("background-color", (d) => + return @attr_color_dict[@attribute_name][d] ) - - - sorted_samples: () -> - #if @sample_attr_vals.length > 0 - sample_list = _.zip(@sample_names, @sample_vals, @sample_attr_vals) - #else - # sample_list = _.zip(@sample_names, @sample_vals) - sorted = _.sortBy(sample_list, (sample) => - return sample[1] - ) - console.log("sorted:", sorted) - return sorted - - add_legend: (attribute, distinct_vals) -> - legend = @svg.append("g") - .attr("class", "legend") - .attr("height", 100) - .attr("width", 100) - .attr('transform', 'translate(-20,50)') - - legend_rect = legend.selectAll('rect') - .data(distinct_vals) - .enter() - .append("rect") - .attr("x", @plot_width - 65) - .attr("width", 10) - .attr("height", 10) - .attr("y", (d, i) => - return i * 20 - ) - .style("fill", (d) => - console.log("TEST:", @attr_color_dict[attribute][d]) - return @attr_color_dict[attribute][d] - ) - - legend_text = legend.selectAll('text') - .data(distinct_vals) - .enter() - .append("text") - .attr("x", @plot_width - 52) - .attr("y", (d, i) => - return i*20 + 9 - ) - .text((d) => - return d - ) + .style({'display': 'inline-block', 'width': '15px', 'height': '15px',\ + 'margin': '0px 5px 0px 15px'}) + legend_span.append('span').text((d) => return d).style('font-size', '20px') open_trait_selection: () -> $('#collections_holder').load('/collections/list?color_by_trait #collections_list', => @@ -432,7 +243,7 @@ class Bar_Chart # console.log("contents:", $(element).contents()) # $(element).contents().unwrap() ) - + color_by_trait: (trait_sample_data) -> console.log("BXD1:", trait_sample_data["BXD1"]) console.log("trait_sample_data:", trait_sample_data) @@ -443,34 +254,7 @@ class Bar_Chart @get_trait_color_dict(trimmed_samples, distinct_values) console.log("TRAIT_COLOR_DICT:", @trait_color_dict) console.log("SAMPLES:", @samples) - if @sort_by = "value" - @svg.selectAll(".bar") - .data(@samples) - .transition() - .duration(1000) - .style("fill", (d) => - console.log("this color:", @trait_color_dict[d[0]]) - return @trait_color_dict[d[0]] - ) - .select("title") - .text((d) => - return d[1] - ) - @draw_legend() - else - @svg.selectAll(".bar") - .data(@sorted_samples()) - .transition() - .duration(1000) - .style("fill", (d) => - console.log("this color:", @trait_color_dict[d[0]]) - return @trait_color_dict[d[0]] - ) - .select("title") - .text((d) => - return d[1] - ) - @draw_legend() + # TODO trim_values: (trait_sample_data) -> trimmed_samples = {} @@ -488,4 +272,4 @@ class Bar_Chart #for sample in samples # if samples[sample] in distinct_values -root.Bar_Chart = Bar_Chart
\ No newline at end of file +root.Bar_Chart = Bar_Chart diff --git a/wqflask/wqflask/static/new/javascript/bar_chart.js b/wqflask/wqflask/static/new/javascript/bar_chart.js index f5ed544b..7ec35148 100755 --- a/wqflask/wqflask/static/new/javascript/bar_chart.js +++ b/wqflask/wqflask/static/new/javascript/bar_chart.js @@ -1,494 +1,487 @@ -// Generated by CoffeeScript 1.8.0 -var Bar_Chart, root, - __hasProp = {}.hasOwnProperty, - __indexOf = [].indexOf || function(item) { for (var i = 0, l = this.length; i < l; i++) { if (i in this && this[i] === item) return i; } return -1; }; +// Generated by CoffeeScript 1.9.2 +(function() { + var Bar_Chart, root, + bind = function(fn, me){ return function(){ return fn.apply(me, arguments); }; }, + indexOf = [].indexOf || function(item) { for (var i = 0, l = this.length; i < l; i++) { if (i in this && this[i] === item) return i; } return -1; }, + hasProp = {}.hasOwnProperty; -root = typeof exports !== "undefined" && exports !== null ? exports : this; + root = typeof exports !== "undefined" && exports !== null ? exports : this; -Bar_Chart = (function() { - function Bar_Chart(sample_list) { - var longest_sample_name, sample; - this.sample_list = sample_list; - this.sort_by = "name"; - this.get_samples(); - console.log("sample names:", this.sample_names); - if (this.sample_attr_vals.length > 0) { - this.get_distinct_attr_vals(); - this.get_attr_color_dict(this.distinct_attr_vals); - } - longest_sample_name = d3.max((function() { - var _i, _len, _ref, _results; - _ref = this.sample_names; - _results = []; - for (_i = 0, _len = _ref.length; _i < _len; _i++) { - sample = _ref[_i]; - _results.push(sample.length); - } - return _results; - }).call(this)); - this.margin = { - top: 20, - right: 20, - bottom: longest_sample_name * 7, - left: 40 - }; - this.plot_width = this.sample_vals.length * 20 - this.margin.left - this.margin.right; - this.range = this.sample_vals.length * 20; - this.plot_height = 500 - this.margin.top - this.margin.bottom; - this.x_buffer = this.plot_width / 20; - this.y_buffer = this.plot_height / 20; - this.y_min = d3.min(this.sample_vals); - this.y_max = d3.max(this.sample_vals) * 1.1; - this.svg = this.create_svg(); - this.plot_height -= this.y_buffer; - this.create_scales(); - this.create_graph(); - d3.select("#color_attribute").on("change", (function(_this) { - return function() { - _this.attribute = $("#color_attribute").val(); - console.log("attr_color_dict:", _this.attr_color_dict); - if (_this.sort_by = "name") { - _this.svg.selectAll(".bar").data(_this.sorted_samples()).transition().duration(1000).style("fill", function(d) { - if (_this.attribute === "None") { - return "steelblue"; - } else { - return _this.attr_color_dict[_this.attribute][d[2][_this.attribute]]; - } - }).select("title").text(function(d) { - return d[1]; - }); - } else { - _this.svg.selectAll(".bar").data(_this.samples).transition().duration(1000).style("fill", function(d) { - if (_this.attribute === "None") { - return "steelblue"; - } else { - return _this.attr_color_dict[_this.attribute][d[2][_this.attribute]]; - } - }); + Bar_Chart = (function() { + function Bar_Chart(sample_lists) { + this.add_legend_discrete = bind(this.add_legend_discrete, this); + this.add_legend_continuous = bind(this.add_legend_continuous, this); + this.remove_legend = bind(this.remove_legend, this); + this.add_legend = bind(this.add_legend, this); + var key, l1, l1_names, l2, l3, longest_sample_name_len, s, sample, x; + this.sample_lists = {}; + l1 = this.sample_lists['samples_primary'] = sample_lists[0] || []; + l2 = this.sample_lists['samples_other'] = sample_lists[1] || []; + l1_names = (function() { + var j, len, results; + results = []; + for (j = 0, len = l1.length; j < len; j++) { + x = l1[j]; + results.push(x.name); } - _this.draw_legend(); - return _this.add_legend(_this.attribute, _this.distinct_attr_vals[_this.attribute]); - }; - })(this)); - $(".sort_by_value").on("click", (function(_this) { - return function() { - console.log("sorting by value"); - _this.sort_by = "value"; - if (_this.attributes.length > 0) { - _this.attribute = $("#color_attribute").val(); + return results; + })(); + l3 = l1.concat((function() { + var j, len, ref, results; + results = []; + for (j = 0, len = l2.length; j < len; j++) { + x = l2[j]; + if (ref = x.name, indexOf.call(l1_names, ref) < 0) { + results.push(x); + } } - return _this.rebuild_bar_graph(_this.sorted_samples()); - }; - })(this)); - $(".sort_by_name").on("click", (function(_this) { - return function() { - console.log("sorting by name"); - _this.sort_by = "name"; - if (_this.attributes.length > 0) { - _this.attribute = $("#color_attribute").val(); + return results; + })()); + this.sample_lists['samples_all'] = l3; + longest_sample_name_len = d3.max((function() { + var j, len, results; + results = []; + for (j = 0, len = l3.length; j < len; j++) { + sample = l3[j]; + results.push(sample.name.length); } - return _this.rebuild_bar_graph(_this.samples); - }; - })(this)); - d3.select("#color_by_trait").on("click", (function(_this) { - return function() { - return _this.open_trait_selection(); + return results; + })()); + this.margin = { + top: 20, + right: 20, + bottom: longest_sample_name_len * 6, + left: 40 }; - })(this)); - } - - Bar_Chart.prototype.rebuild_bar_graph = function(samples) { - var sample, sample_names, x_scale; - console.log("samples:", samples); - this.svg.selectAll(".bar").data(samples).transition().duration(1000).style("fill", (function(_this) { - return function(d) { - if (_this.attributes.length === 0 && (_this.trait_color_dict != null)) { - console.log("SAMPLE:", d[0]); - console.log("CHECKING:", _this.trait_color_dict[d[0]]); - return _this.trait_color_dict[d[0]]; - } else if (_this.attributes.length > 0 && _this.attribute !== "None") { - console.log("@attribute:", _this.attribute); - console.log("d[2]", d[2]); - console.log("the_color:", _this.attr_color_dict[_this.attribute][d[2][_this.attribute]]); - return _this.attr_color_dict[_this.attribute][d[2][_this.attribute]]; - } else { - return "steelblue"; + this.attributes = (function() { + var results; + results = []; + for (key in sample_lists[0][0]["extra_attributes"]) { + results.push(key); } - }; - })(this)).attr("y", (function(_this) { - return function(d) { - return _this.y_scale(d[1]); - }; - })(this)).attr("height", (function(_this) { - return function(d) { - return _this.plot_height - _this.y_scale(d[1]); - }; - })(this)).select("title").text((function(_this) { - return function(d) { - return d[1]; - }; - })(this)); - sample_names = (function() { - var _i, _len, _results; - _results = []; - for (_i = 0, _len = samples.length; _i < _len; _i++) { - sample = samples[_i]; - _results.push(sample[0]); - } - return _results; - })(); - console.log("sample_names2:", sample_names); - x_scale = d3.scale.ordinal().domain(sample_names).rangeRoundBands([0, this.range], 0.1, 0); - $('.bar_chart').find('.x.axis').remove(); - return this.add_x_axis(x_scale); - }; - - Bar_Chart.prototype.get_attr_color_dict = function(vals) { - var color, color_range, distinct_vals, i, key, this_color_dict, value, _i, _j, _len, _len1, _results; - this.attr_color_dict = {}; - console.log("vals:", vals); - _results = []; - for (key in vals) { - if (!__hasProp.call(vals, key)) continue; - distinct_vals = vals[key]; - this.min_val = d3.min(distinct_vals); - this.max_val = d3.max(distinct_vals); - this_color_dict = {}; - if (distinct_vals.length < 10) { - color = d3.scale.category10(); - for (i = _i = 0, _len = distinct_vals.length; _i < _len; i = ++_i) { - value = distinct_vals[i]; - this_color_dict[value] = color(i); - } - } else { - console.log("distinct_values:", distinct_vals); - if (_.every(distinct_vals, (function(_this) { - return function(d) { - if (isNaN(d)) { - return false; - } else { - return true; - } - }; - })(this))) { - color_range = d3.scale.linear().domain([min_val, max_val]).range([0, 255]); - for (i = _j = 0, _len1 = distinct_vals.length; _j < _len1; i = ++_j) { - value = distinct_vals[i]; - console.log("color_range(value):", parseInt(color_range(value))); - this_color_dict[value] = d3.rgb(parseInt(color_range(value)), 0, 0); + return results; + })(); + this.sample_attr_vals = (function() { + var j, len, ref, results; + ref = this.sample_lists['samples_all']; + results = []; + for (j = 0, len = ref.length; j < len; j++) { + s = ref[j]; + if (s.value !== null) { + results.push(this.extra(s)); } } - } - _results.push(this.attr_color_dict[key] = this_color_dict); + return results; + }).call(this); + this.get_distinct_attr_vals(); + this.get_attr_color_dict(this.distinct_attr_vals); + this.attribute_name = "None"; + this.sort_by = "name"; + this.chart = null; + this.select_attribute_box = $("#color_attribute"); + d3.select("#color_attribute").on("change", (function(_this) { + return function() { + _this.attribute_name = _this.select_attribute_box.val(); + return _this.rebuild_bar_graph(); + }; + })(this)); + $(".sort_by_value").on("click", (function(_this) { + return function() { + console.log("sorting by value"); + _this.sort_by = "value"; + return _this.rebuild_bar_graph(); + }; + })(this)); + $(".sort_by_name").on("click", (function(_this) { + return function() { + console.log("sorting by name"); + _this.sort_by = "name"; + return _this.rebuild_bar_graph(); + }; + })(this)); + d3.select("#color_by_trait").on("click", (function(_this) { + return function() { + return _this.open_trait_selection(); + }; + })(this)); } - return _results; - }; - - Bar_Chart.prototype.draw_legend = function() { - var svg_html; - $('#legend-left').html(this.min_val); - $('#legend-right').html(this.max_val); - svg_html = '<svg height="10" width="90"> <rect x="0" width="15" height="10" style="fill: rgb(0, 0, 0);"></rect> <rect x="15" width="15" height="10" style="fill: rgb(50, 0, 0);"></rect> <rect x="30" width="15" height="10" style="fill: rgb(100, 0, 0);"></rect> <rect x="45" width="15" height="10" style="fill: rgb(150, 0, 0);"></rect> <rect x="60" width="15" height="10" style="fill: rgb(200, 0, 0);"></rect> <rect x="75" width="15" height="10" style="fill: rgb(255, 0, 0);"></rect> </svg>'; - console.log("svg_html:", svg_html); - return $('#legend-colors').html(svg_html); - }; - Bar_Chart.prototype.get_trait_color_dict = function(samples, vals) { - var color, color_range, distinct_vals, i, key, sample, this_color_dict, value, _i, _j, _len, _len1, _results; - this.trait_color_dict = {}; - console.log("vals:", vals); - for (key in vals) { - if (!__hasProp.call(vals, key)) continue; - distinct_vals = vals[key]; - this_color_dict = {}; - this.min_val = d3.min(distinct_vals); - this.max_val = d3.max(distinct_vals); - if (distinct_vals.length < 10) { - color = d3.scale.category10(); - for (i = _i = 0, _len = distinct_vals.length; _i < _len; i = ++_i) { - value = distinct_vals[i]; - this_color_dict[value] = color(i); - } - } else { - console.log("distinct_values:", distinct_vals); - if (_.every(distinct_vals, (function(_this) { - return function(d) { - if (isNaN(d)) { - return false; - } else { - return true; - } - }; - })(this))) { - color_range = d3.scale.linear().domain([d3.min(distinct_vals), d3.max(distinct_vals)]).range([0, 255]); - for (i = _j = 0, _len1 = distinct_vals.length; _j < _len1; i = ++_j) { - value = distinct_vals[i]; - console.log("color_range(value):", parseInt(color_range(value))); - this_color_dict[value] = d3.rgb(parseInt(color_range(value)), 0, 0); - } - } - } - } - _results = []; - for (sample in samples) { - if (!__hasProp.call(samples, sample)) continue; - value = samples[sample]; - _results.push(this.trait_color_dict[sample] = this_color_dict[value]); - } - return _results; - }; + Bar_Chart.prototype.value = function(sample) { + return this.value_dict[sample.name].value; + }; - Bar_Chart.prototype.convert_into_colors = function(values) { - var color_range, i, value, _i, _len, _results; - color_range = d3.scale.linear().domain([d3.min(values), d3.max(values)]).range([0, 255]); - _results = []; - for (i = _i = 0, _len = values.length; _i < _len; i = ++_i) { - value = values[i]; - console.log("color_range(value):", color_range(parseInt(value))); - _results.push(this_color_dict[value] = d3.rgb(color_range(parseInt(value)), 0, 0)); - } - return _results; - }; + Bar_Chart.prototype.variance = function(sample) { + return this.value_dict[sample.name].variance; + }; - Bar_Chart.prototype.get_samples = function() { - var attr_vals, attribute, key, sample, _i, _j, _len, _len1, _ref, _ref1; - this.sample_names = (function() { - var _i, _len, _ref, _results; - _ref = this.sample_list; - _results = []; - for (_i = 0, _len = _ref.length; _i < _len; _i++) { - sample = _ref[_i]; - if (sample.value !== null) { - _results.push(sample.name); - } + Bar_Chart.prototype.extra = function(sample) { + var attr_vals, attribute, j, len, ref; + attr_vals = {}; + ref = this.attributes; + for (j = 0, len = ref.length; j < len; j++) { + attribute = ref[j]; + attr_vals[attribute] = sample["extra_attributes"][attribute]; } - return _results; - }).call(this); - this.sample_vals = (function() { - var _i, _len, _ref, _results; - _ref = this.sample_list; - _results = []; - for (_i = 0, _len = _ref.length; _i < _len; _i++) { - sample = _ref[_i]; - if (sample.value !== null) { - _results.push(sample.value); + return attr_vals; + }; + + Bar_Chart.prototype.redraw = function(samples_dict, selected_group) { + var x; + this.value_dict = samples_dict[selected_group]; + this.raw_data = (function() { + var j, len, ref, results; + ref = this.sample_lists[selected_group]; + results = []; + for (j = 0, len = ref.length; j < len; j++) { + x = ref[j]; + if (x.name in this.value_dict && this.value(x) !== null) { + results.push(x); + } } + return results; + }).call(this); + return this.rebuild_bar_graph(); + }; + + Bar_Chart.prototype.rebuild_bar_graph = function() { + var container, h, raw_data; + raw_data = this.raw_data.slice(); + if (this.sort_by === 'value') { + raw_data = raw_data.sort((function(_this) { + return function(x, y) { + return _this.value(x) - _this.value(y); + }; + })(this)); } - return _results; - }).call(this); - this.attributes = (function() { - var _results; - _results = []; - for (key in this.sample_list[0]["extra_attributes"]) { - _results.push(key); - } - return _results; - }).call(this); - console.log("attributes:", this.attributes); - this.sample_attr_vals = []; - if (this.attributes.length > 0) { - _ref = this.sample_list; - for (_i = 0, _len = _ref.length; _i < _len; _i++) { - sample = _ref[_i]; - attr_vals = {}; - _ref1 = this.attributes; - for (_j = 0, _len1 = _ref1.length; _j < _len1; _j++) { - attribute = _ref1[_j]; - attr_vals[attribute] = sample["extra_attributes"][attribute]; - } - this.sample_attr_vals.push(attr_vals); + console.log("raw_data: ", raw_data); + h = 600; + container = $("#bar_chart_container"); + container.height(h + this.margin.top + this.margin.bottom); + if (this.chart === null) { + this.chart = nv.models.multiBarChart().height(h).errorBarColor((function(_this) { + return function() { + return 'red'; + }; + })(this)).reduceXTicks(false).staggerLabels(false).showControls(false).showLegend(false); + this.chart.multibar.dispatch.on('elementMouseover.tooltip', (function(_this) { + return function(evt) { + var k, ref, v; + evt.value = _this.chart.x()(evt.data); + evt['series'] = [ + { + key: 'Value', + value: evt.data.y, + color: evt.color + } + ]; + if (evt.data.yErr) { + evt['series'].push({ + key: 'SE', + value: evt.data.yErr + }); + } + if (evt.data.attr) { + ref = evt.data.attr; + for (k in ref) { + v = ref[k]; + evt['series'].push({ + key: k, + value: v + }); + } + } + return _this.chart.tooltip.data(evt).hidden(false); + }; + })(this)); + this.chart.tooltip.valueFormatter(function(d, i) { + return d; + }); } - } - return this.samples = _.zip(this.sample_names, this.sample_vals, this.sample_attr_vals); - }; + return nv.addGraph((function(_this) { + return function() { + var d, s, values; + _this.remove_legend(); + values = (function() { + var j, len, results; + results = []; + for (j = 0, len = raw_data.length; j < len; j++) { + s = raw_data[j]; + results.push({ + x: s.name, + y: this.value(s), + yErr: this.variance(s) || 0, + attr: s.extra_attributes + }); + } + return results; + }).call(_this); + if (_this.attribute_name !== "None") { + _this.color_dict = _this.attr_color_dict[_this.attribute_name]; + _this.chart.barColor(function(d) { + return _this.color_dict[d.attr[_this.attribute_name]]; + }); + _this.add_legend(); + } else if (typeof _this.trait_color_dict !== 'undefined') { + _this.color_dict = _this.trait_color_dict; + _this.chart.barColor(function(d) { + return _this.color_dict[d['x']]; + }); + } else { + _this.chart.barColor(function() { + return 'steelblue'; + }); + } + _this.chart.width(raw_data.length * 20); + //User should be able to change Y domain, but should still have good default + _this.chart.yDomain([ + 0.95 * _.min((function() { // ZS: Decreasing this constant decreases the min Y axis value + var j, len, results; + results = []; + for (j = 0, len = values.length; j < len; j++) { + d = values[j]; + results.push(d.y - 0.5 * d.yErr); //ZS: the 0.5 was originally 1.5 + } + return results; + })()), 1.05 * _.max((function() { // ZS: Decreasing this constant decreases the max Y axis value + var j, len, results; + results = []; + for (j = 0, len = values.length; j < len; j++) { + d = values[j]; + results.push(d.y + 0.5 * d.yErr); // //ZS: the 0.5 was originally 1.5 + } + return results; + })()) + ]); + console.log("values: ", values); + d3.select("#bar_chart_container svg").datum([ + { + values: values + } + ]).style('width', raw_data.length * 20 + 'px').transition().duration(1000).call(_this.chart); + d3.select("#bar_chart_container .nv-x").selectAll('.tick text').style("font-size", "12px").style("text-anchor", "end").attr("dx", "-.8em").attr("dy", "-.3em").attr("transform", function(d) { + return "rotate(-90)"; + }); + return _this.chart; + }; + })(this)); + }; - Bar_Chart.prototype.get_distinct_attr_vals = function() { - var attribute, sample, _i, _len, _ref, _results; - this.distinct_attr_vals = {}; - _ref = this.sample_attr_vals; - _results = []; - for (_i = 0, _len = _ref.length; _i < _len; _i++) { - sample = _ref[_i]; - _results.push((function() { - var _ref1, _results1; - _results1 = []; - for (attribute in sample) { - if (!this.distinct_attr_vals[attribute]) { - this.distinct_attr_vals[attribute] = []; + Bar_Chart.prototype.get_attr_color_dict = function(vals) { + var color, color_range, discrete, distinct_vals, i, j, key, l, len, len1, results, this_color_dict, value; + this.attr_color_dict = {}; + this.is_discrete = {}; + this.minimum_values = {}; + this.maximum_values = {}; + console.log("vals:", vals); + results = []; + for (key in vals) { + if (!hasProp.call(vals, key)) continue; + distinct_vals = vals[key]; + this.min_val = d3.min(distinct_vals); + this.max_val = d3.max(distinct_vals); + this_color_dict = {}; + discrete = distinct_vals.length < 10; + if (discrete) { + color = d3.scale.category10(); + for (i = j = 0, len = distinct_vals.length; j < len; i = ++j) { + value = distinct_vals[i]; + this_color_dict[value] = color(i); } - if (_ref1 = sample[attribute], __indexOf.call(this.distinct_attr_vals[attribute], _ref1) < 0) { - _results1.push(this.distinct_attr_vals[attribute].push(sample[attribute])); - } else { - _results1.push(void 0); + } else { + console.log("distinct_values:", distinct_vals); + if (_.every(distinct_vals, (function(_this) { + return function(d) { + if (isNaN(d)) { + return false; + } else { + return true; + } + }; + })(this))) { + color_range = d3.scale.linear().domain([this.min_val, this.max_val]).range([0, 255]); + for (i = l = 0, len1 = distinct_vals.length; l < len1; i = ++l) { + value = distinct_vals[i]; + console.log("color_range(value):", parseInt(color_range(value))); + this_color_dict[value] = d3.rgb(parseInt(color_range(value)), 0, 0); + } } } - return _results1; - }).call(this)); - } - return _results; - }; - - Bar_Chart.prototype.create_svg = function() { - var svg; - svg = d3.select("#bar_chart").append("svg").attr("class", "bar_chart").attr("width", this.plot_width + this.margin.left + this.margin.right).attr("height", this.plot_height + this.margin.top + this.margin.bottom).append("g").attr("transform", "translate(" + this.margin.left + "," + this.margin.top + ")"); - return svg; - }; - - Bar_Chart.prototype.create_scales = function() { - this.x_scale = d3.scale.ordinal().domain(this.sample_names).rangeRoundBands([0, this.range], 0.1, 0); - return this.y_scale = d3.scale.linear().domain([this.y_min * 0.75, this.y_max]).range([this.plot_height, this.y_buffer]); - }; - - Bar_Chart.prototype.create_graph = function() { - this.add_x_axis(this.x_scale); - this.add_y_axis(); - return this.add_bars(); - }; - - Bar_Chart.prototype.add_x_axis = function(scale) { - var xAxis; - xAxis = d3.svg.axis().scale(scale).orient("bottom"); - return this.svg.append("g").attr("class", "x axis").attr("transform", "translate(0," + this.plot_height + ")").call(xAxis).selectAll("text").style("text-anchor", "end").style("font-size", "12px").attr("dx", "-.8em").attr("dy", "-.3em").attr("transform", (function(_this) { - return function(d) { - return "rotate(-90)"; - }; - })(this)); - }; - - Bar_Chart.prototype.add_y_axis = function() { - var yAxis; - yAxis = d3.svg.axis().scale(this.y_scale).orient("left").ticks(5); - return this.svg.append("g").attr("class", "y axis").call(yAxis).append("text").attr("transform", "rotate(-90)").attr("y", 6).attr("dy", ".71em").style("text-anchor", "end"); - }; + this.attr_color_dict[key] = this_color_dict; + this.is_discrete[key] = discrete; + this.minimum_values[key] = this.min_val; + results.push(this.maximum_values[key] = this.max_val); + } + return results; + }; - Bar_Chart.prototype.add_bars = function() { - return this.svg.selectAll(".bar").data(this.samples).enter().append("rect").style("fill", "steelblue").attr("class", "bar").attr("x", (function(_this) { - return function(d) { - return _this.x_scale(d[0]); - }; - })(this)).attr("width", this.x_scale.rangeBand()).attr("y", (function(_this) { - return function(d) { - return _this.y_scale(d[1]); - }; - })(this)).attr("height", (function(_this) { - return function(d) { - return _this.plot_height - _this.y_scale(d[1]); - }; - })(this)).append("svg:title").text((function(_this) { - return function(d) { - return d[1]; - }; - })(this)); - }; + Bar_Chart.prototype.get_distinct_attr_vals = function() { + var attribute, j, len, ref, results, sample; + this.distinct_attr_vals = {}; + ref = this.sample_attr_vals; + results = []; + for (j = 0, len = ref.length; j < len; j++) { + sample = ref[j]; + results.push((function() { + var ref1, results1; + results1 = []; + for (attribute in sample) { + if (!this.distinct_attr_vals[attribute]) { + this.distinct_attr_vals[attribute] = []; + } + if (ref1 = sample[attribute], indexOf.call(this.distinct_attr_vals[attribute], ref1) < 0) { + results1.push(this.distinct_attr_vals[attribute].push(sample[attribute])); + } else { + results1.push(void 0); + } + } + return results1; + }).call(this)); + } + return results; + }; - Bar_Chart.prototype.sorted_samples = function() { - var sample_list, sorted; - sample_list = _.zip(this.sample_names, this.sample_vals, this.sample_attr_vals); - sorted = _.sortBy(sample_list, (function(_this) { - return function(sample) { - return sample[1]; - }; - })(this)); - console.log("sorted:", sorted); - return sorted; - }; + Bar_Chart.prototype.add_legend = function() { + if (this.is_discrete[this.attribute_name]) { + return this.add_legend_discrete(); + } else { + return this.add_legend_continuous(); + } + }; - Bar_Chart.prototype.add_legend = function(attribute, distinct_vals) { - var legend, legend_rect, legend_text; - legend = this.svg.append("g").attr("class", "legend").attr("height", 100).attr("width", 100).attr('transform', 'translate(-20,50)'); - legend_rect = legend.selectAll('rect').data(distinct_vals).enter().append("rect").attr("x", this.plot_width - 65).attr("width", 10).attr("height", 10).attr("y", (function(_this) { - return function(d, i) { - return i * 20; - }; - })(this)).style("fill", (function(_this) { - return function(d) { - console.log("TEST:", _this.attr_color_dict[attribute][d]); - return _this.attr_color_dict[attribute][d]; - }; - })(this)); - return legend_text = legend.selectAll('text').data(distinct_vals).enter().append("text").attr("x", this.plot_width - 52).attr("y", (function(_this) { - return function(d, i) { - return i * 20 + 9; - }; - })(this)).text((function(_this) { - return function(d) { - return d; - }; - })(this)); - }; + Bar_Chart.prototype.remove_legend = function() { + $(".legend").remove(); + return $("#legend-left,#legend-right,#legend-colors").empty(); + }; - Bar_Chart.prototype.open_trait_selection = function() { - return $('#collections_holder').load('/collections/list?color_by_trait #collections_list', (function(_this) { - return function() { - $.colorbox({ - inline: true, - href: "#collections_holder" - }); - return $('a.collection_name').attr('onClick', 'return false'); - }; - })(this)); - }; + Bar_Chart.prototype.add_legend_continuous = function() { + var svg_html; + $('#legend-left').html(this.minimum_values[this.attribute_name]); + $('#legend-right').html(this.maximum_values[this.attribute_name]); + svg_html = '<svg height="15" width="120"> <rect x="0" width="20" height="15" style="fill: rgb(0, 0, 0);"></rect> <rect x="20" width="20" height="15" style="fill: rgb(50, 0, 0);"></rect> <rect x="40" width="20" height="15" style="fill: rgb(100, 0, 0);"></rect> <rect x="60" width="20" height="15" style="fill: rgb(150, 0, 0);"></rect> <rect x="80" width="20" height="15" style="fill: rgb(200, 0, 0);"></rect> <rect x="100" width="20" height="15" style="fill: rgb(255, 0, 0);"></rect> </svg>'; + console.log("svg_html:", svg_html); + return $('#legend-colors').html(svg_html); + }; - Bar_Chart.prototype.color_by_trait = function(trait_sample_data) { - var distinct_values, trimmed_samples; - console.log("BXD1:", trait_sample_data["BXD1"]); - console.log("trait_sample_data:", trait_sample_data); - trimmed_samples = this.trim_values(trait_sample_data); - distinct_values = {}; - distinct_values["collection_trait"] = this.get_distinct_values(trimmed_samples); - this.get_trait_color_dict(trimmed_samples, distinct_values); - console.log("TRAIT_COLOR_DICT:", this.trait_color_dict); - console.log("SAMPLES:", this.samples); - if (this.sort_by = "value") { - this.svg.selectAll(".bar").data(this.samples).transition().duration(1000).style("fill", (function(_this) { + Bar_Chart.prototype.add_legend_discrete = function() { + var legend_span; + legend_span = d3.select('#bar_chart_legend').append('div').style('word-wrap', 'break-word').attr('class', 'legend').selectAll('span').data(this.distinct_attr_vals[this.attribute_name]).enter().append('span').style({ + 'word-wrap': 'normal', + 'display': 'inline-block' + }); + legend_span.append('span').style("background-color", (function(_this) { return function(d) { - console.log("this color:", _this.trait_color_dict[d[0]]); - return _this.trait_color_dict[d[0]]; + return _this.attr_color_dict[_this.attribute_name][d]; }; - })(this)).select("title").text((function(_this) { + })(this)).style({ + 'display': 'inline-block', + 'width': '15px', + 'height': '15px', + 'margin': '0px 5px 0px 15px' + }); + return legend_span.append('span').text((function(_this) { return function(d) { - return d[1]; + return d; }; - })(this)); - return this.draw_legend(); - } else { - this.svg.selectAll(".bar").data(this.sorted_samples()).transition().duration(1000).style("fill", (function(_this) { - return function(d) { - console.log("this color:", _this.trait_color_dict[d[0]]); - return _this.trait_color_dict[d[0]]; - }; - })(this)).select("title").text((function(_this) { - return function(d) { - return d[1]; + })(this)).style('font-size', '20px'); + }; + + Bar_Chart.prototype.open_trait_selection = function() { + return $('#collections_holder').load('/collections/list?color_by_trait #collections_list', (function(_this) { + return function() { + $.colorbox({ + inline: true, + href: "#collections_holder" + }); + return $('a.collection_name').attr('onClick', 'return false'); }; })(this)); - return this.draw_legend(); - } - }; + }; - Bar_Chart.prototype.trim_values = function(trait_sample_data) { - var sample, trimmed_samples, _i, _len, _ref; - trimmed_samples = {}; - _ref = this.sample_names; - for (_i = 0, _len = _ref.length; _i < _len; _i++) { - sample = _ref[_i]; - if (sample in trait_sample_data) { - trimmed_samples[sample] = trait_sample_data[sample]; + Bar_Chart.prototype.color_by_trait = function(trait_sample_data) { + var distinct_values, trimmed_samples; + console.log("BXD1:", trait_sample_data["BXD1"]); + console.log("trait_sample_data:", trait_sample_data); + trimmed_samples = this.trim_values(trait_sample_data); + distinct_values = {}; + distinct_values["collection_trait"] = this.get_distinct_values(trimmed_samples); + this.trait_color_dict = this.get_trait_color_dict(trimmed_samples, distinct_values); + console.log("TRAIT_COLOR_DICT:", this.trait_color_dict); + return this.rebuild_bar_graph(); + //return console.log("SAMPLES:", this.samples); + }; + + Bar_Chart.prototype.trim_values = function(trait_sample_data) { + var j, len, ref, sample, trimmed_samples; + trimmed_samples = {}; + ref = this.sample_lists['samples_all']; + for (j = 0, len = ref.length; j < len; j++) { + sample = ref[j]['name']; + if (sample in trait_sample_data) { + trimmed_samples[sample] = trait_sample_data[sample]; + } } - } - console.log("trimmed_samples:", trimmed_samples); - return trimmed_samples; - }; + console.log("trimmed_samples:", trimmed_samples); + return trimmed_samples; + }; + + Bar_Chart.prototype.get_distinct_values = function(samples) { + var distinct_values; + distinct_values = _.uniq(_.values(samples)); + console.log("distinct_values:", distinct_values); + return distinct_values; + }; + + Bar_Chart.prototype.get_trait_color_dict = function(samples, vals) { + var color, color_range, distinct_vals, i, j, k, key, len, len1, results, sample, this_color_dict, value; + trait_color_dict = {}; + console.log("vals:", vals); + for (key in vals) { + if (!hasProp.call(vals, key)) continue; + distinct_vals = vals[key]; + this_color_dict = {}; + this.min_val = d3.min(distinct_vals); + this.max_val = d3.max(distinct_vals); + if (distinct_vals.length < 10) { + color = d3.scale.category10(); + for (i = j = 0, len = distinct_vals.length; j < len; i = ++j) { + value = distinct_vals[i]; + this_color_dict[value] = color(i); + } + } else { + console.log("distinct_values:", distinct_vals); + if (_.every(distinct_vals, (function(_this) { + return function(d) { + if (isNaN(d)) { + return false; + } else { + return true; + } + }; + })(this))) { + color_range = d3.scale.linear().domain([d3.min(distinct_vals), d3.max(distinct_vals)]).range([0, 255]); + for (i = k = 0, len1 = distinct_vals.length; k < len1; i = ++k) { + value = distinct_vals[i]; + //console.log("color_range(value):", parseInt(color_range(value))); + this_color_dict[value] = d3.rgb(parseInt(color_range(value)), 0, 0); + } + } + } + } + results = []; + console.log("SAMPLES:", samples) + for (sample in samples) { + if (!hasProp.call(samples, sample)) continue; + value = samples[sample]; + trait_color_dict[sample] = this_color_dict[value]; + //results.push(this.trait_color_dict[sample] = this_color_dict[value]); + } + return trait_color_dict; + }; - Bar_Chart.prototype.get_distinct_values = function(samples) { - var distinct_values; - distinct_values = _.uniq(_.values(samples)); - console.log("distinct_values:", distinct_values); - return distinct_values; - }; + return Bar_Chart; - return Bar_Chart; + })(); -})(); + root.Bar_Chart = Bar_Chart; -root.Bar_Chart = Bar_Chart; +}).call(this); diff --git a/wqflask/wqflask/static/new/javascript/chr_lod_chart.coffee b/wqflask/wqflask/static/new/javascript/chr_lod_chart.coffee index 321957b3..e00694be 100644 --- a/wqflask/wqflask/static/new/javascript/chr_lod_chart.coffee +++ b/wqflask/wqflask/static/new/javascript/chr_lod_chart.coffee @@ -193,18 +193,7 @@ class Chr_Lod_Chart .attr("fill", "black")
add_back_button: () ->
- @svg.append("text")
- .attr("class", "back")
- .text("Return to full view")
- .attr("x", @x_buffer*2)
- .attr("y", @y_buffer/2)
- .attr("dx", "0em")
- .attr("text-anchor", "middle")
- .attr("font-family", "sans-serif")
- .attr("font-size", "18px")
- .attr("cursor", "pointer")
- .attr("fill", "black")
- .on("click", @return_to_full_view)
+ $("#return_to_full_view").show().click => @return_to_full_view()
add_path: () ->
line_function = d3.svg.line()
@@ -281,9 +270,10 @@ class Chr_Lod_Chart )
return_to_full_view: () ->
+ $("#return_to_full_view").hide()
$('#topchart').remove()
$('#chart_container').append('<div class="qtlcharts" id="topchart"></div>')
- create_manhattan_plot()
+ create_lod_chart()
show_marker_in_table: (marker_info) ->
console.log("in show_marker_in_table")
diff --git a/wqflask/wqflask/static/new/javascript/chr_lod_chart.js b/wqflask/wqflask/static/new/javascript/chr_lod_chart.js index 95dbb4e2..616a89f6 100644 --- a/wqflask/wqflask/static/new/javascript/chr_lod_chart.js +++ b/wqflask/wqflask/static/new/javascript/chr_lod_chart.js @@ -1,4 +1,4 @@ -// Generated by CoffeeScript 1.8.0 +// Generated by CoffeeScript 1.9.2 var Chr_Lod_Chart; Chr_Lod_Chart = (function() { @@ -38,28 +38,28 @@ Chr_Lod_Chart = (function() { } Chr_Lod_Chart.prototype.get_max_chr = function() { - var key, _results; + var key, results; this.max_chr = 0; - _results = []; + results = []; for (key in js_data.chromosomes) { console.log("key is:", key); if (parseInt(key) > this.max_chr) { - _results.push(this.max_chr = parseInt(key)); + results.push(this.max_chr = parseInt(key)); } else { - _results.push(void 0); + results.push(void 0); } } - return _results; + return results; }; Chr_Lod_Chart.prototype.filter_qtl_results = function() { - var result, this_chr, _i, _len, _ref, _results; + var i, len, ref, result, results, this_chr; this.these_results = []; this_chr = 100; - _ref = this.qtl_results; - _results = []; - for (_i = 0, _len = _ref.length; _i < _len; _i++) { - result = _ref[_i]; + ref = this.qtl_results; + results = []; + for (i = 0, len = ref.length; i < len; i++) { + result = ref[i]; if (result.chr === "X") { this_chr = this.max_chr; } else { @@ -71,20 +71,20 @@ Chr_Lod_Chart = (function() { break; } if (parseInt(this_chr) === parseInt(this.chr[0])) { - _results.push(this.these_results.push(result)); + results.push(this.these_results.push(result)); } else { - _results.push(void 0); + results.push(void 0); } } - return _results; + return results; }; Chr_Lod_Chart.prototype.get_qtl_count = function() { - var high_qtl_count, result, _i, _len, _ref; + var high_qtl_count, i, len, ref, result; high_qtl_count = 0; - _ref = this.these_results; - for (_i = 0, _len = _ref.length; _i < _len; _i++) { - result = _ref[_i]; + ref = this.these_results; + for (i = 0, len = ref.length; i < len; i++) { + result = ref[i]; if (result.lod_score > 1) { high_qtl_count += 1; } @@ -94,16 +94,23 @@ Chr_Lod_Chart = (function() { }; Chr_Lod_Chart.prototype.create_coordinates = function() { - var result, _i, _len, _ref, _results; - _ref = this.these_results; - _results = []; - for (_i = 0, _len = _ref.length; _i < _len; _i++) { - result = _ref[_i]; + var i, len, ref, result, results; + ref = this.these_results; + console.log("THESE_RESULTS:", ref) + results = []; + for (i = 0, len = ref.length; i < len; i++) { + result = ref[i]; this.x_coords.push(parseFloat(result.Mb)); - this.y_coords.push(result.lod_score); - _results.push(this.marker_names.push(result.name)); + if (js_data.result_score_type == "LOD") { + this.y_coords.push(result.lod_score); + } + else { + console.log("LRS VALUE:", result['lrs_value']) + this.y_coords.push(result['lrs_value']); + } + results.push(this.marker_names.push(result.name)); } - return _results; + return results; }; Chr_Lod_Chart.prototype.create_svg = function() { @@ -189,7 +196,11 @@ Chr_Lod_Chart = (function() { }; Chr_Lod_Chart.prototype.add_back_button = function() { - return this.svg.append("text").attr("class", "back").text("Return to full view").attr("x", this.x_buffer * 2).attr("y", this.y_buffer / 2).attr("dx", "0em").attr("text-anchor", "middle").attr("font-family", "sans-serif").attr("font-size", "18px").attr("cursor", "pointer").attr("fill", "black").on("click", this.return_to_full_view); + return $("#return_to_full_view").show().click((function(_this) { + return function() { + return _this.return_to_full_view(); + }; + })(this)); }; Chr_Lod_Chart.prototype.add_path = function() { @@ -253,9 +264,10 @@ Chr_Lod_Chart = (function() { }; Chr_Lod_Chart.prototype.return_to_full_view = function() { + $("#return_to_full_view").hide(); $('#topchart').remove(); $('#chart_container').append('<div class="qtlcharts" id="topchart"></div>'); - return create_manhattan_plot(); + return create_lod_chart(); }; Chr_Lod_Chart.prototype.show_marker_in_table = function(marker_info) { diff --git a/wqflask/wqflask/static/new/javascript/corr_matrix.js b/wqflask/wqflask/static/new/javascript/corr_matrix.js index df0bef9d..ad0fc8b8 100644 --- a/wqflask/wqflask/static/new/javascript/corr_matrix.js +++ b/wqflask/wqflask/static/new/javascript/corr_matrix.js @@ -31,7 +31,7 @@ iplotCorr = function(data, chartOpts) { ncorrX = data.cols.length; ncorrY = data.rows.length; corXscale = d3.scale.ordinal().domain(d3.range(ncorrX)).rangeBands([0, width]); - corYscale = d3.scale.ordinal().domain(d3.range(ncorrY)).rangeBands([height, 0]); + corYscale = d3.scale.ordinal().domain(d3.range(ncorrY)).rangeBands([0, height]); corZscale = d3.scale.linear().domain(zlim).range(corcolors); pixel_width = corXscale(1) - corXscale(0); pixel_height = corYscale(0) - corYscale(1); @@ -44,12 +44,16 @@ iplotCorr = function(data, chartOpts) { value: data.corr[i][j] }); } + corrplot.append("text").attr("class", "corrlabel_y").attr("y", corYscale(i) - pixel_height / 2).attr("x", -margin.left * 0.1).text(data["var"][data.rows[i]]).attr("dominant-baseline", "middle").attr("text-anchor", "end"); + //corrplot.append("text").attr("class", "corrlabel_x").attr("x", corXscale(i) + pixel_width / 2).attr("y", height + margin.bottom * 0.2).text(data["var"][data.cols[i]]).attr("dominant-baseline", "middle").attr("text-anchor", "middle"); + } scatterplot.append("rect").attr("height", height).attr("width", width).attr("fill", rectcolor).attr("stroke", "black").attr("stroke-width", 1).attr("pointer-events", "none"); corr_tip = d3.tip().attr('class', 'd3-tip').html(function(d) { return d3.format(".2f")(d.value); }).direction('e').offset([0, 10]); corrplot.call(corr_tip); + cells = corrplot.selectAll("empty").data(corr).enter().append("rect").attr("class", "cell").attr("x", function(d) { return corXscale(d.col); }).attr("y", function(d) { @@ -59,11 +63,12 @@ iplotCorr = function(data, chartOpts) { }).attr("stroke", "none").attr("stroke-width", 2).on("mouseover", function(d) { d3.select(this).attr("stroke", "black"); corr_tip.show(d); - corrplot.append("text").attr("class", "corrlabel").attr("x", corXscale(d.col) + pixel_width / 2).attr("y", height + margin.bottom * 0.2).text(data["var"][data.cols[d.col]]).attr("dominant-baseline", "middle").attr("text-anchor", "middle"); - return corrplot.append("text").attr("class", "corrlabel").attr("y", corYscale(d.row) + pixel_height / 2).attr("x", -margin.left * 0.1).text(data["var"][data.rows[d.row]]).attr("dominant-baseline", "middle").attr("text-anchor", "end"); + //corrplot.append("text").attr("class", "corrlabel").attr("x", corXscale(d.col) + pixel_width / 2).attr("y", height + margin.bottom * 0.2).text(data["var"][data.cols[d.col]]).attr("dominant-baseline", "middle").attr("text-anchor", "middle"); + //return corrplot.append("text").attr("class", "corrlabel_x").attr("y", corYscale(d.row) + pixel_height / 2).attr("x", -margin.left * 0.1).text(data["var"][data.rows[d.row]]).attr("dominant-baseline", "middle").attr("text-anchor", "end"); + return corrplot.append("text").attr("class", "corrlabel_x").attr("x", corXscale(d.col) + pixel_width / 2).attr("y", height + margin.bottom * 0.2).text(data["var"][data.cols[d.col]]).attr("dominant-baseline", "middle").attr("text-anchor", "middle"); }).on("mouseout", function(d) { corr_tip.hide(d); - d3.selectAll("text.corrlabel").remove(); + d3.selectAll("text.corrlabel_x").remove(); return d3.select(this).attr("stroke", "none"); }).on("click", function(d) { return drawScatter(d.col, d.row); @@ -135,7 +140,7 @@ iplotCorr = function(data, chartOpts) { var x, y; x = data.dat[data.cols[i]][d]; y = data.dat[data.rows[j]][d]; - if ((x != null) && (y != null)) { + if ((x != "") && (y != "")) { return 3; } else { return null; diff --git a/wqflask/wqflask/static/new/javascript/create_corr_matrix.js b/wqflask/wqflask/static/new/javascript/create_corr_matrix.js index df84b85a..adb91295 100644 --- a/wqflask/wqflask/static/new/javascript/create_corr_matrix.js +++ b/wqflask/wqflask/static/new/javascript/create_corr_matrix.js @@ -42,3 +42,19 @@ get_data = function() { data.rows = js_data.rows; return data; }; + + +var neg_color_scale = chroma.scale(['#FF0000', 'white']).domain([-1, -0.4]); +var pos_color_scale = chroma.scale(['white', 'aqua']).domain([0.4, 1]) +$('.corr_cell').each( function () { + corr_value = parseFloat($(this).find('span.corr_value').text()) + if (corr_value >= 0.5){ + $(this).css('background-color', pos_color_scale(parseFloat(corr_value))) + } + else if (corr_value <= -0.5) { + $(this).css('background-color', neg_color_scale(parseFloat(corr_value))) + } + else { + $(this).css('background-color', 'white') + } +});
\ No newline at end of file diff --git a/wqflask/wqflask/static/new/javascript/create_lodchart.coffee b/wqflask/wqflask/static/new/javascript/create_lodchart.coffee index 76be5490..472ec12d 100644 --- a/wqflask/wqflask/static/new/javascript/create_lodchart.coffee +++ b/wqflask/wqflask/static/new/javascript/create_lodchart.coffee @@ -1,4 +1,4 @@ -create_manhattan_plot = -> +create_lod_chart = -> h = 500 w = 1200 margin = {left:60, top:40, right:40, bottom: 40, inner:5} @@ -18,7 +18,7 @@ create_manhattan_plot = -> .height(h) .width(w) .margin(margin) - .ylab("LOD score") + .ylab(js_data.result_score_type + " score") .manhattanPlot(js_data.manhattan_plot) #.additive(additive) @@ -44,44 +44,11 @@ create_manhattan_plot = -> d3.select(this) .transition().duration(500).attr("r", r*3) .transition().duration(500).attr("r", r) - -create_manhattan_plot() -$("#export").click => - #Get d3 SVG element - svg = $("#topchart").find("svg")[0] - - #Extract SVG text string - svg_xml = (new XMLSerializer).serializeToString(svg) - console.log("svg_xml:", svg_xml) - - #Set filename - filename = "manhattan_plot_" + js_data.this_trait - - #Make a form with the SVG data - form = $("#exportform") - form.find("#data").val(svg_xml) - form.find("#filename").val(filename) - form.submit() - -$("#export_pdf").click => - - #$('#topchart').remove() - #$('#chart_container').append('<div class="qtlcharts" id="topchart"></div>') - #create_interval_map() - - #Get d3 SVG element - svg = $("#topchart").find("svg")[0] - - #Extract SVG text string - svg_xml = (new XMLSerializer).serializeToString(svg) - console.log("svg_xml:", svg_xml) - - #Set filename - filename = "manhattan_plot_" + js_data.this_trait +$ -> + #window.setTimeout ( -> + # console.log(js_data) + #), 1000 + #window.setTimeout(create_lod_chart(), 1000) + root.create_lod_chart = create_lod_chart - #Make a form with the SVG data - form = $("#exportpdfform") - form.find("#data").val(svg_xml) - form.find("#filename").val(filename) - form.submit() diff --git a/wqflask/wqflask/static/new/javascript/create_lodchart.js b/wqflask/wqflask/static/new/javascript/create_lodchart.js index f61f05bd..b8fcf1f8 100644 --- a/wqflask/wqflask/static/new/javascript/create_lodchart.js +++ b/wqflask/wqflask/static/new/javascript/create_lodchart.js @@ -1,73 +1,45 @@ -// Generated by CoffeeScript 1.8.0 -var create_manhattan_plot; +// Generated by CoffeeScript 1.9.2 +(function() { + var create_lod_chart; -create_manhattan_plot = function() { - var additive, chrrect, data, h, halfh, margin, mychart, totalh, totalw, w; - h = 500; - w = 1200; - margin = { - left: 60, - top: 40, - right: 40, - bottom: 40, - inner: 5 - }; - halfh = h + margin.top + margin.bottom; - totalh = halfh * 2; - totalw = w + margin.left + margin.right; - if ('additive' in js_data) { - additive = js_data.additive; - } else { - additive = false; - } - console.log("js_data:", js_data); - mychart = lodchart().lodvarname("lod.hk").height(h).width(w).margin(margin).ylab("LOD score").manhattanPlot(js_data.manhattan_plot); - data = js_data.json_data; - d3.select("div#topchart").datum(data).call(mychart); - chrrect = mychart.chrSelect(); - chrrect.on("mouseover", function() { - return d3.select(this).attr("fill", "#E9CFEC"); - }).on("mouseout", function(d, i) { - return d3.select(this).attr("fill", function() { - if (i % 2) { - return "#F1F1F9"; - } - return "#FBFBFF"; + create_lod_chart = function() { + var chrrect, data, h, halfh, margin, mychart, totalh, totalw, w; + h = 500; + w = 1200; + margin = { + left: 60, + top: 40, + right: 40, + bottom: 40, + inner: 5 + }; + halfh = h + margin.top + margin.bottom; + totalh = halfh * 2; + totalw = w + margin.left + margin.right; + //console.log("js_data:", js_data); + mychart = lodchart().lodvarname("lod.hk").height(h).width(w).margin(margin).ylab(js_data.result_score_type + " score").manhattanPlot(js_data.manhattan_plot); + data = js_data.json_data; + d3.select("div#topchart").datum(data).call(mychart); + chrrect = mychart.chrSelect(); + chrrect.on("mouseover", function() { + return d3.select(this).attr("fill", "#E9CFEC"); + }).on("mouseout", function(d, i) { + return d3.select(this).attr("fill", function() { + if (i % 2) { + return "#F1F1F9"; + } + return "#FBFBFF"; + }); + }); + return mychart.markerSelect().on("click", function(d) { + var r; + r = d3.select(this).attr("r"); + return d3.select(this).transition().duration(500).attr("r", r * 3).transition().duration(500).attr("r", r); }); - }); - return mychart.markerSelect().on("click", function(d) { - var r; - r = d3.select(this).attr("r"); - return d3.select(this).transition().duration(500).attr("r", r * 3).transition().duration(500).attr("r", r); - }); -}; - -create_manhattan_plot(); - -$("#export").click((function(_this) { - return function() { - var filename, form, svg, svg_xml; - svg = $("#topchart").find("svg")[0]; - svg_xml = (new XMLSerializer).serializeToString(svg); - console.log("svg_xml:", svg_xml); - filename = "manhattan_plot_" + js_data.this_trait; - form = $("#exportform"); - form.find("#data").val(svg_xml); - form.find("#filename").val(filename); - return form.submit(); }; -})(this)); -$("#export_pdf").click((function(_this) { - return function() { - var filename, form, svg, svg_xml; - svg = $("#topchart").find("svg")[0]; - svg_xml = (new XMLSerializer).serializeToString(svg); - console.log("svg_xml:", svg_xml); - filename = "manhattan_plot_" + js_data.this_trait; - form = $("#exportpdfform"); - form.find("#data").val(svg_xml); - form.find("#filename").val(filename); - return form.submit(); - }; -})(this)); + $(function() { + return root.create_lod_chart = create_lod_chart; + }); + +}).call(this); diff --git a/wqflask/wqflask/static/new/javascript/dataset_menu_structure.json b/wqflask/wqflask/static/new/javascript/dataset_menu_structure.json index fabf3998..e790c9c0 100755 --- a/wqflask/wqflask/static/new/javascript/dataset_menu_structure.json +++ b/wqflask/wqflask/static/new/javascript/dataset_menu_structure.json @@ -56,12 +56,6 @@ }, "barley": { "QSM": { - "Genotypes": [ - [ - "QSMGeno", - "QSM Genotypes" - ] - ], "Leaf mRNA": [ [ "B1LI0809R", @@ -79,12 +73,6 @@ "B1MI0809R", "Barley1 Leaf MOCK TTKS (Aug09) RMA" ] - ], - "Phenotypes": [ - [ - "QSMPublish", - "QSM Published Phenotypes" - ] ] }, "SXM": { @@ -114,12 +102,12 @@ "Barley1 Leaf MAS 5.0 SCRI (Dec06)" ], [ - "B30_K_1206_Rn", - "Barley1 Leaf gcRMAn SCRI (Dec06)" - ], - [ "B30_K_1206_R", "Barley1 Leaf gcRMA SCRI (Dec06)" + ], + [ + "B30_K_1206_Rn", + "Barley1 Leaf gcRMAn SCRI (Dec06)" ] ], "Phenotypes": [ @@ -132,18 +120,6 @@ }, "drosophila": { "DGRP": { - "Genotypes": [ - [ - "DGRPGeno", - "DGRP Genotypes" - ] - ], - "Phenotypes": [ - [ - "DGRPPublish", - "DGRP Published Phenotypes" - ] - ], "Whole Body mRNA": [ [ "NCSU_DrosWB_LC_RMA_0111", @@ -152,18 +128,6 @@ ] }, "Oregon-R_x_2b3": { - "Genotypes": [ - [ - "Oregon-R_x_2b3Geno", - "Oregon-R_x_2b3 Genotypes" - ] - ], - "Phenotypes": [ - [ - "Oregon-R_x_2b3Publish", - "Oregon-R_x_2b3 Published Phenotypes" - ] - ], "Whole Body mRNA": [ [ "UAB_DrosWB_LC_RMA_1009", @@ -195,18 +159,6 @@ "GSE5281_RMA0709", "GSE5281 Human Brain Best 102 Liang (Jul09) RMA" ] - ], - "Genotypes": [ - [ - "AD-cases-controlsGeno", - "AD-cases-controls Genotypes" - ] - ], - "Phenotypes": [ - [ - "AD-cases-controlsPublish", - "AD-cases-controls Published Phenotypes" - ] ] }, "AD-cases-controls-Myers": { @@ -229,12 +181,6 @@ "AD-cases-controls-MyersGeno", "AD-cases-controls-Myers Genotypes" ] - ], - "Phenotypes": [ - [ - "AD-cases-controls-MyersPublish", - "AD-cases-controls-Myers Published Phenotypes" - ] ] }, "Aging-Brain-UCI": { @@ -244,24 +190,12 @@ "GSE11882 UCI Human Entorhinal Cortex Affy U133 Plus2 (Sep13) RMA" ] ], - "Genotypes": [ - [ - "Aging-Brain-UCIGeno", - "Aging-Brain-UCI Genotypes" - ] - ], "Hippocampus mRNA": [ [ "UCI_HC_0913", "GSE11882 UCI Human Hippocampus Affy U133 Plus2 (Sep13) RMA" ] ], - "Phenotypes": [ - [ - "Aging-Brain-UCIPublish", - "Aging-Brain-UCI Published Phenotypes" - ] - ], "Postcentral Gyrus mRNA": [ [ "UCI_PCG_0913", @@ -282,18 +216,6 @@ "GSE15745 NIH Human Brain Cerebellum ILM humanRef-8 v2.0 (May10) RankInv" ] ], - "Genotypes": [ - [ - "Brain-Normal-NIH-GibbsGeno", - "Brain-Normal-NIH-Gibbs Genotypes" - ] - ], - "Phenotypes": [ - [ - "Brain-Normal-NIH-GibbsPublish", - "Brain-Normal-NIH-Gibbs Published Phenotypes" - ] - ], "Pons mRNA": [ [ "GSE15745-GPL6104_Po0510", @@ -314,12 +236,6 @@ ] }, "CANDLE": { - "Genotypes": [ - [ - "CANDLEGeno", - "CANDLE Genotypes" - ] - ], "Methylation": [ [ "CANDLE_Meth27_0313", @@ -344,12 +260,6 @@ ] }, "CEPH-2004": { - "Genotypes": [ - [ - "CEPH-2004Geno", - "CEPH-2004 Genotypes" - ] - ], "Lymphoblast B-cell mRNA": [ [ "UT_CEPH_RankInv0909", @@ -359,12 +269,6 @@ "Human_1008", "Monks CEPH B-cells Agilent (Dec04) Log10Ratio" ] - ], - "Phenotypes": [ - [ - "CEPH-2004Publish", - "CEPH-2004 Published Phenotypes" - ] ] }, "GTEx": { @@ -558,12 +462,6 @@ "GTEx Human Frontal Cortex (Apr14) RPKM" ] ], - "Genotypes": [ - [ - "GTExGeno", - "GTEx Genotypes" - ] - ], "Heart - Atrial Appendage mRNA": [ [ "GTEx_log2_HeartAt_0314", @@ -684,12 +582,6 @@ "GTEx Human Pancreas (Apr14) RPKM" ] ], - "Phenotypes": [ - [ - "GTExPublish", - "GTEx Published Phenotypes" - ] - ], "Pituitary Gland mRNA": [ [ "GTEx_log2_Pitui_0314", @@ -870,18 +762,6 @@ "HBTRC-MLC Human Cerebellum Agilent HD (Jun11) mlratio" ] ], - "Genotypes": [ - [ - "HBGeno", - "HB Genotypes" - ] - ], - "Phenotypes": [ - [ - "HBPublish", - "HB Published Phenotypes" - ] - ], "Prefrontal Cortex mRNA": [ [ "HBTRC-MLPFC_0611", @@ -920,12 +800,6 @@ ] }, "HCP": { - "Genotypes": [ - [ - "HCPGeno", - "HCP Genotypes" - ] - ], "Phenotypes": [ [ "HCPPublish", @@ -934,12 +808,6 @@ ] }, "HLC": { - "Genotypes": [ - [ - "HLCGeno", - "HLC Genotypes" - ] - ], "Liver mRNA": [ [ "HLC_0311", @@ -962,12 +830,6 @@ ] }, "HLT": { - "Genotypes": [ - [ - "HLTGeno", - "HLT Genotypes" - ] - ], "Lung mRNA": [ [ "GSE23546HLT0613", @@ -985,12 +847,6 @@ "GRNG-GSE23545HLT0613", "GRNG/GSE23545 Whole-Genome GXD Non-Tumorous Human Lung Tissues Affy HuRSTA array (Jun11) RMA" ] - ], - "Phenotypes": [ - [ - "HLTPublish", - "HLT Published Phenotypes" - ] ] }, "HSB": { @@ -1012,12 +868,6 @@ "Human Dorsolateral Prefrontal Cortex Affy Hu-Exon 1.0 ST (Jul11) Quantile" ] ], - "Genotypes": [ - [ - "HSBGeno", - "HSB Genotypes" - ] - ], "Hippocampus mRNA": [ [ "KIN_YSM_HIP_0711", @@ -1048,12 +898,6 @@ "Human Orbital Prefrontal Cortex Affy Hu-Exon 1.0 ST (Jul11) Quantile" ] ], - "Phenotypes": [ - [ - "HSBPublish", - "HSB Published Phenotypes" - ] - ], "Posterior Inferior Parietal Cortex mRNA": [ [ "KIN_YSM_IPC_0711", @@ -1118,12 +962,6 @@ "INIA Macaca fasicularis Brain (Jan10) RMA **" ] ], - "Genotypes": [ - [ - "Macaca-fasicularisGeno", - "Macaca-fasicularis Genotypes" - ] - ], "Hippocampus mRNA": [ [ "INIA_MacFas_Hc_RMA_0110", @@ -1136,12 +974,6 @@ "INIA Macaca fasicularis Nucleus Accumbens (Jan10) RMA **" ] ], - "Phenotypes": [ - [ - "Macaca-fasicularisPublish", - "Macaca-fasicularis Published Phenotypes" - ] - ], "Prefrontal Cortex mRNA": [ [ "INIA_MacFas_Pf_RMA_0110", @@ -1164,18 +996,12 @@ "NCI Mammary LMT miRNA v2 (Apr09) RMA" ], [ - "MA_M_0704_R", - "NCI Mammary mRNA M430 (July04) RMA" - ], - [ "MA_M_0704_M", "NCI Mammary mRNA M430 (July04) MAS5" - ] - ], - "Phenotypes": [ + ], [ - "AKXDPublish", - "AKXD Published Phenotypes" + "MA_M_0704_R", + "NCI Mammary mRNA M430 (July04) RMA" ] ] }, @@ -1226,12 +1052,12 @@ ], "Liver mRNA": [ [ - "LVF2_M_0704_R", - "(B6 x BTBR)F2-ob/ob Liver mRNA M430 (Jul04) RMA" - ], - [ "LVF2_M_0704_M", "(B6 x BTBR)F2-ob/ob Liver mRNA M430 (Jul04) MAS5" + ], + [ + "LVF2_M_0704_R", + "(B6 x BTBR)F2-ob/ob Liver mRNA M430 (Jul04) RMA" ] ], "Phenotypes": [ @@ -1244,10 +1070,6 @@ "B6D2F2": { "Brain mRNA": [ [ - "BRF2_M_0805_M", - "OHSU/VA B6D2F2 Brain mRNA M430 (Aug05) MAS5" - ], - [ "BRF2_M_0805_P", "OHSU/VA B6D2F2 Brain mRNA M430 (Aug05) PDNN" ], @@ -1256,16 +1078,20 @@ "OHSU/VA B6D2F2 Brain mRNA M430 (Aug05) RMA" ], [ - "BRF2_M_0304_P", - "OHSU/VA B6D2F2 Brain mRNA M430A (Mar04) PDNN" + "BRF2_M_0805_M", + "OHSU/VA B6D2F2 Brain mRNA M430 (Aug05) MAS5" ], [ - "BRF2_M_0304_R", - "OHSU/VA B6D2F2 Brain mRNA M430A (Mar04) RMA" + "BRF2_M_0304_P", + "OHSU/VA B6D2F2 Brain mRNA M430A (Mar04) PDNN" ], [ "BRF2_M_0304_M", "OHSU/VA B6D2F2 Brain mRNA M430A (Mar04) MAS5" + ], + [ + "BRF2_M_0304_R", + "OHSU/VA B6D2F2 Brain mRNA M430A (Mar04) RMA" ] ], "Genotypes": [ @@ -1273,12 +1099,6 @@ "B6D2F2Geno", "B6D2F2 Genotypes" ] - ], - "Phenotypes": [ - [ - "B6D2F2Publish", - "B6D2F2 Published Phenotypes" - ] ] }, "B6D2F2-PSU": { @@ -1305,32 +1125,14 @@ "PSU-B6D2F2_M2000812", "PSU B6D2F2 Muscle Affy Mouse Genome 430 2.0 (Aug12) RMA Males Aged 200 **" ] - ], - "Phenotypes": [ - [ - "B6D2F2-PSUPublish", - "B6D2F2-PSU Published Phenotypes" - ] ] }, "B6D2RI": { - "Genotypes": [ - [ - "B6D2RIGeno", - "B6D2RI Genotypes" - ] - ], "Hippocampus mRNA": [ [ "UTHSC_B6D2RI_H_0912", "UTHSC B6D2RI Aged Hippocampus Affy Mouse Gene 1.0 ST (Sep12) RMA **" ] - ], - "Phenotypes": [ - [ - "B6D2RIPublish", - "B6D2RI Published Phenotypes" - ] ] }, "BDF2-1999": { @@ -1345,12 +1147,6 @@ "UCLA_BDF2_LIVER_1999", "UCLA BDF2 Liver (1999) mlratio" ] - ], - "Phenotypes": [ - [ - "BDF2-1999Publish", - "BDF2-1999 Published Phenotypes" - ] ] }, "BDF2-2005": { @@ -1360,52 +1156,46 @@ "BDF2-2005 Genotypes" ] ], - "Phenotypes": [ - [ - "BDF2-2005Publish", - "BDF2-2005 Published Phenotypes" - ] - ], "Striatum mRNA": [ [ - "SA_M2_0905_R", - "OHSU/VA B6D2F2 Striatum M430v2 (Sep05) RMA" - ], - [ "SA_M2_0905_M", "OHSU/VA B6D2F2 Striatum M430v2 (Sep05) MAS5" ], [ "SA_M2_0905_P", "OHSU/VA B6D2F2 Striatum M430v2 (Sep05) PDNN" + ], + [ + "SA_M2_0905_R", + "OHSU/VA B6D2F2 Striatum M430v2 (Sep05) RMA" ] ] }, "BHF2": { "Adipose mRNA": [ [ - "UCLA_BHF2_ADIPOSE_MALE", - "UCLA BHF2 Adipose Male mlratio" - ], - [ "UCLA_BHF2_ADIPOSE_FEMALE", "UCLA BHF2 Adipose Female mlratio" ], [ + "UCLA_BHF2_ADIPOSE_MALE", + "UCLA BHF2 Adipose Male mlratio" + ], + [ "UCLA_BHF2_ADIPOSE_0605", "UCLA BHF2 Adipose (June05) mlratio" ] ], "Brain mRNA": [ [ - "UCLA_BHF2_BRAIN_MALE", - "UCLA BHF2 Brain Male mlratio" - ], - [ "UCLA_BHF2_BRAIN_FEMALE", "UCLA BHF2 Brain Female mlratio" ], [ + "UCLA_BHF2_BRAIN_MALE", + "UCLA BHF2 Brain Male mlratio" + ], + [ "UCLA_BHF2_BRAIN_0605", "UCLA BHF2 Brain (June05) mlratio" ] @@ -1418,37 +1208,31 @@ ], "Liver mRNA": [ [ - "UCLA_BHF2_LIVER_MALE", - "UCLA BHF2 Liver Male mlratio" - ], - [ "UCLA_BHF2_LIVER_FEMALE", "UCLA BHF2 Liver Female mlratio" ], [ + "UCLA_BHF2_LIVER_MALE", + "UCLA BHF2 Liver Male mlratio" + ], + [ "UCLA_BHF2_LIVER_0605", "UCLA BHF2 Liver (June05) mlratio" ] ], "Muscle mRNA": [ [ - "UCLA_BHF2_MUSCLE_MALE", - "UCLA BHF2 Muscle Male mlratio **" - ], - [ "UCLA_BHF2_MUSCLE_FEMALE", "UCLA BHF2 Muscle Female mlratio **" ], [ + "UCLA_BHF2_MUSCLE_MALE", + "UCLA BHF2 Muscle Male mlratio **" + ], + [ "UCLA_BHF2_MUSCLE_0605", "UCLA BHF2 Muscle (June05) mlratio **" ] - ], - "Phenotypes": [ - [ - "BHF2Publish", - "BHF2 Published Phenotypes" - ] ] }, "BHHBF2": { @@ -1513,12 +1297,6 @@ "UCLA_BHHBF2_MUSCLE_FEMALE", "UCLA BHHBF2 Muscle Female Only" ] - ], - "Phenotypes": [ - [ - "BHHBF2Publish", - "BHHBF2 Published Phenotypes" - ] ] }, "BXD": { @@ -1604,14 +1382,14 @@ "UTHSC Mouse BXD Whole Brain RNA Sequence (Nov12) RPKM Trimmed 2.0" ], [ - "UTHSC_BXD_WB_RNASeq1112", - "UTHSC Mouse BXD Whole Brain RNA Sequence (Nov12) RPKM Untrimmed" - ], - [ "UTHSC_BXD_WB_RNASeqtrim1_1112", "UTHSC Mouse BXD Whole Brain RNA Sequence (Nov12) RPKM Trimmed 1.0" ], [ + "UTHSC_BXD_WB_RNASeq1112", + "UTHSC Mouse BXD Whole Brain RNA Sequence (Nov12) RPKM Untrimmed" + ], + [ "UTHSC_BXD_WB_RNASeqEx1112", "UTHSC Mouse BXD Whole Brain RNA Sequence Exon Level (Nov12) RPKM" ], @@ -1624,6 +1402,10 @@ "UTHSC Brain mRNA U74Av2 (Nov05) PDNN" ], [ + "BR_U_0805_P", + "UTHSC Brain mRNA U74Av2 (Aug05) PDNN" + ], + [ "BR_U_0805_M", "UTHSC Brain mRNA U74Av2 (Aug05) MAS5" ], @@ -1632,10 +1414,6 @@ "UTHSC Brain mRNA U74Av2 (Aug05) RMA" ], [ - "BR_U_0805_P", - "UTHSC Brain mRNA U74Av2 (Aug05) PDNN" - ], - [ "CB_M_0204_P", "INIA Brain mRNA M430 (Feb04) PDNN" ] @@ -1746,10 +1524,6 @@ "Eye M430v2 WT Gpnmb (Sep08) RMA **" ], [ - "Eye_M2_0908_R_MT", - "Eye M430v2 Mutant Tyrp1 (Sep08) RMA **" - ], - [ "Eye_M2_0908_WTWT", "Eye M430v2 WT WT (Sep08) RMA **" ], @@ -1758,6 +1532,10 @@ "Eye M430v2 WT Tyrp1 (Sep08) RMA **" ], [ + "Eye_M2_0908_R_MT", + "Eye M430v2 Mutant Tyrp1 (Sep08) RMA **" + ], + [ "DBA2J-ONH-1212", "Howell et al. 2011, DBA/2J Glaucoma Optic Nerve Head M430 2.0 (Dec12) RMA" ], @@ -1962,12 +1740,12 @@ "Mouse Kidney M430v2 Sex Balanced (Aug06) PDNN" ], [ - "MA_M2_0706_P", - "Mouse Kidney M430v2 (Jul06) PDNN" - ], - [ "MA_M2_0706_R", "Mouse Kidney M430v2 (Jul06) RMA" + ], + [ + "MA_M2_0706_P", + "Mouse Kidney M430v2 (Jul06) PDNN" ] ], "Leucocytes mRNA": [ @@ -1988,14 +1766,14 @@ ], "Liver Proteome": [ [ - "EPFLETHZBXDprotHFD0514", - "EPFL/ETHZ BXD Liver, Soluble Proteins HFD (May14) SWATH **" - ], - [ "EPFLETHZBXDprotCD0514", "EPFL/ETHZ BXD Liver, Soluble Proteins CD (May14) SWATH **" ], [ + "EPFLETHZBXDprotHFD0514", + "EPFL/ETHZ BXD Liver, Soluble Proteins HFD (May14) SWATH **" + ], + [ "EPFLBXDprotHFDRPN0214", "EPFL/LISP BXD Liver, Soluble Proteins HFD (Feb14) SRM **" ], @@ -2132,14 +1910,14 @@ ], "Neocortex mRNA": [ [ - "DevNeocortex_ILM6.2P14RInv_1111", - "BIDMC/UTHSC Dev Neocortex P14 ILMv6.2 (Nov11) RankInv" - ], - [ "DevNeocortex_ILM6.2P3RInv_1111", "BIDMC/UTHSC Dev Neocortex P3 ILMv6.2 (Nov11) RankInv" ], [ + "DevNeocortex_ILM6.2P14RInv_1111", + "BIDMC/UTHSC Dev Neocortex P14 ILMv6.2 (Nov11) RankInv" + ], + [ "HQFNeoc_1210v2_RankInv", "HQF BXD Neocortex ILM6v1.1 (Dec10v2) RankInv" ], @@ -2152,12 +1930,12 @@ "HQF BXD Neocortex ILM6v1.1 (Feb08) RankInv" ], [ - "DevNeocortex_ILM6.2P3RInv_1110", - "BIDMC/UTHSC Dev Neocortex P3 ILMv6.2 (Nov10) RankInv" - ], - [ "DevNeocortex_ILM6.2P14RInv_1110", "BIDMC/UTHSC Dev Neocortex P14 ILMv6.2 (Nov10) RankInv" + ], + [ + "DevNeocortex_ILM6.2P3RInv_1110", + "BIDMC/UTHSC Dev Neocortex P3 ILMv6.2 (Nov10) RankInv" ] ], "Nucleus Accumbens mRNA": [ @@ -2256,14 +2034,14 @@ "ONC HEI Retina (April 2012) RankInv" ], [ - "DoDTATRCRetMoGene2_1313", - "DoD TATRC Retina Affy MoGene 2.0 ST (Dec13) RMA" - ], - [ "DoDTATRCRetExMoGene2_1313", "DoD TATRC Retina Affy MoGene 2.0 ST (Dec13) RMA Exon Level" ], [ + "DoDTATRCRetMoGene2_1313", + "DoD TATRC Retina Affy MoGene 2.0 ST (Dec13) RMA" + ], + [ "ONCRetMoGene2_0413", "DoD TATRC Retina Affy MoGene 2.0 ST (Oct13) RMA **" ], @@ -2284,12 +2062,12 @@ "B6D2 ONC Retina (April 2012) RankInv **" ], [ - "HEIONCvsCRetILM6_0911", - "HEI ONC vs Control Retina Illumina V6.2 (Sep11) RankInv **" - ], - [ "G2HEIONCRetILM6_0911", "G2 HEI ONC Retina Illumina V6.2 (Sep11) RankInv **" + ], + [ + "HEIONCvsCRetILM6_0911", + "HEI ONC vs Control Retina Illumina V6.2 (Sep11) RankInv **" ] ], "Spleen mRNA": [ @@ -2376,12 +2154,12 @@ "BIDMC/UTHSC Dev Striatum P14 ILMv6.2 (Nov11) RankInv **" ], [ - "DevStriatum_ILM6.2P14RInv_1110", - "BIDMC/UTHSC Dev Striatum P14 ILMv6.2 (Nov10) RankInv **" - ], - [ "DevStriatum_ILM6.2P3RInv_1110", "BIDMC/UTHSC Dev Striatum P3 ILMv6.2 (Nov10) RankInv **" + ], + [ + "DevStriatum_ILM6.2P14RInv_1110", + "BIDMC/UTHSC Dev Striatum P14 ILMv6.2 (Nov10) RankInv **" ] ], "T Cell (helper) mRNA": [ @@ -2404,16 +2182,16 @@ ], "Ventral Tegmental Area mRNA": [ [ - "VCUEtOH_0609_R", - "VCU BXD VTA EtOH M430 2.0 (Jun09) RMA **" - ], - [ "VCUSal_0609_R", "VCU BXD VTA Sal M430 2.0 (Jun09) RMA **" ], [ "VCUEtvsSal_0609_R", "VCU BXD VTA Et vs Sal M430 2.0 (Jun09) Sscore **" + ], + [ + "VCUEtOH_0609_R", + "VCU BXD VTA EtOH M430 2.0 (Jun09) RMA **" ] ] }, @@ -2550,12 +2328,12 @@ ], "Hippocampus mRNA": [ [ - "HC_M2CB_1205_R", - "Hippocampus Consortium M430v2 CXB (Dec05) RMA" - ], - [ "HC_M2CB_1205_P", "Hippocampus Consortium M430v2 CXB (Dec05) PDNN" + ], + [ + "HC_M2CB_1205_R", + "Hippocampus Consortium M430v2 CXB (Dec05) RMA" ] ], "Phenotypes": [ @@ -2572,12 +2350,6 @@ ] }, "HS": { - "Genotypes": [ - [ - "HSGeno", - "HS Genotypes" - ] - ], "Hippocampus mRNA": [ [ "OXUKHS_ILMHipp_RI0510", @@ -2604,18 +2376,6 @@ ] }, "HS-CC": { - "Genotypes": [ - [ - "HS-CCGeno", - "HS-CC Genotypes" - ] - ], - "Phenotypes": [ - [ - "HS-CCPublish", - "HS-CC Published Phenotypes" - ] - ], "Striatum mRNA": [ [ "OHSU_HS-CC_ILMStr_0211", @@ -2660,14 +2420,6 @@ "Hippocampus Illumina (May07) RankInv" ], [ - "Illum_LXS_Hipp_NON_1008", - "Hippocampus Illumina NON (Oct08) RankInv beta" - ], - [ - "Illum_LXS_Hipp_RSE_1008", - "Hippocampus Illumina RSE (Oct08) RankInv beta" - ], - [ "Illum_LXS_Hipp_NOE_1008", "Hippocampus Illumina NOE (Oct08) RankInv beta" ], @@ -2678,6 +2430,14 @@ [ "Illum_LXS_Hipp_NOS_1008", "Hippocampus Illumina NOS (Oct08) RankInv beta" + ], + [ + "Illum_LXS_Hipp_NON_1008", + "Hippocampus Illumina NON (Oct08) RankInv beta" + ], + [ + "Illum_LXS_Hipp_RSE_1008", + "Hippocampus Illumina RSE (Oct08) RankInv beta" ] ], "Phenotypes": [ @@ -2688,16 +2448,16 @@ ], "Prefrontal Cortex mRNA": [ [ - "VCUEtOH_0806_R", - "VCU LXS PFC EtOH M430A 2.0 (Aug06) RMA **" - ], - [ "VCUSal_0806_R", "VCU LXS PFC Sal M430A 2.0 (Aug06) RMA" ], [ "VCUEt_vs_Sal_0806_R", "VCU LXS PFC Et vs Sal M430A 2.0 (Aug06) Sscore **" + ], + [ + "VCUEtOH_0806_R", + "VCU LXS PFC EtOH M430A 2.0 (Aug06) RMA **" ] ] }, @@ -2736,12 +2496,12 @@ ], "Hippocampus mRNA": [ [ - "UMUTAffyExon_0209_RMA_MDP", - "UMUTAffy Hippocampus Exon (Feb09) RMA MDP" - ], - [ "HC_M2_0606_MDP", "Hippocampus Consortium M430v2 (Jun06) RMA MDP" + ], + [ + "UMUTAffyExon_0209_RMA_MDP", + "UMUTAffy Hippocampus Exon (Feb09) RMA MDP" ] ], "Liver mRNA": [ @@ -2774,12 +2534,6 @@ ] }, "NZBXFVB-N2": { - "Genotypes": [ - [ - "NZBXFVB-N2Geno", - "NZBXFVB-N2 Genotypes" - ] - ], "Mammary Tumors mRNA": [ [ "NCI_Mam_Tum_RMA_0409", @@ -2799,12 +2553,6 @@ "SOTNOT-OHSUGeno", "SOTNOT-OHSU Genotypes" ] - ], - "Phenotypes": [ - [ - "SOTNOT-OHSUPublish", - "SOTNOT-OHSU Published Phenotypes" - ] ] }, "Scripps-2013": { @@ -2817,29 +2565,11 @@ "ScrBXDACC4GEx0513", "Scripps BXD ACC 4 Groups Affy Mouse Gene 1.0 ST (May13) RMA Exon Level **" ] - ], - "Genotypes": [ - [ - "Scripps-2013Geno", - "Scripps-2013 Genotypes" - ] - ], - "Phenotypes": [ - [ - "Scripps-2013Publish", - "Scripps-2013 Published Phenotypes" - ] ] } }, "rat": { "HSNIH": { - "Genotypes": [ - [ - "HSNIHGeno", - "HSNIH Genotypes" - ] - ], "Phenotypes": [ [ "HSNIHPublish", @@ -2915,18 +2645,6 @@ "UIOWA_Eye_RMA_0906", "UIOWA Eye mRNA RAE230v2 (Sep06) RMA" ] - ], - "Genotypes": [ - [ - "SRxSHRSPF2Geno", - "SRxSHRSPF2 Genotypes" - ] - ], - "Phenotypes": [ - [ - "SRxSHRSPF2Publish", - "SRxSHRSPF2 Published Phenotypes" - ] ] } }, @@ -2946,12 +2664,6 @@ ] }, "J12XJ58F2": { - "Genotypes": [ - [ - "J12XJ58F2Geno", - "J12XJ58F2 Genotypes" - ] - ], "Phenotypes": [ [ "J12XJ58F2Publish", @@ -2962,12 +2674,6 @@ }, "tomato": { "LXP": { - "Genotypes": [ - [ - "LXPGeno", - "LXP Genotypes" - ] - ], "Phenotypes": [ [ "LXPPublish", @@ -3285,14 +2991,6 @@ "barley": { "QSM": [ [ - "Phenotypes", - "Phenotypes" - ], - [ - "Genotypes", - "Genotypes" - ], - [ "Leaf mRNA", "Leaf mRNA" ] @@ -3319,28 +3017,12 @@ "drosophila": { "DGRP": [ [ - "Phenotypes", - "Phenotypes" - ], - [ - "Genotypes", - "Genotypes" - ], - [ "Whole Body mRNA", "Whole Body mRNA" ] ], "Oregon-R_x_2b3": [ [ - "Phenotypes", - "Phenotypes" - ], - [ - "Genotypes", - "Genotypes" - ], - [ "Whole Body mRNA", "Whole Body mRNA" ] @@ -3349,24 +3031,12 @@ "human": { "AD-cases-controls": [ [ - "Phenotypes", - "Phenotypes" - ], - [ - "Genotypes", - "Genotypes" - ], - [ "Brain mRNA", "Brain mRNA" ] ], "AD-cases-controls-Myers": [ [ - "Phenotypes", - "Phenotypes" - ], - [ "Genotypes", "Genotypes" ], @@ -3377,14 +3047,6 @@ ], "Aging-Brain-UCI": [ [ - "Phenotypes", - "Phenotypes" - ], - [ - "Genotypes", - "Genotypes" - ], - [ "Entorhinal Cortex mRNA", "Entorhinal Cortex mRNA" ], @@ -3403,14 +3065,6 @@ ], "Brain-Normal-NIH-Gibbs": [ [ - "Phenotypes", - "Phenotypes" - ], - [ - "Genotypes", - "Genotypes" - ], - [ "Cerebellum mRNA", "Cerebellum mRNA" ], @@ -3433,10 +3087,6 @@ "Phenotypes" ], [ - "Genotypes", - "Genotypes" - ], - [ "Methylation", "Methylation" ], @@ -3447,28 +3097,12 @@ ], "CEPH-2004": [ [ - "Phenotypes", - "Phenotypes" - ], - [ - "Genotypes", - "Genotypes" - ], - [ "Lymphoblast B-cell mRNA", "Lymphoblast B-cell mRNA" ] ], "GTEx": [ [ - "Phenotypes", - "Phenotypes" - ], - [ - "Genotypes", - "Genotypes" - ], - [ "Adrenal Gland mRNA", "Adrenal Gland mRNA" ], @@ -3659,14 +3293,6 @@ ], "HB": [ [ - "Phenotypes", - "Phenotypes" - ], - [ - "Genotypes", - "Genotypes" - ], - [ "Cerebellum mRNA", "Cerebellum mRNA" ], @@ -3683,10 +3309,6 @@ [ "Phenotypes", "Phenotypes" - ], - [ - "Genotypes", - "Genotypes" ] ], "HLC": [ @@ -3695,38 +3317,18 @@ "Phenotypes" ], [ - "Genotypes", - "Genotypes" - ], - [ "Liver mRNA", "Liver mRNA" ] ], "HLT": [ [ - "Phenotypes", - "Phenotypes" - ], - [ - "Genotypes", - "Genotypes" - ], - [ "Lung mRNA", "Lung mRNA" ] ], "HSB": [ [ - "Phenotypes", - "Phenotypes" - ], - [ - "Genotypes", - "Genotypes" - ], - [ "Amygdala mRNA", "Amygdala mRNA" ], @@ -3795,14 +3397,6 @@ "macaque monkey": { "Macaca-fasicularis": [ [ - "Phenotypes", - "Phenotypes" - ], - [ - "Genotypes", - "Genotypes" - ], - [ "Amygdala mRNA", "Amygdala mRNA" ], @@ -3827,10 +3421,6 @@ "mouse": { "AKXD": [ [ - "Phenotypes", - "Phenotypes" - ], - [ "Genotypes", "Genotypes" ], @@ -3881,10 +3471,6 @@ ], "B6D2F2": [ [ - "Phenotypes", - "Phenotypes" - ], - [ "Genotypes", "Genotypes" ], @@ -3895,10 +3481,6 @@ ], "B6D2F2-PSU": [ [ - "Phenotypes", - "Phenotypes" - ], - [ "Genotypes", "Genotypes" ], @@ -3909,24 +3491,12 @@ ], "B6D2RI": [ [ - "Phenotypes", - "Phenotypes" - ], - [ - "Genotypes", - "Genotypes" - ], - [ "Hippocampus mRNA", "Hippocampus mRNA" ] ], "BDF2-1999": [ [ - "Phenotypes", - "Phenotypes" - ], - [ "Genotypes", "Genotypes" ], @@ -3937,10 +3507,6 @@ ], "BDF2-2005": [ [ - "Phenotypes", - "Phenotypes" - ], - [ "Genotypes", "Genotypes" ], @@ -3951,10 +3517,6 @@ ], "BHF2": [ [ - "Phenotypes", - "Phenotypes" - ], - [ "Genotypes", "Genotypes" ], @@ -3977,10 +3539,6 @@ ], "BHHBF2": [ [ - "Phenotypes", - "Phenotypes" - ], - [ "Genotypes", "Genotypes" ], @@ -4233,10 +3791,6 @@ "Phenotypes" ], [ - "Genotypes", - "Genotypes" - ], - [ "Hippocampus mRNA", "Hippocampus mRNA" ], @@ -4251,14 +3805,6 @@ ], "HS-CC": [ [ - "Phenotypes", - "Phenotypes" - ], - [ - "Genotypes", - "Genotypes" - ], - [ "Striatum mRNA", "Striatum mRNA" ] @@ -4323,34 +3869,18 @@ "Phenotypes" ], [ - "Genotypes", - "Genotypes" - ], - [ "Mammary Tumors mRNA", "Mammary Tumors mRNA" ] ], "SOTNOT-OHSU": [ [ - "Phenotypes", - "Phenotypes" - ], - [ "Genotypes", "Genotypes" ] ], "Scripps-2013": [ [ - "Phenotypes", - "Phenotypes" - ], - [ - "Genotypes", - "Genotypes" - ], - [ "Anterior Cingulate Cortex mRNA", "Anterior Cingulate Cortex mRNA" ] @@ -4361,10 +3891,6 @@ [ "Phenotypes", "Phenotypes" - ], - [ - "Genotypes", - "Genotypes" ] ], "HXBBXH": [ @@ -4403,14 +3929,6 @@ ], "SRxSHRSPF2": [ [ - "Phenotypes", - "Phenotypes" - ], - [ - "Genotypes", - "Genotypes" - ], - [ "Eye mRNA", "Eye mRNA" ] @@ -4431,10 +3949,6 @@ [ "Phenotypes", "Phenotypes" - ], - [ - "Genotypes", - "Genotypes" ] ] }, @@ -4443,10 +3957,6 @@ [ "Phenotypes", "Phenotypes" - ], - [ - "Genotypes", - "Genotypes" ] ] } diff --git a/wqflask/wqflask/static/new/javascript/dataset_select_menu.js b/wqflask/wqflask/static/new/javascript/dataset_select_menu.js index 5bd54359..f91504be 100644 --- a/wqflask/wqflask/static/new/javascript/dataset_select_menu.js +++ b/wqflask/wqflask/static/new/javascript/dataset_select_menu.js @@ -94,6 +94,7 @@ $(function() { $('#dataset_info').click(dataset_info); make_default = function() { var holder, item, jholder, _i, _len, _ref; + alert("The current settings are now your default.") holder = {}; _ref = ['species', 'group', 'type', 'dataset']; for (_i = 0, _len = _ref.length; _i < _len; _i++) { @@ -134,10 +135,12 @@ $(function() { return _results; }; check_search_term = function() { - var search_term; - search_term = $('#tfor').val(); - console.log("search_term:", search_term); - if (search_term === "") { + var or_search_term, and_search_term; + or_search_term = $('#or_search').val(); + and_search_term = $('#and_search').val(); + console.log("or_search_term:", or_search_term); + console.log("and_search_term:", and_search_term); + if (or_search_term === "" && and_search_term === "") { alert("Please enter one or more search terms or search equations."); return false; } diff --git a/wqflask/wqflask/static/new/javascript/draw_probability_plot.coffee b/wqflask/wqflask/static/new/javascript/draw_probability_plot.coffee index a2345dcb..09ab3bc4 100644 --- a/wqflask/wqflask/static/new/javascript/draw_probability_plot.coffee +++ b/wqflask/wqflask/static/new/javascript/draw_probability_plot.coffee @@ -1,35 +1,94 @@ -# illustration of use of the scatterplot function
-
-h = 400
-w = 500
-margin = {left:60, top:40, right:40, bottom: 40, inner:5}
-halfh = (h+margin.top+margin.bottom)
-totalh = halfh*2
-halfw = (w+margin.left+margin.right)
-totalw = halfw*2
-
-# Example 1: simplest use
-#d3.json "data.json", (data) ->
-mychart = scatterplot().xvar(0)
- .yvar(1)
- .height(h)
- .width(w)
- .margin(margin)
-
-data = js_data.probability_plot_data
-#indID = js_data.indIDs
-#slope = js_data.slope
-#intercept = js_data.intercept
-
-console.log("THE DATA IS:", data)
-
-d3.select("div#prob_plot")
- .datum({data:data})
- .call(mychart)
-
-# animate points
-mychart.pointsSelect()
- .on "mouseover", (d) ->
- d3.select(this).attr("r", mychart.pointsize()*3)
- .on "mouseout", (d) ->
- d3.select(this).attr("r", mychart.pointsize())
+root = exports ? this
+
+# calculations here use the same formulae as scipy.stats.probplot
+get_z_scores = (n) ->
+ # order statistic medians (Filliben's approximation)
+ osm_uniform = new Array(n)
+ osm_uniform[n - 1] = Math.pow(0.5, 1.0 / n)
+ osm_uniform[0] = 1 - osm_uniform[n - 1]
+ for i in [1 .. (n - 2)]
+ osm_uniform[i] = (i + 1 - 0.3175) / (n + 0.365)
+
+ return (jStat.normal.inv(x, 0, 1) for x in osm_uniform)
+
+# samples is {'samples_primary': {'name1': value1, ...},
+# 'samples_other': {'nameN': valueN, ...},
+# 'samples_all': {'name1': value1, ...}}
+redraw_prob_plot = (samples, sample_group) ->
+ h = 600
+ w = 600
+ margin = {left:60, top:40, right:40, bottom: 40, inner:5}
+ totalh = h + margin.top + margin.bottom
+ totalw = w + margin.left + margin.right
+
+ container = $("#prob_plot_container")
+ container.width(totalw)
+ container.height(totalh)
+
+ nv.addGraph(() =>
+ chart = nv.models.scatterChart()
+ .width(w)
+ .height(h)
+ .showLegend(true)
+ .color(d3.scale.category10().range())
+
+ # size settings are quite counter-intuitive in NVD3!
+ chart.pointRange([50,50]) # (50 is the area, not radius)
+
+ chart.legend.updateState(false)
+
+ chart.xAxis
+ .axisLabel("Theoretical quantiles")
+ .tickFormat(d3.format('.02f'))
+
+ chart.yAxis
+ .axisLabel("Sample quantiles")
+ .tickFormat(d3.format('.02f'))
+
+ chart.tooltipContent((obj) =>
+ return '<b style="font-size: 20px">' + obj.point.name + '</b>'
+ )
+
+ all_samples = samples[sample_group]
+ names = (x for x in _.keys(all_samples) when all_samples[x] != null)
+ sorted_names = names.sort((x, y) => all_samples[x].value - all_samples[y].value)
+ sorted_values = (all_samples[x].value for x in sorted_names)
+ sw_result = ShapiroWilkW(sorted_values)
+ W = sw_result.w.toFixed(3)
+ pvalue = sw_result.p.toFixed(3)
+ pvalue_str = if pvalue > 0.05 then\
+ pvalue.toString()\
+ else\
+ "<span style='color:red'>"+pvalue+"</span>"
+ test_str = "Shapiro-Wilk test statistic is #{W} (p = #{pvalue_str})"
+
+ z_scores = get_z_scores(sorted_values.length)
+ slope = jStat.stdev(sorted_values)
+ intercept = jStat.mean(sorted_values)
+
+ make_data = (group_name) ->
+ return {
+ key: js_data.sample_group_types[group_name],
+ slope: slope,
+ intercept: intercept,
+ values: ({x: z_score, y: value, name: sample}\
+ for [z_score, value, sample] in\
+ _.zip(get_z_scores(sorted_values.length),
+ sorted_values,
+ sorted_names)\
+ when sample of samples[group_name])
+ }
+
+ data = [make_data('samples_primary'), make_data('samples_other')]
+ console.log("THE DATA IS:", data)
+ d3.select("#prob_plot_container svg")
+ .datum(data)
+ .call(chart)
+
+ $("#prob_plot_title").html("<h3>Normal probability plot</h3>"+test_str)
+ $("#prob_plot_container .nv-legendWrap").toggle(sample_group == "samples_all")
+
+ return chart
+ )
+
+root.redraw_prob_plot_impl = redraw_prob_plot
diff --git a/wqflask/wqflask/static/new/javascript/draw_probability_plot.js b/wqflask/wqflask/static/new/javascript/draw_probability_plot.js index f2bf09e6..3eb6295f 100644 --- a/wqflask/wqflask/static/new/javascript/draw_probability_plot.js +++ b/wqflask/wqflask/static/new/javascript/draw_probability_plot.js @@ -1,38 +1,122 @@ -// Generated by CoffeeScript 1.8.0 -var data, h, halfh, halfw, margin, mychart, totalh, totalw, w; +// Generated by CoffeeScript 1.9.2 +(function() { + var get_z_scores, redraw_prob_plot, root; -h = 400; + root = typeof exports !== "undefined" && exports !== null ? exports : this; -w = 500; + get_z_scores = function(n) { + var i, j, osm_uniform, ref, x; + osm_uniform = new Array(n); + osm_uniform[n - 1] = Math.pow(0.5, 1.0 / n); + osm_uniform[0] = 1 - osm_uniform[n - 1]; + for (i = j = 1, ref = n - 2; 1 <= ref ? j <= ref : j >= ref; i = 1 <= ref ? ++j : --j) { + osm_uniform[i] = (i + 1 - 0.3175) / (n + 0.365); + } + return (function() { + var k, len, results; + results = []; + for (k = 0, len = osm_uniform.length; k < len; k++) { + x = osm_uniform[k]; + results.push(jStat.normal.inv(x, 0, 1)); + } + return results; + })(); + }; -margin = { - left: 60, - top: 40, - right: 40, - bottom: 40, - inner: 5 -}; + redraw_prob_plot = function(samples, sample_group) { + var container, h, margin, totalh, totalw, w; + h = 600; + w = 600; + margin = { + left: 60, + top: 40, + right: 40, + bottom: 40, + inner: 5 + }; + totalh = h + margin.top + margin.bottom; + totalw = w + margin.left + margin.right; + container = $("#prob_plot_container"); + container.width(totalw); + container.height(totalh); + return nv.addGraph((function(_this) { + return function() { + var W, all_samples, chart, data, intercept, make_data, names, pvalue, pvalue_str, slope, sorted_names, sorted_values, sw_result, test_str, x, z_scores; + chart = nv.models.scatterChart().width(w).height(h).showLegend(true).color(d3.scale.category10().range()); + chart.pointRange([50, 50]); + chart.legend.updateState(false); + chart.xAxis.axisLabel("Theoretical quantiles").tickFormat(d3.format('.02f')); + chart.yAxis.axisLabel("Sample quantiles").tickFormat(d3.format('.02f')); + chart.tooltipContent(function(obj) { + return '<b style="font-size: 20px">' + obj.point.name + '</b>'; + }); + all_samples = samples[sample_group]; + names = (function() { + var j, len, ref, results; + ref = _.keys(all_samples); + results = []; + for (j = 0, len = ref.length; j < len; j++) { + x = ref[j]; + if (all_samples[x] !== null) { + results.push(x); + } + } + return results; + })(); + sorted_names = names.sort(function(x, y) { + return all_samples[x].value - all_samples[y].value; + }); + sorted_values = (function() { + var j, len, results; + results = []; + for (j = 0, len = sorted_names.length; j < len; j++) { + x = sorted_names[j]; + results.push(all_samples[x].value); + } + return results; + })(); + sw_result = ShapiroWilkW(sorted_values); + W = sw_result.w.toFixed(3); + pvalue = sw_result.p.toFixed(3); + pvalue_str = pvalue > 0.05 ? pvalue.toString() : "<span style='color:red'>" + pvalue + "</span>"; + test_str = "Shapiro-Wilk test statistic is " + W + " (p = " + pvalue_str + ")"; + z_scores = get_z_scores(sorted_values.length); + slope = jStat.stdev(sorted_values); + intercept = jStat.mean(sorted_values); + make_data = function(group_name) { + var sample, value, z_score; + return { + key: js_data.sample_group_types[group_name], + slope: slope, + intercept: intercept, + values: (function() { + var j, len, ref, ref1, results; + ref = _.zip(get_z_scores(sorted_values.length), sorted_values, sorted_names); + results = []; + for (j = 0, len = ref.length; j < len; j++) { + ref1 = ref[j], z_score = ref1[0], value = ref1[1], sample = ref1[2]; + if (sample in samples[group_name]) { + results.push({ + x: z_score, + y: value, + name: sample + }); + } + } + return results; + })() + }; + }; + data = [make_data('samples_primary'), make_data('samples_other')]; + console.log("THE DATA IS:", data); + d3.select("#prob_plot_container svg").datum(data).call(chart); + $("#prob_plot_title").html("<h3>Normal probability plot</h3>" + test_str); + $("#prob_plot_container .nv-legendWrap").toggle(sample_group === "samples_all"); + return chart; + }; + })(this)); + }; -halfh = h + margin.top + margin.bottom; + root.redraw_prob_plot_impl = redraw_prob_plot; -totalh = halfh * 2; - -halfw = w + margin.left + margin.right; - -totalw = halfw * 2; - -mychart = scatterplot().xvar(0).yvar(1).height(h).width(w).margin(margin); - -data = js_data.probability_plot_data; - -console.log("THE DATA IS:", data); - -d3.select("div#prob_plot").datum({ - data: data -}).call(mychart); - -mychart.pointsSelect().on("mouseover", function(d) { - return d3.select(this).attr("r", mychart.pointsize() * 3); -}).on("mouseout", function(d) { - return d3.select(this).attr("r", mychart.pointsize()); -}); +}).call(this); diff --git a/wqflask/wqflask/static/new/javascript/histogram.coffee b/wqflask/wqflask/static/new/javascript/histogram.coffee index 98f89ac6..68d9b5a2 100755 --- a/wqflask/wqflask/static/new/javascript/histogram.coffee +++ b/wqflask/wqflask/static/new/javascript/histogram.coffee @@ -4,7 +4,6 @@ class Histogram constructor: (@sample_list, @sample_group) ->
@sort_by = "name"
@format_count = d3.format(",.0f") #a formatter for counts
- @get_sample_vals()
@margin = {top: 10, right: 30, bottom: 30, left: 30}
@plot_width = 960 - @margin.left - @margin.right
@@ -12,21 +11,25 @@ class Histogram @x_buffer = @plot_width/20
@y_buffer = @plot_height/20
+ @plot_height -= @y_buffer
+
+ @get_sample_vals(@sample_list)
+ @redraw(@sample_vals)
+ redraw: (@sample_vals) ->
@y_min = d3.min(@sample_vals)
@y_max = d3.max(@sample_vals) * 1.1
-
- @plot_height -= @y_buffer
+
@create_x_scale()
@get_histogram_data()
@create_y_scale()
+ $("#histogram").empty()
@svg = @create_svg()
-
@create_graph()
- get_sample_vals: () ->
- @sample_vals = (sample.value for sample in @sample_list when sample.value != null)
+ get_sample_vals: (sample_list) ->
+ @sample_vals = (sample.value for sample in sample_list when sample.value != null)
create_svg: () ->
svg = d3.select("#histogram")
@@ -53,8 +56,9 @@ class Histogram get_histogram_data: () ->
console.log("sample_vals:", @sample_vals)
+ n_bins = Math.sqrt(@sample_vals.length)
@histogram_data = d3.layout.histogram()
- .bins(@x_scale.ticks(20))(@sample_vals)
+ .bins(@x_scale.ticks(n_bins))(@sample_vals)
console.log("histogram_data:", @histogram_data[0])
create_y_scale: () ->
@@ -112,17 +116,20 @@ class Histogram .attr("class", "bar")
.attr("transform", (d) =>
return "translate(" + @x_scale(d.x) + "," + @y_scale(d.y) + ")")
+
+ rect_width = @x_scale(@histogram_data[0].x + @histogram_data[0].dx) -
+ @x_scale(@histogram_data[0].x)
bar.append("rect")
.attr("x", 1)
- .attr("width", @x_scale(@histogram_data[0].x + @histogram_data[0].dx) - 1)
+ .attr("width", rect_width - 1)
.attr("height", (d) =>
return @plot_height - @y_scale(d.y)
)
bar.append("text")
.attr("dy", ".75em")
.attr("y", 6)
- .attr("x", @x_scale(@histogram_data[0].dx)/2)
+ .attr("x", rect_width / 2)
.attr("text-anchor", "middle")
.style("fill", "#fff")
.text((d) =>
@@ -131,4 +138,4 @@ class Histogram return @format_count(d.y)
)
-root.Histogram = Histogram
\ No newline at end of file +root.Histogram = Histogram
diff --git a/wqflask/wqflask/static/new/javascript/histogram.js b/wqflask/wqflask/static/new/javascript/histogram.js index 561a3068..d26d0c03 100755 --- a/wqflask/wqflask/static/new/javascript/histogram.js +++ b/wqflask/wqflask/static/new/javascript/histogram.js @@ -1,124 +1,135 @@ -// Generated by CoffeeScript 1.8.0 -var Histogram, root; - -root = typeof exports !== "undefined" && exports !== null ? exports : this; - -Histogram = (function() { - function Histogram(sample_list, sample_group) { - this.sample_list = sample_list; - this.sample_group = sample_group; - this.sort_by = "name"; - this.format_count = d3.format(",.0f"); - this.get_sample_vals(); - this.margin = { - top: 10, - right: 30, - bottom: 30, - left: 30 +// Generated by CoffeeScript 1.9.2 +(function() { + var Histogram, root; + + root = typeof exports !== "undefined" && exports !== null ? exports : this; + + Histogram = (function() { + function Histogram(sample_list1, sample_group) { + this.sample_list = sample_list1; + this.sample_group = sample_group; + this.sort_by = "name"; + this.format_count = d3.format(",.0f"); + this.margin = { + top: 10, + right: 30, + bottom: 30, + left: 30 + }; + this.plot_width = 960 - this.margin.left - this.margin.right; + this.plot_height = 500 - this.margin.top - this.margin.bottom; + this.x_buffer = this.plot_width / 20; + this.y_buffer = this.plot_height / 20; + this.plot_height -= this.y_buffer; + this.get_sample_vals(this.sample_list); + this.redraw(this.sample_vals); + } + + Histogram.prototype.redraw = function(sample_vals) { + this.sample_vals = sample_vals; + this.y_min = d3.min(this.sample_vals); + this.y_max = d3.max(this.sample_vals) * 1.1; + this.create_x_scale(); + this.get_histogram_data(); + this.create_y_scale(); + $("#histogram").empty(); + this.svg = this.create_svg(); + return this.create_graph(); }; - this.plot_width = 960 - this.margin.left - this.margin.right; - this.plot_height = 500 - this.margin.top - this.margin.bottom; - this.x_buffer = this.plot_width / 20; - this.y_buffer = this.plot_height / 20; - this.y_min = d3.min(this.sample_vals); - this.y_max = d3.max(this.sample_vals) * 1.1; - this.plot_height -= this.y_buffer; - this.create_x_scale(); - this.get_histogram_data(); - this.create_y_scale(); - this.svg = this.create_svg(); - this.create_graph(); - } - - Histogram.prototype.get_sample_vals = function() { - var sample; - return this.sample_vals = (function() { - var _i, _len, _ref, _results; - _ref = this.sample_list; - _results = []; - for (_i = 0, _len = _ref.length; _i < _len; _i++) { - sample = _ref[_i]; - if (sample.value !== null) { - _results.push(sample.value); + + Histogram.prototype.get_sample_vals = function(sample_list) { + var sample; + return this.sample_vals = (function() { + var i, len, results; + results = []; + for (i = 0, len = sample_list.length; i < len; i++) { + sample = sample_list[i]; + if (sample.value !== null) { + results.push(sample.value); + } } - } - return _results; - }).call(this); - }; - - Histogram.prototype.create_svg = function() { - var svg; - svg = d3.select("#histogram").append("svg").attr("class", "histogram").attr("width", this.plot_width + this.margin.left + this.margin.right).attr("height", this.plot_height + this.margin.top + this.margin.bottom).append("g").attr("transform", "translate(" + this.margin.left + "," + this.margin.top + ")"); - return svg; - }; - - Histogram.prototype.create_x_scale = function() { - var x0; - console.log("min/max:", d3.min(this.sample_vals) + "," + d3.max(this.sample_vals)); - x0 = Math.max(-d3.min(this.sample_vals), d3.max(this.sample_vals)); - return this.x_scale = d3.scale.linear().domain([d3.min(this.sample_vals), d3.max(this.sample_vals)]).range([0, this.plot_width]).nice(); - }; - - Histogram.prototype.get_histogram_data = function() { - console.log("sample_vals:", this.sample_vals); - this.histogram_data = d3.layout.histogram().bins(this.x_scale.ticks(20))(this.sample_vals); - return console.log("histogram_data:", this.histogram_data[0]); - }; - - Histogram.prototype.create_y_scale = function() { - return this.y_scale = d3.scale.linear().domain([ - 0, d3.max(this.histogram_data, (function(_this) { + return results; + })(); + }; + + Histogram.prototype.create_svg = function() { + var svg; + svg = d3.select("#histogram").append("svg").attr("class", "histogram").attr("width", this.plot_width + this.margin.left + this.margin.right).attr("height", this.plot_height + this.margin.top + this.margin.bottom).append("g").attr("transform", "translate(" + this.margin.left + "," + this.margin.top + ")"); + return svg; + }; + + Histogram.prototype.create_x_scale = function() { + var x0; + console.log("min/max:", d3.min(this.sample_vals) + "," + d3.max(this.sample_vals)); + x0 = Math.max(-d3.min(this.sample_vals), d3.max(this.sample_vals)); + return this.x_scale = d3.scale.linear().domain([d3.min(this.sample_vals), d3.max(this.sample_vals)]).range([0, this.plot_width]).nice(); + }; + + Histogram.prototype.get_histogram_data = function() { + var n_bins; + console.log("sample_vals:", this.sample_vals); + n_bins = 2*Math.sqrt(this.sample_vals.length); //Was originally just the square root, but increased to 2*; ideally would be a GUI for changing this + this.histogram_data = d3.layout.histogram().bins(this.x_scale.ticks(n_bins))(this.sample_vals); + return console.log("histogram_data:", this.histogram_data[0]); + }; + + Histogram.prototype.create_y_scale = function() { + return this.y_scale = d3.scale.linear().domain([ + 0, d3.max(this.histogram_data, (function(_this) { + return function(d) { + return d.y; + }; + })(this)) + ]).range([this.plot_height, 0]); + }; + + Histogram.prototype.create_graph = function() { + this.add_x_axis(); + this.add_y_axis(); + return this.add_bars(); + }; + + Histogram.prototype.add_x_axis = function() { + var x_axis; + x_axis = d3.svg.axis().scale(this.x_scale).orient("bottom"); + return this.svg.append("g").attr("class", "x axis").attr("transform", "translate(0," + this.plot_height + ")").call(x_axis); + }; + + Histogram.prototype.add_y_axis = function() { + var yAxis; + yAxis = d3.svg.axis().scale(this.y_scale).orient("left").ticks(5); + return this.svg.append("g").attr("class", "y axis").call(yAxis).append("text").attr("transform", "rotate(-90)").attr("y", 6).attr("dy", ".71em").style("text-anchor", "end"); + }; + + Histogram.prototype.add_bars = function() { + var bar, rect_width; + console.log("bar_width:", this.x_scale(this.histogram_data[0].dx)); + bar = this.svg.selectAll(".bar").data(this.histogram_data).enter().append("g").attr("class", "bar").attr("transform", (function(_this) { return function(d) { - return d.y; + return "translate(" + _this.x_scale(d.x) + "," + _this.y_scale(d.y) + ")"; }; - })(this)) - ]).range([this.plot_height, 0]); - }; - - Histogram.prototype.create_graph = function() { - this.add_x_axis(); - this.add_y_axis(); - return this.add_bars(); - }; - - Histogram.prototype.add_x_axis = function() { - var x_axis; - x_axis = d3.svg.axis().scale(this.x_scale).orient("bottom"); - return this.svg.append("g").attr("class", "x axis").attr("transform", "translate(0," + this.plot_height + ")").call(x_axis); - }; - - Histogram.prototype.add_y_axis = function() { - var yAxis; - yAxis = d3.svg.axis().scale(this.y_scale).orient("left").ticks(5); - return this.svg.append("g").attr("class", "y axis").call(yAxis).append("text").attr("transform", "rotate(-90)").attr("y", 6).attr("dy", ".71em").style("text-anchor", "end"); - }; - - Histogram.prototype.add_bars = function() { - var bar; - console.log("bar_width:", this.x_scale(this.histogram_data[0].dx)); - bar = this.svg.selectAll(".bar").data(this.histogram_data).enter().append("g").attr("class", "bar").attr("transform", (function(_this) { - return function(d) { - return "translate(" + _this.x_scale(d.x) + "," + _this.y_scale(d.y) + ")"; - }; - })(this)); - bar.append("rect").attr("x", 1).attr("width", this.x_scale(this.histogram_data[0].x + this.histogram_data[0].dx) - 1).attr("height", (function(_this) { - return function(d) { - return _this.plot_height - _this.y_scale(d.y); - }; - })(this)); - return bar.append("text").attr("dy", ".75em").attr("y", 6).attr("x", this.x_scale(this.histogram_data[0].dx) / 2).attr("text-anchor", "middle").style("fill", "#fff").text((function(_this) { - return function(d) { - var bar_height; - bar_height = _this.plot_height - _this.y_scale(d.y); - if (bar_height > 20) { - return _this.format_count(d.y); - } - }; - })(this)); - }; + })(this)); + rect_width = this.x_scale(this.histogram_data[0].x + this.histogram_data[0].dx) - this.x_scale(this.histogram_data[0].x); + bar.append("rect").attr("x", 1).attr("width", rect_width - 1).attr("height", (function(_this) { + return function(d) { + return _this.plot_height - _this.y_scale(d.y); + }; + })(this)); + return bar.append("text").attr("dy", ".75em").attr("y", 6).attr("x", rect_width / 2).attr("text-anchor", "middle").style("fill", "#fff").text((function(_this) { + return function(d) { + var bar_height; + bar_height = _this.plot_height - _this.y_scale(d.y); + if (bar_height > 20) { + return _this.format_count(d.y); + } + }; + })(this)); + }; + + return Histogram; - return Histogram; + })(); -})(); + root.Histogram = Histogram; -root.Histogram = Histogram; +}).call(this); diff --git a/wqflask/wqflask/static/new/javascript/lod_chart.coffee b/wqflask/wqflask/static/new/javascript/lod_chart.coffee index b0f4b2f5..55ffdce0 100644 --- a/wqflask/wqflask/static/new/javascript/lod_chart.coffee +++ b/wqflask/wqflask/static/new/javascript/lod_chart.coffee @@ -1,514 +1,517 @@ -lodchart = () ->
- width = 800
- height = 500
- margin = {left:60, top:40, right:40, bottom: 40, inner:5}
- axispos = {xtitle:25, ytitle:30, xlabel:5, ylabel:5}
- titlepos = 20
- manhattanPlot = false
- additive = false
- ylim = null
- additive_ylim = null
- nyticks = 5
- yticks = null
- additive_yticks = null
- chrGap = 8
- darkrect = "#F1F1F9"
- lightrect = "#FBFBFF"
- lodlinecolor = "darkslateblue"
- additivelinecolor = "red"
- linewidth = 2
- suggestivecolor = "gainsboro"
- significantcolor = "#EBC7C7"
- pointcolor = "#E9CFEC" # pink
- pointsize = 0 # default = no visible points at markers
- pointstroke = "black"
- title = ""
- xlab = "Chromosome"
- ylab = "LRS score"
- additive_ylab = "Additive Effect"
- rotate_ylab = null
- yscale = d3.scale.linear()
- additive_yscale = d3.scale.linear()
- xscale = null
- pad4heatmap = false
- lodcurve = null
- lodvarname = null
- markerSelect = null
- chrSelect = null
- pointsAtMarkers = true
-
-
- ## the main function
- chart = (selection) ->
- selection.each (data) ->
-
- #console.log("data:", data)
-
- if manhattanPlot == true
- pointcolor = "darkslateblue"
- pointsize = 2
-
- lodvarname = lodvarname ? data.lodnames[0]
- data[lodvarname] = (Math.abs(x) for x in data[lodvarname]) # take absolute values
- ylim = ylim ? [0, d3.max(data[lodvarname])]
- if additive
- data['additive'] = (Math.abs(x) for x in data['additive'])
- additive_ylim = additive_ylim ? [0, d3.max(data['additive'])]
-
- lodvarnum = data.lodnames.indexOf(lodvarname)
-
- # Select the svg element, if it exists.
- svg = d3.select(this).selectAll("svg").data([data])
-
- # Otherwise, create the skeletal chart.
- gEnter = svg.enter().append("svg").append("g")
-
- # Update the outer dimensions.
- svg.attr("width", width+margin.left+margin.right)
- .attr("height", height+margin.top+margin.bottom)
-
- # Update the inner dimensions.
- g = svg.select("g")
-
- # box
- g.append("rect")
- .attr("x", margin.left)
- .attr("y", margin.top)
- .attr("height", height)
- .attr("width", width)
- .attr("fill", darkrect)
- .attr("stroke", "none")
-
- yscale.domain(ylim)
- .range([height+margin.top, margin.top+margin.inner])
-
- # if yticks not provided, use nyticks to choose pretty ones
- yticks = yticks ? yscale.ticks(nyticks)
-
- #if data['additive'].length > 0
- if additive
- additive_yscale.domain(additive_ylim)
- .range([height+margin.top, margin.top+margin.inner + height/2])
-
- additive_yticks = additive_yticks ? additive_yscale.ticks(nyticks)
-
- # reorganize lod,pos by chromosomes
- reorgLodData(data, lodvarname)
-
- # add chromosome scales (for x-axis)
- data = chrscales(data, width, chrGap, margin.left, pad4heatmap)
- xscale = data.xscale
-
- # chr rectangles
- chrSelect =
- g.append("g").attr("class", "chrRect")
- .selectAll("empty")
- .data(data.chrnames)
- .enter()
- .append("rect")
- .attr("id", (d) -> "chrrect#{d[0]}")
- .attr("x", (d,i) ->
- return data.chrStart[i] if i==0 and pad4heatmap
- data.chrStart[i]-chrGap/2)
- .attr("width", (d,i) ->
- return data.chrEnd[i] - data.chrStart[i]+chrGap/2 if (i==0 or i+1 == data.chrnames.length) and pad4heatmap
- data.chrEnd[i] - data.chrStart[i]+chrGap)
- .attr("y", margin.top)
- .attr("height", height)
- .attr("fill", (d,i) ->
- return darkrect if i % 2
- lightrect)
- .attr("stroke", "none")
- .on("click", (d) ->
- console.log("d is:", d)
- redraw_plot(d)
- )
-
- # x-axis labels
- xaxis = g.append("g").attr("class", "x axis")
- xaxis.selectAll("empty")
- .data(data.chrnames)
- .enter()
- .append("text")
- .text((d) -> d[0])
- .attr("x", (d,i) -> (data.chrStart[i]+data.chrEnd[i])/2)
- .attr("y", margin.top+height+axispos.xlabel)
- .attr("dominant-baseline", "hanging")
- .attr("text-anchor", "middle")
- .attr("cursor", "pointer")
- .on("click", (d) ->
- redraw_plot(d)
- )
-
- xaxis.append("text").attr("class", "title")
- .attr("y", margin.top+height+axispos.xtitle)
- .attr("x", margin.left+width/2)
- .attr("fill", "slateblue")
- .text(xlab)
-
-
- redraw_plot = (chr_ob) ->
- #console.log("chr_name is:", chr_ob[0])
- #console.log("chr_length is:", chr_ob[1])
- $('#topchart').remove()
- $('#chart_container').append('<div class="qtlcharts" id="topchart"></div>')
- chr_plot = new Chr_Lod_Chart(600, 1200, chr_ob, manhattanPlot)
-
- # y-axis
- rotate_ylab = rotate_ylab ? (ylab.length > 1)
- yaxis = g.append("g").attr("class", "y axis")
- yaxis.selectAll("empty")
- .data(yticks)
- .enter()
- .append("line")
- .attr("y1", (d) -> yscale(d))
- .attr("y2", (d) -> yscale(d))
- .attr("x1", margin.left)
- .attr("x2", margin.left+7)
- .attr("fill", "none")
- .attr("stroke", "white")
- .attr("stroke-width", 1)
- .style("pointer-events", "none")
-
- yaxis.selectAll("empty")
- .data(yticks)
- .enter()
- .append("text")
- .attr("y", (d) -> yscale(d))
- .attr("x", margin.left-axispos.ylabel)
- .attr("fill", "blue")
- .attr("dominant-baseline", "middle")
- .attr("text-anchor", "end")
- .text((d) -> formatAxis(yticks)(d))
-
- yaxis.append("text").attr("class", "title")
- .attr("y", margin.top+height/2)
- .attr("x", margin.left-axispos.ytitle)
- .text(ylab)
- .attr("transform", if rotate_ylab then "rotate(270,#{margin.left-axispos.ytitle},#{margin.top+height/2})" else "")
- .attr("text-anchor", "middle")
- .attr("fill", "slateblue")
-
- #if data['additive'].length > 0
- if additive
- rotate_additive_ylab = rotate_additive_ylab ? (additive_ylab.length > 1)
- additive_yaxis = g.append("g").attr("class", "y axis")
- additive_yaxis.selectAll("empty")
- .data(additive_yticks)
- .enter()
- .append("line")
- .attr("y1", (d) -> additive_yscale(d))
- .attr("y2", (d) -> additive_yscale(d))
- .attr("x1", margin.left + width)
- .attr("x2", margin.left + width - 7)
- .attr("fill", "none")
- .attr("stroke", "white")
- .attr("stroke-width", 1)
- .style("pointer-events", "none")
-
- additive_yaxis.selectAll("empty")
- .data(additive_yticks)
- .enter()
- .append("text")
- .attr("y", (d) -> additive_yscale(d))
- .attr("x", (d) -> margin.left + width + axispos.ylabel + 20)
- .attr("fill", "green")
- .attr("dominant-baseline", "middle")
- .attr("text-anchor", "end")
- .text((d) -> formatAxis(additive_yticks)(d))
-
- additive_yaxis.append("text").attr("class", "title")
- .attr("y", margin.top+1.5*height)
- .attr("x", margin.left + width + axispos.ytitle)
- .text(additive_ylab)
- .attr("transform", if rotate_additive_ylab then "rotate(270,#{margin.left + width + axispos.ytitle}, #{margin.top+height*1.5})" else "")
- .attr("text-anchor", "middle")
- .attr("fill", "green")
-
- if 'suggestive' of data
- suggestive_bar = g.append("g").attr("class", "suggestive")
- suggestive_bar.selectAll("empty")
- .data([data.suggestive])
- .enter()
- .append("line")
- .attr("y1", (d) -> yscale(d))
- .attr("y2", (d) -> yscale(d))
- .attr("x1", margin.left)
- .attr("x2", margin.left+width)
- .attr("fill", "none")
- .attr("stroke", suggestivecolor)
- .attr("stroke-width", 5)
- .style("pointer-events", "none")
-
- suggestive_bar = g.append("g").attr("class", "significant")
- suggestive_bar.selectAll("empty")
- .data([data.significant])
- .enter()
- .append("line")
- .attr("y1", (d) -> yscale(d))
- .attr("y2", (d) -> yscale(d))
- .attr("x1", margin.left)
- .attr("x2", margin.left+width)
- .attr("fill", "none")
- .attr("stroke", significantcolor)
- .attr("stroke-width", 5)
- .style("pointer-events", "none")
-
- if manhattanPlot == false
- # lod curves by chr
- lodcurve = (chr, lodcolumn) ->
- d3.svg.line()
- .x((d) -> xscale[chr](d))
- .y((d,i) -> yscale(data.lodByChr[chr][i][lodcolumn]))
-
- if additive
- additivecurve = (chr, lodcolumn) ->
- d3.svg.line()
- .x((d) -> xscale[chr](d))
- .y((d,i) -> additive_yscale(data.additiveByChr[chr][i][lodcolumn]))
-
- curves = g.append("g").attr("id", "curves")
-
- for chr in data.chrnames
- curves.append("path")
- .datum(data.posByChr[chr[0]])
- .attr("d", lodcurve(chr[0], lodvarnum))
- .attr("stroke", lodlinecolor)
- .attr("fill", "none")
- .attr("stroke-width", linewidth)
- .style("pointer-events", "none")
-
- if additive
- for chr in data.chrnames
- curves.append("path")
- .datum(data.posByChr[chr[0]])
- .attr("d", additivecurve(chr[0], lodvarnum))
- .attr("stroke", additivelinecolor)
- .attr("fill", "none")
- .attr("stroke-width", 1)
- .style("pointer-events", "none")
-
- # points at markers
- console.log("before pointsize")
- if pointsize > 0
- console.log("pointsize > 0 !!!")
- markerpoints = g.append("g").attr("id", "markerpoints_visible")
- markerpoints.selectAll("empty")
- .data(data.markers)
- .enter()
- .append("circle")
- .attr("cx", (d) -> xscale[d.chr](d.pos))
- .attr("cy", (d) -> yscale(d.lod))
- .attr("r", pointsize)
- .attr("fill", pointcolor)
- .attr("stroke", pointstroke)
- .attr("pointer-events", "hidden")
-
- # title
- titlegrp = g.append("g").attr("class", "title")
- .append("text")
- .attr("x", margin.left+width/2)
- .attr("y", margin.top-titlepos)
- .text(title)
-
- # another box around edge
- g.append("rect")
- .attr("x", margin.left)
- .attr("y", margin.top)
- .attr("height", height)
- .attr("width", () ->
- return(data.chrEnd[-1..][0]-margin.left) if pad4heatmap
- data.chrEnd[-1..][0]-margin.left+chrGap/2)
- .attr("fill", "none")
- .attr("stroke", "black")
- .attr("stroke-width", "none")
-
- if pointsAtMarkers
- # these hidden points are what gets selected...a bit larger
- hiddenpoints = g.append("g").attr("id", "markerpoints_hidden")
-
- markertip = d3.tip()
- .attr('class', 'd3-tip')
- .html((d) ->
- [d.name, " LRS = #{d3.format('.2f')(d.lod)}"])
- .direction("e")
- .offset([0,10])
- svg.call(markertip)
-
- markerSelect =
- hiddenpoints.selectAll("empty")
- .data(data.markers)
- .enter()
- .append("circle")
- .attr("cx", (d) -> xscale[d.chr](d.pos))
- .attr("cy", (d) -> yscale(d.lod))
- .attr("id", (d) -> d.name)
- .attr("r", d3.max([pointsize*2, 3]))
- .attr("opacity", 0)
- .attr("fill", pointcolor)
- .attr("stroke", pointstroke)
- .attr("stroke-width", "1")
- .on "mouseover.paneltip", (d) ->
- d3.select(this).attr("opacity", 1)
- markertip.show(d)
- .on "mouseout.paneltip", ->
- d3.select(this).attr("opacity", 0)
- .call(markertip.hide)
-
- ## configuration parameters
- chart.width = (value) ->
- return width unless arguments.length
- width = value
- chart
-
- chart.height = (value) ->
- return height unless arguments.length
- height = value
- chart
-
- chart.margin = (value) ->
- return margin unless arguments.length
- margin = value
- chart
-
- chart.titlepos = (value) ->
- return titlepos unless arguments.length
- titlepos
- chart
-
- chart.axispos = (value) ->
- return axispos unless arguments.length
- axispos = value
- chart
-
- chart.manhattanPlot = (value) ->
- return manhattanPlot unless arguments.length
- manhattanPlot = value
- chart
-
- chart.ylim = (value) ->
- return ylim unless arguments.length
- ylim = value
- chart
-
- #if data['additive'].length > 0
- chart.additive_ylim = (value) ->
- return additive_ylim unless arguments.length
- additive_ylim = value
- chart
-
- chart.nyticks = (value) ->
- return nyticks unless arguments.length
- nyticks = value
- chart
-
- chart.yticks = (value) ->
- return yticks unless arguments.length
- yticks = value
- chart
-
- chart.chrGap = (value) ->
- return chrGap unless arguments.length
- chrGap = value
- chart
-
- chart.darkrect = (value) ->
- return darkrect unless arguments.length
- darkrect = value
- chart
-
- chart.lightrect = (value) ->
- return lightrect unless arguments.length
- lightrect = value
- chart
-
- chart.linecolor = (value) ->
- return linecolor unless arguments.length
- linecolor = value
- chart
-
- chart.linewidth = (value) ->
- return linewidth unless arguments.length
- linewidth = value
- chart
-
- chart.pointcolor = (value) ->
- return pointcolor unless arguments.length
- pointcolor = value
- chart
-
- chart.pointsize = (value) ->
- return pointsize unless arguments.length
- pointsize = value
- chart
-
- chart.pointstroke = (value) ->
- return pointstroke unless arguments.length
- pointstroke = value
- chart
-
- chart.title = (value) ->
- return title unless arguments.length
- title = value
- chart
-
- chart.xlab = (value) ->
- return xlab unless arguments.length
- xlab = value
- chart
-
- chart.ylab = (value) ->
- return ylab unless arguments.length
- ylab = value
- chart
-
- chart.rotate_ylab = (value) ->
- return rotate_ylab if !arguments.length
- rotate_ylab = value
- chart
-
- chart.lodvarname = (value) ->
- return lodvarname unless arguments.length
- lodvarname = value
- chart
-
- chart.pad4heatmap = (value) ->
- return pad4heatmap unless arguments.length
- pad4heatmap = value
- chart
-
- chart.pointsAtMarkers = (value) ->
- return pointsAtMarkers unless arguments.length
- pointsAtMarkers = value
- chart
-
- chart.yscale = () ->
- return yscale
-
- chart.additive = () ->
- return additive
-
- #if data['additive'].length > 0
- chart.additive_yscale = () ->
- return additive_yscale
-
- chart.xscale = () ->
- return xscale
-
- if manhattanPlot == false
- chart.lodcurve = () ->
- return lodcurve
-
- #if data['additive'].length > 0
- chart.additivecurve = () ->
- return additivecurve
-
- chart.markerSelect = () ->
- return markerSelect
-
- chart.chrSelect = () ->
- return chrSelect
-
- # return the chart function
- chart
-
+lodchart = () -> + width = 800 + height = 500 + margin = {left:60, top:40, right:40, bottom: 40, inner:5} + axispos = {xtitle:25, ytitle:30, xlabel:5, ylabel:5} + titlepos = 20 + manhattanPlot = false + additive = false + ylim = null + additive_ylim = null + nyticks = 5 + yticks = null + additive_yticks = null + chrGap = 8 + darkrect = "#F1F1F9" + lightrect = "#FBFBFF" + lodlinecolor = "darkslateblue" + additivelinecolor = "red" + linewidth = 2 + suggestivecolor = "gainsboro" + significantcolor = "#EBC7C7" + pointcolor = "#E9CFEC" # pink + pointsize = 0 # default = no visible points at markers + pointstroke = "black" + title = "" + xlab = "Chromosome" + ylab = "LRS score" + additive_ylab = "Additive Effect" + rotate_ylab = null + yscale = d3.scale.linear() + additive_yscale = d3.scale.linear() + xscale = null + pad4heatmap = false + lodcurve = null + lodvarname = null + markerSelect = null + chrSelect = null + pointsAtMarkers = true + + + ## the main function + chart = (selection) -> + selection.each (data) -> + + #console.log("data:", data) + + if manhattanPlot == true + pointcolor = "darkslateblue" + pointsize = 2 + + lodvarname = lodvarname ? data.lodnames[0] + data[lodvarname] = (Math.abs(x) for x in data[lodvarname]) # take absolute values + ylim = ylim ? [0, d3.max(data[lodvarname])] + if additive + data['additive'] = (Math.abs(x) for x in data['additive']) + additive_ylim = additive_ylim ? [0, d3.max(data['additive'])] + + lodvarnum = data.lodnames.indexOf(lodvarname) + + # Select the svg element, if it exists. + svg = d3.select(this).selectAll("svg").data([data]) + + # Otherwise, create the skeletal chart. + gEnter = svg.enter().append("svg").append("g") + + # Update the outer dimensions. + svg.attr("width", width+margin.left+margin.right) + .attr("height", height+margin.top+margin.bottom) + + # Update the inner dimensions. + g = svg.select("g") + + # box + g.append("rect") + .attr("x", margin.left) + .attr("y", margin.top) + .attr("height", height) + .attr("width", width) + .attr("fill", darkrect) + .attr("stroke", "none") + + yscale.domain(ylim) + .range([height+margin.top, margin.top+margin.inner]) + + # if yticks not provided, use nyticks to choose pretty ones + yticks = yticks ? yscale.ticks(nyticks) + + #if data['additive'].length > 0 + if additive + additive_yscale.domain(additive_ylim) + .range([height+margin.top, margin.top+margin.inner + height/2]) + + additive_yticks = additive_yticks ? additive_yscale.ticks(nyticks) + + # reorganize lod,pos by chromosomes + reorgLodData(data, lodvarname) + + # add chromosome scales (for x-axis) + data = chrscales(data, width, chrGap, margin.left, pad4heatmap) + xscale = data.xscale + + # chr rectangles + chrSelect = + g.append("g").attr("class", "chrRect") + .selectAll("empty") + .data(data.chrnames) + .enter() + .append("rect") + .attr("id", (d) -> "chrrect#{d[0]}") + .attr("x", (d,i) -> + return data.chrStart[i] if i==0 and pad4heatmap + data.chrStart[i]-chrGap/2) + .attr("width", (d,i) -> + return data.chrEnd[i] - data.chrStart[i]+chrGap/2 if (i==0 or i+1 == data.chrnames.length) and pad4heatmap + data.chrEnd[i] - data.chrStart[i]+chrGap) + .attr("y", margin.top) + .attr("height", height) + .attr("fill", (d,i) -> + return darkrect if i % 2 + + lightrect) + .attr("stroke", "none") + .on("click", (d) -> + console.log("d is:", d) + redraw_plot(d) + ) + + # x-axis labels + xaxis = g.append("g").attr("class", "x axis") + xaxis.selectAll("empty") + .data(data.chrnames) + .enter() + .append("text") + .text((d) -> d[0]) + .attr("x", (d,i) -> (data.chrStart[i]+data.chrEnd[i])/2) + .attr("y", margin.top+height+axispos.xlabel) + .attr("dominant-baseline", "hanging") + .attr("text-anchor", "middle") + .attr("cursor", "pointer") + .on("click", (d) -> + redraw_plot(d) + ) + + xaxis.append("text").attr("class", "title") + .attr("y", margin.top+height+axispos.xtitle) + .attr("x", margin.left+width/2) + .attr("fill", "slateblue") + .text(xlab) + + + redraw_plot = (chr_ob) -> + #console.log("chr_name is:", chr_ob[0]) + #console.log("chr_length is:", chr_ob[1]) + $('#topchart').remove() + $('#chart_container').append('<div class="qtlcharts" id="topchart"></div>') + chr_plot = new Chr_Lod_Chart(600, 1200, chr_ob, manhattanPlot) + + # y-axis + rotate_ylab = rotate_ylab ? (ylab.length > 1) + yaxis = g.append("g").attr("class", "y axis") + yaxis.selectAll("empty") + .data(yticks) + .enter() + .append("line") + .attr("y1", (d) -> yscale(d)) + .attr("y2", (d) -> yscale(d)) + .attr("x1", margin.left) + .attr("x2", margin.left+7) + .attr("fill", "none") + .attr("stroke", "white") + .attr("stroke-width", 1) + .style("pointer-events", "none") + + yaxis.selectAll("empty") + .data(yticks) + .enter() + .append("text") + .attr("y", (d) -> yscale(d)) + .attr("x", margin.left-axispos.ylabel) + .attr("fill", "blue") + .attr("dominant-baseline", "middle") + .attr("text-anchor", "end") + .text((d) -> formatAxis(yticks)(d)) + + yaxis.append("text").attr("class", "title") + .attr("y", margin.top+height/2) + .attr("x", margin.left-axispos.ytitle) + .text(ylab) + .attr("transform", if rotate_ylab then "rotate(270,#{margin.left-axispos.ytitle},#{margin.top+height/2})" else "") + .attr("text-anchor", "middle") + .attr("fill", "slateblue") + + #if data['additive'].length > 0 + if additive + rotate_additive_ylab = rotate_additive_ylab ? (additive_ylab.length > 1) + additive_yaxis = g.append("g").attr("class", "y axis") + additive_yaxis.selectAll("empty") + .data(additive_yticks) + .enter() + .append("line") + .attr("y1", (d) -> additive_yscale(d)) + .attr("y2", (d) -> additive_yscale(d)) + .attr("x1", margin.left + width) + .attr("x2", margin.left + width - 7) + .attr("fill", "none") + .attr("stroke", "white") + .attr("stroke-width", 1) + .style("pointer-events", "none") + + additive_yaxis.selectAll("empty") + .data(additive_yticks) + .enter() + .append("text") + .attr("y", (d) -> additive_yscale(d)) + .attr("x", (d) -> margin.left + width + axispos.ylabel + 20) + .attr("fill", "green") + .attr("dominant-baseline", "middle") + .attr("text-anchor", "end") + .text((d) -> formatAxis(additive_yticks)(d)) + + additive_yaxis.append("text").attr("class", "title") + .attr("y", margin.top+1.5*height) + .attr("x", margin.left + width + axispos.ytitle) + .text(additive_ylab) + .attr("transform", if rotate_additive_ylab then "rotate(270,#{margin.left + width + axispos.ytitle}, #{margin.top+height*1.5})" else "") + .attr("text-anchor", "middle") + .attr("fill", "green") + + if 'suggestive' of data + suggestive_bar = g.append("g").attr("class", "suggestive") + suggestive_bar.selectAll("empty") + .data([data.suggestive]) + .enter() + .append("line") + .attr("y1", (d) -> yscale(d)) + .attr("y2", (d) -> yscale(d)) + .attr("x1", margin.left) + .attr("x2", margin.left+width) + .attr("fill", "none") + .attr("stroke", suggestivecolor) + .attr("stroke-width", 5) + .style("pointer-events", "none") + + suggestive_bar = g.append("g").attr("class", "significant") + suggestive_bar.selectAll("empty") + .data([data.significant]) + .enter() + .append("line") + .attr("y1", (d) -> yscale(d)) + .attr("y2", (d) -> yscale(d)) + .attr("x1", margin.left) + .attr("x2", margin.left+width) + .attr("fill", "none") + .attr("stroke", significantcolor) + .attr("stroke-width", 5) + .style("pointer-events", "none") + + if manhattanPlot == false + # lod curves by chr + lodcurve = (chr, lodcolumn) -> + d3.svg.line() + .x((d) -> xscale[chr](d)) + .y((d,i) -> yscale(data.lodByChr[chr][i][lodcolumn])) + + if additive + additivecurve = (chr, lodcolumn) -> + d3.svg.line() + .x((d) -> xscale[chr](d)) + .y((d,i) -> additive_yscale(data.additiveByChr[chr][i][lodcolumn])) + + curves = g.append("g").attr("id", "curves") + + for chr in data.chrnames + if chr.indexOf(data['chr']) + curves.append("path") + .datum(data.posByChr[chr[0]]) + .attr("d", lodcurve(chr[0], lodvarnum)) + .attr("stroke", lodlinecolor) + .attr("fill", "none") + .attr("stroke-width", linewidth) + .style("pointer-events", "none") + + if additive + for chr in data.chrnames + if chr.indexOf(data['chr']) + curves.append("path") + .datum(data.posByChr[chr[0]]) + .attr("d", additivecurve(chr[0], lodvarnum)) + .attr("stroke", additivelinecolor) + .attr("fill", "none") + .attr("stroke-width", 1) + .style("pointer-events", "none") + + # points at markers + console.log("before pointsize") + if pointsize > 0 + console.log("pointsize > 0 !!!") + markerpoints = g.append("g").attr("id", "markerpoints_visible") + markerpoints.selectAll("empty") + .data(data.markers) + .enter() + .append("circle") + .attr("cx", (d) -> xscale[d.chr](d.pos)) + .attr("cy", (d) -> yscale(d.lod)) + .attr("r", pointsize) + .attr("fill", pointcolor) + .attr("stroke", pointstroke) + .attr("pointer-events", "hidden") + + # title + titlegrp = g.append("g").attr("class", "title") + .append("text") + .attr("x", margin.left+width/2) + .attr("y", margin.top-titlepos) + .text(title) + + # another box around edge + g.append("rect") + .attr("x", margin.left) + .attr("y", margin.top) + .attr("height", height) + .attr("width", () -> + return(data.chrEnd[-1..][0]-margin.left) if pad4heatmap + data.chrEnd[-1..][0]-margin.left+chrGap/2) + .attr("fill", "none") + .attr("stroke", "black") + .attr("stroke-width", "none") + + if pointsAtMarkers + # these hidden points are what gets selected...a bit larger + hiddenpoints = g.append("g").attr("id", "markerpoints_hidden") + + markertip = d3.tip() + .attr('class', 'd3-tip') + .html((d) -> + [d.name, " LRS = #{d3.format('.2f')(d.lod)}"]) + .direction("e") + .offset([0,10]) + svg.call(markertip) + + markerSelect = + hiddenpoints.selectAll("empty") + .data(data.markers) + .enter() + .append("circle") + .attr("cx", (d) -> xscale[d.chr](d.pos)) + .attr("cy", (d) -> yscale(d.lod)) + .attr("id", (d) -> d.name) + .attr("r", d3.max([pointsize*2, 3])) + .attr("opacity", 0) + .attr("fill", pointcolor) + .attr("stroke", pointstroke) + .attr("stroke-width", "1") + .on "mouseover.paneltip", (d) -> + d3.select(this).attr("opacity", 1) + markertip.show(d) + .on "mouseout.paneltip", -> + d3.select(this).attr("opacity", 0) + .call(markertip.hide) + + ## configuration parameters + chart.width = (value) -> + return width unless arguments.length + width = value + chart + + chart.height = (value) -> + return height unless arguments.length + height = value + chart + + chart.margin = (value) -> + return margin unless arguments.length + margin = value + chart + + chart.titlepos = (value) -> + return titlepos unless arguments.length + titlepos + chart + + chart.axispos = (value) -> + return axispos unless arguments.length + axispos = value + chart + + chart.manhattanPlot = (value) -> + return manhattanPlot unless arguments.length + manhattanPlot = value + chart + + chart.ylim = (value) -> + return ylim unless arguments.length + ylim = value + chart + + #if data['additive'].length > 0 + chart.additive_ylim = (value) -> + return additive_ylim unless arguments.length + additive_ylim = value + chart + + chart.nyticks = (value) -> + return nyticks unless arguments.length + nyticks = value + chart + + chart.yticks = (value) -> + return yticks unless arguments.length + yticks = value + chart + + chart.chrGap = (value) -> + return chrGap unless arguments.length + chrGap = value + chart + + chart.darkrect = (value) -> + return darkrect unless arguments.length + darkrect = value + chart + + chart.lightrect = (value) -> + return lightrect unless arguments.length + lightrect = value + chart + + chart.linecolor = (value) -> + return linecolor unless arguments.length + linecolor = value + chart + + chart.linewidth = (value) -> + return linewidth unless arguments.length + linewidth = value + chart + + chart.pointcolor = (value) -> + return pointcolor unless arguments.length + pointcolor = value + chart + + chart.pointsize = (value) -> + return pointsize unless arguments.length + pointsize = value + chart + + chart.pointstroke = (value) -> + return pointstroke unless arguments.length + pointstroke = value + chart + + chart.title = (value) -> + return title unless arguments.length + title = value + chart + + chart.xlab = (value) -> + return xlab unless arguments.length + xlab = value + chart + + chart.ylab = (value) -> + return ylab unless arguments.length + ylab = value + chart + + chart.rotate_ylab = (value) -> + return rotate_ylab if !arguments.length + rotate_ylab = value + chart + + chart.lodvarname = (value) -> + return lodvarname unless arguments.length + lodvarname = value + chart + + chart.pad4heatmap = (value) -> + return pad4heatmap unless arguments.length + pad4heatmap = value + chart + + chart.pointsAtMarkers = (value) -> + return pointsAtMarkers unless arguments.length + pointsAtMarkers = value + chart + + chart.yscale = () -> + return yscale + + chart.additive = () -> + return additive + + #if data['additive'].length > 0 + chart.additive_yscale = () -> + return additive_yscale + + chart.xscale = () -> + return xscale + + if manhattanPlot == false + chart.lodcurve = () -> + return lodcurve + + #if data['additive'].length > 0 + chart.additivecurve = () -> + return additivecurve + + chart.markerSelect = () -> + return markerSelect + + chart.chrSelect = () -> + return chrSelect + + # return the chart function + chart + diff --git a/wqflask/wqflask/static/new/javascript/lod_chart.js b/wqflask/wqflask/static/new/javascript/lod_chart.js index 92289bfe..d0d39fe6 100644 --- a/wqflask/wqflask/static/new/javascript/lod_chart.js +++ b/wqflask/wqflask/static/new/javascript/lod_chart.js @@ -1,4 +1,4 @@ -// Generated by CoffeeScript 1.8.0 +// Generated by CoffeeScript 1.9.2 var lodchart; lodchart = function() { @@ -20,7 +20,6 @@ lodchart = function() { }; titlepos = 20; manhattanPlot = false; - additive = false; ylim = null; additive_ylim = null; nyticks = 5; @@ -30,7 +29,8 @@ lodchart = function() { darkrect = "#F1F1F9"; lightrect = "#FBFBFF"; lodlinecolor = "darkslateblue"; - additivelinecolor = "red"; + additivelinecolor_plus = "red"; + additivelinecolor_negative = "green"; linewidth = 2; suggestivecolor = "gainsboro"; significantcolor = "#EBC7C7"; @@ -53,33 +53,34 @@ lodchart = function() { pointsAtMarkers = true; chart = function(selection) { return selection.each(function(data) { - var additive_yaxis, additivecurve, chr, curves, g, gEnter, hiddenpoints, lodvarnum, markerpoints, markertip, redraw_plot, rotate_additive_ylab, suggestive_bar, svg, titlegrp, x, xaxis, yaxis, _i, _j, _len, _len1, _ref, _ref1; + var additive_yaxis, additivecurve, chr, curves, g, gEnter, hiddenpoints, j, k, len, len1, lodvarnum, markerpoints, markertip, redraw_plot, ref, ref1, rotate_additive_ylab, suggestive_bar, svg, titlegrp, x, xaxis, yaxis; if (manhattanPlot === true) { pointcolor = "darkslateblue"; pointsize = 2; } lodvarname = lodvarname != null ? lodvarname : data.lodnames[0]; data[lodvarname] = (function() { - var _i, _len, _ref, _results; - _ref = data[lodvarname]; - _results = []; - for (_i = 0, _len = _ref.length; _i < _len; _i++) { - x = _ref[_i]; - _results.push(Math.abs(x)); + var j, len, ref, results; + ref = data[lodvarname]; + results = []; + for (j = 0, len = ref.length; j < len; j++) { + x = ref[j]; + results.push(Math.abs(x)); } - return _results; + return results; })(); ylim = ylim != null ? ylim : [0, d3.max(data[lodvarname])]; - if (additive) { + + if ('additive' in data) { data['additive'] = (function() { - var _i, _len, _ref, _results; - _ref = data['additive']; - _results = []; - for (_i = 0, _len = _ref.length; _i < _len; _i++) { - x = _ref[_i]; - _results.push(Math.abs(x)); + var j, len, ref, results; + ref = data['additive']; + results = []; + for (j = 0, len = ref.length; j < len; j++) { + x = ref[j]; + results.push(x); } - return _results; + return results; })(); additive_ylim = additive_ylim != null ? additive_ylim : [0, d3.max(data['additive'])]; } @@ -91,7 +92,7 @@ lodchart = function() { g.append("rect").attr("x", margin.left).attr("y", margin.top).attr("height", height).attr("width", width).attr("fill", darkrect).attr("stroke", "none"); yscale.domain(ylim).range([height + margin.top, margin.top + margin.inner]); yticks = yticks != null ? yticks : yscale.ticks(nyticks); - if (additive) { + if ('additive' in data) { additive_yscale.domain(additive_ylim).range([height + margin.top, margin.top + margin.inner + height / 2]); additive_yticks = additive_yticks != null ? additive_yticks : additive_yscale.ticks(nyticks); } @@ -147,7 +148,7 @@ lodchart = function() { return formatAxis(yticks)(d); }); yaxis.append("text").attr("class", "title").attr("y", margin.top + height / 2).attr("x", margin.left - axispos.ytitle).text(ylab).attr("transform", rotate_ylab ? "rotate(270," + (margin.left - axispos.ytitle) + "," + (margin.top + height / 2) + ")" : "").attr("text-anchor", "middle").attr("fill", "slateblue"); - if (additive) { + if ('additive' in data) { rotate_additive_ylab = rotate_additive_ylab != null ? rotate_additive_ylab : additive_ylab.length > 1; additive_yaxis = g.append("g").attr("class", "y axis"); additive_yaxis.selectAll("empty").data(additive_yticks).enter().append("line").attr("y1", function(d) { @@ -186,26 +187,41 @@ lodchart = function() { return yscale(data.lodByChr[chr][i][lodcolumn]); }); }; - if (additive) { + if ('additive' in data) { additivecurve = function(chr, lodcolumn) { - return d3.svg.line().x(function(d) { + if (data.additiveByChr[chr][0] < 0) { + pos_neg = "negative" + } + else { + pos_neg = "positive" + } + return [pos_neg, d3.svg.line().x(function(d) { return xscale[chr](d); }).y(function(d, i) { - return additive_yscale(data.additiveByChr[chr][i][lodcolumn]); - }); + return additive_yscale(Math.abs(data.additiveByChr[chr][i])); + })]; }; } curves = g.append("g").attr("id", "curves"); - _ref = data.chrnames; - for (_i = 0, _len = _ref.length; _i < _len; _i++) { - chr = _ref[_i]; - curves.append("path").datum(data.posByChr[chr[0]]).attr("d", lodcurve(chr[0], lodvarnum)).attr("stroke", lodlinecolor).attr("fill", "none").attr("stroke-width", linewidth).style("pointer-events", "none"); + ref = data.chrnames; + for (j = 0, len = ref.length; j < len; j++) { + chr = ref[j]; + if (chr.indexOf(data['chr'])) { + curves.append("path").datum(data.posByChr[chr[0]]).attr("d", lodcurve(chr[0], lodvarnum)).attr("stroke", lodlinecolor).attr("fill", "none").attr("stroke-width", linewidth).style("pointer-events", "none"); + } } - if (additive) { - _ref1 = data.chrnames; - for (_j = 0, _len1 = _ref1.length; _j < _len1; _j++) { - chr = _ref1[_j]; - curves.append("path").datum(data.posByChr[chr[0]]).attr("d", additivecurve(chr[0], lodvarnum)).attr("stroke", additivelinecolor).attr("fill", "none").attr("stroke-width", 1).style("pointer-events", "none"); + if ('additive' in data) { + ref1 = data.chrnames; + for (k = 0, len1 = ref1.length; k < len1; k++) { + chr = ref1[k]; + if (chr.indexOf(data['chr'])) { + if (additivecurve(chr[0], lodvarnum)[0] == "negative") { + curves.append("path").datum(data.posByChr[chr[0]]).attr("d", additivecurve(chr[0], lodvarnum)[1]).attr("stroke", additivelinecolor_negative).attr("fill", "none").attr("stroke-width", 1).style("pointer-events", "none"); + } + else { + curves.append("path").datum(data.posByChr[chr[0]]).attr("d", additivecurve(chr[0], lodvarnum)[1]).attr("stroke", additivelinecolor_plus).attr("fill", "none").attr("stroke-width", 1).style("pointer-events", "none"); + } + } } } } @@ -426,9 +442,6 @@ lodchart = function() { chart.yscale = function() { return yscale; }; - chart.additive = function() { - return additive; - }; chart.additive_yscale = function() { return additive_yscale; }; @@ -450,4 +463,4 @@ lodchart = function() { return chrSelect; }; return chart; -}; +};
\ No newline at end of file diff --git a/wqflask/wqflask/static/new/javascript/panelutil.coffee b/wqflask/wqflask/static/new/javascript/panelutil.coffee index a3bc0b44..f7b51457 100644 --- a/wqflask/wqflask/static/new/javascript/panelutil.coffee +++ b/wqflask/wqflask/static/new/javascript/panelutil.coffee @@ -30,16 +30,15 @@ reorgLodData = (data, lodvarname=null) -> data.lodByChr = {} for chr,i in data.chrnames - #console.log("chr:", chr) - data.posByChr[chr[0]] = [] - data.lodByChr[chr[0]] = [] - for pos, j in data.pos - if data.chr[j].toString() == chr[0] - #console.log(data.chr[j] + " AND " + chr[0]) - data.posByChr[chr[0]].push(pos) - data.lodnames = [data.lodnames] unless Array.isArray(data.lodnames) - lodval = (data[lodcolumn][j] for lodcolumn in data.lodnames) - data.lodByChr[chr[0]].push(lodval) + if data.chr.indexOf(chr[0]) + data.posByChr[chr[0]] = [] + data.lodByChr[chr[0]] = [] + for pos, j in data.pos + if data.chr[j].toString() == chr[0] + data.posByChr[chr[0]].push(pos) + data.lodnames = [data.lodnames] unless Array.isArray(data.lodnames) + lodval = (data[lodcolumn][j] for lodcolumn in data.lodnames) + data.lodByChr[chr[0]].push(lodval) #console.log("data.posByChr:", data.posByChr) diff --git a/wqflask/wqflask/static/new/javascript/panelutil.js b/wqflask/wqflask/static/new/javascript/panelutil.js index 3a180e60..113512b4 100644 --- a/wqflask/wqflask/static/new/javascript/panelutil.js +++ b/wqflask/wqflask/static/new/javascript/panelutil.js @@ -47,12 +47,19 @@ reorgLodData = function(data, lodvarname) { } data.posByChr = {}; data.lodByChr = {}; + if ('additive' in data){ + data.additiveByChr = {}; + } _ref = data.chrnames; for (i = _i = 0, _len = _ref.length; _i < _len; i = ++_i) { chr = _ref[i]; data.posByChr[chr[0]] = []; data.lodByChr[chr[0]] = []; + if ('additive' in data){ + data.additiveByChr[chr[0]] = []; + } _ref1 = data.pos; + for (j = _j = 0, _len1 = _ref1.length; _j < _len1; j = ++_j) { pos = _ref1[j]; if (data.chr[j].toString() === chr[0]) { @@ -71,6 +78,12 @@ reorgLodData = function(data, lodvarname) { return _results; })(); data.lodByChr[chr[0]].push(lodval); + + if ('additive' in data){ + addval = data['additive'][j] + data.additiveByChr[chr[0]].push(addval); + } + } } } @@ -106,10 +119,13 @@ chrscales = function(data, width, chrGap, leftMargin, pad4heatmap) { if (d > maxd) { maxd = d; } - rng = d3.extent(data.posByChr[chr[0]]); - chrStart.push(rng[0]); - chrEnd.push(rng[1]); - L = rng[1] - rng[0]; + //rng = d3.extent(data.posByChr[chr[0]]); + //chrStart.push(rng[0]); + //chrEnd.push(rng[1]); + //L = rng[1] - rng[0]; + chrStart.push(0); + chrEnd.push(chr[1]); + L = chr[1] chrLength.push(L); totalChrLength += L; } @@ -436,4 +452,4 @@ abs = function(x) { return x; } return Math.abs(x); -}; +};
\ No newline at end of file diff --git a/wqflask/wqflask/static/new/javascript/probability_plot.coffee b/wqflask/wqflask/static/new/javascript/probability_plot.coffee deleted file mode 100644 index c1f26941..00000000 --- a/wqflask/wqflask/static/new/javascript/probability_plot.coffee +++ /dev/null @@ -1,424 +0,0 @@ -probability_plot = () ->
- width = 800
- height = 600
- margin = {left:60, top:40, right:40, bottom: 40, inner:5}
- axispos = {xtitle:25, ytitle:45, xlabel:5, ylabel:5}
- titlepos = 20
- xNA = {handle:true, force:false, width:15, gap:10}
- yNA = {handle:true, force:false, width:15, gap:10}
- xlim = null
- ylim = null
- nxticks = 5
- xticks = null
- nyticks = 5
- yticks = null
- rectcolor = d3.rgb(230, 230, 230)
- pointcolor = null
- pointstroke = "black"
- pointsize = 3 # default = no visible points at markers
- title = "Correlation Scatterplot"
- xlab = "X"
- ylab = "Y"
- rotate_ylab = null
- yscale = d3.scale.linear()
- xscale = d3.scale.linear()
- xvar = 0
- yvar = 1
- pointsSelect = null
- dataByInd = false
-
- ## the main function
- chart = (selection) ->
- selection.each (data) ->
-
- if dataByInd
- x = data.data.map (d) -> d[xvar]
- y = data.data.map (d) -> d[yvar]
- else # reorganize data
- x = data.data[xvar]
- y = data.data[yvar]
-
- console.log("x:", x)
- console.log("y:", y)
-
- # grab indID if it's there
- # if no indID, create a vector of them
- indID = data?.indID ? null
- indID = indID ? [1..x.length]
-
- console.log("indID:", indID)
-
- # groups of colors
- group = data?.group ? (1 for i in x)
- ngroup = d3.max(group)
- group = (g-1 for g in group) # changed from (1,2,3,...) to (0,1,2,...)
-
- # colors of the points in the different groups
- pointcolor = pointcolor ? selectGroupColors(ngroup, "dark")
- pointcolor = expand2vector(pointcolor, ngroup)
-
- # if all (x,y) not null
- xNA.handle = false if x.every (v) -> (v?) and !xNA.force
- yNA.handle = false if y.every (v) -> (v?) and !yNA.force
- if xNA.handle
- paneloffset = xNA.width + xNA.gap
- panelwidth = width - paneloffset
- else
- paneloffset = 0
- panelwidth = width
- if yNA.handle
- panelheight = height - (yNA.width + yNA.gap)
- else
- panelheight = height
-
- xlim = xlim ? d3.extent(x)
- ylim = ylim ? d3.extent(y)
-
- # I'll replace missing values something smaller than what's observed
- na_value = d3.min(x.concat y) - 100
-
- # Select the svg element, if it exists.
- svg = d3.select(this).selectAll("svg").data([data])
-
- # Otherwise, create the skeletal chart.
- gEnter = svg.enter().append("svg").append("g")
-
- # Update the outer dimensions.
- svg.attr("width", width+margin.left+margin.right)
- .attr("height", height+margin.top+margin.bottom)
-
- g = svg.select("g")
-
- # box
- g.append("rect")
- .attr("x", paneloffset+margin.left)
- .attr("y", margin.top)
- .attr("height", panelheight)
- .attr("width", panelwidth)
- .attr("fill", rectcolor)
- .attr("stroke", "none")
- if xNA.handle
- g.append("rect")
- .attr("x", margin.left)
- .attr("y", margin.top)
- .attr("height", panelheight)
- .attr("width", xNA.width)
- .attr("fill", rectcolor)
- .attr("stroke", "none")
- if xNA.handle and yNA.handle
- g.append("rect")
- .attr("x", margin.left)
- .attr("y", margin.top+height - yNA.width)
- .attr("height", yNA.width)
- .attr("width", xNA.width)
- .attr("fill", rectcolor)
- .attr("stroke", "none")
- if yNA.handle
- g.append("rect")
- .attr("x", margin.left+paneloffset)
- .attr("y", margin.top+height-yNA.width)
- .attr("height", yNA.width)
- .attr("width", panelwidth)
- .attr("fill", rectcolor)
- .attr("stroke", "none")
-
- # simple scales (ignore NA business)
- xrange = [margin.left+paneloffset+margin.inner, margin.left+paneloffset+panelwidth-margin.inner]
- yrange = [margin.top+panelheight-margin.inner, margin.top+margin.inner]
- xscale.domain(xlim).range(xrange)
- yscale.domain(ylim).range(yrange)
- xs = d3.scale.linear().domain(xlim).range(xrange)
- ys = d3.scale.linear().domain(ylim).range(yrange)
-
- # "polylinear" scales to handle missing values
- if xNA.handle
- xscale.domain([na_value].concat xlim)
- .range([margin.left + xNA.width/2].concat xrange)
- x = x.map (e) -> if e? then e else na_value
- if yNA.handle
- yscale.domain([na_value].concat ylim)
- .range([height+margin.top-yNA.width/2].concat yrange)
- y = y.map (e) -> if e? then e else na_value
-
- # if yticks not provided, use nyticks to choose pretty ones
- yticks = yticks ? ys.ticks(nyticks)
- xticks = xticks ? xs.ticks(nxticks)
-
- # title
- titlegrp = g.append("g").attr("class", "title")
- .append("text")
- .attr("x", margin.left + width/2)
- .attr("y", margin.top - titlepos)
- .text(title)
-
- # x-axis
- xaxis = g.append("g").attr("class", "x axis")
- xaxis.selectAll("empty")
- .data(xticks)
- .enter()
- .append("line")
- .attr("x1", (d) -> xscale(d))
- .attr("x2", (d) -> xscale(d))
- .attr("y1", margin.top)
- .attr("y2", margin.top+height)
- .attr("fill", "none")
- .attr("stroke", "white")
- .attr("stroke-width", 1)
- .style("pointer-events", "none")
- xaxis.selectAll("empty")
- .data(xticks)
- .enter()
- .append("text")
- .attr("x", (d) -> xscale(d))
- .attr("y", margin.top+height+axispos.xlabel)
- .text((d) -> formatAxis(xticks)(d))
- xaxis.append("text").attr("class", "title")
- .attr("x", margin.left+width/2)
- .attr("y", margin.top+height+axispos.xtitle)
- .text(xlab)
- if xNA.handle
- xaxis.append("text")
- .attr("x", margin.left+xNA.width/2)
- .attr("y", margin.top+height+axispos.xlabel)
- .text("N/A")
-
- # y-axis
- rotate_ylab = rotate_ylab ? (ylab.length > 1)
- yaxis = g.append("g").attr("class", "y axis")
- yaxis.selectAll("empty")
- .data(yticks)
- .enter()
- .append("line")
- .attr("y1", (d) -> yscale(d))
- .attr("y2", (d) -> yscale(d))
- .attr("x1", margin.left)
- .attr("x2", margin.left+width)
- .attr("fill", "none")
- .attr("stroke", "white")
- .attr("stroke-width", 1)
- .style("pointer-events", "none")
- yaxis.selectAll("empty")
- .data(yticks)
- .enter()
- .append("text")
- .attr("y", (d) -> yscale(d))
- .attr("x", margin.left-axispos.ylabel)
- .text((d) -> formatAxis(yticks)(d))
- yaxis.append("text").attr("class", "title")
- .attr("y", margin.top+height/2)
- .attr("x", margin.left-axispos.ytitle)
- .text(ylab)
- .attr("transform", if rotate_ylab then "rotate(270,#{margin.left-axispos.ytitle},#{margin.top+height/2})" else "")
- if yNA.handle
- yaxis.append("text")
- .attr("x", margin.left-axispos.ylabel)
- .attr("y", margin.top+height-yNA.width/2)
- .text("N/A")
-
- indtip = d3.tip()
- .attr('class', 'd3-tip')
- .html((d,i) -> indID[i])
- .direction('e')
- .offset([0,10])
- svg.call(indtip)
-
- #g.append("line")
- # .attr("x1")
- #
- #g.append("line")
- # .attr("x1", xscale(minx))
- # .attr("x2", xscale(maxx*0.995))
- # .attr("y2", yscale(slope*maxx*0.995+intercept))
- # .style("stroke", "black")
- # .style("stroke-width", 2);
-
- points = g.append("g").attr("id", "points")
- pointsSelect =
- points.selectAll("empty")
- .data(d3.range(x.length))
- .enter()
- .append("circle")
- .attr("cx", (d,i) -> xscale(x[i]))
- .attr("cy", (d,i) -> yscale(y[i]))
- .attr("class", (d,i) -> "pt#{i}")
- .attr("r", pointsize)
- .attr("fill", (d,i) -> pointcolor[group[i]])
- .attr("stroke", pointstroke)
- .attr("stroke-width", "1")
- .attr("opacity", (d,i) ->
- return 1 if (x[i]? or xNA.handle) and (y[i]? or yNA.handle)
- return 0)
- .on("mouseover.paneltip", indtip.show)
- .on("mouseout.paneltip", indtip.hide)
-
- # box
- g.append("rect")
- .attr("x", margin.left+paneloffset)
- .attr("y", margin.top)
- .attr("height", panelheight)
- .attr("width", panelwidth)
- .attr("fill", "none")
- .attr("stroke", "black")
- .attr("stroke-width", "none")
- if xNA.handle
- g.append("rect")
- .attr("x", margin.left)
- .attr("y", margin.top)
- .attr("height", panelheight)
- .attr("width", xNA.width)
- .attr("fill", "none")
- .attr("stroke", "black")
- .attr("stroke-width", "none")
- if xNA.handle and yNA.handle
- g.append("rect")
- .attr("x", margin.left)
- .attr("y", margin.top+height - yNA.width)
- .attr("height", yNA.width)
- .attr("width", xNA.width)
- .attr("fill", "none")
- .attr("stroke", "black")
- .attr("stroke-width", "none")
- if yNA.handle
- g.append("rect")
- .attr("x", margin.left+paneloffset)
- .attr("y", margin.top+height-yNA.width)
- .attr("height", yNA.width)
- .attr("width", panelwidth)
- .attr("fill", "none")
- .attr("stroke", "black")
- .attr("stroke-width", "none")
-
- ## configuration parameters
- chart.width = (value) ->
- return width if !arguments.length
- width = value
- chart
-
- chart.height = (value) ->
- return height if !arguments.length
- height = value
- chart
-
- chart.margin = (value) ->
- return margin if !arguments.length
- margin = value
- chart
-
- chart.axispos = (value) ->
- return axispos if !arguments.length
- axispos = value
- chart
-
- chart.titlepos = (value) ->
- return titlepos if !arguments.length
- titlepos
- chart
-
- chart.xlim = (value) ->
- return xlim if !arguments.length
- xlim = value
- chart
-
- chart.nxticks = (value) ->
- return nxticks if !arguments.length
- nxticks = value
- chart
-
- chart.xticks = (value) ->
- return xticks if !arguments.length
- xticks = value
- chart
-
- chart.ylim = (value) ->
- return ylim if !arguments.length
- ylim = value
- chart
-
- chart.nyticks = (value) ->
- return nyticks if !arguments.length
- nyticks = value
- chart
-
- chart.yticks = (value) ->
- return yticks if !arguments.length
- yticks = value
- chart
-
- chart.rectcolor = (value) ->
- return rectcolor if !arguments.length
- rectcolor = value
- chart
-
- chart.pointcolor = (value) ->
- return pointcolor if !arguments.length
- pointcolor = value
- chart
-
- chart.pointsize = (value) ->
- return pointsize if !arguments.length
- pointsize = value
- chart
-
- chart.pointstroke = (value) ->
- return pointstroke if !arguments.length
- pointstroke = value
- chart
-
- chart.dataByInd = (value) ->
- return dataByInd if !arguments.length
- dataByInd = value
- chart
-
- chart.title = (value) ->
- return title if !arguments.length
- title = value
- chart
-
- chart.xlab = (value) ->
- return xlab if !arguments.length
- xlab = value
- chart
-
- chart.ylab = (value) ->
- return ylab if !arguments.length
- ylab = value
- chart
-
- chart.rotate_ylab = (value) ->
- return rotate_ylab if !arguments.length
- rotate_ylab = value
- chart
-
- chart.xvar = (value) ->
- return xvar if !arguments.length
- xvar = value
- chart
-
- chart.yvar = (value) ->
- return yvar if !arguments.length
- yvar = value
- chart
-
- chart.xNA = (value) ->
- return xNA if !arguments.length
- xNA = value
- chart
-
- chart.yNA = (value) ->
- return yNA if !arguments.length
- yNA = value
- chart
-
- chart.yscale = () ->
- return yscale
-
- chart.xscale = () ->
- return xscale
-
- chart.pointsSelect = () ->
- return pointsSelect
-
- # return the chart function
- chart
-
-probability_plot()
\ No newline at end of file diff --git a/wqflask/wqflask/static/new/javascript/probability_plot.js b/wqflask/wqflask/static/new/javascript/probability_plot.js deleted file mode 100644 index af0f787b..00000000 --- a/wqflask/wqflask/static/new/javascript/probability_plot.js +++ /dev/null @@ -1,408 +0,0 @@ -// Generated by CoffeeScript 1.8.0 -var probability_plot; - -probability_plot = function() { - var axispos, chart, dataByInd, height, margin, nxticks, nyticks, pointcolor, pointsSelect, pointsize, pointstroke, rectcolor, rotate_ylab, title, titlepos, width, xNA, xlab, xlim, xscale, xticks, xvar, yNA, ylab, ylim, yscale, yticks, yvar; - width = 800; - height = 600; - margin = { - left: 60, - top: 40, - right: 40, - bottom: 40, - inner: 5 - }; - axispos = { - xtitle: 25, - ytitle: 45, - xlabel: 5, - ylabel: 5 - }; - titlepos = 20; - xNA = { - handle: true, - force: false, - width: 15, - gap: 10 - }; - yNA = { - handle: true, - force: false, - width: 15, - gap: 10 - }; - xlim = null; - ylim = null; - nxticks = 5; - xticks = null; - nyticks = 5; - yticks = null; - rectcolor = d3.rgb(230, 230, 230); - pointcolor = null; - pointstroke = "black"; - pointsize = 3; - title = "Correlation Scatterplot"; - xlab = "X"; - ylab = "Y"; - rotate_ylab = null; - yscale = d3.scale.linear(); - xscale = d3.scale.linear(); - xvar = 0; - yvar = 1; - pointsSelect = null; - dataByInd = false; - chart = function(selection) { - return selection.each(function(data) { - var g, gEnter, group, i, indID, indtip, na_value, ngroup, panelheight, paneloffset, panelwidth, points, svg, titlegrp, x, xaxis, xrange, xs, y, yaxis, yrange, ys, _i, _ref, _ref1, _ref2, _results; - if (dataByInd) { - x = data.data.map(function(d) { - return d[xvar]; - }); - y = data.data.map(function(d) { - return d[yvar]; - }); - } else { - x = data.data[xvar]; - y = data.data[yvar]; - } - console.log("x:", x); - console.log("y:", y); - indID = (_ref = data != null ? data.indID : void 0) != null ? _ref : null; - indID = indID != null ? indID : (function() { - _results = []; - for (var _i = 1, _ref1 = x.length; 1 <= _ref1 ? _i <= _ref1 : _i >= _ref1; 1 <= _ref1 ? _i++ : _i--){ _results.push(_i); } - return _results; - }).apply(this); - console.log("indID:", indID); - group = (_ref2 = data != null ? data.group : void 0) != null ? _ref2 : (function() { - var _j, _len, _results1; - _results1 = []; - for (_j = 0, _len = x.length; _j < _len; _j++) { - i = x[_j]; - _results1.push(1); - } - return _results1; - })(); - ngroup = d3.max(group); - group = (function() { - var _j, _len, _results1; - _results1 = []; - for (_j = 0, _len = group.length; _j < _len; _j++) { - g = group[_j]; - _results1.push(g - 1); - } - return _results1; - })(); - pointcolor = pointcolor != null ? pointcolor : selectGroupColors(ngroup, "dark"); - pointcolor = expand2vector(pointcolor, ngroup); - if (x.every(function(v) { - return (v != null) && !xNA.force; - })) { - xNA.handle = false; - } - if (y.every(function(v) { - return (v != null) && !yNA.force; - })) { - yNA.handle = false; - } - if (xNA.handle) { - paneloffset = xNA.width + xNA.gap; - panelwidth = width - paneloffset; - } else { - paneloffset = 0; - panelwidth = width; - } - if (yNA.handle) { - panelheight = height - (yNA.width + yNA.gap); - } else { - panelheight = height; - } - xlim = xlim != null ? xlim : d3.extent(x); - ylim = ylim != null ? ylim : d3.extent(y); - na_value = d3.min(x.concat(y)) - 100; - svg = d3.select(this).selectAll("svg").data([data]); - gEnter = svg.enter().append("svg").append("g"); - svg.attr("width", width + margin.left + margin.right).attr("height", height + margin.top + margin.bottom); - g = svg.select("g"); - g.append("rect").attr("x", paneloffset + margin.left).attr("y", margin.top).attr("height", panelheight).attr("width", panelwidth).attr("fill", rectcolor).attr("stroke", "none"); - if (xNA.handle) { - g.append("rect").attr("x", margin.left).attr("y", margin.top).attr("height", panelheight).attr("width", xNA.width).attr("fill", rectcolor).attr("stroke", "none"); - } - if (xNA.handle && yNA.handle) { - g.append("rect").attr("x", margin.left).attr("y", margin.top + height - yNA.width).attr("height", yNA.width).attr("width", xNA.width).attr("fill", rectcolor).attr("stroke", "none"); - } - if (yNA.handle) { - g.append("rect").attr("x", margin.left + paneloffset).attr("y", margin.top + height - yNA.width).attr("height", yNA.width).attr("width", panelwidth).attr("fill", rectcolor).attr("stroke", "none"); - } - xrange = [margin.left + paneloffset + margin.inner, margin.left + paneloffset + panelwidth - margin.inner]; - yrange = [margin.top + panelheight - margin.inner, margin.top + margin.inner]; - xscale.domain(xlim).range(xrange); - yscale.domain(ylim).range(yrange); - xs = d3.scale.linear().domain(xlim).range(xrange); - ys = d3.scale.linear().domain(ylim).range(yrange); - if (xNA.handle) { - xscale.domain([na_value].concat(xlim)).range([margin.left + xNA.width / 2].concat(xrange)); - x = x.map(function(e) { - if (e != null) { - return e; - } else { - return na_value; - } - }); - } - if (yNA.handle) { - yscale.domain([na_value].concat(ylim)).range([height + margin.top - yNA.width / 2].concat(yrange)); - y = y.map(function(e) { - if (e != null) { - return e; - } else { - return na_value; - } - }); - } - yticks = yticks != null ? yticks : ys.ticks(nyticks); - xticks = xticks != null ? xticks : xs.ticks(nxticks); - titlegrp = g.append("g").attr("class", "title").append("text").attr("x", margin.left + width / 2).attr("y", margin.top - titlepos).text(title); - xaxis = g.append("g").attr("class", "x axis"); - xaxis.selectAll("empty").data(xticks).enter().append("line").attr("x1", function(d) { - return xscale(d); - }).attr("x2", function(d) { - return xscale(d); - }).attr("y1", margin.top).attr("y2", margin.top + height).attr("fill", "none").attr("stroke", "white").attr("stroke-width", 1).style("pointer-events", "none"); - xaxis.selectAll("empty").data(xticks).enter().append("text").attr("x", function(d) { - return xscale(d); - }).attr("y", margin.top + height + axispos.xlabel).text(function(d) { - return formatAxis(xticks)(d); - }); - xaxis.append("text").attr("class", "title").attr("x", margin.left + width / 2).attr("y", margin.top + height + axispos.xtitle).text(xlab); - if (xNA.handle) { - xaxis.append("text").attr("x", margin.left + xNA.width / 2).attr("y", margin.top + height + axispos.xlabel).text("N/A"); - } - rotate_ylab = rotate_ylab != null ? rotate_ylab : ylab.length > 1; - yaxis = g.append("g").attr("class", "y axis"); - yaxis.selectAll("empty").data(yticks).enter().append("line").attr("y1", function(d) { - return yscale(d); - }).attr("y2", function(d) { - return yscale(d); - }).attr("x1", margin.left).attr("x2", margin.left + width).attr("fill", "none").attr("stroke", "white").attr("stroke-width", 1).style("pointer-events", "none"); - yaxis.selectAll("empty").data(yticks).enter().append("text").attr("y", function(d) { - return yscale(d); - }).attr("x", margin.left - axispos.ylabel).text(function(d) { - return formatAxis(yticks)(d); - }); - yaxis.append("text").attr("class", "title").attr("y", margin.top + height / 2).attr("x", margin.left - axispos.ytitle).text(ylab).attr("transform", rotate_ylab ? "rotate(270," + (margin.left - axispos.ytitle) + "," + (margin.top + height / 2) + ")" : ""); - if (yNA.handle) { - yaxis.append("text").attr("x", margin.left - axispos.ylabel).attr("y", margin.top + height - yNA.width / 2).text("N/A"); - } - indtip = d3.tip().attr('class', 'd3-tip').html(function(d, i) { - return indID[i]; - }).direction('e').offset([0, 10]); - svg.call(indtip); - points = g.append("g").attr("id", "points"); - pointsSelect = points.selectAll("empty").data(d3.range(x.length)).enter().append("circle").attr("cx", function(d, i) { - return xscale(x[i]); - }).attr("cy", function(d, i) { - return yscale(y[i]); - }).attr("class", function(d, i) { - return "pt" + i; - }).attr("r", pointsize).attr("fill", function(d, i) { - return pointcolor[group[i]]; - }).attr("stroke", pointstroke).attr("stroke-width", "1").attr("opacity", function(d, i) { - if (((x[i] != null) || xNA.handle) && ((y[i] != null) || yNA.handle)) { - return 1; - } - return 0; - }).on("mouseover.paneltip", indtip.show).on("mouseout.paneltip", indtip.hide); - g.append("rect").attr("x", margin.left + paneloffset).attr("y", margin.top).attr("height", panelheight).attr("width", panelwidth).attr("fill", "none").attr("stroke", "black").attr("stroke-width", "none"); - if (xNA.handle) { - g.append("rect").attr("x", margin.left).attr("y", margin.top).attr("height", panelheight).attr("width", xNA.width).attr("fill", "none").attr("stroke", "black").attr("stroke-width", "none"); - } - if (xNA.handle && yNA.handle) { - g.append("rect").attr("x", margin.left).attr("y", margin.top + height - yNA.width).attr("height", yNA.width).attr("width", xNA.width).attr("fill", "none").attr("stroke", "black").attr("stroke-width", "none"); - } - if (yNA.handle) { - return g.append("rect").attr("x", margin.left + paneloffset).attr("y", margin.top + height - yNA.width).attr("height", yNA.width).attr("width", panelwidth).attr("fill", "none").attr("stroke", "black").attr("stroke-width", "none"); - } - }); - }; - chart.width = function(value) { - if (!arguments.length) { - return width; - } - width = value; - return chart; - }; - chart.height = function(value) { - if (!arguments.length) { - return height; - } - height = value; - return chart; - }; - chart.margin = function(value) { - if (!arguments.length) { - return margin; - } - margin = value; - return chart; - }; - chart.axispos = function(value) { - if (!arguments.length) { - return axispos; - } - axispos = value; - return chart; - }; - chart.titlepos = function(value) { - if (!arguments.length) { - return titlepos; - } - titlepos; - return chart; - }; - chart.xlim = function(value) { - if (!arguments.length) { - return xlim; - } - xlim = value; - return chart; - }; - chart.nxticks = function(value) { - if (!arguments.length) { - return nxticks; - } - nxticks = value; - return chart; - }; - chart.xticks = function(value) { - if (!arguments.length) { - return xticks; - } - xticks = value; - return chart; - }; - chart.ylim = function(value) { - if (!arguments.length) { - return ylim; - } - ylim = value; - return chart; - }; - chart.nyticks = function(value) { - if (!arguments.length) { - return nyticks; - } - nyticks = value; - return chart; - }; - chart.yticks = function(value) { - if (!arguments.length) { - return yticks; - } - yticks = value; - return chart; - }; - chart.rectcolor = function(value) { - if (!arguments.length) { - return rectcolor; - } - rectcolor = value; - return chart; - }; - chart.pointcolor = function(value) { - if (!arguments.length) { - return pointcolor; - } - pointcolor = value; - return chart; - }; - chart.pointsize = function(value) { - if (!arguments.length) { - return pointsize; - } - pointsize = value; - return chart; - }; - chart.pointstroke = function(value) { - if (!arguments.length) { - return pointstroke; - } - pointstroke = value; - return chart; - }; - chart.dataByInd = function(value) { - if (!arguments.length) { - return dataByInd; - } - dataByInd = value; - return chart; - }; - chart.title = function(value) { - if (!arguments.length) { - return title; - } - title = value; - return chart; - }; - chart.xlab = function(value) { - if (!arguments.length) { - return xlab; - } - xlab = value; - return chart; - }; - chart.ylab = function(value) { - if (!arguments.length) { - return ylab; - } - ylab = value; - return chart; - }; - chart.rotate_ylab = function(value) { - if (!arguments.length) { - return rotate_ylab; - } - rotate_ylab = value; - return chart; - }; - chart.xvar = function(value) { - if (!arguments.length) { - return xvar; - } - xvar = value; - return chart; - }; - chart.yvar = function(value) { - if (!arguments.length) { - return yvar; - } - yvar = value; - return chart; - }; - chart.xNA = function(value) { - if (!arguments.length) { - return xNA; - } - xNA = value; - return chart; - }; - chart.yNA = function(value) { - if (!arguments.length) { - return yNA; - } - yNA = value; - return chart; - }; - chart.yscale = function() { - return yscale; - }; - chart.xscale = function() { - return xscale; - }; - chart.pointsSelect = function() { - return pointsSelect; - }; - return chart; -}; - -probability_plot(); diff --git a/wqflask/wqflask/static/new/javascript/scatterplot.coffee b/wqflask/wqflask/static/new/javascript/scatterplot.coffee index 6a96e50f..008ab925 100644 --- a/wqflask/wqflask/static/new/javascript/scatterplot.coffee +++ b/wqflask/wqflask/static/new/javascript/scatterplot.coffee @@ -427,4 +427,4 @@ scatterplot = () -> # return the chart function
chart
-root.scatterplot = scatterplot
\ No newline at end of file +root.scatterplot = scatterplot
diff --git a/wqflask/wqflask/static/new/javascript/search_results.coffee b/wqflask/wqflask/static/new/javascript/search_results.coffee index c4e6b1a2..e0cfc61a 100755 --- a/wqflask/wqflask/static/new/javascript/search_results.coffee +++ b/wqflask/wqflask/static/new/javascript/search_results.coffee @@ -15,8 +15,7 @@ $ -> $(".trait_checkbox").trigger('click') add = -> - traits = $("#trait_table input:checked").map(-> - return $(this).val()).get() + traits = $("#trait_table input:checked").map(-> return $(this).val()).get() console.log("checked length is:", traits.length) console.log("checked is:", traits) $.colorbox({href:"/collections/add?traits=#{traits}"}) diff --git a/wqflask/wqflask/static/new/javascript/search_results.js b/wqflask/wqflask/static/new/javascript/search_results.js index ba2ebb4f..25381996 100755 --- a/wqflask/wqflask/static/new/javascript/search_results.js +++ b/wqflask/wqflask/static/new/javascript/search_results.js @@ -1,17 +1,94 @@ -// Generated by CoffeeScript 1.8.0 $(function() { var add, change_buttons, checked_traits, deselect_all, invert, remove, removed_traits, select_all; + checked_traits = null; select_all = function() { console.log("selected_all"); - return $(".trait_checkbox").prop('checked', true); + $(".trait_checkbox").each(function() { + $(this).prop('checked', true); + if (!$(this).closest('tr').hasClass('selected')) { + $(this).closest('tr').addClass('selected') + } + }); }; + deselect_all = function() { - return $(".trait_checkbox").prop('checked', false); + $(".trait_checkbox").each(function() { + $(this).prop('checked', false); + if ($(this).closest('tr').hasClass('selected')) { + $(this).closest('tr').removeClass('selected') + } + }); }; + invert = function() { - return $(".trait_checkbox").trigger('click'); + $(".trait_checkbox").each(function() { + if ($(this).prop('checked') == true) { + $(this).prop('checked', false) + } + else { + $(this).prop('checked', true) + } + + if ($(this).closest('tr').hasClass('selected')) { + $(this).closest('tr').removeClass('selected') + } + else { + $(this).closest('tr').addClass('selected') + } + }); }; + + $('#searchbox').keyup(function(){ + $('#trait_table').DataTable().search($(this).val()).draw(); + }); + + $('#select_top').keyup(function(){ + num_rows = $(this).val() + if (num_rows = parseInt(num_rows)){ + i = 0 + $('#trait_table > tbody > tr').each(function(){ + if (i < num_rows) { + $(this).find('.trait_checkbox').prop("checked", true) + if (!$(this).closest('tr').hasClass('selected')) { + $(this).closest('tr').addClass('selected') + } + } + else { + if ($(this).closest('tr').hasClass('selected')) { + $(this).closest('tr').removeClass('selected') + $(this).find('.trait_checkbox').prop("checked", false) + } + } + i += 1 + }); + } + else { + $('#trait_table > tbody > tr').each(function(){ + $(this).closest('tr').removeClass('selected') + $(this).find('.trait_checkbox').prop("checked", false) + }); + } + change_buttons(); + }); + + $('.trait_checkbox:checkbox').change(function() { + console.log("CHANGED") + change_buttons() + + if ($(this).is(":checked")) { + if (!$(this).closest('tr').hasClass('selected')) { + $(this).closest('tr').addClass('selected') + } + } + else { + if ($(this).closest('tr').hasClass('selected')) { + $(this).closest('tr').removeClass('selected') + } + } + + }); + add = function() { var traits; traits = $("#trait_table input:checked").map(function() { @@ -28,7 +105,7 @@ $(function() { return checked_traits.closest("tr").fadeOut(); }; change_buttons = function() { - var button, buttons, item, num_checked, text, _i, _j, _k, _l, _len, _len1, _len2, _len3, _results, _results1; + var button, buttons, item, num_checked, text, _i, _j, _k, _l, _len, _len2, _len3, _len4, _results, _results2; buttons = ["#add", "#remove"]; num_checked = $('.trait_checkbox:checked').length; console.log("num_checked is:", num_checked); @@ -38,31 +115,13 @@ $(function() { $(button).prop("disabled", true); } } else { - for (_j = 0, _len1 = buttons.length; _j < _len1; _j++) { + for (_j = 0, _len2 = buttons.length; _j < _len2; _j++) { button = buttons[_j]; $(button).prop("disabled", false); } } - if (num_checked > 1) { - console.log("in loop"); - _results = []; - for (_k = 0, _len2 = buttons.length; _k < _len2; _k++) { - item = buttons[_k]; - console.log(" processing item:", item); - _results.push(text = $(item).html()); - } - return _results; - } else { - console.log("in loop"); - _results1 = []; - for (_l = 0, _len3 = buttons.length; _l < _len3; _l++) { - item = buttons[_l]; - console.log(" processing item:", item); - _results1.push(text = $(item).html()); - } - return _results1; - } }; + remove = function() { var traits, uc_id; checked_traits = $("#trait_table input:checked"); @@ -88,6 +147,5 @@ $(function() { $("#invert").click(invert); $("#add").click(add); $("#remove").click(remove); - $('.trait_checkbox').click(change_buttons); - return $('.btn').click(change_buttons); -}); + $('.trait_checkbox, .btn').click(change_buttons); +});
\ No newline at end of file diff --git a/wqflask/wqflask/static/new/javascript/show_trait.coffee b/wqflask/wqflask/static/new/javascript/show_trait.coffee index d05ccbf7..91aa15ba 100755 --- a/wqflask/wqflask/static/new/javascript/show_trait.coffee +++ b/wqflask/wqflask/static/new/javascript/show_trait.coffee @@ -61,38 +61,16 @@ Stat_Table_Rows = [ ] $ -> - sample_lists = js_data.sample_lists - sample_group_types = js_data.sample_group_types - #if $("#update_bar_chart").length - # $("#update_bar_chart.btn-group").button() - root.bar_chart = new Bar_Chart(sample_lists[0]) - root.histogram = new Histogram(sample_lists[0]) - new Box_Plot(sample_lists[0]) + add = -> + trait = $("input[name=trait_hmac]").val() + console.log("trait is:", trait) + $.colorbox({href:"/collections/add?traits=#{trait}"}) - $('.bar_chart_samples_group').change -> - $('#bar_chart').remove() - $('#bar_chart_container').append('<div id="bar_chart"></div>') - group = $(this).val() - if group == "samples_primary" - root.bar_chart = new Bar_Chart(sample_lists[0]) - else if group == "samples_other" - root.bar_chart = new Bar_Chart(sample_lists[1]) - else if group == "samples_all" - all_samples = sample_lists[0].concat sample_lists[1] - root.bar_chart = new Bar_Chart(all_samples) - - $('.box_plot_samples_group').change -> - $('#box_plot').remove() - $('#box_plot_container').append('<div id="box_plot"></div>') - group = $(this).val() - if group == "samples_primary" - new Box_Plot(sample_lists[0]) - else if group == "samples_other" - new Box_Plot(sample_lists[1]) - else if group == "samples_all" - all_samples = sample_lists[0].concat sample_lists[1] - new Box_Plot(all_samples) + $('#add_to_collection').click(add) + + sample_lists = js_data.sample_lists + sample_group_types = js_data.sample_group_types d3.select("#select_compare_trait").on("click", => $('.scatter-matrix-container').remove() @@ -126,7 +104,7 @@ $ -> $("#stats_tabs" + selected).show() - change_stats_value = (sample_sets, category, value_type, decimal_places)-> + change_stats_value = (sample_sets, category, value_type, decimal_places, effects) -> id = "#" + process_id(category, value_type) console.log("the_id:", id) in_box = $(id).html @@ -145,7 +123,10 @@ $ -> console.log("*-* current_value:", current_value) if the_value != current_value console.log("object:", $(id).html(the_value)) - $(id).html(the_value).effect("highlight") + if effects + $(id).html(the_value).effect("highlight") + else + $(id).html(the_value) # We go ahead and always change the title value if we have it if title_value @@ -153,11 +134,20 @@ $ -> update_stat_values = (sample_sets)-> + show_effects = $(".tab-pane.active").attr("id") == "stats_tab" for category in ['samples_primary', 'samples_other', 'samples_all'] for row in Stat_Table_Rows console.log("Calling change_stats_value") - change_stats_value(sample_sets, category, row.vn, row.digits) + change_stats_value(sample_sets, category, row.vn, row.digits, show_effects) + + redraw_histogram = -> + root.histogram.redraw((x.value for x in _.values(root.selected_samples[root.histogram_group]))) + + redraw_bar_chart = -> + root.bar_chart.redraw(root.selected_samples, root.bar_chart_group) + redraw_prob_plot = -> + root.redraw_prob_plot_impl(root.selected_samples, root.prob_plot_group) make_table = -> header = "<thead><tr><th> </th>" @@ -213,6 +203,11 @@ $ -> samples_other: new Stats([]) samples_all: new Stats([]) + root.selected_samples = # maps: sample name -> value + samples_primary: {} + samples_other: {} + samples_all: {} + console.log("at beginning:", sample_sets) tables = ['samples_primary', 'samples_other'] @@ -222,24 +217,43 @@ $ -> name = $(row).find('.edit_sample_sample_name').html() name = $.trim(name) real_value = $(row).find('.edit_sample_value').val() - console.log("real_value:", real_value) + #console.log("real_value:", real_value) checkbox = $(row).find(".edit_sample_checkbox") - checked = $(checkbox).attr('checked') + checked = $(checkbox).prop('checked') if checked and is_number(real_value) and real_value != "" - console.log("in the iffy if") + #console.log("in the iffy if") real_value = parseFloat(real_value) sample_sets[table].add_value(real_value) - console.log("checking name of:", name) + + real_variance = $(row).find('.edit_sample_se').val() + if (is_number(real_variance)) + real_variance = parseFloat(real_variance) + else + real_variance = null + real_dict = {value: real_value, variance: real_variance} + root.selected_samples[table][name] = real_dict + + #console.log("checking name of:", name) if not (name of already_seen) - console.log("haven't seen") + #console.log("haven't seen") sample_sets['samples_all'].add_value(real_value) + root.selected_samples['samples_all'][name] = real_dict already_seen[name] = true console.log("towards end:", sample_sets) update_stat_values(sample_sets) + console.log("redrawing histogram") + redraw_histogram() + + console.log("redrawing bar chart") + redraw_bar_chart() + + console.log("redrawing probability plot") + redraw_prob_plot() + show_hide_outliers = -> console.log("FOOBAR in beginning of show_hide_outliers") label = $('#show_hide_outliers').val() @@ -377,11 +391,9 @@ $ -> ##Get Sample Data From Table Code - get_sample_table_data = -> - samples = {} - primary_samples = [] - other_samples = [] - $('#sortable1').find('.value_se').each (_index, element) => + get_sample_table_data = (table_name) -> + samples = [] + $('#' + table_name).find('.value_se').each (_index, element) => row_data = {} row_data.name = $.trim($(element).find('.column_name-Sample').text()) row_data.value = $(element).find('.edit_sample_value').val() @@ -391,10 +403,7 @@ $ -> row_data[attribute_info.name] = $.trim($(element).find( '.column_name-'+attribute_info.name.replace(" ", "_")).text()) console.log("row_data is:", row_data) - primary_samples.push(row_data) - console.log("primary_samples is:", primary_samples) - samples.primary_samples = primary_samples - samples.other_samples = other_samples + samples.push(row_data) return samples ##End Get Sample Data from Table Code @@ -402,7 +411,9 @@ $ -> ##Export Sample Table Data Code export_sample_table_data = -> - sample_data = get_sample_table_data() + sample_data = {} + sample_data.primary_samples = get_sample_table_data('samples_primary') + sample_data.other_samples = get_sample_table_data('samples_other') console.log("sample_data is:", sample_data) json_sample_data = JSON.stringify(sample_data) console.log("json_sample_data is:", json_sample_data) @@ -429,11 +440,37 @@ $ -> console.log("after registering block_outliers") _.mixin(_.str.exports()); # Add string fuctions directly to underscore - $('#edit_sample_lists').change(edit_data_change) - console.log("loaded") - #console.log("basic_table is:", basic_table) - # Add back following two lines later + + root.histogram_group = 'samples_primary' + root.histogram = new Histogram(sample_lists[0]) + $('.histogram_samples_group').val(root.histogram_group) + $('.histogram_samples_group').change -> + root.histogram_group = $(this).val() + redraw_histogram() + + root.bar_chart_group = 'samples_primary' + root.bar_chart = new Bar_Chart(sample_lists) + $('.bar_chart_samples_group').val(root.bar_chart_group) + $('.bar_chart_samples_group').change -> + root.bar_chart_group = $(this).val() + redraw_bar_chart() + + root.prob_plot_group = 'samples_primary' + $('.prob_plot_samples_group').val(root.prob_plot_group) + $('.prob_plot_samples_group').change -> + root.prob_plot_group = $(this).val() + redraw_prob_plot() + make_table() edit_data_change() # Set the values at the beginning + + $('#edit_sample_lists').change(edit_data_change) + + # bind additional handlers for pushing data updates + $('#block_by_index').click(edit_data_change) + $('#exclude_group').click(edit_data_change) + $('#block_outliers').click(edit_data_change) + $('#reset').click(edit_data_change) + #$("#all-mean").html('foobar8') console.log("end") diff --git a/wqflask/wqflask/static/new/javascript/show_trait.js b/wqflask/wqflask/static/new/javascript/show_trait.js index 159dafcb..1dd54e3a 100755 --- a/wqflask/wqflask/static/new/javascript/show_trait.js +++ b/wqflask/wqflask/static/new/javascript/show_trait.js @@ -1,469 +1,508 @@ // Generated by CoffeeScript 1.8.0 -var Stat_Table_Rows, is_number, - __hasProp = {}.hasOwnProperty, - __slice = [].slice; +(function() { + var Stat_Table_Rows, is_number, + __hasProp = {}.hasOwnProperty, + __slice = [].slice; -console.log("start_b"); + console.log("start_b"); -is_number = function(o) { - return !isNaN((o - 0) && o !== null); -}; - -Stat_Table_Rows = [ - { - vn: "n_of_samples", - pretty: "N of Samples", - digits: 0 - }, { - vn: "mean", - pretty: "Mean", - digits: 2 - }, { - vn: "median", - pretty: "Median", - digits: 2 - }, { - vn: "std_error", - pretty: "Standard Error (SE)", - digits: 2 - }, { - vn: "std_dev", - pretty: "Standard Deviation (SD)", - digits: 2 - }, { - vn: "min", - pretty: "Minimum", - digits: 2 - }, { - vn: "max", - pretty: "Maximum", - digits: 2 - }, { - vn: "range", - pretty: "Range (log2)", - digits: 2 - }, { - vn: "range_fold", - pretty: "Range (fold)", - digits: 2 - }, { - vn: "interquartile", - pretty: "Interquartile Range", - url: "/glossary.html#Interquartile", - digits: 2 - } -]; + is_number = function(o) { + return !isNaN((o - 0) && o !== null); + }; -$(function() { - var block_by_attribute_value, block_by_index, block_outliers, change_stats_value, create_value_dropdown, edit_data_change, export_sample_table_data, get_sample_table_data, hide_no_value, hide_tabs, make_table, on_corr_method_change, open_trait_selection, populate_sample_attributes_values_dropdown, process_id, reset_samples_table, sample_group_types, sample_lists, show_hide_outliers, stats_mdp_change, update_stat_values; - sample_lists = js_data.sample_lists; - sample_group_types = js_data.sample_group_types; - root.bar_chart = new Bar_Chart(sample_lists[0]); - root.histogram = new Histogram(sample_lists[0]); - new Box_Plot(sample_lists[0]); - $('.bar_chart_samples_group').change(function() { - var all_samples, group; - $('#bar_chart').remove(); - $('#bar_chart_container').append('<div id="bar_chart"></div>'); - group = $(this).val(); - if (group === "samples_primary") { - return root.bar_chart = new Bar_Chart(sample_lists[0]); - } else if (group === "samples_other") { - return root.bar_chart = new Bar_Chart(sample_lists[1]); - } else if (group === "samples_all") { - all_samples = sample_lists[0].concat(sample_lists[1]); - return root.bar_chart = new Bar_Chart(all_samples); - } - }); - $('.box_plot_samples_group').change(function() { - var all_samples, group; - $('#box_plot').remove(); - $('#box_plot_container').append('<div id="box_plot"></div>'); - group = $(this).val(); - if (group === "samples_primary") { - return new Box_Plot(sample_lists[0]); - } else if (group === "samples_other") { - return new Box_Plot(sample_lists[1]); - } else if (group === "samples_all") { - all_samples = sample_lists[0].concat(sample_lists[1]); - return new Box_Plot(all_samples); + Stat_Table_Rows = [ + { + vn: "n_of_samples", + pretty: "N of Samples", + digits: 0 + }, { + vn: "mean", + pretty: "Mean", + digits: 2 + }, { + vn: "median", + pretty: "Median", + digits: 2 + }, { + vn: "std_error", + pretty: "Standard Error (SE)", + digits: 2 + }, { + vn: "std_dev", + pretty: "Standard Deviation (SD)", + digits: 2 + }, { + vn: "min", + pretty: "Minimum", + digits: 2 + }, { + vn: "max", + pretty: "Maximum", + digits: 2 + }, { + vn: "range", + pretty: "Range (log2)", + digits: 2 + }, { + vn: "range_fold", + pretty: "Range (fold)", + digits: 2 + }, { + vn: "interquartile", + pretty: "Interquartile Range", + url: "/glossary.html#Interquartile", + digits: 2 } - }); - d3.select("#select_compare_trait").on("click", (function(_this) { - return function() { - $('.scatter-matrix-container').remove(); - return open_trait_selection(); - }; - })(this)); - d3.select("#clear_compare_trait").on("click", (function(_this) { - return function() { - return $('.scatter-matrix-container').remove(); + ]; + + $(function() { + var add, block_by_attribute_value, block_by_index, block_outliers, change_stats_value, create_value_dropdown, edit_data_change, export_sample_table_data, get_sample_table_data, hide_no_value, hide_tabs, make_table, on_corr_method_change, open_trait_selection, populate_sample_attributes_values_dropdown, process_id, redraw_bar_chart, redraw_histogram, redraw_prob_plot, reset_samples_table, sample_group_types, sample_lists, show_hide_outliers, stats_mdp_change, update_stat_values; + add = function() { + var trait; + trait = $("input[name=trait_hmac]").val(); + console.log("trait is:", trait); + return $.colorbox({ + href: "/collections/add?traits=" + trait + }); }; - })(this)); - open_trait_selection = function() { - return $('#collections_holder').load('/collections/list?color_by_trait #collections_list', (function(_this) { + $('#add_to_collection').click(add); + sample_lists = js_data.sample_lists; + sample_group_types = js_data.sample_group_types; + d3.select("#select_compare_trait").on("click", (function(_this) { return function() { - $.colorbox({ - inline: true, - href: "#collections_holder" - }); - return $('a.collection_name').attr('onClick', 'return false'); + $('.scatter-matrix-container').remove(); + return open_trait_selection(); }; })(this)); - }; - hide_tabs = function(start) { - var x, _i, _results; - _results = []; - for (x = _i = start; start <= 10 ? _i <= 10 : _i >= 10; x = start <= 10 ? ++_i : --_i) { - _results.push($("#stats_tabs" + x).hide()); - } - return _results; - }; - stats_mdp_change = function() { - var selected; - selected = $(this).val(); - hide_tabs(0); - return $("#stats_tabs" + selected).show(); - }; - change_stats_value = function(sample_sets, category, value_type, decimal_places) { - var current_value, id, in_box, the_value, title_value; - id = "#" + process_id(category, value_type); - console.log("the_id:", id); - in_box = $(id).html; - current_value = parseFloat($(in_box)).toFixed(decimal_places); - the_value = sample_sets[category][value_type](); - console.log("After running sample_sets, the_value is:", the_value); - if (decimal_places > 0) { - title_value = the_value.toFixed(decimal_places * 2); - the_value = the_value.toFixed(decimal_places); - } else { - title_value = null; - } - console.log("*-* the_value:", the_value); - console.log("*-* current_value:", current_value); - if (the_value !== current_value) { - console.log("object:", $(id).html(the_value)); - $(id).html(the_value).effect("highlight"); - } - if (title_value) { - return $(id).attr('title', title_value); - } - }; - update_stat_values = function(sample_sets) { - var category, row, _i, _len, _ref, _results; - _ref = ['samples_primary', 'samples_other', 'samples_all']; - _results = []; - for (_i = 0, _len = _ref.length; _i < _len; _i++) { - category = _ref[_i]; - _results.push((function() { - var _j, _len1, _results1; - _results1 = []; - for (_j = 0, _len1 = Stat_Table_Rows.length; _j < _len1; _j++) { - row = Stat_Table_Rows[_j]; - console.log("Calling change_stats_value"); - _results1.push(change_stats_value(sample_sets, category, row.vn, row.digits)); - } - return _results1; - })()); - } - return _results; - }; - make_table = function() { - var header, key, row, row_line, table, the_id, the_rows, value, _i, _len, _ref, _ref1; - header = "<thead><tr><th> </th>"; - console.log("js_data.sample_group_types:", js_data.sample_group_types); - _ref = js_data.sample_group_types; - for (key in _ref) { - if (!__hasProp.call(_ref, key)) continue; - value = _ref[key]; - console.log("aa key:", key); - console.log("aa value:", value); - the_id = process_id("column", key); - header += "<th id=\"" + the_id + "\">" + value + "</th>"; - } - header += "</thead>"; - console.log("windex header is:", header); - the_rows = "<tbody>"; - for (_i = 0, _len = Stat_Table_Rows.length; _i < _len; _i++) { - row = Stat_Table_Rows[_i]; - console.log("rowing"); - row_line = "<tr>"; - if (row.url != null) { - row_line += "<td id=\"" + row.vn + "\"><a href=\"" + row.url + "\">" + row.pretty + "</a></td>"; + d3.select("#clear_compare_trait").on("click", (function(_this) { + return function() { + return $('.scatter-matrix-container').remove(); + }; + })(this)); + open_trait_selection = function() { + return $('#collections_holder').load('/collections/list?color_by_trait #collections_list', (function(_this) { + return function() { + $.colorbox({ + inline: true, + href: "#collections_holder" + }); + return $('a.collection_name').attr('onClick', 'return false'); + }; + })(this)); + }; + hide_tabs = function(start) { + var x, _i, _results; + _results = []; + for (x = _i = start; start <= 10 ? _i <= 10 : _i >= 10; x = start <= 10 ? ++_i : --_i) { + _results.push($("#stats_tabs" + x).hide()); + } + return _results; + }; + stats_mdp_change = function() { + var selected; + selected = $(this).val(); + hide_tabs(0); + return $("#stats_tabs" + selected).show(); + }; + change_stats_value = function(sample_sets, category, value_type, decimal_places, effects) { + var current_value, id, in_box, the_value, title_value; + id = "#" + process_id(category, value_type); + console.log("the_id:", id); + in_box = $(id).html; + current_value = parseFloat($(in_box)).toFixed(decimal_places); + the_value = sample_sets[category][value_type](); + console.log("After running sample_sets, the_value is:", the_value); + if (decimal_places > 0) { + title_value = the_value.toFixed(decimal_places * 2); + the_value = the_value.toFixed(decimal_places); } else { - row_line += "<td id=\"" + row.vn + "\">" + row.pretty + "</td>"; + title_value = null; } - console.log("box - js_data.sample_group_types:", js_data.sample_group_types); - _ref1 = js_data.sample_group_types; - for (key in _ref1) { - if (!__hasProp.call(_ref1, key)) continue; - value = _ref1[key]; - console.log("apple key:", key); - the_id = process_id(key, row.vn); - console.log("the_id:", the_id); - row_line += "<td id=\"" + the_id + "\">foo</td>"; + console.log("*-* the_value:", the_value); + console.log("*-* current_value:", current_value); + if (the_value !== current_value) { + console.log("object:", $(id).html(the_value)); + if (effects) { + $(id).html(the_value).effect("highlight"); + } else { + $(id).html(the_value); + } } - row_line += "</tr>"; - console.log("row line:", row_line); - the_rows += row_line; - } - the_rows += "</tbody>"; - table = header + the_rows; - console.log("table is:", table); - return $("#stats_table").append(table); - }; - process_id = function() { - var processed, value, values, _i, _len; - values = 1 <= arguments.length ? __slice.call(arguments, 0) : []; - - /* Make an id or a class valid javascript by, for example, eliminating spaces */ - processed = ""; - for (_i = 0, _len = values.length; _i < _len; _i++) { - value = values[_i]; - console.log("value:", value); - value = value.replace(" ", "_"); - if (processed.length) { - processed += "-"; + if (title_value) { + return $(id).attr('title', title_value); } - processed += value; - } - return processed; - }; - edit_data_change = function() { - var already_seen, checkbox, checked, name, real_value, row, rows, sample_sets, table, tables, _i, _j, _len, _len1; - already_seen = {}; - sample_sets = { - samples_primary: new Stats([]), - samples_other: new Stats([]), - samples_all: new Stats([]) }; - console.log("at beginning:", sample_sets); - tables = ['samples_primary', 'samples_other']; - for (_i = 0, _len = tables.length; _i < _len; _i++) { - table = tables[_i]; - rows = $("#" + table).find('tr'); - for (_j = 0, _len1 = rows.length; _j < _len1; _j++) { - row = rows[_j]; - name = $(row).find('.edit_sample_sample_name').html(); - name = $.trim(name); - real_value = $(row).find('.edit_sample_value').val(); - console.log("real_value:", real_value); - checkbox = $(row).find(".edit_sample_checkbox"); - checked = $(checkbox).attr('checked'); - if (checked && is_number(real_value) && real_value !== "") { - console.log("in the iffy if"); - real_value = parseFloat(real_value); - sample_sets[table].add_value(real_value); - console.log("checking name of:", name); - if (!(name in already_seen)) { - console.log("haven't seen"); - sample_sets['samples_all'].add_value(real_value); - already_seen[name] = true; + update_stat_values = function(sample_sets) { + var category, row, show_effects, _i, _len, _ref, _results; + show_effects = $(".tab-pane.active").attr("id") === "stats_tab"; + _ref = ['samples_primary', 'samples_other', 'samples_all']; + _results = []; + for (_i = 0, _len = _ref.length; _i < _len; _i++) { + category = _ref[_i]; + _results.push((function() { + var _j, _len1, _results1; + _results1 = []; + for (_j = 0, _len1 = Stat_Table_Rows.length; _j < _len1; _j++) { + row = Stat_Table_Rows[_j]; + console.log("Calling change_stats_value"); + _results1.push(change_stats_value(sample_sets, category, row.vn, row.digits, show_effects)); } + return _results1; + })()); + } + return _results; + }; + redraw_histogram = function() { + var x; + return root.histogram.redraw((function() { + var _i, _len, _ref, _results; + _ref = _.values(root.selected_samples[root.histogram_group]); + _results = []; + for (_i = 0, _len = _ref.length; _i < _len; _i++) { + x = _ref[_i]; + _results.push(x.value); } + return _results; + })()); + }; + redraw_bar_chart = function() { + return root.bar_chart.redraw(root.selected_samples, root.bar_chart_group); + }; + redraw_prob_plot = function() { + return root.redraw_prob_plot_impl(root.selected_samples, root.prob_plot_group); + }; + make_table = function() { + var header, key, row, row_line, table, the_id, the_rows, value, _i, _len, _ref, _ref1; + header = "<thead><tr><th> </th>"; + console.log("js_data.sample_group_types:", js_data.sample_group_types); + _ref = js_data.sample_group_types; + for (key in _ref) { + if (!__hasProp.call(_ref, key)) continue; + value = _ref[key]; + the_id = process_id("column", key); + header += "<th id=\"" + the_id + "\">" + value + "</th>"; } - } - console.log("towards end:", sample_sets); - return update_stat_values(sample_sets); - }; - show_hide_outliers = function() { - var label; - console.log("FOOBAR in beginning of show_hide_outliers"); - label = $('#show_hide_outliers').val(); - console.log("lable is:", label); - if (label === "Hide Outliers") { - return $('#show_hide_outliers').val("Show Outliers"); - } else if (label === "Show Outliers") { - console.log("Found Show Outliers"); - $('#show_hide_outliers').val("Hide Outliers"); - return console.log("Should be now Hide Outliers"); - } - }; - on_corr_method_change = function() { - var corr_method; - console.log("in beginning of on_corr_method_change"); - corr_method = $('select[name=corr_method]').val(); - console.log("corr_method is:", corr_method); - $('.correlation_desc').hide(); - $('#' + corr_method + "_r_desc").show().effect("highlight"); - if (corr_method === "lit") { - return $("#corr_sample_method_options").hide(); - } else { - return $("#corr_sample_method_options").show(); - } - }; - $('select[name=corr_method]').change(on_corr_method_change); - create_value_dropdown = function(value) { - return "<option val=" + value + ">" + value + "</option>"; - }; - populate_sample_attributes_values_dropdown = function() { - var attribute_info, key, sample_attributes, selected_attribute, value, _i, _len, _ref, _ref1, _results; - console.log("in beginning of psavd"); - $('#attribute_values').empty(); - sample_attributes = {}; - _ref = js_data.attribute_names; - for (key in _ref) { - if (!__hasProp.call(_ref, key)) continue; - attribute_info = _ref[key]; - sample_attributes[attribute_info.name] = attribute_info.distinct_values; - } - console.log("[visa] attributes is:", sample_attributes); - selected_attribute = $('#exclude_menu').val().replace("_", " "); - console.log("selected_attribute is:", selected_attribute); - _ref1 = sample_attributes[selected_attribute]; - _results = []; - for (_i = 0, _len = _ref1.length; _i < _len; _i++) { - value = _ref1[_i]; - _results.push($(create_value_dropdown(value)).appendTo($('#attribute_values'))); - } - return _results; - }; - if (js_data.attribute_names.length > 0) { - populate_sample_attributes_values_dropdown(); - } - $('#exclude_menu').change(populate_sample_attributes_values_dropdown); - block_by_attribute_value = function() { - var attribute_name, cell_class, exclude_by_value; - attribute_name = $('#exclude_menu').val(); - exclude_by_value = $('#attribute_values').val(); - cell_class = ".column_name-" + attribute_name; - return $(cell_class).each((function(_this) { - return function(index, element) { - var row; - if ($.trim($(element).text()) === exclude_by_value) { - row = $(element).parent('tr'); - return $(row).find(".trait_value_input").val("x"); + header += "</thead>"; + the_rows = "<tbody>"; + for (_i = 0, _len = Stat_Table_Rows.length; _i < _len; _i++) { + row = Stat_Table_Rows[_i]; + console.log("rowing"); + row_line = "<tr>"; + if (row.url != null) { + row_line += "<td id=\"" + row.vn + "\"><a href=\"" + row.url + "\">" + row.pretty + "</a></td>"; + } else { + row_line += "<td id=\"" + row.vn + "\">" + row.pretty + "</td>"; } + console.log("box - js_data.sample_group_types:", js_data.sample_group_types); + _ref1 = js_data.sample_group_types; + for (key in _ref1) { + if (!__hasProp.call(_ref1, key)) continue; + value = _ref1[key]; + the_id = process_id(key, row.vn); + row_line += "<td id=\"" + the_id + "\">foo</td>"; + } + row_line += "</tr>"; + console.log("row line:", row_line); + the_rows += row_line; + } + the_rows += "</tbody>"; + table = header + the_rows; + console.log("table is:", table); + return $("#stats_table").append(table); + }; + process_id = function() { + var processed, value, values, _i, _len; + values = 1 <= arguments.length ? __slice.call(arguments, 0) : []; + + /* Make an id or a class valid javascript by, for example, eliminating spaces */ + processed = ""; + for (_i = 0, _len = values.length; _i < _len; _i++) { + value = values[_i]; + console.log("value:", value); + value = value.replace(" ", "_"); + if (processed.length) { + processed += "-"; + } + processed += value; + } + return processed; + }; + edit_data_change = function() { + var already_seen, checkbox, checked, name, real_dict, real_value, real_variance, row, rows, sample_sets, table, tables, _i, _j, _len, _len1; + already_seen = {}; + sample_sets = { + samples_primary: new Stats([]), + samples_other: new Stats([]), + samples_all: new Stats([]) }; - })(this)); - }; - $('#exclude_group').click(block_by_attribute_value); - block_by_index = function() { - var end_index, error, index, index_list, index_set, index_string, start_index, _i, _j, _k, _len, _len1, _ref, _results; - index_string = $('#remove_samples_field').val(); - index_list = []; - _ref = index_string.split(","); - for (_i = 0, _len = _ref.length; _i < _len; _i++) { - index_set = _ref[_i]; - if (index_set.indexOf('-') !== -1) { - try { - start_index = parseInt(index_set.split("-")[0]); - end_index = parseInt(index_set.split("-")[1]); - for (index = _j = start_index; start_index <= end_index ? _j <= end_index : _j >= end_index; index = start_index <= end_index ? ++_j : --_j) { - index_list.push(index); + root.selected_samples = { + samples_primary: {}, + samples_other: {}, + samples_all: {} + }; + console.log("at beginning:", sample_sets); + tables = ['samples_primary', 'samples_other']; + for (_i = 0, _len = tables.length; _i < _len; _i++) { + table = tables[_i]; + rows = $("#" + table).find('tr'); + for (_j = 0, _len1 = rows.length; _j < _len1; _j++) { + row = rows[_j]; + name = $(row).find('.edit_sample_sample_name').html(); + name = $.trim(name); + real_value = $(row).find('.edit_sample_value').val(); + checkbox = $(row).find(".edit_sample_checkbox"); + checked = $(checkbox).prop('checked'); + if (checked && is_number(real_value) && real_value !== "") { + real_value = parseFloat(real_value); + sample_sets[table].add_value(real_value); + real_variance = $(row).find('.edit_sample_se').val(); + if (is_number(real_variance)) { + real_variance = parseFloat(real_variance); + } else { + real_variance = null; + } + real_dict = { + value: real_value, + variance: real_variance + }; + root.selected_samples[table][name] = real_dict; + if (!(name in already_seen)) { + sample_sets['samples_all'].add_value(real_value); + root.selected_samples['samples_all'][name] = real_dict; + already_seen[name] = true; + } } - } catch (_error) { - error = _error; - alert("Syntax error"); } - } else { - index = parseInt(index_set); - console.log("index:", index); - index_list.push(index); } - } - console.log("index_list:", index_list); - _results = []; - for (_k = 0, _len1 = index_list.length; _k < _len1; _k++) { - index = index_list[_k]; - if ($('#block_group').val() === "primary") { - console.log("block_group:", $('#block_group').val()); - console.log("row:", $('#Primary_' + index.toString())); - _results.push($('#Primary_' + index.toString()).find('.trait_value_input').val("x")); - } else if ($('#block_group').val() === "other") { - console.log("block_group:", $('#block_group').val()); - console.log("row:", $('#Other_' + index.toString())); - _results.push($('#Other_' + index.toString()).find('.trait_value_input').val("x")); + console.log("towards end:", sample_sets); + update_stat_values(sample_sets); + console.log("redrawing histogram"); + redraw_histogram(); + console.log("redrawing bar chart"); + redraw_bar_chart(); + console.log("redrawing probability plot"); + return redraw_prob_plot(); + }; + show_hide_outliers = function() { + var label; + console.log("FOOBAR in beginning of show_hide_outliers"); + label = $('#show_hide_outliers').val(); + console.log("lable is:", label); + if (label === "Hide Outliers") { + return $('#show_hide_outliers').val("Show Outliers"); + } else if (label === "Show Outliers") { + console.log("Found Show Outliers"); + $('#show_hide_outliers').val("Hide Outliers"); + return console.log("Should be now Hide Outliers"); + } + }; + on_corr_method_change = function() { + var corr_method; + console.log("in beginning of on_corr_method_change"); + corr_method = $('select[name=corr_method]').val(); + console.log("corr_method is:", corr_method); + $('.correlation_desc').hide(); + $('#' + corr_method + "_r_desc").show().effect("highlight"); + if (corr_method === "lit") { + return $("#corr_sample_method_options").hide(); } else { - _results.push(void 0); + return $("#corr_sample_method_options").show(); + } + }; + $('select[name=corr_method]').change(on_corr_method_change); + create_value_dropdown = function(value) { + return "<option val=" + value + ">" + value + "</option>"; + }; + populate_sample_attributes_values_dropdown = function() { + var attribute_info, key, sample_attributes, selected_attribute, value, _i, _len, _ref, _ref1, _results; + console.log("in beginning of psavd"); + $('#attribute_values').empty(); + sample_attributes = {}; + _ref = js_data.attribute_names; + for (key in _ref) { + if (!__hasProp.call(_ref, key)) continue; + attribute_info = _ref[key]; + sample_attributes[attribute_info.name] = attribute_info.distinct_values; } + console.log("[visa] attributes is:", sample_attributes); + selected_attribute = $('#exclude_menu').val().replace("_", " "); + console.log("selected_attribute is:", selected_attribute); + _ref1 = sample_attributes[selected_attribute]; + _results = []; + for (_i = 0, _len = _ref1.length; _i < _len; _i++) { + value = _ref1[_i]; + _results.push($(create_value_dropdown(value)).appendTo($('#attribute_values'))); + } + return _results; + }; + if (js_data.attribute_names.length > 0) { + populate_sample_attributes_values_dropdown(); } - return _results; - }; - $('#block_by_index').click(block_by_index); - hide_no_value = function() { - return $('.value_se').each((function(_this) { - return function(_index, element) { - if ($(element).find('.trait_value_input').val() === 'x') { - return $(element).hide(); - } - }; - })(this)); - }; - $('#hide_no_value').click(hide_no_value); - block_outliers = function() { - return $('.outlier').each((function(_this) { - return function(_index, element) { - return $(element).find('.trait_value_input').val('x'); - }; - })(this)); - }; - $('#block_outliers').click(block_outliers); - reset_samples_table = function() { - return $('.trait_value_input').each((function(_this) { - return function(_index, element) { - console.log("value is:", $(element).val()); - $(element).val($(element).data('value')); - console.log("data-value is:", $(element).data('value')); - return $(element).parents('.value_se').show(); - }; - })(this)); - }; - $('#reset').click(reset_samples_table); - get_sample_table_data = function() { - var other_samples, primary_samples, samples; - samples = {}; - primary_samples = []; - other_samples = []; - $('#sortable1').find('.value_se').each((function(_this) { - return function(_index, element) { - var attribute_info, key, row_data, _ref; - row_data = {}; - row_data.name = $.trim($(element).find('.column_name-Sample').text()); - row_data.value = $(element).find('.edit_sample_value').val(); - if ($(element).find('.edit_sample_se').length !== -1) { - row_data.se = $(element).find('.edit_sample_se').val(); + $('#exclude_menu').change(populate_sample_attributes_values_dropdown); + block_by_attribute_value = function() { + var attribute_name, cell_class, exclude_by_value; + attribute_name = $('#exclude_menu').val(); + exclude_by_value = $('#attribute_values').val(); + cell_class = ".column_name-" + attribute_name; + return $(cell_class).each((function(_this) { + return function(index, element) { + var row; + if ($.trim($(element).text()) === exclude_by_value) { + row = $(element).parent('tr'); + return $(row).find(".trait_value_input").val("x"); + } + }; + })(this)); + }; + $('#exclude_group').click(block_by_attribute_value); + block_by_index = function() { + var end_index, error, index, index_list, index_set, index_string, start_index, _i, _j, _k, _len, _len1, _ref, _results; + index_string = $('#remove_samples_field').val(); + index_list = []; + _ref = index_string.split(","); + for (_i = 0, _len = _ref.length; _i < _len; _i++) { + index_set = _ref[_i]; + if (index_set.indexOf('-') !== -1) { + try { + start_index = parseInt(index_set.split("-")[0]); + end_index = parseInt(index_set.split("-")[1]); + for (index = _j = start_index; start_index <= end_index ? _j <= end_index : _j >= end_index; index = start_index <= end_index ? ++_j : --_j) { + index_list.push(index); + } + } catch (_error) { + error = _error; + alert("Syntax error"); + } + } else { + index = parseInt(index_set); + console.log("index:", index); + index_list.push(index); } - _ref = js_data.attribute_names; - for (key in _ref) { - if (!__hasProp.call(_ref, key)) continue; - attribute_info = _ref[key]; - row_data[attribute_info.name] = $.trim($(element).find('.column_name-' + attribute_info.name.replace(" ", "_")).text()); + } + console.log("index_list:", index_list); + _results = []; + for (_k = 0, _len1 = index_list.length; _k < _len1; _k++) { + index = index_list[_k]; + if ($('#block_group').val() === "primary") { + console.log("block_group:", $('#block_group').val()); + console.log("row:", $('#Primary_' + index.toString())); + _results.push($('#Primary_' + index.toString()).find('.trait_value_input').val("x")); + } else if ($('#block_group').val() === "other") { + console.log("block_group:", $('#block_group').val()); + console.log("row:", $('#Other_' + index.toString())); + _results.push($('#Other_' + index.toString()).find('.trait_value_input').val("x")); + } else { + _results.push(void 0); } - console.log("row_data is:", row_data); - return primary_samples.push(row_data); - }; - })(this)); - console.log("primary_samples is:", primary_samples); - samples.primary_samples = primary_samples; - samples.other_samples = other_samples; - return samples; - }; - export_sample_table_data = function() { - var format, json_sample_data, sample_data; - sample_data = get_sample_table_data(); - console.log("sample_data is:", sample_data); - json_sample_data = JSON.stringify(sample_data); - console.log("json_sample_data is:", json_sample_data); - $('input[name=export_data]').val(json_sample_data); - console.log("export_data is", $('input[name=export_data]').val()); - format = $('#export_format').val(); - if (format === "excel") { - $('#trait_data_form').attr('action', '/export_trait_excel'); - } else { - $('#trait_data_form').attr('action', '/export_trait_csv'); - } - console.log("action is:", $('#trait_data_form').attr('action')); - return $('#trait_data_form').submit(); - }; - $('#export').click(export_sample_table_data); - console.log("before registering block_outliers"); - $('#block_outliers').click(block_outliers); - console.log("after registering block_outliers"); - _.mixin(_.str.exports()); - $('#edit_sample_lists').change(edit_data_change); - console.log("loaded"); - make_table(); - edit_data_change(); - return console.log("end"); -}); + } + return _results; + }; + $('#block_by_index').click(block_by_index); + hide_no_value = function() { + return $('.value_se').each((function(_this) { + return function(_index, element) { + if ($(element).find('.trait_value_input').val() === 'x') { + return $(element).hide(); + } + }; + })(this)); + }; + $('#hide_no_value').click(hide_no_value); + block_outliers = function() { + return $('.outlier').each((function(_this) { + return function(_index, element) { + return $(element).find('.trait_value_input').val('x'); + }; + })(this)); + }; + $('#block_outliers').click(block_outliers); + reset_samples_table = function() { + return $('.trait_value_input').each((function(_this) { + return function(_index, element) { + console.log("value is:", $(element).val()); + $(element).val($(element).data('value')); + console.log("data-value is:", $(element).data('value')); + return $(element).parents('.value_se').show(); + }; + })(this)); + }; + $('#reset').click(reset_samples_table); + get_sample_table_data = function(table_name) { + var samples; + samples = []; + $('#' + table_name).find('.value_se').each((function(_this) { + return function(_index, element) { + var attribute_info, key, row_data, _ref; + row_data = {}; + row_data.name = $.trim($(element).find('.column_name-Sample').text()); + row_data.value = $(element).find('.edit_sample_value').val(); + if ($(element).find('.edit_sample_se').length !== -1) { + row_data.se = $(element).find('.edit_sample_se').val(); + } + _ref = js_data.attribute_names; + for (key in _ref) { + if (!__hasProp.call(_ref, key)) continue; + attribute_info = _ref[key]; + row_data[attribute_info.name] = $.trim($(element).find('.column_name-' + attribute_info.name.replace(" ", "_")).text()); + } + console.log("row_data is:", row_data); + return samples.push(row_data); + }; + })(this)); + return samples; + }; + export_sample_table_data = function() { + var format, json_sample_data, sample_data; + sample_data = {}; + sample_data.primary_samples = get_sample_table_data('samples_primary'); + sample_data.other_samples = get_sample_table_data('samples_other'); + console.log("sample_data is:", sample_data); + json_sample_data = JSON.stringify(sample_data); + console.log("json_sample_data is:", json_sample_data); + $('input[name=export_data]').val(json_sample_data); + console.log("export_data is", $('input[name=export_data]').val()); + format = $('#export_format').val(); + if (format === "excel") { + $('#trait_data_form').attr('action', '/export_trait_excel'); + } else { + $('#trait_data_form').attr('action', '/export_trait_csv'); + } + console.log("action is:", $('#trait_data_form').attr('action')); + return $('#trait_data_form').submit(); + }; + $('#export').click(export_sample_table_data); + console.log("before registering block_outliers"); + $('#block_outliers').click(block_outliers); + console.log("after registering block_outliers"); + _.mixin(_.str.exports()); + root.histogram_group = 'samples_primary'; + root.histogram = new Histogram(sample_lists[0]); + $('.histogram_samples_group').val(root.histogram_group); + $('.histogram_samples_group').change(function() { + root.histogram_group = $(this).val(); + return redraw_histogram(); + }); + root.bar_chart_group = 'samples_primary'; + root.bar_chart = new Bar_Chart(sample_lists); + $('.bar_chart_samples_group').val(root.bar_chart_group); + $('.bar_chart_samples_group').change(function() { + root.bar_chart_group = $(this).val(); + return redraw_bar_chart(); + }); + root.prob_plot_group = 'samples_primary'; + $('.prob_plot_samples_group').val(root.prob_plot_group); + $('.prob_plot_samples_group').change(function() { + root.prob_plot_group = $(this).val(); + return redraw_prob_plot(); + }); + make_table(); + edit_data_change(); + $('#edit_sample_lists').change(edit_data_change); + $('#block_by_index').click(edit_data_change); + $('#exclude_group').click(edit_data_change); + $('#block_outliers').click(edit_data_change); + $('#reset').click(edit_data_change); + return console.log("end"); + }); + +}).call(this); diff --git a/wqflask/wqflask/static/new/javascript/show_trait_mapping_tools.coffee b/wqflask/wqflask/static/new/javascript/show_trait_mapping_tools.coffee index a87d3537..d14fb98c 100755 --- a/wqflask/wqflask/static/new/javascript/show_trait_mapping_tools.coffee +++ b/wqflask/wqflask/static/new/javascript/show_trait_mapping_tools.coffee @@ -63,10 +63,12 @@ do_ajax_post = (url, form_data) -> console.log(xhr) clearInterval(this.my_timer) $('#progress_bar_container').modal('hide') + $('#static_progress_bar_container').modal('hide') $("body").html("We got an error.") success: (data) => clearInterval(this.my_timer) $('#progress_bar_container').modal('hide') + $('#static_progress_bar_container').modal('hide') open_mapping_results(data) #$("body").html(data) ) @@ -76,36 +78,49 @@ do_ajax_post = (url, form_data) -> return false open_mapping_results = (data) -> + #results_window = window.open("/mapping_results_container") + #results_window.onload = -> + # results_window.document.getElementById("mapping_results_container").innerHTML = data + $.colorbox( - html: data - href: "#mapping_results_holder" - height: "80%" - width: "80%" - ) + html: data + href: "#mapping_results_holder" + height: "90%" + width: "90%" + onComplete: => + root.create_lod_chart() + + #Set filename + filename = "lod_chart_" + js_data.this_trait + + getSvgXml = -> + svg = $("#topchart").find("svg")[0] + (new XMLSerializer).serializeToString(svg) + + $("#exportform > #export").click => + svg_xml = getSvgXml() + form = $("#exportform") + form.find("#data").val(svg_xml) + form.find("#filename").val(filename) + form.submit() + + $("#exportpdfform > #export_pdf").click => + svg_xml = getSvgXml() + form = $("#exportpdfform") + form.find("#data").val(svg_xml) + form.find("#filename").val(filename) + form.submit() + ) + +outlier_text = "One or more outliers exist in this data set. Please review values before mapping. \ + Including outliers when mapping may lead to misleading results. \ + We recommend <A HREF=\"http://en.wikipedia.org/wiki/Winsorising\">winsorising</A> the outliers \ + or simply deleting them." showalert = (message,alerttype) -> $('#alert_placeholder').append('<div id="alertdiv" class="alert ' + alerttype + '"><a class="close" data-dismiss="alert">×</a><span>'+message+'</span></div>') -$("#interval_mapping_compute").click(() => - showalert("One or more outliers exist in this data set. Please review values before mapping. \ - Including outliers when mapping may lead to misleading results. \ - We recommend <A HREF=\"http://en.wikipedia.org/wiki/Winsorising\">winsorising</A> the outliers \ - or simply deleting them.", "alert-success") - console.log("In interval mapping") - $("#progress_bar_container").modal() - url = "/interval_mapping" - - $('input[name=method]').val("reaper") - $('input[name=manhattan_plot]').val($('input[name=manhattan_plot_reaper]:checked').val()) - $('input[name=mapping_display_all]').val($('input[name=display_all_reaper]')) - $('input[name=suggestive]').val($('input[name=suggestive_reaper]')) - form_data = $('#trait_data_form').serialize() - console.log("form_data is:", form_data) - - do_ajax_post(url, form_data) -) - $('#suggestive').hide() $('input[name=display_all]').change(() => @@ -116,8 +131,13 @@ $('input[name=display_all]').change(() => $('#suggestive').hide() ) -$("#pylmm_compute").click(() => - $("#progress_bar_container").modal({show:true}) +$("#pylmm_mapping_compute").on("mouseover", => + if ( $(".outlier").length and $(".outlier-alert").length < 1 ) + showalert(outlier_text, "alert-success outlier-alert") +) + +$("#pylmm_compute").on("click", => + $("#progress_bar_container").modal() url = "/marker_regression" $('input[name=method]').val("pylmm") $('input[name=num_perm]').val($('input[name=num_perm_pylmm]').val()) @@ -130,10 +150,9 @@ $("#pylmm_compute").click(() => # block_outliers() do_ajax_post(url, form_data) ) + - - -$("#rqtl_geno_compute").click(() => +$("#rqtl_geno_compute").on("click", => $("#progress_bar_container").modal() url = "/marker_regression" $('input[name=method]').val("rqtl_geno") @@ -150,12 +169,12 @@ $("#rqtl_geno_compute").click(() => ) -$("#plink_compute").click(() => +$("#plink_compute").on("click", => $("#static_progress_bar_container").modal() url = "/marker_regression" $('input[name=method]').val("plink") - $('input[name=mapping_display_all]').val($('input[name=display_all_plink]').val()) - $('input[name=suggestive]').val($('input[name=suggestive_plink]').val()) + #$('input[name=mapping_display_all]').val($('input[name=display_all_plink]').val()) + #$('input[name=suggestive]').val($('input[name=suggestive_plink]').val()) $('input[name=maf]').val($('input[name=maf_plink]').val()) form_data = $('#trait_data_form').serialize() console.log("form_data is:", form_data) @@ -163,12 +182,13 @@ $("#plink_compute").click(() => do_ajax_post(url, form_data) ) -$("#gemma_compute").click(() => +$("#gemma_compute").on("click", => + console.log("RUNNING GEMMA") $("#static_progress_bar_container").modal() url = "/marker_regression" $('input[name=method]').val("gemma") - $('input[name=mapping_display_all]').val($('input[name=display_all_gemma]').val()) - $('input[name=suggestive]').val($('input[name=suggestive_gemma]').val()) + #$('input[name=mapping_display_all]').val($('input[name=display_all_gemma]').val()) + #$('input[name=suggestive]').val($('input[name=suggestive_gemma]').val()) $('input[name=maf]').val($('input[name=maf_gemma]').val()) form_data = $('#trait_data_form').serialize() console.log("form_data is:", form_data) @@ -176,6 +196,26 @@ $("#gemma_compute").click(() => do_ajax_post(url, form_data) ) +$("#interval_mapping_compute").on("mouseover", => + if ( $(".outlier").length and $(".outlier-alert").length < 1 ) + showalert(outlier_text, "alert-success outlier-alert") +) + +$("#interval_mapping_compute").on("click", => + console.log("In interval mapping") + $("#progress_bar_container").modal() + url = "/interval_mapping" + + $('input[name=method]').val("reaper") + $('input[name=manhattan_plot]').val($('input[name=manhattan_plot_reaper]:checked').val()) + $('input[name=mapping_display_all]').val($('input[name=display_all_reaper]')) + $('input[name=suggestive]').val($('input[name=suggestive_reaper]')) + form_data = $('#trait_data_form').serialize() + console.log("form_data is:", form_data) + + do_ajax_post(url, form_data) +) + #$(".submit_special").click(submit_special) composite_mapping_fields = -> diff --git a/wqflask/wqflask/static/new/javascript/show_trait_mapping_tools.js b/wqflask/wqflask/static/new/javascript/show_trait_mapping_tools.js index c8988cdc..2f26d6cb 100755 --- a/wqflask/wqflask/static/new/javascript/show_trait_mapping_tools.js +++ b/wqflask/wqflask/static/new/javascript/show_trait_mapping_tools.js @@ -1,224 +1,270 @@ // Generated by CoffeeScript 1.8.0 -var block_outliers, composite_mapping_fields, do_ajax_post, get_progress, mapping_method_fields, open_mapping_results, showalert, submit_special, toggle_enable_disable, update_time_remaining; - -submit_special = function() { - var url; - console.log("In submit_special"); - console.log("this is:", this); - console.log("$(this) is:", $(this)); - url = $(this).data("url"); - console.log("url is:", url); - $("#trait_data_form").attr("action", url); - return $("#trait_data_form").submit(); -}; - -update_time_remaining = function(percent_complete) { - var minutes_remaining, now, period, total_seconds_remaining; - now = new Date(); - period = now.getTime() - root.start_time; - console.log("period is:", period); - if (period > 8000) { - total_seconds_remaining = (period / percent_complete * (100 - percent_complete)) / 1000; - minutes_remaining = Math.round(total_seconds_remaining / 60); - if (minutes_remaining < 3) { - return $('#time_remaining').text(Math.round(total_seconds_remaining) + " seconds remaining"); - } else { - return $('#time_remaining').text(minutes_remaining + " minutes remaining"); +(function() { + var block_outliers, composite_mapping_fields, do_ajax_post, get_progress, mapping_method_fields, open_mapping_results, outlier_text, showalert, submit_special, toggle_enable_disable, update_time_remaining; + + submit_special = function() { + var url; + console.log("In submit_special"); + console.log("this is:", this); + console.log("$(this) is:", $(this)); + url = $(this).data("url"); + console.log("url is:", url); + $("#trait_data_form").attr("action", url); + return $("#trait_data_form").submit(); + }; + + update_time_remaining = function(percent_complete) { + var minutes_remaining, now, period, total_seconds_remaining; + now = new Date(); + period = now.getTime() - root.start_time; + console.log("period is:", period); + if (period > 8000) { + total_seconds_remaining = (period / percent_complete * (100 - percent_complete)) / 1000; + minutes_remaining = Math.round(total_seconds_remaining / 60); + if (minutes_remaining < 3) { + return $('#time_remaining').text(Math.round(total_seconds_remaining) + " seconds remaining"); + } else { + return $('#time_remaining').text(minutes_remaining + " minutes remaining"); + } } - } -}; - -get_progress = function() { - var params, params_str, temp_uuid, url; - console.log("temp_uuid:", $("#temp_uuid").val()); - temp_uuid = $("#temp_uuid").val(); - params = { - key: temp_uuid }; - params_str = $.param(params); - url = "/get_temp_data?" + params_str; - console.log("url:", url); - $.ajax({ - type: "GET", - url: url, - success: (function(_this) { - return function(progress_data) { - var percent_complete; - percent_complete = progress_data['percent_complete']; - console.log("in get_progress data:", progress_data); - $('#marker_regression_progress').css("width", percent_complete + "%"); - if (root.start_time) { - if (!isNaN(percent_complete)) { - return update_time_remaining(percent_complete); - } - } else { - return root.start_time = new Date().getTime(); - } - }; - })(this) - }); - return false; -}; -block_outliers = function() { - return $('.outlier').each((function(_this) { - return function(_index, element) { - return $(element).find('.trait_value_input').val('x'); + get_progress = function() { + var params, params_str, temp_uuid, url; + console.log("temp_uuid:", $("#temp_uuid").val()); + temp_uuid = $("#temp_uuid").val(); + params = { + key: temp_uuid }; - })(this)); -}; - -do_ajax_post = function(url, form_data) { - $.ajax({ - type: "POST", - url: url, - data: form_data, - error: (function(_this) { - return function(xhr, ajaxOptions, thrownError) { - alert("Sorry, an error occurred"); - console.log(xhr); - clearInterval(_this.my_timer); - $('#progress_bar_container').modal('hide'); - return $("body").html("We got an error."); - }; - })(this), - success: (function(_this) { - return function(data) { - clearInterval(_this.my_timer); - $('#progress_bar_container').modal('hide'); - return open_mapping_results(data); - }; - })(this) - }); - console.log("settingInterval"); - this.my_timer = setInterval(get_progress, 1000); - return false; -}; - -open_mapping_results = function(data) { - return $.colorbox({ - html: data, - href: "#mapping_results_holder", - height: "80%", - width: "80%" - }); -}; - -showalert = function(message, alerttype) { - return $('#alert_placeholder').append('<div id="alertdiv" class="alert ' + alerttype + '"><a class="close" data-dismiss="alert">�</a><span>' + message + '</span></div>'); -}; - -$("#interval_mapping_compute").click((function(_this) { - return function() { - var form_data, url; - showalert("One or more outliers exist in this data set. Please review values before mapping. Including outliers when mapping may lead to misleading results. We recommend <A HREF=\"http://en.wikipedia.org/wiki/Winsorising\">winsorising</A> the outliers or simply deleting them.", "alert-success"); - console.log("In interval mapping"); - $("#progress_bar_container").modal(); - url = "/interval_mapping"; - $('input[name=method]').val("reaper"); - $('input[name=manhattan_plot]').val($('input[name=manhattan_plot_reaper]:checked').val()); - $('input[name=mapping_display_all]').val($('input[name=display_all_reaper]')); - $('input[name=suggestive]').val($('input[name=suggestive_reaper]')); - form_data = $('#trait_data_form').serialize(); - console.log("form_data is:", form_data); - return do_ajax_post(url, form_data); + params_str = $.param(params); + url = "/get_temp_data?" + params_str; + console.log("url:", url); + $.ajax({ + type: "GET", + url: url, + success: (function(_this) { + return function(progress_data) { + var percent_complete; + percent_complete = progress_data['percent_complete']; + console.log("in get_progress data:", progress_data); + $('#marker_regression_progress').css("width", percent_complete + "%"); + if (root.start_time) { + if (!isNaN(percent_complete)) { + return update_time_remaining(percent_complete); + } + } else { + return root.start_time = new Date().getTime(); + } + }; + })(this) + }); + return false; }; -})(this)); -$('#suggestive').hide(); - -$('input[name=display_all]').change((function(_this) { - return function() { - console.log("check"); - if ($('input[name=display_all]:checked').val() === "False") { - return $('#suggestive').show(); - } else { - return $('#suggestive').hide(); - } + block_outliers = function() { + return $('.outlier').each((function(_this) { + return function(_index, element) { + return $(element).find('.trait_value_input').val('x'); + }; + })(this)); }; -})(this)); -$("#pylmm_compute").click((function(_this) { - return function() { - var form_data, url; - $("#progress_bar_container").modal({ - show: true + do_ajax_post = function(url, form_data) { + $.ajax({ + type: "POST", + url: url, + data: form_data, + error: (function(_this) { + return function(xhr, ajaxOptions, thrownError) { + alert("Sorry, an error occurred"); + console.log(xhr); + clearInterval(_this.my_timer); + $('#progress_bar_container').modal('hide'); + $('#static_progress_bar_container').modal('hide'); + return $("body").html("We got an error."); + }; + })(this), + success: (function(_this) { + return function(data) { + clearInterval(_this.my_timer); + $('#progress_bar_container').modal('hide'); + $('#static_progress_bar_container').modal('hide'); + return open_mapping_results(data); + }; + })(this) }); - url = "/marker_regression"; - $('input[name=method]').val("pylmm"); - $('input[name=num_perm]').val($('input[name=num_perm_pylmm]').val()); - $('input[name=manhattan_plot]').val($('input[name=manhattan_plot_pylmm]:checked').val()); - form_data = $('#trait_data_form').serialize(); - console.log("form_data is:", form_data); - return do_ajax_post(url, form_data); + console.log("settingInterval"); + this.my_timer = setInterval(get_progress, 1000); + return false; }; -})(this)); - -$("#rqtl_geno_compute").click((function(_this) { - return function() { - var form_data, url; - $("#progress_bar_container").modal(); - url = "/marker_regression"; - $('input[name=method]').val("rqtl_geno"); - $('input[name=num_perm]').val($('input[name=num_perm_rqtl_geno]').val()); - $('input[name=manhattan_plot]').val($('input[name=manhattan_plot_rqtl]:checked').val()); - $('input[name=control_marker]').val($('input[name=control_rqtl_geno]').val()); - form_data = $('#trait_data_form').serialize(); - console.log("form_data is:", form_data); - return do_ajax_post(url, form_data); + + open_mapping_results = function(data) { + return $.colorbox({ + html: data, + href: "#mapping_results_holder", + height: "90%", + width: "90%", + onComplete: (function(_this) { + return function() { + var filename, getSvgXml; + root.create_lod_chart(); + filename = "lod_chart_" + js_data.this_trait; + getSvgXml = function() { + var svg; + svg = $("#topchart").find("svg")[0]; + return (new XMLSerializer).serializeToString(svg); + }; + $("#exportform > #export").click(function() { + var form, svg_xml; + svg_xml = getSvgXml(); + form = $("#exportform"); + form.find("#data").val(svg_xml); + form.find("#filename").val(filename); + return form.submit(); + }); + return $("#exportpdfform > #export_pdf").click(function() { + var form, svg_xml; + svg_xml = getSvgXml(); + form = $("#exportpdfform"); + form.find("#data").val(svg_xml); + form.find("#filename").val(filename); + return form.submit(); + }); + }; + })(this) + }); }; -})(this)); - -$("#plink_compute").click((function(_this) { - return function() { - var form_data, url; - $("#static_progress_bar_container").modal(); - url = "/marker_regression"; - $('input[name=method]').val("plink"); - $('input[name=mapping_display_all]').val($('input[name=display_all_plink]').val()); - $('input[name=suggestive]').val($('input[name=suggestive_plink]').val()); - $('input[name=maf]').val($('input[name=maf_plink]').val()); - form_data = $('#trait_data_form').serialize(); - console.log("form_data is:", form_data); - return do_ajax_post(url, form_data); + + outlier_text = "One or more outliers exist in this data set. Please review values before mapping. Including outliers when mapping may lead to misleading results. We recommend <A HREF=\"http://en.wikipedia.org/wiki/Winsorising\">winsorising</A> the outliers or simply deleting them."; + + showalert = function(message, alerttype) { + return $('#alert_placeholder').append('<div id="alertdiv" class="alert ' + alerttype + '"><a class="close" data-dismiss="alert">�</a><span>' + message + '</span></div>'); }; -})(this)); - -$("#gemma_compute").click((function(_this) { - return function() { - var form_data, url; - $("#static_progress_bar_container").modal(); - url = "/marker_regression"; - $('input[name=method]').val("gemma"); - $('input[name=mapping_display_all]').val($('input[name=display_all_gemma]').val()); - $('input[name=suggestive]').val($('input[name=suggestive_gemma]').val()); - $('input[name=maf]').val($('input[name=maf_gemma]').val()); - form_data = $('#trait_data_form').serialize(); - console.log("form_data is:", form_data); - return do_ajax_post(url, form_data); + + $('#suggestive').hide(); + + $('input[name=display_all]').change((function(_this) { + return function() { + console.log("check"); + if ($('input[name=display_all]:checked').val() === "False") { + return $('#suggestive').show(); + } else { + return $('#suggestive').hide(); + } + }; + })(this)); + + $("#pylmm_mapping_compute").on("mouseover", (function(_this) { + return function() { + if ($(".outlier").length && $(".outlier-alert").length < 1) { + return showalert(outlier_text, "alert-success outlier-alert"); + } + }; + })(this)); + + $("#pylmm_compute").on("click", (function(_this) { + return function() { + var form_data, url; + $("#progress_bar_container").modal(); + url = "/marker_regression"; + $('input[name=method]').val("pylmm"); + $('input[name=num_perm]').val($('input[name=num_perm_pylmm]').val()); + $('input[name=manhattan_plot]').val($('input[name=manhattan_plot_pylmm]:checked').val()); + form_data = $('#trait_data_form').serialize(); + console.log("form_data is:", form_data); + return do_ajax_post(url, form_data); + }; + })(this)); + + $("#rqtl_geno_compute").on("click", (function(_this) { + return function() { + var form_data, url; + $("#progress_bar_container").modal(); + url = "/marker_regression"; + $('input[name=method]').val("rqtl_geno"); + $('input[name=num_perm]').val($('input[name=num_perm_rqtl_geno]').val()); + $('input[name=manhattan_plot]').val($('input[name=manhattan_plot_rqtl]:checked').val()); + $('input[name=control_marker]').val($('input[name=control_rqtl_geno]').val()); + $('input[name=do_control]').val($('input[name=do_control_rqtl]:checked').val()); + form_data = $('#trait_data_form').serialize(); + console.log("form_data is:", form_data); + return do_ajax_post(url, form_data); + }; + })(this)); + + $("#plink_compute").on("click", (function(_this) { + return function() { + var form_data, url; + $("#static_progress_bar_container").modal(); + url = "/marker_regression"; + $('input[name=method]').val("plink"); + $('input[name=maf]').val($('input[name=maf_plink]').val()); + form_data = $('#trait_data_form').serialize(); + console.log("form_data is:", form_data); + return do_ajax_post(url, form_data); + }; + })(this)); + + $("#gemma_compute").on("click", (function(_this) { + return function() { + var form_data, url; + console.log("RUNNING GEMMA"); + $("#static_progress_bar_container").modal(); + url = "/marker_regression"; + $('input[name=method]').val("gemma"); + $('input[name=maf]').val($('input[name=maf_gemma]').val()); + form_data = $('#trait_data_form').serialize(); + console.log("form_data is:", form_data); + return do_ajax_post(url, form_data); + }; + })(this)); + + $("#interval_mapping_compute").on("mouseover", (function(_this) { + return function() { + if ($(".outlier").length && $(".outlier-alert").length < 1) { + return showalert(outlier_text, "alert-success outlier-alert"); + } + }; + })(this)); + + $("#interval_mapping_compute").on("click", (function(_this) { + return function() { + var form_data, url; + console.log("In interval mapping"); + $("#progress_bar_container").modal(); + url = "/interval_mapping"; + $('input[name=method]').val("reaper"); + $('input[name=manhattan_plot]').val($('input[name=manhattan_plot_reaper]:checked').val()); + $('input[name=mapping_display_all]').val($('input[name=display_all_reaper]')); + $('input[name=suggestive]').val($('input[name=suggestive_reaper]')); + form_data = $('#trait_data_form').serialize(); + console.log("form_data is:", form_data); + return do_ajax_post(url, form_data); + }; + })(this)); + + composite_mapping_fields = function() { + return $(".composite_fields").toggle(); }; -})(this)); -composite_mapping_fields = function() { - return $(".composite_fields").toggle(); -}; + mapping_method_fields = function() { + return $(".mapping_method_fields").toggle(); + }; -mapping_method_fields = function() { - return $(".mapping_method_fields").toggle(); -}; + $("#use_composite_choice").change(composite_mapping_fields); -$("#use_composite_choice").change(composite_mapping_fields); + $("#mapping_method_choice").change(mapping_method_fields); -$("#mapping_method_choice").change(mapping_method_fields); + toggle_enable_disable = function(elem) { + return $(elem).prop("disabled", !$(elem).prop("disabled")); + }; -toggle_enable_disable = function(elem) { - return $(elem).prop("disabled", !$(elem).prop("disabled")); -}; + $("#choose_closet_control").change(function() { + return toggle_enable_disable("#control_locus"); + }); -$("#choose_closet_control").change(function() { - return toggle_enable_disable("#control_locus"); -}); + $("#display_all_lrs").change(function() { + return toggle_enable_disable("#suggestive_lrs"); + }); -$("#display_all_lrs").change(function() { - return toggle_enable_disable("#suggestive_lrs"); -}); +}).call(this); diff --git a/wqflask/wqflask/static/new/js_external/chroma.js b/wqflask/wqflask/static/new/js_external/chroma.js new file mode 100644 index 00000000..0976056b --- /dev/null +++ b/wqflask/wqflask/static/new/js_external/chroma.js @@ -0,0 +1,2464 @@ +/** + * @license + * + * chroma.js - JavaScript library for color conversions + * + * Copyright (c) 2011-2015, Gregor Aisch + * All rights reserved. + * + * Redistribution and use in source and binary forms, with or without + * modification, are permitted provided that the following conditions are met: + * + * 1. Redistributions of source code must retain the above copyright notice, this + * list of conditions and the following disclaimer. + * + * 2. Redistributions in binary form must reproduce the above copyright notice, + * this list of conditions and the following disclaimer in the documentation + * and/or other materials provided with the distribution. + * + * 3. The name Gregor Aisch may not be used to endorse or promote products + * derived from this software without specific prior written permission. + * + * THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" + * AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE + * IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE + * DISCLAIMED. IN NO EVENT SHALL GREGOR AISCH OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, + * INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, + * BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, + * DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY + * OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING + * NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, + * EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. + * + */ + +(function() { + var Color, DEG2RAD, LAB_CONSTANTS, PI, PITHIRD, RAD2DEG, TWOPI, _guess_formats, _guess_formats_sorted, _input, _interpolators, abs, atan2, bezier, blend, blend_f, brewer, burn, chroma, clip_rgb, cmyk2rgb, colors, cos, css2rgb, darken, dodge, each, floor, hex2rgb, hsi2rgb, hsl2css, hsl2rgb, hsv2rgb, interpolate, interpolate_hsx, interpolate_lab, interpolate_num, interpolate_rgb, lab2lch, lab2rgb, lab_xyz, lch2lab, lch2rgb, lighten, limit, log, luminance_x, m, max, multiply, normal, num2rgb, overlay, pow, rgb2cmyk, rgb2css, rgb2hex, rgb2hsi, rgb2hsl, rgb2hsv, rgb2lab, rgb2lch, rgb2luminance, rgb2num, rgb2temperature, rgb2xyz, rgb_xyz, rnd, root, round, screen, sin, sqrt, temperature2rgb, type, unpack, w3cx11, xyz_lab, xyz_rgb, + slice = [].slice; + + type = (function() { + + /* + for browser-safe type checking+ + ported from jQuery's $.type + */ + var classToType, len, name, o, ref; + classToType = {}; + ref = "Boolean Number String Function Array Date RegExp Undefined Null".split(" "); + for (o = 0, len = ref.length; o < len; o++) { + name = ref[o]; + classToType["[object " + name + "]"] = name.toLowerCase(); + } + return function(obj) { + var strType; + strType = Object.prototype.toString.call(obj); + return classToType[strType] || "object"; + }; + })(); + + limit = function(x, min, max) { + if (min == null) { + min = 0; + } + if (max == null) { + max = 1; + } + if (x < min) { + x = min; + } + if (x > max) { + x = max; + } + return x; + }; + + unpack = function(args) { + if (args.length >= 3) { + return [].slice.call(args); + } else { + return args[0]; + } + }; + + clip_rgb = function(rgb) { + var i; + for (i in rgb) { + if (i < 3) { + if (rgb[i] < 0) { + rgb[i] = 0; + } + if (rgb[i] > 255) { + rgb[i] = 255; + } + } else if (i === 3) { + if (rgb[i] < 0) { + rgb[i] = 0; + } + if (rgb[i] > 1) { + rgb[i] = 1; + } + } + } + return rgb; + }; + + PI = Math.PI, round = Math.round, cos = Math.cos, floor = Math.floor, pow = Math.pow, log = Math.log, sin = Math.sin, sqrt = Math.sqrt, atan2 = Math.atan2, max = Math.max, abs = Math.abs; + + TWOPI = PI * 2; + + PITHIRD = PI / 3; + + DEG2RAD = PI / 180; + + RAD2DEG = 180 / PI; + + chroma = function() { + if (arguments[0] instanceof Color) { + return arguments[0]; + } + return (function(func, args, ctor) { + ctor.prototype = func.prototype; + var child = new ctor, result = func.apply(child, args); + return Object(result) === result ? result : child; + })(Color, arguments, function(){}); + }; + + _interpolators = []; + + if ((typeof module !== "undefined" && module !== null) && (module.exports != null)) { + module.exports = chroma; + } + + if (typeof define === 'function' && define.amd) { + define([], function() { + return chroma; + }); + } else { + root = typeof exports !== "undefined" && exports !== null ? exports : this; + root.chroma = chroma; + } + + chroma.version = '1.1.1'; + + + /** + chroma.js + + Copyright (c) 2011-2013, Gregor Aisch + All rights reserved. + + Redistribution and use in source and binary forms, with or without + modification, are permitted provided that the following conditions are met: + + * Redistributions of source code must retain the above copyright notice, this + list of conditions and the following disclaimer. + + * Redistributions in binary form must reproduce the above copyright notice, + this list of conditions and the following disclaimer in the documentation + and/or other materials provided with the distribution. + + * The name Gregor Aisch may not be used to endorse or promote products + derived from this software without specific prior written permission. + + THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" + AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE + IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE + DISCLAIMED. IN NO EVENT SHALL GREGOR AISCH OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, + INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, + BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, + DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY + OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING + NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, + EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. + + @source: https://github.com/gka/chroma.js + */ + + _input = {}; + + _guess_formats = []; + + _guess_formats_sorted = false; + + Color = (function() { + function Color() { + var arg, args, chk, len, len1, me, mode, o, w; + me = this; + args = []; + for (o = 0, len = arguments.length; o < len; o++) { + arg = arguments[o]; + if (arg != null) { + args.push(arg); + } + } + mode = args[args.length - 1]; + if (_input[mode] != null) { + me._rgb = clip_rgb(_input[mode](unpack(args.slice(0, -1)))); + } else { + if (!_guess_formats_sorted) { + _guess_formats = _guess_formats.sort(function(a, b) { + return b.p - a.p; + }); + _guess_formats_sorted = true; + } + for (w = 0, len1 = _guess_formats.length; w < len1; w++) { + chk = _guess_formats[w]; + mode = chk.test.apply(chk, args); + if (mode) { + break; + } + } + if (mode) { + me._rgb = clip_rgb(_input[mode].apply(_input, args)); + } + } + if (me._rgb == null) { + console.warn('unknown format: ' + args); + } + if (me._rgb == null) { + me._rgb = [0, 0, 0]; + } + if (me._rgb.length === 3) { + me._rgb.push(1); + } + } + + Color.prototype.alpha = function(alpha) { + if (arguments.length) { + this._rgb[3] = alpha; + return this; + } + return this._rgb[3]; + }; + + Color.prototype.toString = function() { + return this.name(); + }; + + return Color; + + })(); + + chroma._input = _input; + + + /** + ColorBrewer colors for chroma.js + + Copyright (c) 2002 Cynthia Brewer, Mark Harrower, and The + Pennsylvania State University. + + Licensed under the Apache License, Version 2.0 (the "License"); + you may not use this file except in compliance with the License. + You may obtain a copy of the License at + http://www.apache.org/licenses/LICENSE-2.0 + + Unless required by applicable law or agreed to in writing, software distributed + under the License is distributed on an "AS IS" BASIS, WITHOUT WARRANTIES OR + CONDITIONS OF ANY KIND, either express or implied. See the License for the + specific language governing permissions and limitations under the License. + + @preserve + */ + + chroma.brewer = brewer = { + OrRd: ['#fff7ec', '#fee8c8', '#fdd49e', '#fdbb84', '#fc8d59', '#ef6548', '#d7301f', '#b30000', '#7f0000'], + PuBu: ['#fff7fb', '#ece7f2', '#d0d1e6', '#a6bddb', '#74a9cf', '#3690c0', '#0570b0', '#045a8d', '#023858'], + BuPu: ['#f7fcfd', '#e0ecf4', '#bfd3e6', '#9ebcda', '#8c96c6', '#8c6bb1', '#88419d', '#810f7c', '#4d004b'], + Oranges: ['#fff5eb', '#fee6ce', '#fdd0a2', '#fdae6b', '#fd8d3c', '#f16913', '#d94801', '#a63603', '#7f2704'], + BuGn: ['#f7fcfd', '#e5f5f9', '#ccece6', '#99d8c9', '#66c2a4', '#41ae76', '#238b45', '#006d2c', '#00441b'], + YlOrBr: ['#ffffe5', '#fff7bc', '#fee391', '#fec44f', '#fe9929', '#ec7014', '#cc4c02', '#993404', '#662506'], + YlGn: ['#ffffe5', '#f7fcb9', '#d9f0a3', '#addd8e', '#78c679', '#41ab5d', '#238443', '#006837', '#004529'], + Reds: ['#fff5f0', '#fee0d2', '#fcbba1', '#fc9272', '#fb6a4a', '#ef3b2c', '#cb181d', '#a50f15', '#67000d'], + RdPu: ['#fff7f3', '#fde0dd', '#fcc5c0', '#fa9fb5', '#f768a1', '#dd3497', '#ae017e', '#7a0177', '#49006a'], + Greens: ['#f7fcf5', '#e5f5e0', '#c7e9c0', '#a1d99b', '#74c476', '#41ab5d', '#238b45', '#006d2c', '#00441b'], + YlGnBu: ['#ffffd9', '#edf8b1', '#c7e9b4', '#7fcdbb', '#41b6c4', '#1d91c0', '#225ea8', '#253494', '#081d58'], + Purples: ['#fcfbfd', '#efedf5', '#dadaeb', '#bcbddc', '#9e9ac8', '#807dba', '#6a51a3', '#54278f', '#3f007d'], + GnBu: ['#f7fcf0', '#e0f3db', '#ccebc5', '#a8ddb5', '#7bccc4', '#4eb3d3', '#2b8cbe', '#0868ac', '#084081'], + Greys: ['#ffffff', '#f0f0f0', '#d9d9d9', '#bdbdbd', '#969696', '#737373', '#525252', '#252525', '#000000'], + YlOrRd: ['#ffffcc', '#ffeda0', '#fed976', '#feb24c', '#fd8d3c', '#fc4e2a', '#e31a1c', '#bd0026', '#800026'], + PuRd: ['#f7f4f9', '#e7e1ef', '#d4b9da', '#c994c7', '#df65b0', '#e7298a', '#ce1256', '#980043', '#67001f'], + Blues: ['#f7fbff', '#deebf7', '#c6dbef', '#9ecae1', '#6baed6', '#4292c6', '#2171b5', '#08519c', '#08306b'], + PuBuGn: ['#fff7fb', '#ece2f0', '#d0d1e6', '#a6bddb', '#67a9cf', '#3690c0', '#02818a', '#016c59', '#014636'], + Spectral: ['#9e0142', '#d53e4f', '#f46d43', '#fdae61', '#fee08b', '#ffffbf', '#e6f598', '#abdda4', '#66c2a5', '#3288bd', '#5e4fa2'], + RdYlGn: ['#a50026', '#d73027', '#f46d43', '#fdae61', '#fee08b', '#ffffbf', '#d9ef8b', '#a6d96a', '#66bd63', '#1a9850', '#006837'], + RdBu: ['#67001f', '#b2182b', '#d6604d', '#f4a582', '#fddbc7', '#f7f7f7', '#d1e5f0', '#92c5de', '#4393c3', '#2166ac', '#053061'], + PiYG: ['#8e0152', '#c51b7d', '#de77ae', '#f1b6da', '#fde0ef', '#f7f7f7', '#e6f5d0', '#b8e186', '#7fbc41', '#4d9221', '#276419'], + PRGn: ['#40004b', '#762a83', '#9970ab', '#c2a5cf', '#e7d4e8', '#f7f7f7', '#d9f0d3', '#a6dba0', '#5aae61', '#1b7837', '#00441b'], + RdYlBu: ['#a50026', '#d73027', '#f46d43', '#fdae61', '#fee090', '#ffffbf', '#e0f3f8', '#abd9e9', '#74add1', '#4575b4', '#313695'], + BrBG: ['#543005', '#8c510a', '#bf812d', '#dfc27d', '#f6e8c3', '#f5f5f5', '#c7eae5', '#80cdc1', '#35978f', '#01665e', '#003c30'], + RdGy: ['#67001f', '#b2182b', '#d6604d', '#f4a582', '#fddbc7', '#ffffff', '#e0e0e0', '#bababa', '#878787', '#4d4d4d', '#1a1a1a'], + PuOr: ['#7f3b08', '#b35806', '#e08214', '#fdb863', '#fee0b6', '#f7f7f7', '#d8daeb', '#b2abd2', '#8073ac', '#542788', '#2d004b'], + Set2: ['#66c2a5', '#fc8d62', '#8da0cb', '#e78ac3', '#a6d854', '#ffd92f', '#e5c494', '#b3b3b3'], + Accent: ['#7fc97f', '#beaed4', '#fdc086', '#ffff99', '#386cb0', '#f0027f', '#bf5b17', '#666666'], + Set1: ['#e41a1c', '#377eb8', '#4daf4a', '#984ea3', '#ff7f00', '#ffff33', '#a65628', '#f781bf', '#999999'], + Set3: ['#8dd3c7', '#ffffb3', '#bebada', '#fb8072', '#80b1d3', '#fdb462', '#b3de69', '#fccde5', '#d9d9d9', '#bc80bd', '#ccebc5', '#ffed6f'], + Dark2: ['#1b9e77', '#d95f02', '#7570b3', '#e7298a', '#66a61e', '#e6ab02', '#a6761d', '#666666'], + Paired: ['#a6cee3', '#1f78b4', '#b2df8a', '#33a02c', '#fb9a99', '#e31a1c', '#fdbf6f', '#ff7f00', '#cab2d6', '#6a3d9a', '#ffff99', '#b15928'], + Pastel2: ['#b3e2cd', '#fdcdac', '#cbd5e8', '#f4cae4', '#e6f5c9', '#fff2ae', '#f1e2cc', '#cccccc'], + Pastel1: ['#fbb4ae', '#b3cde3', '#ccebc5', '#decbe4', '#fed9a6', '#ffffcc', '#e5d8bd', '#fddaec', '#f2f2f2'] + }; + + + /** + X11 color names + + http://www.w3.org/TR/css3-color/#svg-color + */ + + w3cx11 = { + indigo: "#4b0082", + gold: "#ffd700", + hotpink: "#ff69b4", + firebrick: "#b22222", + indianred: "#cd5c5c", + yellow: "#ffff00", + mistyrose: "#ffe4e1", + darkolivegreen: "#556b2f", + olive: "#808000", + darkseagreen: "#8fbc8f", + pink: "#ffc0cb", + tomato: "#ff6347", + lightcoral: "#f08080", + orangered: "#ff4500", + navajowhite: "#ffdead", + lime: "#00ff00", + palegreen: "#98fb98", + darkslategrey: "#2f4f4f", + greenyellow: "#adff2f", + burlywood: "#deb887", + seashell: "#fff5ee", + mediumspringgreen: "#00fa9a", + fuchsia: "#ff00ff", + papayawhip: "#ffefd5", + blanchedalmond: "#ffebcd", + chartreuse: "#7fff00", + dimgray: "#696969", + black: "#000000", + peachpuff: "#ffdab9", + springgreen: "#00ff7f", + aquamarine: "#7fffd4", + white: "#ffffff", + orange: "#ffa500", + lightsalmon: "#ffa07a", + darkslategray: "#2f4f4f", + brown: "#a52a2a", + ivory: "#fffff0", + dodgerblue: "#1e90ff", + peru: "#cd853f", + lawngreen: "#7cfc00", + chocolate: "#d2691e", + crimson: "#dc143c", + forestgreen: "#228b22", + darkgrey: "#a9a9a9", + lightseagreen: "#20b2aa", + cyan: "#00ffff", + mintcream: "#f5fffa", + silver: "#c0c0c0", + antiquewhite: "#faebd7", + mediumorchid: "#ba55d3", + skyblue: "#87ceeb", + gray: "#808080", + darkturquoise: "#00ced1", + goldenrod: "#daa520", + darkgreen: "#006400", + floralwhite: "#fffaf0", + darkviolet: "#9400d3", + darkgray: "#a9a9a9", + moccasin: "#ffe4b5", + saddlebrown: "#8b4513", + grey: "#808080", + darkslateblue: "#483d8b", + lightskyblue: "#87cefa", + lightpink: "#ffb6c1", + mediumvioletred: "#c71585", + slategrey: "#708090", + red: "#ff0000", + deeppink: "#ff1493", + limegreen: "#32cd32", + darkmagenta: "#8b008b", + palegoldenrod: "#eee8aa", + plum: "#dda0dd", + turquoise: "#40e0d0", + lightgrey: "#d3d3d3", + lightgoldenrodyellow: "#fafad2", + darkgoldenrod: "#b8860b", + lavender: "#e6e6fa", + maroon: "#800000", + yellowgreen: "#9acd32", + sandybrown: "#f4a460", + thistle: "#d8bfd8", + violet: "#ee82ee", + navy: "#000080", + magenta: "#ff00ff", + dimgrey: "#696969", + tan: "#d2b48c", + rosybrown: "#bc8f8f", + olivedrab: "#6b8e23", + blue: "#0000ff", + lightblue: "#add8e6", + ghostwhite: "#f8f8ff", + honeydew: "#f0fff0", + cornflowerblue: "#6495ed", + slateblue: "#6a5acd", + linen: "#faf0e6", + darkblue: "#00008b", + powderblue: "#b0e0e6", + seagreen: "#2e8b57", + darkkhaki: "#bdb76b", + snow: "#fffafa", + sienna: "#a0522d", + mediumblue: "#0000cd", + royalblue: "#4169e1", + lightcyan: "#e0ffff", + green: "#008000", + mediumpurple: "#9370db", + midnightblue: "#191970", + cornsilk: "#fff8dc", + paleturquoise: "#afeeee", + bisque: "#ffe4c4", + slategray: "#708090", + darkcyan: "#008b8b", + khaki: "#f0e68c", + wheat: "#f5deb3", + teal: "#008080", + darkorchid: "#9932cc", + deepskyblue: "#00bfff", + salmon: "#fa8072", + darkred: "#8b0000", + steelblue: "#4682b4", + palevioletred: "#db7093", + lightslategray: "#778899", + aliceblue: "#f0f8ff", + lightslategrey: "#778899", + lightgreen: "#90ee90", + orchid: "#da70d6", + gainsboro: "#dcdcdc", + mediumseagreen: "#3cb371", + lightgray: "#d3d3d3", + mediumturquoise: "#48d1cc", + lemonchiffon: "#fffacd", + cadetblue: "#5f9ea0", + lightyellow: "#ffffe0", + lavenderblush: "#fff0f5", + coral: "#ff7f50", + purple: "#800080", + aqua: "#00ffff", + whitesmoke: "#f5f5f5", + mediumslateblue: "#7b68ee", + darkorange: "#ff8c00", + mediumaquamarine: "#66cdaa", + darksalmon: "#e9967a", + beige: "#f5f5dc", + blueviolet: "#8a2be2", + azure: "#f0ffff", + lightsteelblue: "#b0c4de", + oldlace: "#fdf5e6", + rebeccapurple: "#663399" + }; + + chroma.colors = colors = w3cx11; + + lab2rgb = function() { + var a, args, b, g, l, r, x, y, z; + args = unpack(arguments); + l = args[0], a = args[1], b = args[2]; + y = (l + 16) / 116; + x = isNaN(a) ? y : y + a / 500; + z = isNaN(b) ? y : y - b / 200; + y = LAB_CONSTANTS.Yn * lab_xyz(y); + x = LAB_CONSTANTS.Xn * lab_xyz(x); + z = LAB_CONSTANTS.Zn * lab_xyz(z); + r = xyz_rgb(3.2404542 * x - 1.5371385 * y - 0.4985314 * z); + g = xyz_rgb(-0.9692660 * x + 1.8760108 * y + 0.0415560 * z); + b = xyz_rgb(0.0556434 * x - 0.2040259 * y + 1.0572252 * z); + r = limit(r, 0, 255); + g = limit(g, 0, 255); + b = limit(b, 0, 255); + return [r, g, b, args.length > 3 ? args[3] : 1]; + }; + + xyz_rgb = function(r) { + return round(255 * (r <= 0.00304 ? 12.92 * r : 1.055 * pow(r, 1 / 2.4) - 0.055)); + }; + + lab_xyz = function(t) { + if (t > LAB_CONSTANTS.t1) { + return t * t * t; + } else { + return LAB_CONSTANTS.t2 * (t - LAB_CONSTANTS.t0); + } + }; + + LAB_CONSTANTS = { + Kn: 18, + Xn: 0.950470, + Yn: 1, + Zn: 1.088830, + t0: 0.137931034, + t1: 0.206896552, + t2: 0.12841855, + t3: 0.008856452 + }; + + rgb2lab = function() { + var b, g, r, ref, ref1, x, y, z; + ref = unpack(arguments), r = ref[0], g = ref[1], b = ref[2]; + ref1 = rgb2xyz(r, g, b), x = ref1[0], y = ref1[1], z = ref1[2]; + return [116 * y - 16, 500 * (x - y), 200 * (y - z)]; + }; + + rgb_xyz = function(r) { + if ((r /= 255) <= 0.04045) { + return r / 12.92; + } else { + return pow((r + 0.055) / 1.055, 2.4); + } + }; + + xyz_lab = function(t) { + if (t > LAB_CONSTANTS.t3) { + return pow(t, 1 / 3); + } else { + return t / LAB_CONSTANTS.t2 + LAB_CONSTANTS.t0; + } + }; + + rgb2xyz = function() { + var b, g, r, ref, x, y, z; + ref = unpack(arguments), r = ref[0], g = ref[1], b = ref[2]; + r = rgb_xyz(r); + g = rgb_xyz(g); + b = rgb_xyz(b); + x = xyz_lab((0.4124564 * r + 0.3575761 * g + 0.1804375 * b) / LAB_CONSTANTS.Xn); + y = xyz_lab((0.2126729 * r + 0.7151522 * g + 0.0721750 * b) / LAB_CONSTANTS.Yn); + z = xyz_lab((0.0193339 * r + 0.1191920 * g + 0.9503041 * b) / LAB_CONSTANTS.Zn); + return [x, y, z]; + }; + + chroma.lab = function() { + return (function(func, args, ctor) { + ctor.prototype = func.prototype; + var child = new ctor, result = func.apply(child, args); + return Object(result) === result ? result : child; + })(Color, slice.call(arguments).concat(['lab']), function(){}); + }; + + _input.lab = lab2rgb; + + Color.prototype.lab = function() { + return rgb2lab(this._rgb); + }; + + bezier = function(colors) { + var I, I0, I1, c, lab0, lab1, lab2, lab3, ref, ref1, ref2; + colors = (function() { + var len, o, results; + results = []; + for (o = 0, len = colors.length; o < len; o++) { + c = colors[o]; + results.push(chroma(c)); + } + return results; + })(); + if (colors.length === 2) { + ref = (function() { + var len, o, results; + results = []; + for (o = 0, len = colors.length; o < len; o++) { + c = colors[o]; + results.push(c.lab()); + } + return results; + })(), lab0 = ref[0], lab1 = ref[1]; + I = function(t) { + var i, lab; + lab = (function() { + var o, results; + results = []; + for (i = o = 0; o <= 2; i = ++o) { + results.push(lab0[i] + t * (lab1[i] - lab0[i])); + } + return results; + })(); + return chroma.lab.apply(chroma, lab); + }; + } else if (colors.length === 3) { + ref1 = (function() { + var len, o, results; + results = []; + for (o = 0, len = colors.length; o < len; o++) { + c = colors[o]; + results.push(c.lab()); + } + return results; + })(), lab0 = ref1[0], lab1 = ref1[1], lab2 = ref1[2]; + I = function(t) { + var i, lab; + lab = (function() { + var o, results; + results = []; + for (i = o = 0; o <= 2; i = ++o) { + results.push((1 - t) * (1 - t) * lab0[i] + 2 * (1 - t) * t * lab1[i] + t * t * lab2[i]); + } + return results; + })(); + return chroma.lab.apply(chroma, lab); + }; + } else if (colors.length === 4) { + ref2 = (function() { + var len, o, results; + results = []; + for (o = 0, len = colors.length; o < len; o++) { + c = colors[o]; + results.push(c.lab()); + } + return results; + })(), lab0 = ref2[0], lab1 = ref2[1], lab2 = ref2[2], lab3 = ref2[3]; + I = function(t) { + var i, lab; + lab = (function() { + var o, results; + results = []; + for (i = o = 0; o <= 2; i = ++o) { + results.push((1 - t) * (1 - t) * (1 - t) * lab0[i] + 3 * (1 - t) * (1 - t) * t * lab1[i] + 3 * (1 - t) * t * t * lab2[i] + t * t * t * lab3[i]); + } + return results; + })(); + return chroma.lab.apply(chroma, lab); + }; + } else if (colors.length === 5) { + I0 = bezier(colors.slice(0, 3)); + I1 = bezier(colors.slice(2, 5)); + I = function(t) { + if (t < 0.5) { + return I0(t * 2); + } else { + return I1((t - 0.5) * 2); + } + }; + } + return I; + }; + + chroma.bezier = function(colors) { + var f; + f = bezier(colors); + f.scale = function() { + return chroma.scale(f); + }; + return f; + }; + + + /* + chroma.js + + Copyright (c) 2011-2013, Gregor Aisch + All rights reserved. + + Redistribution and use in source and binary forms, with or without + modification, are permitted provided that the following conditions are met: + + * Redistributions of source code must retain the above copyright notice, this + list of conditions and the following disclaimer. + + * Redistributions in binary form must reproduce the above copyright notice, + this list of conditions and the following disclaimer in the documentation + and/or other materials provided with the distribution. + + * The name Gregor Aisch may not be used to endorse or promote products + derived from this software without specific prior written permission. + + THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" + AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE + IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE + DISCLAIMED. IN NO EVENT SHALL GREGOR AISCH OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, + INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, + BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, + DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY + OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING + NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, + EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. + + @source: https://github.com/gka/chroma.js + */ + + chroma.cubehelix = function(start, rotations, hue, gamma, lightness) { + var dh, dl, f; + if (start == null) { + start = 300; + } + if (rotations == null) { + rotations = -1.5; + } + if (hue == null) { + hue = 1; + } + if (gamma == null) { + gamma = 1; + } + if (lightness == null) { + lightness = [0, 1]; + } + dl = lightness[1] - lightness[0]; + dh = 0; + f = function(fract) { + var a, amp, b, cos_a, g, h, l, r, sin_a; + a = TWOPI * ((start + 120) / 360 + rotations * fract); + l = pow(lightness[0] + dl * fract, gamma); + h = dh !== 0 ? hue[0] + fract * dh : hue; + amp = h * l * (1 - l) / 2; + cos_a = cos(a); + sin_a = sin(a); + r = l + amp * (-0.14861 * cos_a + 1.78277 * sin_a); + g = l + amp * (-0.29227 * cos_a - 0.90649 * sin_a); + b = l + amp * (+1.97294 * cos_a); + return chroma(clip_rgb([r * 255, g * 255, b * 255])); + }; + f.start = function(s) { + if (s == null) { + return start; + } + start = s; + return f; + }; + f.rotations = function(r) { + if (r == null) { + return rotations; + } + rotations = r; + return f; + }; + f.gamma = function(g) { + if (g == null) { + return gamma; + } + gamma = g; + return f; + }; + f.hue = function(h) { + if (h == null) { + return hue; + } + hue = h; + if (type(hue) === 'array') { + dh = hue[1] - hue[0]; + if (dh === 0) { + hue = hue[1]; + } + } else { + dh = 0; + } + return f; + }; + f.lightness = function(h) { + if (h == null) { + return lightness; + } + lightness = h; + if (type(lightness) === 'array') { + dl = lightness[1] - lightness[0]; + if (dl === 0) { + lightness = lightness[1]; + } + } else { + dl = 0; + } + return f; + }; + f.scale = function() { + return chroma.scale(f); + }; + f.hue(hue); + return f; + }; + + chroma.random = function() { + var code, digits, i, o; + digits = '0123456789abcdef'; + code = '#'; + for (i = o = 0; o < 6; i = ++o) { + code += digits.charAt(floor(Math.random() * 16)); + } + return new Color(code); + }; + + _input.rgb = function() { + var k, ref, results, v; + ref = unpack(arguments); + results = []; + for (k in ref) { + v = ref[k]; + results.push(v); + } + return results; + }; + + chroma.rgb = function() { + return (function(func, args, ctor) { + ctor.prototype = func.prototype; + var child = new ctor, result = func.apply(child, args); + return Object(result) === result ? result : child; + })(Color, slice.call(arguments).concat(['rgb']), function(){}); + }; + + Color.prototype.rgb = function() { + return this._rgb.slice(0, 3); + }; + + Color.prototype.rgba = function() { + return this._rgb; + }; + + _guess_formats.push({ + p: 15, + test: function(n) { + var a; + a = unpack(arguments); + if (type(a) === 'array' && a.length === 3) { + return 'rgb'; + } + if (a.length === 4 && type(a[3]) === "number" && a[3] >= 0 && a[3] <= 1) { + return 'rgb'; + } + } + }); + + hex2rgb = function(hex) { + var a, b, g, r, rgb, u; + if (hex.match(/^#?([A-Fa-f0-9]{6}|[A-Fa-f0-9]{3})$/)) { + if (hex.length === 4 || hex.length === 7) { + hex = hex.substr(1); + } + if (hex.length === 3) { + hex = hex.split(""); + hex = hex[0] + hex[0] + hex[1] + hex[1] + hex[2] + hex[2]; + } + u = parseInt(hex, 16); + r = u >> 16; + g = u >> 8 & 0xFF; + b = u & 0xFF; + return [r, g, b, 1]; + } + if (hex.match(/^#?([A-Fa-f0-9]{8})$/)) { + if (hex.length === 9) { + hex = hex.substr(1); + } + u = parseInt(hex, 16); + r = u >> 24 & 0xFF; + g = u >> 16 & 0xFF; + b = u >> 8 & 0xFF; + a = round((u & 0xFF) / 0xFF * 100) / 100; + return [r, g, b, a]; + } + if ((_input.css != null) && (rgb = _input.css(hex))) { + return rgb; + } + throw "unknown color: " + hex; + }; + + rgb2hex = function(channels, mode) { + var a, b, g, hxa, r, str, u; + if (mode == null) { + mode = 'rgb'; + } + r = channels[0], g = channels[1], b = channels[2], a = channels[3]; + u = r << 16 | g << 8 | b; + str = "000000" + u.toString(16); + str = str.substr(str.length - 6); + hxa = '0' + round(a * 255).toString(16); + hxa = hxa.substr(hxa.length - 2); + return "#" + (function() { + switch (mode.toLowerCase()) { + case 'rgba': + return str + hxa; + case 'argb': + return hxa + str; + default: + return str; + } + })(); + }; + + _input.hex = function(h) { + return hex2rgb(h); + }; + + chroma.hex = function() { + return (function(func, args, ctor) { + ctor.prototype = func.prototype; + var child = new ctor, result = func.apply(child, args); + return Object(result) === result ? result : child; + })(Color, slice.call(arguments).concat(['hex']), function(){}); + }; + + Color.prototype.hex = function(mode) { + if (mode == null) { + mode = 'rgb'; + } + return rgb2hex(this._rgb, mode); + }; + + _guess_formats.push({ + p: 10, + test: function(n) { + if (arguments.length === 1 && type(n) === "string") { + return 'hex'; + } + } + }); + + hsl2rgb = function() { + var args, b, c, g, h, i, l, o, r, ref, s, t1, t2, t3; + args = unpack(arguments); + h = args[0], s = args[1], l = args[2]; + if (s === 0) { + r = g = b = l * 255; + } else { + t3 = [0, 0, 0]; + c = [0, 0, 0]; + t2 = l < 0.5 ? l * (1 + s) : l + s - l * s; + t1 = 2 * l - t2; + h /= 360; + t3[0] = h + 1 / 3; + t3[1] = h; + t3[2] = h - 1 / 3; + for (i = o = 0; o <= 2; i = ++o) { + if (t3[i] < 0) { + t3[i] += 1; + } + if (t3[i] > 1) { + t3[i] -= 1; + } + if (6 * t3[i] < 1) { + c[i] = t1 + (t2 - t1) * 6 * t3[i]; + } else if (2 * t3[i] < 1) { + c[i] = t2; + } else if (3 * t3[i] < 2) { + c[i] = t1 + (t2 - t1) * ((2 / 3) - t3[i]) * 6; + } else { + c[i] = t1; + } + } + ref = [round(c[0] * 255), round(c[1] * 255), round(c[2] * 255)], r = ref[0], g = ref[1], b = ref[2]; + } + if (args.length > 3) { + return [r, g, b, args[3]]; + } else { + return [r, g, b]; + } + }; + + rgb2hsl = function(r, g, b) { + var h, l, min, ref, s; + if (r !== void 0 && r.length >= 3) { + ref = r, r = ref[0], g = ref[1], b = ref[2]; + } + r /= 255; + g /= 255; + b /= 255; + min = Math.min(r, g, b); + max = Math.max(r, g, b); + l = (max + min) / 2; + if (max === min) { + s = 0; + h = Number.NaN; + } else { + s = l < 0.5 ? (max - min) / (max + min) : (max - min) / (2 - max - min); + } + if (r === max) { + h = (g - b) / (max - min); + } else if (g === max) { + h = 2 + (b - r) / (max - min); + } else if (b === max) { + h = 4 + (r - g) / (max - min); + } + h *= 60; + if (h < 0) { + h += 360; + } + return [h, s, l]; + }; + + chroma.hsl = function() { + return (function(func, args, ctor) { + ctor.prototype = func.prototype; + var child = new ctor, result = func.apply(child, args); + return Object(result) === result ? result : child; + })(Color, slice.call(arguments).concat(['hsl']), function(){}); + }; + + _input.hsl = hsl2rgb; + + Color.prototype.hsl = function() { + return rgb2hsl(this._rgb); + }; + + hsv2rgb = function() { + var args, b, f, g, h, i, p, q, r, ref, ref1, ref2, ref3, ref4, ref5, s, t, v; + args = unpack(arguments); + h = args[0], s = args[1], v = args[2]; + v *= 255; + if (s === 0) { + r = g = b = v; + } else { + if (h === 360) { + h = 0; + } + if (h > 360) { + h -= 360; + } + if (h < 0) { + h += 360; + } + h /= 60; + i = floor(h); + f = h - i; + p = v * (1 - s); + q = v * (1 - s * f); + t = v * (1 - s * (1 - f)); + switch (i) { + case 0: + ref = [v, t, p], r = ref[0], g = ref[1], b = ref[2]; + break; + case 1: + ref1 = [q, v, p], r = ref1[0], g = ref1[1], b = ref1[2]; + break; + case 2: + ref2 = [p, v, t], r = ref2[0], g = ref2[1], b = ref2[2]; + break; + case 3: + ref3 = [p, q, v], r = ref3[0], g = ref3[1], b = ref3[2]; + break; + case 4: + ref4 = [t, p, v], r = ref4[0], g = ref4[1], b = ref4[2]; + break; + case 5: + ref5 = [v, p, q], r = ref5[0], g = ref5[1], b = ref5[2]; + } + } + r = round(r); + g = round(g); + b = round(b); + return [r, g, b, args.length > 3 ? args[3] : 1]; + }; + + rgb2hsv = function() { + var b, delta, g, h, min, r, ref, s, v; + ref = unpack(arguments), r = ref[0], g = ref[1], b = ref[2]; + min = Math.min(r, g, b); + max = Math.max(r, g, b); + delta = max - min; + v = max / 255.0; + if (max === 0) { + h = Number.NaN; + s = 0; + } else { + s = delta / max; + if (r === max) { + h = (g - b) / delta; + } + if (g === max) { + h = 2 + (b - r) / delta; + } + if (b === max) { + h = 4 + (r - g) / delta; + } + h *= 60; + if (h < 0) { + h += 360; + } + } + return [h, s, v]; + }; + + chroma.hsv = function() { + return (function(func, args, ctor) { + ctor.prototype = func.prototype; + var child = new ctor, result = func.apply(child, args); + return Object(result) === result ? result : child; + })(Color, slice.call(arguments).concat(['hsv']), function(){}); + }; + + _input.hsv = hsv2rgb; + + Color.prototype.hsv = function() { + return rgb2hsv(this._rgb); + }; + + num2rgb = function(num) { + var b, g, r; + if (type(num) === "number" && num >= 0 && num <= 0xFFFFFF) { + r = num >> 16; + g = (num >> 8) & 0xFF; + b = num & 0xFF; + return [r, g, b, 1]; + } + console.warn("unknown num color: " + num); + return [0, 0, 0, 1]; + }; + + rgb2num = function() { + var b, g, r, ref; + ref = unpack(arguments), r = ref[0], g = ref[1], b = ref[2]; + return (r << 16) + (g << 8) + b; + }; + + chroma.num = function(num) { + return new Color(num, 'num'); + }; + + Color.prototype.num = function(mode) { + if (mode == null) { + mode = 'rgb'; + } + return rgb2num(this._rgb, mode); + }; + + _input.num = num2rgb; + + _guess_formats.push({ + p: 10, + test: function(n) { + if (arguments.length === 1 && type(n) === "number" && n >= 0 && n <= 0xFFFFFF) { + return 'num'; + } + } + }); + + css2rgb = function(css) { + var aa, ab, hsl, i, m, o, rgb, w; + css = css.toLowerCase(); + if ((chroma.colors != null) && chroma.colors[css]) { + return hex2rgb(chroma.colors[css]); + } + if (m = css.match(/rgb\(\s*(\-?\d+),\s*(\-?\d+)\s*,\s*(\-?\d+)\s*\)/)) { + rgb = m.slice(1, 4); + for (i = o = 0; o <= 2; i = ++o) { + rgb[i] = +rgb[i]; + } + rgb[3] = 1; + } else if (m = css.match(/rgba\(\s*(\-?\d+),\s*(\-?\d+)\s*,\s*(\-?\d+)\s*,\s*([01]|[01]?\.\d+)\)/)) { + rgb = m.slice(1, 5); + for (i = w = 0; w <= 3; i = ++w) { + rgb[i] = +rgb[i]; + } + } else if (m = css.match(/rgb\(\s*(\-?\d+(?:\.\d+)?)%,\s*(\-?\d+(?:\.\d+)?)%\s*,\s*(\-?\d+(?:\.\d+)?)%\s*\)/)) { + rgb = m.slice(1, 4); + for (i = aa = 0; aa <= 2; i = ++aa) { + rgb[i] = round(rgb[i] * 2.55); + } + rgb[3] = 1; + } else if (m = css.match(/rgba\(\s*(\-?\d+(?:\.\d+)?)%,\s*(\-?\d+(?:\.\d+)?)%\s*,\s*(\-?\d+(?:\.\d+)?)%\s*,\s*([01]|[01]?\.\d+)\)/)) { + rgb = m.slice(1, 5); + for (i = ab = 0; ab <= 2; i = ++ab) { + rgb[i] = round(rgb[i] * 2.55); + } + rgb[3] = +rgb[3]; + } else if (m = css.match(/hsl\(\s*(\-?\d+(?:\.\d+)?),\s*(\-?\d+(?:\.\d+)?)%\s*,\s*(\-?\d+(?:\.\d+)?)%\s*\)/)) { + hsl = m.slice(1, 4); + hsl[1] *= 0.01; + hsl[2] *= 0.01; + rgb = hsl2rgb(hsl); + rgb[3] = 1; + } else if (m = css.match(/hsla\(\s*(\-?\d+(?:\.\d+)?),\s*(\-?\d+(?:\.\d+)?)%\s*,\s*(\-?\d+(?:\.\d+)?)%\s*,\s*([01]|[01]?\.\d+)\)/)) { + hsl = m.slice(1, 4); + hsl[1] *= 0.01; + hsl[2] *= 0.01; + rgb = hsl2rgb(hsl); + rgb[3] = +m[4]; + } + return rgb; + }; + + rgb2css = function(rgba) { + var mode; + mode = rgba[3] < 1 ? 'rgba' : 'rgb'; + if (mode === 'rgb') { + return mode + '(' + rgba.slice(0, 3).map(round).join(',') + ')'; + } else if (mode === 'rgba') { + return mode + '(' + rgba.slice(0, 3).map(round).join(',') + ',' + rgba[3] + ')'; + } else { + + } + }; + + rnd = function(a) { + return round(a * 100) / 100; + }; + + hsl2css = function(hsl, alpha) { + var mode; + mode = alpha < 1 ? 'hsla' : 'hsl'; + hsl[0] = rnd(hsl[0] || 0); + hsl[1] = rnd(hsl[1] * 100) + '%'; + hsl[2] = rnd(hsl[2] * 100) + '%'; + if (mode === 'hsla') { + hsl[3] = alpha; + } + return mode + '(' + hsl.join(',') + ')'; + }; + + _input.css = function(h) { + return css2rgb(h); + }; + + chroma.css = function() { + return (function(func, args, ctor) { + ctor.prototype = func.prototype; + var child = new ctor, result = func.apply(child, args); + return Object(result) === result ? result : child; + })(Color, slice.call(arguments).concat(['css']), function(){}); + }; + + Color.prototype.css = function(mode) { + if (mode == null) { + mode = 'rgb'; + } + if (mode.slice(0, 3) === 'rgb') { + return rgb2css(this._rgb); + } else if (mode.slice(0, 3) === 'hsl') { + return hsl2css(this.hsl(), this.alpha()); + } + }; + + _input.named = function(name) { + return hex2rgb(w3cx11[name]); + }; + + _guess_formats.push({ + p: 20, + test: function(n) { + if (arguments.length === 1 && (w3cx11[n] != null)) { + return 'named'; + } + } + }); + + Color.prototype.name = function(n) { + var h, k; + if (arguments.length) { + if (w3cx11[n]) { + this._rgb = hex2rgb(w3cx11[n]); + } + this._rgb[3] = 1; + this; + } + h = this.hex(); + for (k in w3cx11) { + if (h === w3cx11[k]) { + return k; + } + } + return h; + }; + + lch2lab = function() { + + /* + Convert from a qualitative parameter h and a quantitative parameter l to a 24-bit pixel. + These formulas were invented by David Dalrymple to obtain maximum contrast without going + out of gamut if the parameters are in the range 0-1. + + A saturation multiplier was added by Gregor Aisch + */ + var c, h, l, ref; + ref = unpack(arguments), l = ref[0], c = ref[1], h = ref[2]; + h = h * DEG2RAD; + return [l, cos(h) * c, sin(h) * c]; + }; + + lch2rgb = function() { + var L, a, args, b, c, g, h, l, r, ref, ref1; + args = unpack(arguments); + l = args[0], c = args[1], h = args[2]; + ref = lch2lab(l, c, h), L = ref[0], a = ref[1], b = ref[2]; + ref1 = lab2rgb(L, a, b), r = ref1[0], g = ref1[1], b = ref1[2]; + return [limit(r, 0, 255), limit(g, 0, 255), limit(b, 0, 255), args.length > 3 ? args[3] : 1]; + }; + + lab2lch = function() { + var a, b, c, h, l, ref; + ref = unpack(arguments), l = ref[0], a = ref[1], b = ref[2]; + c = sqrt(a * a + b * b); + h = (atan2(b, a) * RAD2DEG + 360) % 360; + if (round(c * 10000) === 0) { + h = Number.NaN; + } + return [l, c, h]; + }; + + rgb2lch = function() { + var a, b, g, l, r, ref, ref1; + ref = unpack(arguments), r = ref[0], g = ref[1], b = ref[2]; + ref1 = rgb2lab(r, g, b), l = ref1[0], a = ref1[1], b = ref1[2]; + return lab2lch(l, a, b); + }; + + chroma.lch = function() { + var args; + args = unpack(arguments); + return new Color(args, 'lch'); + }; + + chroma.hcl = function() { + var args; + args = unpack(arguments); + return new Color(args, 'hcl'); + }; + + _input.lch = lch2rgb; + + _input.hcl = function() { + var c, h, l, ref; + ref = unpack(arguments), h = ref[0], c = ref[1], l = ref[2]; + return lch2rgb([l, c, h]); + }; + + Color.prototype.lch = function() { + return rgb2lch(this._rgb); + }; + + Color.prototype.hcl = function() { + return rgb2lch(this._rgb).reverse(); + }; + + rgb2cmyk = function(mode) { + var b, c, f, g, k, m, r, ref, y; + if (mode == null) { + mode = 'rgb'; + } + ref = unpack(arguments), r = ref[0], g = ref[1], b = ref[2]; + r = r / 255; + g = g / 255; + b = b / 255; + k = 1 - Math.max(r, Math.max(g, b)); + f = k < 1 ? 1 / (1 - k) : 0; + c = (1 - r - k) * f; + m = (1 - g - k) * f; + y = (1 - b - k) * f; + return [c, m, y, k]; + }; + + cmyk2rgb = function() { + var alpha, args, b, c, g, k, m, r, y; + args = unpack(arguments); + c = args[0], m = args[1], y = args[2], k = args[3]; + alpha = args.length > 4 ? args[4] : 1; + if (k === 1) { + return [0, 0, 0, alpha]; + } + r = c >= 1 ? 0 : round(255 * (1 - c) * (1 - k)); + g = m >= 1 ? 0 : round(255 * (1 - m) * (1 - k)); + b = y >= 1 ? 0 : round(255 * (1 - y) * (1 - k)); + return [r, g, b, alpha]; + }; + + _input.cmyk = function() { + return cmyk2rgb(unpack(arguments)); + }; + + chroma.cmyk = function() { + return (function(func, args, ctor) { + ctor.prototype = func.prototype; + var child = new ctor, result = func.apply(child, args); + return Object(result) === result ? result : child; + })(Color, slice.call(arguments).concat(['cmyk']), function(){}); + }; + + Color.prototype.cmyk = function() { + return rgb2cmyk(this._rgb); + }; + + _input.gl = function() { + var i, k, o, rgb, v; + rgb = (function() { + var ref, results; + ref = unpack(arguments); + results = []; + for (k in ref) { + v = ref[k]; + results.push(v); + } + return results; + }).apply(this, arguments); + for (i = o = 0; o <= 2; i = ++o) { + rgb[i] *= 255; + } + return rgb; + }; + + chroma.gl = function() { + return (function(func, args, ctor) { + ctor.prototype = func.prototype; + var child = new ctor, result = func.apply(child, args); + return Object(result) === result ? result : child; + })(Color, slice.call(arguments).concat(['gl']), function(){}); + }; + + Color.prototype.gl = function() { + var rgb; + rgb = this._rgb; + return [rgb[0] / 255, rgb[1] / 255, rgb[2] / 255, rgb[3]]; + }; + + rgb2luminance = function(r, g, b) { + var ref; + ref = unpack(arguments), r = ref[0], g = ref[1], b = ref[2]; + r = luminance_x(r); + g = luminance_x(g); + b = luminance_x(b); + return 0.2126 * r + 0.7152 * g + 0.0722 * b; + }; + + luminance_x = function(x) { + x /= 255; + if (x <= 0.03928) { + return x / 12.92; + } else { + return pow((x + 0.055) / 1.055, 2.4); + } + }; + + _interpolators = []; + + interpolate = function(col1, col2, f, m) { + var interpol, len, o, res; + if (f == null) { + f = 0.5; + } + if (m == null) { + m = 'rgb'; + } + + /* + interpolates between colors + f = 0 --> me + f = 1 --> col + */ + if (type(col1) !== 'object') { + col1 = chroma(col1); + } + if (type(col2) !== 'object') { + col2 = chroma(col2); + } + for (o = 0, len = _interpolators.length; o < len; o++) { + interpol = _interpolators[o]; + if (m === interpol[0]) { + res = interpol[1](col1, col2, f, m); + break; + } + } + if (res == null) { + throw "color mode " + m + " is not supported"; + } + res.alpha(col1.alpha() + f * (col2.alpha() - col1.alpha())); + return res; + }; + + chroma.interpolate = interpolate; + + Color.prototype.interpolate = function(col2, f, m) { + return interpolate(this, col2, f, m); + }; + + chroma.mix = interpolate; + + Color.prototype.mix = Color.prototype.interpolate; + + interpolate_rgb = function(col1, col2, f, m) { + var xyz0, xyz1; + xyz0 = col1._rgb; + xyz1 = col2._rgb; + return new Color(xyz0[0] + f * (xyz1[0] - xyz0[0]), xyz0[1] + f * (xyz1[1] - xyz0[1]), xyz0[2] + f * (xyz1[2] - xyz0[2]), m); + }; + + _interpolators.push(['rgb', interpolate_rgb]); + + Color.prototype.luminance = function(lum, mode) { + var cur_lum, eps, max_iter, test; + if (mode == null) { + mode = 'rgb'; + } + if (!arguments.length) { + return rgb2luminance(this._rgb); + } + if (lum === 0) { + this._rgb = [0, 0, 0, this._rgb[3]]; + } else if (lum === 1) { + this._rgb = [255, 255, 255, this._rgb[3]]; + } else { + eps = 1e-7; + max_iter = 20; + test = function(l, h) { + var lm, m; + m = l.interpolate(h, 0.5, mode); + lm = m.luminance(); + if (Math.abs(lum - lm) < eps || !max_iter--) { + return m; + } + if (lm > lum) { + return test(l, m); + } + return test(m, h); + }; + cur_lum = rgb2luminance(this._rgb); + this._rgb = (cur_lum > lum ? test(chroma('black'), this) : test(this, chroma('white'))).rgba(); + } + return this; + }; + + temperature2rgb = function(kelvin) { + var b, g, r, temp; + temp = kelvin / 100; + if (temp < 66) { + r = 255; + g = -155.25485562709179 - 0.44596950469579133 * (g = temp - 2) + 104.49216199393888 * log(g); + b = temp < 20 ? 0 : -254.76935184120902 + 0.8274096064007395 * (b = temp - 10) + 115.67994401066147 * log(b); + } else { + r = 351.97690566805693 + 0.114206453784165 * (r = temp - 55) - 40.25366309332127 * log(r); + g = 325.4494125711974 + 0.07943456536662342 * (g = temp - 50) - 28.0852963507957 * log(g); + b = 255; + } + return clip_rgb([r, g, b]); + }; + + rgb2temperature = function() { + var b, eps, g, maxTemp, minTemp, r, ref, rgb, temp; + ref = unpack(arguments), r = ref[0], g = ref[1], b = ref[2]; + minTemp = 1000; + maxTemp = 40000; + eps = 0.4; + while (maxTemp - minTemp > eps) { + temp = (maxTemp + minTemp) * 0.5; + rgb = temperature2rgb(temp); + if ((rgb[2] / rgb[0]) >= (b / r)) { + maxTemp = temp; + } else { + minTemp = temp; + } + } + return round(temp); + }; + + chroma.temperature = chroma.kelvin = function() { + return (function(func, args, ctor) { + ctor.prototype = func.prototype; + var child = new ctor, result = func.apply(child, args); + return Object(result) === result ? result : child; + })(Color, slice.call(arguments).concat(['temperature']), function(){}); + }; + + _input.temperature = _input.kelvin = _input.K = temperature2rgb; + + Color.prototype.temperature = function() { + return rgb2temperature(this._rgb); + }; + + Color.prototype.kelvin = Color.prototype.temperature; + + chroma.contrast = function(a, b) { + var l1, l2, ref, ref1; + if ((ref = type(a)) === 'string' || ref === 'number') { + a = new Color(a); + } + if ((ref1 = type(b)) === 'string' || ref1 === 'number') { + b = new Color(b); + } + l1 = a.luminance(); + l2 = b.luminance(); + if (l1 > l2) { + return (l1 + 0.05) / (l2 + 0.05); + } else { + return (l2 + 0.05) / (l1 + 0.05); + } + }; + + Color.prototype.get = function(modechan) { + var channel, i, me, mode, ref, src; + me = this; + ref = modechan.split('.'), mode = ref[0], channel = ref[1]; + src = me[mode](); + if (channel) { + i = mode.indexOf(channel); + if (i > -1) { + return src[i]; + } else { + return console.warn('unknown channel ' + channel + ' in mode ' + mode); + } + } else { + return src; + } + }; + + Color.prototype.set = function(modechan, value) { + var channel, i, me, mode, ref, src; + me = this; + ref = modechan.split('.'), mode = ref[0], channel = ref[1]; + if (channel) { + src = me[mode](); + i = mode.indexOf(channel); + if (i > -1) { + if (type(value) === 'string') { + switch (value.charAt(0)) { + case '+': + src[i] += +value; + break; + case '-': + src[i] += +value; + break; + case '*': + src[i] *= +(value.substr(1)); + break; + case '/': + src[i] /= +(value.substr(1)); + break; + default: + src[i] = +value; + } + } else { + src[i] = value; + } + } else { + console.warn('unknown channel ' + channel + ' in mode ' + mode); + } + } else { + src = value; + } + me._rgb = chroma(src, mode).alpha(me.alpha())._rgb; + return me; + }; + + Color.prototype.darken = function(amount) { + var lab, me; + if (amount == null) { + amount = 1; + } + me = this; + lab = me.lab(); + lab[0] -= LAB_CONSTANTS.Kn * amount; + return chroma.lab(lab).alpha(me.alpha()); + }; + + Color.prototype.brighten = function(amount) { + if (amount == null) { + amount = 1; + } + return this.darken(-amount); + }; + + Color.prototype.darker = Color.prototype.darken; + + Color.prototype.brighter = Color.prototype.brighten; + + Color.prototype.saturate = function(amount) { + var lch, me; + if (amount == null) { + amount = 1; + } + me = this; + lch = me.lch(); + lch[1] += amount * LAB_CONSTANTS.Kn; + if (lch[1] < 0) { + lch[1] = 0; + } + return chroma.lch(lch).alpha(me.alpha()); + }; + + Color.prototype.desaturate = function(amount) { + if (amount == null) { + amount = 1; + } + return this.saturate(-amount); + }; + + Color.prototype.premultiply = function() { + var a, rgb; + rgb = this.rgb(); + a = this.alpha(); + return chroma(rgb[0] * a, rgb[1] * a, rgb[2] * a, a); + }; + + blend = function(bottom, top, mode) { + if (!blend[mode]) { + throw 'unknown blend mode ' + mode; + } + return blend[mode](bottom, top); + }; + + blend_f = function(f) { + return function(bottom, top) { + var c0, c1; + c0 = chroma(top).rgb(); + c1 = chroma(bottom).rgb(); + return chroma(f(c0, c1), 'rgb'); + }; + }; + + each = function(f) { + return function(c0, c1) { + var i, o, out; + out = []; + for (i = o = 0; o <= 3; i = ++o) { + out[i] = f(c0[i], c1[i]); + } + return out; + }; + }; + + normal = function(a, b) { + return a; + }; + + multiply = function(a, b) { + return a * b / 255; + }; + + darken = function(a, b) { + if (a > b) { + return b; + } else { + return a; + } + }; + + lighten = function(a, b) { + if (a > b) { + return a; + } else { + return b; + } + }; + + screen = function(a, b) { + return 255 * (1 - (1 - a / 255) * (1 - b / 255)); + }; + + overlay = function(a, b) { + if (b < 128) { + return 2 * a * b / 255; + } else { + return 255 * (1 - 2 * (1 - a / 255) * (1 - b / 255)); + } + }; + + burn = function(a, b) { + return 255 * (1 - (1 - b / 255) / (a / 255)); + }; + + dodge = function(a, b) { + if (a === 255) { + return 255; + } + a = 255 * (b / 255) / (1 - a / 255); + if (a > 255) { + return 255; + } else { + return a; + } + }; + + blend.normal = blend_f(each(normal)); + + blend.multiply = blend_f(each(multiply)); + + blend.screen = blend_f(each(screen)); + + blend.overlay = blend_f(each(overlay)); + + blend.darken = blend_f(each(darken)); + + blend.lighten = blend_f(each(lighten)); + + blend.dodge = blend_f(each(dodge)); + + blend.burn = blend_f(each(burn)); + + chroma.blend = blend; + + chroma.analyze = function(data) { + var len, o, r, val; + r = { + min: Number.MAX_VALUE, + max: Number.MAX_VALUE * -1, + sum: 0, + values: [], + count: 0 + }; + for (o = 0, len = data.length; o < len; o++) { + val = data[o]; + if ((val != null) && !isNaN(val)) { + r.values.push(val); + r.sum += val; + if (val < r.min) { + r.min = val; + } + if (val > r.max) { + r.max = val; + } + r.count += 1; + } + } + r.domain = [r.min, r.max]; + r.limits = function(mode, num) { + return chroma.limits(r, mode, num); + }; + return r; + }; + + chroma.scale = function(colors, positions) { + var _classes, _colorCache, _colors, _correctLightness, _domain, _fixed, _max, _min, _mode, _nacol, _out, _padding, _pos, _spread, classifyValue, f, getClass, getColor, resetCache, setColors, tmap; + _mode = 'rgb'; + _nacol = chroma('#ccc'); + _spread = 0; + _fixed = false; + _domain = [0, 1]; + _pos = []; + _padding = [0, 0]; + _classes = false; + _colors = []; + _out = false; + _min = 0; + _max = 1; + _correctLightness = false; + _colorCache = {}; + setColors = function(colors) { + var c, col, o, ref, ref1, ref2, w; + if (colors == null) { + colors = ['#fff', '#000']; + } + if ((colors != null) && type(colors) === 'string' && (((ref = chroma.brewer) != null ? ref[colors] : void 0) != null)) { + colors = chroma.brewer[colors]; + } + if (type(colors) === 'array') { + colors = colors.slice(0); + for (c = o = 0, ref1 = colors.length - 1; 0 <= ref1 ? o <= ref1 : o >= ref1; c = 0 <= ref1 ? ++o : --o) { + col = colors[c]; + if (type(col) === "string") { + colors[c] = chroma(col); + } + } + _pos.length = 0; + for (c = w = 0, ref2 = colors.length - 1; 0 <= ref2 ? w <= ref2 : w >= ref2; c = 0 <= ref2 ? ++w : --w) { + _pos.push(c / (colors.length - 1)); + } + } + resetCache(); + return _colors = colors; + }; + getClass = function(value) { + var i, n; + if (_classes != null) { + n = _classes.length - 1; + i = 0; + while (i < n && value >= _classes[i]) { + i++; + } + return i - 1; + } + return 0; + }; + tmap = function(t) { + return t; + }; + classifyValue = function(value) { + var i, maxc, minc, n, val; + val = value; + if (_classes.length > 2) { + n = _classes.length - 1; + i = getClass(value); + minc = _classes[0] + (_classes[1] - _classes[0]) * (0 + _spread * 0.5); + maxc = _classes[n - 1] + (_classes[n] - _classes[n - 1]) * (1 - _spread * 0.5); + val = _min + ((_classes[i] + (_classes[i + 1] - _classes[i]) * 0.5 - minc) / (maxc - minc)) * (_max - _min); + } + return val; + }; + getColor = function(val, bypassMap) { + var c, col, i, k, o, p, ref, t; + if (bypassMap == null) { + bypassMap = false; + } + if (isNaN(val)) { + return _nacol; + } + if (!bypassMap) { + if (_classes && _classes.length > 2) { + c = getClass(val); + t = c / (_classes.length - 2); + t = _padding[0] + (t * (1 - _padding[0] - _padding[1])); + } else if (_max !== _min) { + t = (val - _min) / (_max - _min); + t = _padding[0] + (t * (1 - _padding[0] - _padding[1])); + t = Math.min(1, Math.max(0, t)); + } else { + t = 1; + } + } else { + t = val; + } + if (!bypassMap) { + t = tmap(t); + } + k = Math.floor(t * 10000); + if (_colorCache[k]) { + col = _colorCache[k]; + } else { + if (type(_colors) === 'array') { + for (i = o = 0, ref = _pos.length - 1; 0 <= ref ? o <= ref : o >= ref; i = 0 <= ref ? ++o : --o) { + p = _pos[i]; + if (t <= p) { + col = _colors[i]; + break; + } + if (t >= p && i === _pos.length - 1) { + col = _colors[i]; + break; + } + if (t > p && t < _pos[i + 1]) { + t = (t - p) / (_pos[i + 1] - p); + col = chroma.interpolate(_colors[i], _colors[i + 1], t, _mode); + break; + } + } + } else if (type(_colors) === 'function') { + col = _colors(t); + } + _colorCache[k] = col; + } + return col; + }; + resetCache = function() { + return _colorCache = {}; + }; + setColors(colors); + f = function(v) { + var c; + c = chroma(getColor(v)); + if (_out && c[_out]) { + return c[_out](); + } else { + return c; + } + }; + f.classes = function(classes) { + var d; + if (classes != null) { + if (type(classes) === 'array') { + _classes = classes; + _domain = [classes[0], classes[classes.length - 1]]; + } else { + d = chroma.analyze(_domain); + if (classes === 0) { + _classes = [d.min, d.max]; + } else { + _classes = chroma.limits(d, 'e', classes); + } + } + return f; + } + return _classes; + }; + f.domain = function(domain) { + var c, d, k, len, o, ref, w; + if (!arguments.length) { + return _domain; + } + _min = domain[0]; + _max = domain[domain.length - 1]; + _pos = []; + k = _colors.length; + if (domain.length === k && _min !== _max) { + for (o = 0, len = domain.length; o < len; o++) { + d = domain[o]; + _pos.push((d - _min) / (_max - _min)); + } + } else { + for (c = w = 0, ref = k - 1; 0 <= ref ? w <= ref : w >= ref; c = 0 <= ref ? ++w : --w) { + _pos.push(c / (k - 1)); + } + } + _domain = [_min, _max]; + return f; + }; + f.mode = function(_m) { + if (!arguments.length) { + return _mode; + } + _mode = _m; + resetCache(); + return f; + }; + f.range = function(colors, _pos) { + setColors(colors, _pos); + return f; + }; + f.out = function(_o) { + _out = _o; + return f; + }; + f.spread = function(val) { + if (!arguments.length) { + return _spread; + } + _spread = val; + return f; + }; + f.correctLightness = function(v) { + if (v == null) { + v = true; + } + _correctLightness = v; + resetCache(); + if (_correctLightness) { + tmap = function(t) { + var L0, L1, L_actual, L_diff, L_ideal, max_iter, pol, t0, t1; + L0 = getColor(0, true).lab()[0]; + L1 = getColor(1, true).lab()[0]; + pol = L0 > L1; + L_actual = getColor(t, true).lab()[0]; + L_ideal = L0 + (L1 - L0) * t; + L_diff = L_actual - L_ideal; + t0 = 0; + t1 = 1; + max_iter = 20; + while (Math.abs(L_diff) > 1e-2 && max_iter-- > 0) { + (function() { + if (pol) { + L_diff *= -1; + } + if (L_diff < 0) { + t0 = t; + t += (t1 - t) * 0.5; + } else { + t1 = t; + t += (t0 - t) * 0.5; + } + L_actual = getColor(t, true).lab()[0]; + return L_diff = L_actual - L_ideal; + })(); + } + return t; + }; + } else { + tmap = function(t) { + return t; + }; + } + return f; + }; + f.padding = function(p) { + if (p != null) { + if (type(p) === 'number') { + p = [p, p]; + } + _padding = p; + return f; + } else { + return _padding; + } + }; + f.colors = function() { + var dd, dm, i, numColors, o, out, ref, results, samples, w; + numColors = 0; + out = 'hex'; + if (arguments.length === 1) { + if (type(arguments[0]) === 'string') { + out = arguments[0]; + } else { + numColors = arguments[0]; + } + } + if (arguments.length === 2) { + numColors = arguments[0], out = arguments[1]; + } + if (numColors) { + dm = _domain[0]; + dd = _domain[1] - dm; + return (function() { + results = []; + for (var o = 0; 0 <= numColors ? o < numColors : o > numColors; 0 <= numColors ? o++ : o--){ results.push(o); } + return results; + }).apply(this).map(function(i) { + return f(dm + i / (numColors - 1) * dd)[out](); + }); + } + colors = []; + samples = []; + if (_classes && _classes.length > 2) { + for (i = w = 1, ref = _classes.length; 1 <= ref ? w < ref : w > ref; i = 1 <= ref ? ++w : --w) { + samples.push((_classes[i - 1] + _classes[i]) * 0.5); + } + } else { + samples = _domain; + } + return samples.map(function(v) { + return f(v)[out](); + }); + }; + return f; + }; + + if (chroma.scales == null) { + chroma.scales = {}; + } + + chroma.scales.cool = function() { + return chroma.scale([chroma.hsl(180, 1, .9), chroma.hsl(250, .7, .4)]); + }; + + chroma.scales.hot = function() { + return chroma.scale(['#000', '#f00', '#ff0', '#fff'], [0, .25, .75, 1]).mode('rgb'); + }; + + chroma.analyze = function(data, key, filter) { + var add, k, len, o, r, val, visit; + r = { + min: Number.MAX_VALUE, + max: Number.MAX_VALUE * -1, + sum: 0, + values: [], + count: 0 + }; + if (filter == null) { + filter = function() { + return true; + }; + } + add = function(val) { + if ((val != null) && !isNaN(val)) { + r.values.push(val); + r.sum += val; + if (val < r.min) { + r.min = val; + } + if (val > r.max) { + r.max = val; + } + r.count += 1; + } + }; + visit = function(val, k) { + if (filter(val, k)) { + if ((key != null) && type(key) === 'function') { + return add(key(val)); + } else if ((key != null) && type(key) === 'string' || type(key) === 'number') { + return add(val[key]); + } else { + return add(val); + } + } + }; + if (type(data) === 'array') { + for (o = 0, len = data.length; o < len; o++) { + val = data[o]; + visit(val); + } + } else { + for (k in data) { + val = data[k]; + visit(val, k); + } + } + r.domain = [r.min, r.max]; + r.limits = function(mode, num) { + return chroma.limits(r, mode, num); + }; + return r; + }; + + chroma.limits = function(data, mode, num) { + var aa, ab, ac, ad, ae, af, ag, ah, ai, aj, ak, al, am, assignments, best, centroids, cluster, clusterSizes, dist, i, j, kClusters, limits, max_log, min, min_log, mindist, n, nb_iters, newCentroids, o, p, pb, pr, ref, ref1, ref10, ref11, ref12, ref13, ref14, ref2, ref3, ref4, ref5, ref6, ref7, ref8, ref9, repeat, sum, tmpKMeansBreaks, value, values, w; + if (mode == null) { + mode = 'equal'; + } + if (num == null) { + num = 7; + } + if (type(data) === 'array') { + data = chroma.analyze(data); + } + min = data.min; + max = data.max; + sum = data.sum; + values = data.values.sort(function(a, b) { + return a - b; + }); + limits = []; + if (mode.substr(0, 1) === 'c') { + limits.push(min); + limits.push(max); + } + if (mode.substr(0, 1) === 'e') { + limits.push(min); + for (i = o = 1, ref = num - 1; 1 <= ref ? o <= ref : o >= ref; i = 1 <= ref ? ++o : --o) { + limits.push(min + (i / num) * (max - min)); + } + limits.push(max); + } else if (mode.substr(0, 1) === 'l') { + if (min <= 0) { + throw 'Logarithmic scales are only possible for values > 0'; + } + min_log = Math.LOG10E * log(min); + max_log = Math.LOG10E * log(max); + limits.push(min); + for (i = w = 1, ref1 = num - 1; 1 <= ref1 ? w <= ref1 : w >= ref1; i = 1 <= ref1 ? ++w : --w) { + limits.push(pow(10, min_log + (i / num) * (max_log - min_log))); + } + limits.push(max); + } else if (mode.substr(0, 1) === 'q') { + limits.push(min); + for (i = aa = 1, ref2 = num - 1; 1 <= ref2 ? aa <= ref2 : aa >= ref2; i = 1 <= ref2 ? ++aa : --aa) { + p = values.length * i / num; + pb = floor(p); + if (pb === p) { + limits.push(values[pb]); + } else { + pr = p - pb; + limits.push(values[pb] * pr + values[pb + 1] * (1 - pr)); + } + } + limits.push(max); + } else if (mode.substr(0, 1) === 'k') { + + /* + implementation based on + http://code.google.com/p/figue/source/browse/trunk/figue.js#336 + simplified for 1-d input values + */ + n = values.length; + assignments = new Array(n); + clusterSizes = new Array(num); + repeat = true; + nb_iters = 0; + centroids = null; + centroids = []; + centroids.push(min); + for (i = ab = 1, ref3 = num - 1; 1 <= ref3 ? ab <= ref3 : ab >= ref3; i = 1 <= ref3 ? ++ab : --ab) { + centroids.push(min + (i / num) * (max - min)); + } + centroids.push(max); + while (repeat) { + for (j = ac = 0, ref4 = num - 1; 0 <= ref4 ? ac <= ref4 : ac >= ref4; j = 0 <= ref4 ? ++ac : --ac) { + clusterSizes[j] = 0; + } + for (i = ad = 0, ref5 = n - 1; 0 <= ref5 ? ad <= ref5 : ad >= ref5; i = 0 <= ref5 ? ++ad : --ad) { + value = values[i]; + mindist = Number.MAX_VALUE; + for (j = ae = 0, ref6 = num - 1; 0 <= ref6 ? ae <= ref6 : ae >= ref6; j = 0 <= ref6 ? ++ae : --ae) { + dist = abs(centroids[j] - value); + if (dist < mindist) { + mindist = dist; + best = j; + } + } + clusterSizes[best]++; + assignments[i] = best; + } + newCentroids = new Array(num); + for (j = af = 0, ref7 = num - 1; 0 <= ref7 ? af <= ref7 : af >= ref7; j = 0 <= ref7 ? ++af : --af) { + newCentroids[j] = null; + } + for (i = ag = 0, ref8 = n - 1; 0 <= ref8 ? ag <= ref8 : ag >= ref8; i = 0 <= ref8 ? ++ag : --ag) { + cluster = assignments[i]; + if (newCentroids[cluster] === null) { + newCentroids[cluster] = values[i]; + } else { + newCentroids[cluster] += values[i]; + } + } + for (j = ah = 0, ref9 = num - 1; 0 <= ref9 ? ah <= ref9 : ah >= ref9; j = 0 <= ref9 ? ++ah : --ah) { + newCentroids[j] *= 1 / clusterSizes[j]; + } + repeat = false; + for (j = ai = 0, ref10 = num - 1; 0 <= ref10 ? ai <= ref10 : ai >= ref10; j = 0 <= ref10 ? ++ai : --ai) { + if (newCentroids[j] !== centroids[i]) { + repeat = true; + break; + } + } + centroids = newCentroids; + nb_iters++; + if (nb_iters > 200) { + repeat = false; + } + } + kClusters = {}; + for (j = aj = 0, ref11 = num - 1; 0 <= ref11 ? aj <= ref11 : aj >= ref11; j = 0 <= ref11 ? ++aj : --aj) { + kClusters[j] = []; + } + for (i = ak = 0, ref12 = n - 1; 0 <= ref12 ? ak <= ref12 : ak >= ref12; i = 0 <= ref12 ? ++ak : --ak) { + cluster = assignments[i]; + kClusters[cluster].push(values[i]); + } + tmpKMeansBreaks = []; + for (j = al = 0, ref13 = num - 1; 0 <= ref13 ? al <= ref13 : al >= ref13; j = 0 <= ref13 ? ++al : --al) { + tmpKMeansBreaks.push(kClusters[j][0]); + tmpKMeansBreaks.push(kClusters[j][kClusters[j].length - 1]); + } + tmpKMeansBreaks = tmpKMeansBreaks.sort(function(a, b) { + return a - b; + }); + limits.push(tmpKMeansBreaks[0]); + for (i = am = 1, ref14 = tmpKMeansBreaks.length - 1; am <= ref14; i = am += 2) { + if (!isNaN(tmpKMeansBreaks[i])) { + limits.push(tmpKMeansBreaks[i]); + } + } + } + return limits; + }; + + hsi2rgb = function(h, s, i) { + + /* + borrowed from here: + http://hummer.stanford.edu/museinfo/doc/examples/humdrum/keyscape2/hsi2rgb.cpp + */ + var args, b, g, r; + args = unpack(arguments); + h = args[0], s = args[1], i = args[2]; + h /= 360; + if (h < 1 / 3) { + b = (1 - s) / 3; + r = (1 + s * cos(TWOPI * h) / cos(PITHIRD - TWOPI * h)) / 3; + g = 1 - (b + r); + } else if (h < 2 / 3) { + h -= 1 / 3; + r = (1 - s) / 3; + g = (1 + s * cos(TWOPI * h) / cos(PITHIRD - TWOPI * h)) / 3; + b = 1 - (r + g); + } else { + h -= 2 / 3; + g = (1 - s) / 3; + b = (1 + s * cos(TWOPI * h) / cos(PITHIRD - TWOPI * h)) / 3; + r = 1 - (g + b); + } + r = limit(i * r * 3); + g = limit(i * g * 3); + b = limit(i * b * 3); + return [r * 255, g * 255, b * 255, args.length > 3 ? args[3] : 1]; + }; + + rgb2hsi = function() { + + /* + borrowed from here: + http://hummer.stanford.edu/museinfo/doc/examples/humdrum/keyscape2/rgb2hsi.cpp + */ + var b, g, h, i, min, r, ref, s; + ref = unpack(arguments), r = ref[0], g = ref[1], b = ref[2]; + TWOPI = Math.PI * 2; + r /= 255; + g /= 255; + b /= 255; + min = Math.min(r, g, b); + i = (r + g + b) / 3; + s = 1 - min / i; + if (s === 0) { + h = 0; + } else { + h = ((r - g) + (r - b)) / 2; + h /= Math.sqrt((r - g) * (r - g) + (r - b) * (g - b)); + h = Math.acos(h); + if (b > g) { + h = TWOPI - h; + } + h /= TWOPI; + } + return [h * 360, s, i]; + }; + + chroma.hsi = function() { + return (function(func, args, ctor) { + ctor.prototype = func.prototype; + var child = new ctor, result = func.apply(child, args); + return Object(result) === result ? result : child; + })(Color, slice.call(arguments).concat(['hsi']), function(){}); + }; + + _input.hsi = hsi2rgb; + + Color.prototype.hsi = function() { + return rgb2hsi(this._rgb); + }; + + interpolate_hsx = function(col1, col2, f, m) { + var dh, hue, hue0, hue1, lbv, lbv0, lbv1, res, sat, sat0, sat1, xyz0, xyz1; + if (m === 'hsl') { + xyz0 = col1.hsl(); + xyz1 = col2.hsl(); + } else if (m === 'hsv') { + xyz0 = col1.hsv(); + xyz1 = col2.hsv(); + } else if (m === 'hsi') { + xyz0 = col1.hsi(); + xyz1 = col2.hsi(); + } else if (m === 'lch' || m === 'hcl') { + m = 'hcl'; + xyz0 = col1.hcl(); + xyz1 = col2.hcl(); + } + if (m.substr(0, 1) === 'h') { + hue0 = xyz0[0], sat0 = xyz0[1], lbv0 = xyz0[2]; + hue1 = xyz1[0], sat1 = xyz1[1], lbv1 = xyz1[2]; + } + if (!isNaN(hue0) && !isNaN(hue1)) { + if (hue1 > hue0 && hue1 - hue0 > 180) { + dh = hue1 - (hue0 + 360); + } else if (hue1 < hue0 && hue0 - hue1 > 180) { + dh = hue1 + 360 - hue0; + } else { + dh = hue1 - hue0; + } + hue = hue0 + f * dh; + } else if (!isNaN(hue0)) { + hue = hue0; + if ((lbv1 === 1 || lbv1 === 0) && m !== 'hsv') { + sat = sat0; + } + } else if (!isNaN(hue1)) { + hue = hue1; + if ((lbv0 === 1 || lbv0 === 0) && m !== 'hsv') { + sat = sat1; + } + } else { + hue = Number.NaN; + } + if (sat == null) { + sat = sat0 + f * (sat1 - sat0); + } + lbv = lbv0 + f * (lbv1 - lbv0); + return res = chroma[m](hue, sat, lbv); + }; + + _interpolators = _interpolators.concat((function() { + var len, o, ref, results; + ref = ['hsv', 'hsl', 'hsi', 'hcl', 'lch']; + results = []; + for (o = 0, len = ref.length; o < len; o++) { + m = ref[o]; + results.push([m, interpolate_hsx]); + } + return results; + })()); + + interpolate_num = function(col1, col2, f, m) { + var n1, n2; + n1 = col1.num(); + n2 = col2.num(); + return chroma.num(n1 + (n2 - n1) * f, 'num'); + }; + + _interpolators.push(['num', interpolate_num]); + + interpolate_lab = function(col1, col2, f, m) { + var res, xyz0, xyz1; + xyz0 = col1.lab(); + xyz1 = col2.lab(); + return res = new Color(xyz0[0] + f * (xyz1[0] - xyz0[0]), xyz0[1] + f * (xyz1[1] - xyz0[1]), xyz0[2] + f * (xyz1[2] - xyz0[2]), m); + }; + + _interpolators.push(['lab', interpolate_lab]); + +}).call(this);
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See https://raw.github.com/Stuk/jszip/master/LICENSE.markdown. + +JSZip uses the library pako released under the MIT license : +https://github.com/nodeca/pako/blob/master/LICENSE +*/ +!function(a){if("object"==typeof exports&&"undefined"!=typeof module)module.exports=a();else if("function"==typeof define&&define.amd)define([],a);else{var b;"undefined"!=typeof window?b=window:"undefined"!=typeof global?b=global:"undefined"!=typeof self&&(b=self),b.JSZip=a()}}(function(){return function a(b,c,d){function e(g,h){if(!c[g]){if(!b[g]){var i="function"==typeof require&&require;if(!h&&i)return i(g,!0);if(f)return f(g,!0);throw new Error("Cannot find module '"+g+"'")}var j=c[g]={exports:{}};b[g][0].call(j.exports,function(a){var c=b[g][1][a];return e(c?c:a)},j,j.exports,a,b,c,d)}return c[g].exports}for(var f="function"==typeof require&&require,g=0;g<d.length;g++)e(d[g]);return e}({1:[function(a,b,c){"use strict";var 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a,b,c,d=this.zip64EndOfCentralSize-44,e=0;d>e;)a=this.reader.readInt(2),b=this.reader.readInt(4),c=this.reader.readString(b),this.zip64ExtensibleData[a]={id:a,length:b,value:c}},readBlockZip64EndOfCentralLocator:function(){if(this.diskWithZip64CentralDirStart=this.reader.readInt(4),this.relativeOffsetEndOfZip64CentralDir=this.reader.readInt(8),this.disksCount=this.reader.readInt(4),this.disksCount>1)throw new Error("Multi-volumes zip are not supported")},readLocalFiles:function(){var a,b;for(a=0;a<this.files.length;a++)b=this.files[a],this.reader.setIndex(b.localHeaderOffset),this.checkSignature(h.LOCAL_FILE_HEADER),b.readLocalPart(this.reader),b.handleUTF8(),b.processAttributes()},readCentralDir:function(){var a;for(this.reader.setIndex(this.centralDirOffset);this.reader.readString(4)===h.CENTRAL_FILE_HEADER;)a=new i({zip64:this.zip64},this.loadOptions),a.readCentralPart(this.reader),this.files.push(a)},readEndOfCentral:function(){var a=this.reader.lastIndexOfSignature(h.CENTRAL_DIRECTORY_END);if(-1===a){var b=!0;try{this.reader.setIndex(0),this.checkSignature(h.LOCAL_FILE_HEADER),b=!1}catch(c){}throw new Error(b?"Can't find end of central directory : is this a zip file ? If it is, see http://stuk.github.io/jszip/documentation/howto/read_zip.html":"Corrupted zip : can't find end of central directory")}if(this.reader.setIndex(a),this.checkSignature(h.CENTRAL_DIRECTORY_END),this.readBlockEndOfCentral(),this.diskNumber===g.MAX_VALUE_16BITS||this.diskWithCentralDirStart===g.MAX_VALUE_16BITS||this.centralDirRecordsOnThisDisk===g.MAX_VALUE_16BITS||this.centralDirRecords===g.MAX_VALUE_16BITS||this.centralDirSize===g.MAX_VALUE_32BITS||this.centralDirOffset===g.MAX_VALUE_32BITS){if(this.zip64=!0,a=this.reader.lastIndexOfSignature(h.ZIP64_CENTRAL_DIRECTORY_LOCATOR),-1===a)throw new Error("Corrupted zip : can't find the ZIP64 end of central directory locator");this.reader.setIndex(a),this.checkSignature(h.ZIP64_CENTRAL_DIRECTORY_LOCATOR),this.readBlockZip64EndOfCentralLocator(),this.reader.setIndex(this.relativeOffsetEndOfZip64CentralDir),this.checkSignature(h.ZIP64_CENTRAL_DIRECTORY_END),this.readBlockZip64EndOfCentral()}},prepareReader:function(a){var b=g.getTypeOf(a);this.reader="string"!==b||j.uint8array?"nodebuffer"===b?new e(a):new f(g.transformTo("uint8array",a)):new d(a,this.loadOptions.optimizedBinaryString)},load:function(a){this.prepareReader(a),this.readEndOfCentral(),this.readCentralDir(),this.readLocalFiles()}},b.exports=c},{"./nodeBufferReader":12,"./object":13,"./signature":14,"./stringReader":15,"./support":17,"./uint8ArrayReader":18,"./utils":21,"./zipEntry":23}],23:[function(a,b){"use strict";function c(a,b){this.options=a,this.loadOptions=b}var d=a("./stringReader"),e=a("./utils"),f=a("./compressedObject"),g=a("./object"),h=0,i=3;c.prototype={isEncrypted:function(){return 1===(1&this.bitFlag)},useUTF8:function(){return 2048===(2048&this.bitFlag)},prepareCompressedContent:function(a,b,c){return function(){var d=a.index;a.setIndex(b);var e=a.readData(c);return a.setIndex(d),e}},prepareContent:function(a,b,c,d,f){return function(){var a=e.transformTo(d.uncompressInputType,this.getCompressedContent()),b=d.uncompress(a);if(b.length!==f)throw new Error("Bug : uncompressed data size mismatch");return b}},readLocalPart:function(a){var b,c;if(a.skip(22),this.fileNameLength=a.readInt(2),c=a.readInt(2),this.fileName=a.readString(this.fileNameLength),a.skip(c),-1==this.compressedSize||-1==this.uncompressedSize)throw new Error("Bug or corrupted zip : didn't get enough informations from the central directory (compressedSize == -1 || uncompressedSize == -1)");if(b=e.findCompression(this.compressionMethod),null===b)throw new Error("Corrupted zip : compression "+e.pretty(this.compressionMethod)+" unknown (inner file : "+this.fileName+")");if(this.decompressed=new f,this.decompressed.compressedSize=this.compressedSize,this.decompressed.uncompressedSize=this.uncompressedSize,this.decompressed.crc32=this.crc32,this.decompressed.compressionMethod=this.compressionMethod,this.decompressed.getCompressedContent=this.prepareCompressedContent(a,a.index,this.compressedSize,b),this.decompressed.getContent=this.prepareContent(a,a.index,this.compressedSize,b,this.uncompressedSize),this.loadOptions.checkCRC32&&(this.decompressed=e.transformTo("string",this.decompressed.getContent()),g.crc32(this.decompressed)!==this.crc32))throw new Error("Corrupted zip : CRC32 mismatch")},readCentralPart:function(a){if(this.versionMadeBy=a.readInt(2),this.versionNeeded=a.readInt(2),this.bitFlag=a.readInt(2),this.compressionMethod=a.readString(2),this.date=a.readDate(),this.crc32=a.readInt(4),this.compressedSize=a.readInt(4),this.uncompressedSize=a.readInt(4),this.fileNameLength=a.readInt(2),this.extraFieldsLength=a.readInt(2),this.fileCommentLength=a.readInt(2),this.diskNumberStart=a.readInt(2),this.internalFileAttributes=a.readInt(2),this.externalFileAttributes=a.readInt(4),this.localHeaderOffset=a.readInt(4),this.isEncrypted())throw new Error("Encrypted zip are not supported");this.fileName=a.readString(this.fileNameLength),this.readExtraFields(a),this.parseZIP64ExtraField(a),this.fileComment=a.readString(this.fileCommentLength)},processAttributes:function(){this.unixPermissions=null,this.dosPermissions=null;var a=this.versionMadeBy>>8;this.dir=16&this.externalFileAttributes?!0:!1,a===h&&(this.dosPermissions=63&this.externalFileAttributes),a===i&&(this.unixPermissions=this.externalFileAttributes>>16&65535),this.dir||"/"!==this.fileName.slice(-1)||(this.dir=!0)},parseZIP64ExtraField:function(){if(this.extraFields[1]){var a=new d(this.extraFields[1].value);this.uncompressedSize===e.MAX_VALUE_32BITS&&(this.uncompressedSize=a.readInt(8)),this.compressedSize===e.MAX_VALUE_32BITS&&(this.compressedSize=a.readInt(8)),this.localHeaderOffset===e.MAX_VALUE_32BITS&&(this.localHeaderOffset=a.readInt(8)),this.diskNumberStart===e.MAX_VALUE_32BITS&&(this.diskNumberStart=a.readInt(4))}},readExtraFields:function(a){var b,c,d,e=a.index;for(this.extraFields=this.extraFields||{};a.index<e+this.extraFieldsLength;)b=a.readInt(2),c=a.readInt(2),d=a.readString(c),this.extraFields[b]={id:b,length:c,value:d}},handleUTF8:function(){if(this.useUTF8())this.fileName=g.utf8decode(this.fileName),this.fileComment=g.utf8decode(this.fileComment);else{var a=this.findExtraFieldUnicodePath();null!==a&&(this.fileName=a);var b=this.findExtraFieldUnicodeComment();null!==b&&(this.fileComment=b)}},findExtraFieldUnicodePath:function(){var a=this.extraFields[28789];if(a){var b=new d(a.value);return 1!==b.readInt(1)?null:g.crc32(this.fileName)!==b.readInt(4)?null:g.utf8decode(b.readString(a.length-5)) +}return null},findExtraFieldUnicodeComment:function(){var a=this.extraFields[25461];if(a){var b=new d(a.value);return 1!==b.readInt(1)?null:g.crc32(this.fileComment)!==b.readInt(4)?null:g.utf8decode(b.readString(a.length-5))}return null}},b.exports=c},{"./compressedObject":2,"./object":13,"./stringReader":15,"./utils":21}],24:[function(a,b){"use strict";var c=a("./lib/utils/common").assign,d=a("./lib/deflate"),e=a("./lib/inflate"),f=a("./lib/zlib/constants"),g={};c(g,d,e,f),b.exports=g},{"./lib/deflate":25,"./lib/inflate":26,"./lib/utils/common":27,"./lib/zlib/constants":30}],25:[function(a,b,c){"use strict";function d(a,b){var c=new s(b);if(c.push(a,!0),c.err)throw c.msg;return c.result}function e(a,b){return b=b||{},b.raw=!0,d(a,b)}function f(a,b){return b=b||{},b.gzip=!0,d(a,b)}var g=a("./zlib/deflate.js"),h=a("./utils/common"),i=a("./utils/strings"),j=a("./zlib/messages"),k=a("./zlib/zstream"),l=0,m=4,n=0,o=1,p=-1,q=0,r=8,s=function(a){this.options=h.assign({level:p,method:r,chunkSize:16384,windowBits:15,memLevel:8,strategy:q,to:""},a||{});var b=this.options;b.raw&&b.windowBits>0?b.windowBits=-b.windowBits:b.gzip&&b.windowBits>0&&b.windowBits<16&&(b.windowBits+=16),this.err=0,this.msg="",this.ended=!1,this.chunks=[],this.strm=new k,this.strm.avail_out=0;var c=g.deflateInit2(this.strm,b.level,b.method,b.windowBits,b.memLevel,b.strategy);if(c!==n)throw new Error(j[c]);b.header&&g.deflateSetHeader(this.strm,b.header)};s.prototype.push=function(a,b){var c,d,e=this.strm,f=this.options.chunkSize;if(this.ended)return!1;d=b===~~b?b:b===!0?m:l,e.input="string"==typeof a?i.string2buf(a):a,e.next_in=0,e.avail_in=e.input.length;do{if(0===e.avail_out&&(e.output=new h.Buf8(f),e.next_out=0,e.avail_out=f),c=g.deflate(e,d),c!==o&&c!==n)return this.onEnd(c),this.ended=!0,!1;(0===e.avail_out||0===e.avail_in&&d===m)&&this.onData("string"===this.options.to?i.buf2binstring(h.shrinkBuf(e.output,e.next_out)):h.shrinkBuf(e.output,e.next_out))}while((e.avail_in>0||0===e.avail_out)&&c!==o);return d===m?(c=g.deflateEnd(this.strm),this.onEnd(c),this.ended=!0,c===n):!0},s.prototype.onData=function(a){this.chunks.push(a)},s.prototype.onEnd=function(a){a===n&&(this.result="string"===this.options.to?this.chunks.join(""):h.flattenChunks(this.chunks)),this.chunks=[],this.err=a,this.msg=this.strm.msg},c.Deflate=s,c.deflate=d,c.deflateRaw=e,c.gzip=f},{"./utils/common":27,"./utils/strings":28,"./zlib/deflate.js":32,"./zlib/messages":37,"./zlib/zstream":39}],26:[function(a,b,c){"use strict";function d(a,b){var c=new m(b);if(c.push(a,!0),c.err)throw c.msg;return c.result}function e(a,b){return b=b||{},b.raw=!0,d(a,b)}var f=a("./zlib/inflate.js"),g=a("./utils/common"),h=a("./utils/strings"),i=a("./zlib/constants"),j=a("./zlib/messages"),k=a("./zlib/zstream"),l=a("./zlib/gzheader"),m=function(a){this.options=g.assign({chunkSize:16384,windowBits:0,to:""},a||{});var b=this.options;b.raw&&b.windowBits>=0&&b.windowBits<16&&(b.windowBits=-b.windowBits,0===b.windowBits&&(b.windowBits=-15)),!(b.windowBits>=0&&b.windowBits<16)||a&&a.windowBits||(b.windowBits+=32),b.windowBits>15&&b.windowBits<48&&0===(15&b.windowBits)&&(b.windowBits|=15),this.err=0,this.msg="",this.ended=!1,this.chunks=[],this.strm=new k,this.strm.avail_out=0;var c=f.inflateInit2(this.strm,b.windowBits);if(c!==i.Z_OK)throw new Error(j[c]);this.header=new l,f.inflateGetHeader(this.strm,this.header)};m.prototype.push=function(a,b){var c,d,e,j,k,l=this.strm,m=this.options.chunkSize;if(this.ended)return!1;d=b===~~b?b:b===!0?i.Z_FINISH:i.Z_NO_FLUSH,l.input="string"==typeof a?h.binstring2buf(a):a,l.next_in=0,l.avail_in=l.input.length;do{if(0===l.avail_out&&(l.output=new g.Buf8(m),l.next_out=0,l.avail_out=m),c=f.inflate(l,i.Z_NO_FLUSH),c!==i.Z_STREAM_END&&c!==i.Z_OK)return this.onEnd(c),this.ended=!0,!1;l.next_out&&(0===l.avail_out||c===i.Z_STREAM_END||0===l.avail_in&&d===i.Z_FINISH)&&("string"===this.options.to?(e=h.utf8border(l.output,l.next_out),j=l.next_out-e,k=h.buf2string(l.output,e),l.next_out=j,l.avail_out=m-j,j&&g.arraySet(l.output,l.output,e,j,0),this.onData(k)):this.onData(g.shrinkBuf(l.output,l.next_out)))}while(l.avail_in>0&&c!==i.Z_STREAM_END);return c===i.Z_STREAM_END&&(d=i.Z_FINISH),d===i.Z_FINISH?(c=f.inflateEnd(this.strm),this.onEnd(c),this.ended=!0,c===i.Z_OK):!0},m.prototype.onData=function(a){this.chunks.push(a)},m.prototype.onEnd=function(a){a===i.Z_OK&&(this.result="string"===this.options.to?this.chunks.join(""):g.flattenChunks(this.chunks)),this.chunks=[],this.err=a,this.msg=this.strm.msg},c.Inflate=m,c.inflate=d,c.inflateRaw=e,c.ungzip=d},{"./utils/common":27,"./utils/strings":28,"./zlib/constants":30,"./zlib/gzheader":33,"./zlib/inflate.js":35,"./zlib/messages":37,"./zlib/zstream":39}],27:[function(a,b,c){"use strict";var d="undefined"!=typeof Uint8Array&&"undefined"!=typeof Uint16Array&&"undefined"!=typeof Int32Array;c.assign=function(a){for(var b=Array.prototype.slice.call(arguments,1);b.length;){var c=b.shift();if(c){if("object"!=typeof c)throw new TypeError(c+"must be non-object");for(var d in c)c.hasOwnProperty(d)&&(a[d]=c[d])}}return a},c.shrinkBuf=function(a,b){return a.length===b?a:a.subarray?a.subarray(0,b):(a.length=b,a)};var e={arraySet:function(a,b,c,d,e){if(b.subarray&&a.subarray)return void a.set(b.subarray(c,c+d),e);for(var f=0;d>f;f++)a[e+f]=b[c+f]},flattenChunks:function(a){var b,c,d,e,f,g;for(d=0,b=0,c=a.length;c>b;b++)d+=a[b].length;for(g=new Uint8Array(d),e=0,b=0,c=a.length;c>b;b++)f=a[b],g.set(f,e),e+=f.length;return g}},f={arraySet:function(a,b,c,d,e){for(var f=0;d>f;f++)a[e+f]=b[c+f]},flattenChunks:function(a){return[].concat.apply([],a)}};c.setTyped=function(a){a?(c.Buf8=Uint8Array,c.Buf16=Uint16Array,c.Buf32=Int32Array,c.assign(c,e)):(c.Buf8=Array,c.Buf16=Array,c.Buf32=Array,c.assign(c,f))},c.setTyped(d)},{}],28:[function(a,b,c){"use strict";function d(a,b){if(65537>b&&(a.subarray&&g||!a.subarray&&f))return String.fromCharCode.apply(null,e.shrinkBuf(a,b));for(var c="",d=0;b>d;d++)c+=String.fromCharCode(a[d]);return c}var e=a("./common"),f=!0,g=!0;try{String.fromCharCode.apply(null,[0])}catch(h){f=!1}try{String.fromCharCode.apply(null,new Uint8Array(1))}catch(h){g=!1}for(var i=new e.Buf8(256),j=0;256>j;j++)i[j]=j>=252?6:j>=248?5:j>=240?4:j>=224?3:j>=192?2:1;i[254]=i[254]=1,c.string2buf=function(a){var b,c,d,f,g,h=a.length,i=0;for(f=0;h>f;f++)c=a.charCodeAt(f),55296===(64512&c)&&h>f+1&&(d=a.charCodeAt(f+1),56320===(64512&d)&&(c=65536+(c-55296<<10)+(d-56320),f++)),i+=128>c?1:2048>c?2:65536>c?3:4;for(b=new e.Buf8(i),g=0,f=0;i>g;f++)c=a.charCodeAt(f),55296===(64512&c)&&h>f+1&&(d=a.charCodeAt(f+1),56320===(64512&d)&&(c=65536+(c-55296<<10)+(d-56320),f++)),128>c?b[g++]=c:2048>c?(b[g++]=192|c>>>6,b[g++]=128|63&c):65536>c?(b[g++]=224|c>>>12,b[g++]=128|c>>>6&63,b[g++]=128|63&c):(b[g++]=240|c>>>18,b[g++]=128|c>>>12&63,b[g++]=128|c>>>6&63,b[g++]=128|63&c);return b},c.buf2binstring=function(a){return d(a,a.length)},c.binstring2buf=function(a){for(var b=new e.Buf8(a.length),c=0,d=b.length;d>c;c++)b[c]=a.charCodeAt(c);return b},c.buf2string=function(a,b){var c,e,f,g,h=b||a.length,j=new Array(2*h);for(e=0,c=0;h>c;)if(f=a[c++],128>f)j[e++]=f;else if(g=i[f],g>4)j[e++]=65533,c+=g-1;else{for(f&=2===g?31:3===g?15:7;g>1&&h>c;)f=f<<6|63&a[c++],g--;g>1?j[e++]=65533:65536>f?j[e++]=f:(f-=65536,j[e++]=55296|f>>10&1023,j[e++]=56320|1023&f)}return d(j,e)},c.utf8border=function(a,b){var c;for(b=b||a.length,b>a.length&&(b=a.length),c=b-1;c>=0&&128===(192&a[c]);)c--;return 0>c?b:0===c?b:c+i[a[c]]>b?c:b}},{"./common":27}],29:[function(a,b){"use strict";function c(a,b,c,d){for(var e=65535&a|0,f=a>>>16&65535|0,g=0;0!==c;){g=c>2e3?2e3:c,c-=g;do e=e+b[d++]|0,f=f+e|0;while(--g);e%=65521,f%=65521}return e|f<<16|0}b.exports=c},{}],30:[function(a,b){b.exports={Z_NO_FLUSH:0,Z_PARTIAL_FLUSH:1,Z_SYNC_FLUSH:2,Z_FULL_FLUSH:3,Z_FINISH:4,Z_BLOCK:5,Z_TREES:6,Z_OK:0,Z_STREAM_END:1,Z_NEED_DICT:2,Z_ERRNO:-1,Z_STREAM_ERROR:-2,Z_DATA_ERROR:-3,Z_BUF_ERROR:-5,Z_NO_COMPRESSION:0,Z_BEST_SPEED:1,Z_BEST_COMPRESSION:9,Z_DEFAULT_COMPRESSION:-1,Z_FILTERED:1,Z_HUFFMAN_ONLY:2,Z_RLE:3,Z_FIXED:4,Z_DEFAULT_STRATEGY:0,Z_BINARY:0,Z_TEXT:1,Z_UNKNOWN:2,Z_DEFLATED:8}},{}],31:[function(a,b){"use strict";function c(){for(var a,b=[],c=0;256>c;c++){a=c;for(var d=0;8>d;d++)a=1&a?3988292384^a>>>1:a>>>1;b[c]=a}return b}function d(a,b,c,d){var f=e,g=d+c;a=-1^a;for(var h=d;g>h;h++)a=a>>>8^f[255&(a^b[h])];return-1^a}var e=c();b.exports=d},{}],32:[function(a,b,c){"use strict";function d(a,b){return a.msg=G[b],b}function e(a){return(a<<1)-(a>4?9:0)}function f(a){for(var b=a.length;--b>=0;)a[b]=0}function g(a){var b=a.state,c=b.pending;c>a.avail_out&&(c=a.avail_out),0!==c&&(C.arraySet(a.output,b.pending_buf,b.pending_out,c,a.next_out),a.next_out+=c,b.pending_out+=c,a.total_out+=c,a.avail_out-=c,b.pending-=c,0===b.pending&&(b.pending_out=0))}function h(a,b){D._tr_flush_block(a,a.block_start>=0?a.block_start:-1,a.strstart-a.block_start,b),a.block_start=a.strstart,g(a.strm)}function i(a,b){a.pending_buf[a.pending++]=b}function j(a,b){a.pending_buf[a.pending++]=b>>>8&255,a.pending_buf[a.pending++]=255&b}function k(a,b,c,d){var e=a.avail_in;return e>d&&(e=d),0===e?0:(a.avail_in-=e,C.arraySet(b,a.input,a.next_in,e,c),1===a.state.wrap?a.adler=E(a.adler,b,e,c):2===a.state.wrap&&(a.adler=F(a.adler,b,e,c)),a.next_in+=e,a.total_in+=e,e)}function l(a,b){var 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d(a,0===a.avail_out?Q:O);if(h.strm=a,c=h.last_flush,h.last_flush=b,h.status===lb)if(2===h.wrap)a.adler=0,i(h,31),i(h,139),i(h,8),h.gzhead?(i(h,(h.gzhead.text?1:0)+(h.gzhead.hcrc?2:0)+(h.gzhead.extra?4:0)+(h.gzhead.name?8:0)+(h.gzhead.comment?16:0)),i(h,255&h.gzhead.time),i(h,h.gzhead.time>>8&255),i(h,h.gzhead.time>>16&255),i(h,h.gzhead.time>>24&255),i(h,9===h.level?2:h.strategy>=T||h.level<2?4:0),i(h,255&h.gzhead.os),h.gzhead.extra&&h.gzhead.extra.length&&(i(h,255&h.gzhead.extra.length),i(h,h.gzhead.extra.length>>8&255)),h.gzhead.hcrc&&(a.adler=F(a.adler,h.pending_buf,h.pending,0)),h.gzindex=0,h.status=mb):(i(h,0),i(h,0),i(h,0),i(h,0),i(h,0),i(h,9===h.level?2:h.strategy>=T||h.level<2?4:0),i(h,wb),h.status=qb);else{var 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h.status=pb;if(h.status===pb&&(h.gzhead.hcrc?(h.pending+2>h.pending_buf_size&&g(a),h.pending+2<=h.pending_buf_size&&(i(h,255&a.adler),i(h,a.adler>>8&255),a.adler=0,h.status=qb)):h.status=qb),0!==h.pending){if(g(a),0===a.avail_out)return h.last_flush=-1,M}else if(0===a.avail_in&&e(b)<=e(c)&&b!==K)return d(a,Q);if(h.status===rb&&0!==a.avail_in)return d(a,Q);if(0!==a.avail_in||0!==h.lookahead||b!==H&&h.status!==rb){var o=h.strategy===T?r(h,b):h.strategy===U?q(h,b):B[h.level].func(h,b);if((o===ub||o===vb)&&(h.status=rb),o===sb||o===ub)return 0===a.avail_out&&(h.last_flush=-1),M;if(o===tb&&(b===I?D._tr_align(h):b!==L&&(D._tr_stored_block(h,0,0,!1),b===J&&(f(h.head),0===h.lookahead&&(h.strstart=0,h.block_start=0,h.insert=0))),g(a),0===a.avail_out))return h.last_flush=-1,M}return b!==K?M:h.wrap<=0?N:(2===h.wrap?(i(h,255&a.adler),i(h,a.adler>>8&255),i(h,a.adler>>16&255),i(h,a.adler>>24&255),i(h,255&a.total_in),i(h,a.total_in>>8&255),i(h,a.total_in>>16&255),i(h,a.total_in>>24&255)):(j(h,a.adler>>>16),j(h,65535&a.adler)),g(a),h.wrap>0&&(h.wrap=-h.wrap),0!==h.pending?M:N)}function A(a){var b;return a&&a.state?(b=a.state.status,b!==lb&&b!==mb&&b!==nb&&b!==ob&&b!==pb&&b!==qb&&b!==rb?d(a,O):(a.state=null,b===qb?d(a,P):M)):O}var B,C=a("../utils/common"),D=a("./trees"),E=a("./adler32"),F=a("./crc32"),G=a("./messages"),H=0,I=1,J=3,K=4,L=5,M=0,N=1,O=-2,P=-3,Q=-5,R=-1,S=1,T=2,U=3,V=4,W=0,X=2,Y=8,Z=9,$=15,_=8,ab=29,bb=256,cb=bb+1+ab,db=30,eb=19,fb=2*cb+1,gb=15,hb=3,ib=258,jb=ib+hb+1,kb=32,lb=42,mb=69,nb=73,ob=91,pb=103,qb=113,rb=666,sb=1,tb=2,ub=3,vb=4,wb=3,xb=function(a,b,c,d,e){this.good_length=a,this.max_lazy=b,this.nice_length=c,this.max_chain=d,this.func=e};B=[new xb(0,0,0,0,n),new xb(4,4,8,4,o),new xb(4,5,16,8,o),new xb(4,6,32,32,o),new xb(4,4,16,16,p),new xb(8,16,32,32,p),new xb(8,16,128,128,p),new xb(8,32,128,256,p),new xb(32,128,258,1024,p),new xb(32,258,258,4096,p)],c.deflateInit=y,c.deflateInit2=x,c.deflateReset=v,c.deflateResetKeep=u,c.deflateSetHeader=w,c.deflate=z,c.deflateEnd=A,c.deflateInfo="pako deflate (from Nodeca project)"},{"../utils/common":27,"./adler32":29,"./crc32":31,"./messages":37,"./trees":38}],33:[function(a,b){"use strict";function c(){this.text=0,this.time=0,this.xflags=0,this.os=0,this.extra=null,this.extra_len=0,this.name="",this.comment="",this.hcrc=0,this.done=!1}b.exports=c},{}],34:[function(a,b){"use strict";var c=30,d=12;b.exports=function(a,b){var e,f,g,h,i,j,k,l,m,n,o,p,q,r,s,t,u,v,w,x,y,z,A,B,C;e=a.state,f=a.next_in,B=a.input,g=f+(a.avail_in-5),h=a.next_out,C=a.output,i=h-(b-a.avail_out),j=h+(a.avail_out-257),k=e.dmax,l=e.wsize,m=e.whave,n=e.wnext,o=e.window,p=e.hold,q=e.bits,r=e.lencode,s=e.distcode,t=(1<<e.lenbits)-1,u=(1<<e.distbits)-1;a:do{15>q&&(p+=B[f++]<<q,q+=8,p+=B[f++]<<q,q+=8),v=r[p&t];b:for(;;){if(w=v>>>24,p>>>=w,q-=w,w=v>>>16&255,0===w)C[h++]=65535&v;else{if(!(16&w)){if(0===(64&w)){v=r[(65535&v)+(p&(1<<w)-1)];continue b}if(32&w){e.mode=d;break a}a.msg="invalid literal/length code",e.mode=c;break a}x=65535&v,w&=15,w&&(w>q&&(p+=B[f++]<<q,q+=8),x+=p&(1<<w)-1,p>>>=w,q-=w),15>q&&(p+=B[f++]<<q,q+=8,p+=B[f++]<<q,q+=8),v=s[p&u];c:for(;;){if(w=v>>>24,p>>>=w,q-=w,w=v>>>16&255,!(16&w)){if(0===(64&w)){v=s[(65535&v)+(p&(1<<w)-1)];continue c}a.msg="invalid distance code",e.mode=c;break a}if(y=65535&v,w&=15,w>q&&(p+=B[f++]<<q,q+=8,w>q&&(p+=B[f++]<<q,q+=8)),y+=p&(1<<w)-1,y>k){a.msg="invalid distance too far back",e.mode=c;break a}if(p>>>=w,q-=w,w=h-i,y>w){if(w=y-w,w>m&&e.sane){a.msg="invalid distance too far back",e.mode=c;break a}if(z=0,A=o,0===n){if(z+=l-w,x>w){x-=w;do C[h++]=o[z++];while(--w);z=h-y,A=C}}else if(w>n){if(z+=l+n-w,w-=n,x>w){x-=w;do C[h++]=o[z++];while(--w);if(z=0,x>n){w=n,x-=w;do C[h++]=o[z++];while(--w);z=h-y,A=C}}}else if(z+=n-w,x>w){x-=w;do C[h++]=o[z++];while(--w);z=h-y,A=C}for(;x>2;)C[h++]=A[z++],C[h++]=A[z++],C[h++]=A[z++],x-=3;x&&(C[h++]=A[z++],x>1&&(C[h++]=A[z++]))}else{z=h-y;do C[h++]=C[z++],C[h++]=C[z++],C[h++]=C[z++],x-=3;while(x>2);x&&(C[h++]=C[z++],x>1&&(C[h++]=C[z++]))}break}}break}}while(g>f&&j>h);x=q>>3,f-=x,q-=x<<3,p&=(1<<q)-1,a.next_in=f,a.next_out=h,a.avail_in=g>f?5+(g-f):5-(f-g),a.avail_out=j>h?257+(j-h):257-(h-j),e.hold=p,e.bits=q}},{}],35:[function(a,b,c){"use strict";function d(a){return(a>>>24&255)+(a>>>8&65280)+((65280&a)<<8)+((255&a)<<24)}function e(){this.mode=0,this.last=!1,this.wrap=0,this.havedict=!1,this.flags=0,this.dmax=0,this.check=0,this.total=0,this.head=null,this.wbits=0,this.wsize=0,this.whave=0,this.wnext=0,this.window=null,this.hold=0,this.bits=0,this.length=0,this.offset=0,this.extra=0,this.lencode=null,this.distcode=null,this.lenbits=0,this.distbits=0,this.ncode=0,this.nlen=0,this.ndist=0,this.have=0,this.next=null,this.lens=new r.Buf16(320),this.work=new r.Buf16(288),this.lendyn=null,this.distdyn=null,this.sane=0,this.back=0,this.was=0}function f(a){var b;return a&&a.state?(b=a.state,a.total_in=a.total_out=b.total=0,a.msg="",b.wrap&&(a.adler=1&b.wrap),b.mode=K,b.last=0,b.havedict=0,b.dmax=32768,b.head=null,b.hold=0,b.bits=0,b.lencode=b.lendyn=new r.Buf32(ob),b.distcode=b.distdyn=new r.Buf32(pb),b.sane=1,b.back=-1,C):F}function g(a){var b;return a&&a.state?(b=a.state,b.wsize=0,b.whave=0,b.wnext=0,f(a)):F}function h(a,b){var c,d;return a&&a.state?(d=a.state,0>b?(c=0,b=-b):(c=(b>>4)+1,48>b&&(b&=15)),b&&(8>b||b>15)?F:(null!==d.window&&d.wbits!==b&&(d.window=null),d.wrap=c,d.wbits=b,g(a))):F}function i(a,b){var c,d;return a?(d=new e,a.state=d,d.window=null,c=h(a,b),c!==C&&(a.state=null),c):F}function j(a){return i(a,rb)}function k(a){if(sb){var b;for(p=new r.Buf32(512),q=new r.Buf32(32),b=0;144>b;)a.lens[b++]=8;for(;256>b;)a.lens[b++]=9;for(;280>b;)a.lens[b++]=7;for(;288>b;)a.lens[b++]=8;for(v(x,a.lens,0,288,p,0,a.work,{bits:9}),b=0;32>b;)a.lens[b++]=5;v(y,a.lens,0,32,q,0,a.work,{bits:5}),sb=!1}a.lencode=p,a.lenbits=9,a.distcode=q,a.distbits=5}function l(a,b,c,d){var e,f=a.state;return null===f.window&&(f.wsize=1<<f.wbits,f.wnext=0,f.whave=0,f.window=new r.Buf8(f.wsize)),d>=f.wsize?(r.arraySet(f.window,b,c-f.wsize,f.wsize,0),f.wnext=0,f.whave=f.wsize):(e=f.wsize-f.wnext,e>d&&(e=d),r.arraySet(f.window,b,c-d,e,f.wnext),d-=e,d?(r.arraySet(f.window,b,c-d,d,0),f.wnext=d,f.whave=f.wsize):(f.wnext+=e,f.wnext===f.wsize&&(f.wnext=0),f.whave<f.wsize&&(f.whave+=e))),0}function m(a,b){var c,e,f,g,h,i,j,m,n,o,p,q,ob,pb,qb,rb,sb,tb,ub,vb,wb,xb,yb,zb,Ab=0,Bb=new r.Buf8(4),Cb=[16,17,18,0,8,7,9,6,10,5,11,4,12,3,13,2,14,1,15];if(!a||!a.state||!a.output||!a.input&&0!==a.avail_in)return F;c=a.state,c.mode===V&&(c.mode=W),h=a.next_out,f=a.output,j=a.avail_out,g=a.next_in,e=a.input,i=a.avail_in,m=c.hold,n=c.bits,o=i,p=j,xb=C;a:for(;;)switch(c.mode){case K:if(0===c.wrap){c.mode=W;break}for(;16>n;){if(0===i)break a;i--,m+=e[g++]<<n,n+=8}if(2&c.wrap&&35615===m){c.check=0,Bb[0]=255&m,Bb[1]=m>>>8&255,c.check=t(c.check,Bb,2,0),m=0,n=0,c.mode=L;break}if(c.flags=0,c.head&&(c.head.done=!1),!(1&c.wrap)||(((255&m)<<8)+(m>>8))%31){a.msg="incorrect header 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O:if(1024&c.flags){for(;16>n;){if(0===i)break a;i--,m+=e[g++]<<n,n+=8}c.length=m,c.head&&(c.head.extra_len=m),512&c.flags&&(Bb[0]=255&m,Bb[1]=m>>>8&255,c.check=t(c.check,Bb,2,0)),m=0,n=0}else c.head&&(c.head.extra=null);c.mode=P;case P:if(1024&c.flags&&(q=c.length,q>i&&(q=i),q&&(c.head&&(wb=c.head.extra_len-c.length,c.head.extra||(c.head.extra=new Array(c.head.extra_len)),r.arraySet(c.head.extra,e,g,q,wb)),512&c.flags&&(c.check=t(c.check,e,q,g)),i-=q,g+=q,c.length-=q),c.length))break a;c.length=0,c.mode=Q;case Q:if(2048&c.flags){if(0===i)break a;q=0;do wb=e[g+q++],c.head&&wb&&c.length<65536&&(c.head.name+=String.fromCharCode(wb));while(wb&&i>q);if(512&c.flags&&(c.check=t(c.check,e,q,g)),i-=q,g+=q,wb)break a}else c.head&&(c.head.name=null);c.length=0,c.mode=R;case R:if(4096&c.flags){if(0===i)break a;q=0;do wb=e[g+q++],c.head&&wb&&c.length<65536&&(c.head.comment+=String.fromCharCode(wb));while(wb&&i>q);if(512&c.flags&&(c.check=t(c.check,e,q,g)),i-=q,g+=q,wb)break a}else c.head&&(c.head.comment=null);c.mode=S;case S:if(512&c.flags){for(;16>n;){if(0===i)break a;i--,m+=e[g++]<<n,n+=8}if(m!==(65535&c.check)){a.msg="header crc mismatch",c.mode=lb;break}m=0,n=0}c.head&&(c.head.hcrc=c.flags>>9&1,c.head.done=!0),a.adler=c.check=0,c.mode=V;break;case T:for(;32>n;){if(0===i)break a;i--,m+=e[g++]<<n,n+=8}a.adler=c.check=d(m),m=0,n=0,c.mode=U;case U:if(0===c.havedict)return a.next_out=h,a.avail_out=j,a.next_in=g,a.avail_in=i,c.hold=m,c.bits=n,E;a.adler=c.check=1,c.mode=V;case V:if(b===A||b===B)break a;case W:if(c.last){m>>>=7&n,n-=7&n,c.mode=ib;break}for(;3>n;){if(0===i)break a;i--,m+=e[g++]<<n,n+=8}switch(c.last=1&m,m>>>=1,n-=1,3&m){case 0:c.mode=X;break;case 1:if(k(c),c.mode=bb,b===B){m>>>=2,n-=2;break a}break;case 2:c.mode=$;break;case 3:a.msg="invalid block type",c.mode=lb}m>>>=2,n-=2;break;case X:for(m>>>=7&n,n-=7&n;32>n;){if(0===i)break a;i--,m+=e[g++]<<n,n+=8}if((65535&m)!==(m>>>16^65535)){a.msg="invalid stored block lengths",c.mode=lb;break}if(c.length=65535&m,m=0,n=0,c.mode=Y,b===B)break a;case Y:c.mode=Z;case Z:if(q=c.length){if(q>i&&(q=i),q>j&&(q=j),0===q)break a;r.arraySet(f,e,g,q,h),i-=q,g+=q,j-=q,h+=q,c.length-=q;break}c.mode=V;break;case $:for(;14>n;){if(0===i)break a;i--,m+=e[g++]<<n,n+=8}if(c.nlen=(31&m)+257,m>>>=5,n-=5,c.ndist=(31&m)+1,m>>>=5,n-=5,c.ncode=(15&m)+4,m>>>=4,n-=4,c.nlen>286||c.ndist>30){a.msg="too many length or distance symbols",c.mode=lb;break}c.have=0,c.mode=_;case _:for(;c.have<c.ncode;){for(;3>n;){if(0===i)break a;i--,m+=e[g++]<<n,n+=8}c.lens[Cb[c.have++]]=7&m,m>>>=3,n-=3}for(;c.have<19;)c.lens[Cb[c.have++]]=0;if(c.lencode=c.lendyn,c.lenbits=7,yb={bits:c.lenbits},xb=v(w,c.lens,0,19,c.lencode,0,c.work,yb),c.lenbits=yb.bits,xb){a.msg="invalid code lengths set",c.mode=lb;break}c.have=0,c.mode=ab;case ab:for(;c.have<c.nlen+c.ndist;){for(;Ab=c.lencode[m&(1<<c.lenbits)-1],qb=Ab>>>24,rb=Ab>>>16&255,sb=65535&Ab,!(n>=qb);){if(0===i)break a;i--,m+=e[g++]<<n,n+=8}if(16>sb)m>>>=qb,n-=qb,c.lens[c.have++]=sb;else{if(16===sb){for(zb=qb+2;zb>n;){if(0===i)break a;i--,m+=e[g++]<<n,n+=8}if(m>>>=qb,n-=qb,0===c.have){a.msg="invalid bit length repeat",c.mode=lb;break}wb=c.lens[c.have-1],q=3+(3&m),m>>>=2,n-=2}else if(17===sb){for(zb=qb+3;zb>n;){if(0===i)break a;i--,m+=e[g++]<<n,n+=8}m>>>=qb,n-=qb,wb=0,q=3+(7&m),m>>>=3,n-=3}else{for(zb=qb+7;zb>n;){if(0===i)break a;i--,m+=e[g++]<<n,n+=8}m>>>=qb,n-=qb,wb=0,q=11+(127&m),m>>>=7,n-=7}if(c.have+q>c.nlen+c.ndist){a.msg="invalid bit length repeat",c.mode=lb;break}for(;q--;)c.lens[c.have++]=wb}}if(c.mode===lb)break;if(0===c.lens[256]){a.msg="invalid code -- missing end-of-block",c.mode=lb;break}if(c.lenbits=9,yb={bits:c.lenbits},xb=v(x,c.lens,0,c.nlen,c.lencode,0,c.work,yb),c.lenbits=yb.bits,xb){a.msg="invalid literal/lengths set",c.mode=lb;break}if(c.distbits=6,c.distcode=c.distdyn,yb={bits:c.distbits},xb=v(y,c.lens,c.nlen,c.ndist,c.distcode,0,c.work,yb),c.distbits=yb.bits,xb){a.msg="invalid distances set",c.mode=lb;break}if(c.mode=bb,b===B)break a;case bb:c.mode=cb;case cb:if(i>=6&&j>=258){a.next_out=h,a.avail_out=j,a.next_in=g,a.avail_in=i,c.hold=m,c.bits=n,u(a,p),h=a.next_out,f=a.output,j=a.avail_out,g=a.next_in,e=a.input,i=a.avail_in,m=c.hold,n=c.bits,c.mode===V&&(c.back=-1); +break}for(c.back=0;Ab=c.lencode[m&(1<<c.lenbits)-1],qb=Ab>>>24,rb=Ab>>>16&255,sb=65535&Ab,!(n>=qb);){if(0===i)break a;i--,m+=e[g++]<<n,n+=8}if(rb&&0===(240&rb)){for(tb=qb,ub=rb,vb=sb;Ab=c.lencode[vb+((m&(1<<tb+ub)-1)>>tb)],qb=Ab>>>24,rb=Ab>>>16&255,sb=65535&Ab,!(n>=tb+qb);){if(0===i)break a;i--,m+=e[g++]<<n,n+=8}m>>>=tb,n-=tb,c.back+=tb}if(m>>>=qb,n-=qb,c.back+=qb,c.length=sb,0===rb){c.mode=hb;break}if(32&rb){c.back=-1,c.mode=V;break}if(64&rb){a.msg="invalid literal/length code",c.mode=lb;break}c.extra=15&rb,c.mode=db;case db:if(c.extra){for(zb=c.extra;zb>n;){if(0===i)break a;i--,m+=e[g++]<<n,n+=8}c.length+=m&(1<<c.extra)-1,m>>>=c.extra,n-=c.extra,c.back+=c.extra}c.was=c.length,c.mode=eb;case eb:for(;Ab=c.distcode[m&(1<<c.distbits)-1],qb=Ab>>>24,rb=Ab>>>16&255,sb=65535&Ab,!(n>=qb);){if(0===i)break a;i--,m+=e[g++]<<n,n+=8}if(0===(240&rb)){for(tb=qb,ub=rb,vb=sb;Ab=c.distcode[vb+((m&(1<<tb+ub)-1)>>tb)],qb=Ab>>>24,rb=Ab>>>16&255,sb=65535&Ab,!(n>=tb+qb);){if(0===i)break a;i--,m+=e[g++]<<n,n+=8}m>>>=tb,n-=tb,c.back+=tb}if(m>>>=qb,n-=qb,c.back+=qb,64&rb){a.msg="invalid distance code",c.mode=lb;break}c.offset=sb,c.extra=15&rb,c.mode=fb;case fb:if(c.extra){for(zb=c.extra;zb>n;){if(0===i)break a;i--,m+=e[g++]<<n,n+=8}c.offset+=m&(1<<c.extra)-1,m>>>=c.extra,n-=c.extra,c.back+=c.extra}if(c.offset>c.dmax){a.msg="invalid distance too far back",c.mode=lb;break}c.mode=gb;case gb:if(0===j)break a;if(q=p-j,c.offset>q){if(q=c.offset-q,q>c.whave&&c.sane){a.msg="invalid distance too far back",c.mode=lb;break}q>c.wnext?(q-=c.wnext,ob=c.wsize-q):ob=c.wnext-q,q>c.length&&(q=c.length),pb=c.window}else pb=f,ob=h-c.offset,q=c.length;q>j&&(q=j),j-=q,c.length-=q;do f[h++]=pb[ob++];while(--q);0===c.length&&(c.mode=cb);break;case hb:if(0===j)break a;f[h++]=c.length,j--,c.mode=cb;break;case ib:if(c.wrap){for(;32>n;){if(0===i)break a;i--,m|=e[g++]<<n,n+=8}if(p-=j,a.total_out+=p,c.total+=p,p&&(a.adler=c.check=c.flags?t(c.check,f,p,h-p):s(c.check,f,p,h-p)),p=j,(c.flags?m:d(m))!==c.check){a.msg="incorrect data check",c.mode=lb;break}m=0,n=0}c.mode=jb;case jb:if(c.wrap&&c.flags){for(;32>n;){if(0===i)break a;i--,m+=e[g++]<<n,n+=8}if(m!==(4294967295&c.total)){a.msg="incorrect length check",c.mode=lb;break}m=0,n=0}c.mode=kb;case kb:xb=D;break a;case lb:xb=G;break a;case mb:return H;case nb:default:return F}return a.next_out=h,a.avail_out=j,a.next_in=g,a.avail_in=i,c.hold=m,c.bits=n,(c.wsize||p!==a.avail_out&&c.mode<lb&&(c.mode<ib||b!==z))&&l(a,a.output,a.next_out,p-a.avail_out)?(c.mode=mb,H):(o-=a.avail_in,p-=a.avail_out,a.total_in+=o,a.total_out+=p,c.total+=p,c.wrap&&p&&(a.adler=c.check=c.flags?t(c.check,f,p,a.next_out-p):s(c.check,f,p,a.next_out-p)),a.data_type=c.bits+(c.last?64:0)+(c.mode===V?128:0)+(c.mode===bb||c.mode===Y?256:0),(0===o&&0===p||b===z)&&xb===C&&(xb=I),xb)}function n(a){if(!a||!a.state)return F;var b=a.state;return b.window&&(b.window=null),a.state=null,C}function o(a,b){var c;return a&&a.state?(c=a.state,0===(2&c.wrap)?F:(c.head=b,b.done=!1,C)):F}var p,q,r=a("../utils/common"),s=a("./adler32"),t=a("./crc32"),u=a("./inffast"),v=a("./inftrees"),w=0,x=1,y=2,z=4,A=5,B=6,C=0,D=1,E=2,F=-2,G=-3,H=-4,I=-5,J=8,K=1,L=2,M=3,N=4,O=5,P=6,Q=7,R=8,S=9,T=10,U=11,V=12,W=13,X=14,Y=15,Z=16,$=17,_=18,ab=19,bb=20,cb=21,db=22,eb=23,fb=24,gb=25,hb=26,ib=27,jb=28,kb=29,lb=30,mb=31,nb=32,ob=852,pb=592,qb=15,rb=qb,sb=!0;c.inflateReset=g,c.inflateReset2=h,c.inflateResetKeep=f,c.inflateInit=j,c.inflateInit2=i,c.inflate=m,c.inflateEnd=n,c.inflateGetHeader=o,c.inflateInfo="pako inflate (from Nodeca project)"},{"../utils/common":27,"./adler32":29,"./crc32":31,"./inffast":34,"./inftrees":36}],36:[function(a,b){"use strict";var c=a("../utils/common"),d=15,e=852,f=592,g=0,h=1,i=2,j=[3,4,5,6,7,8,9,10,11,13,15,17,19,23,27,31,35,43,51,59,67,83,99,115,131,163,195,227,258,0,0],k=[16,16,16,16,16,16,16,16,17,17,17,17,18,18,18,18,19,19,19,19,20,20,20,20,21,21,21,21,16,72,78],l=[1,2,3,4,5,7,9,13,17,25,33,49,65,97,129,193,257,385,513,769,1025,1537,2049,3073,4097,6145,8193,12289,16385,24577,0,0],m=[16,16,16,16,17,17,18,18,19,19,20,20,21,21,22,22,23,23,24,24,25,25,26,26,27,27,28,28,29,29,64,64];b.exports=function(a,b,n,o,p,q,r,s){var t,u,v,w,x,y,z,A,B,C=s.bits,D=0,E=0,F=0,G=0,H=0,I=0,J=0,K=0,L=0,M=0,N=null,O=0,P=new c.Buf16(d+1),Q=new c.Buf16(d+1),R=null,S=0;for(D=0;d>=D;D++)P[D]=0;for(E=0;o>E;E++)P[b[n+E]]++;for(H=C,G=d;G>=1&&0===P[G];G--);if(H>G&&(H=G),0===G)return p[q++]=20971520,p[q++]=20971520,s.bits=1,0;for(F=1;G>F&&0===P[F];F++);for(F>H&&(H=F),K=1,D=1;d>=D;D++)if(K<<=1,K-=P[D],0>K)return-1;if(K>0&&(a===g||1!==G))return-1;for(Q[1]=0,D=1;d>D;D++)Q[D+1]=Q[D]+P[D];for(E=0;o>E;E++)0!==b[n+E]&&(r[Q[b[n+E]]++]=E);if(a===g?(N=R=r,y=19):a===h?(N=j,O-=257,R=k,S-=257,y=256):(N=l,R=m,y=-1),M=0,E=0,D=F,x=q,I=H,J=0,v=-1,L=1<<H,w=L-1,a===h&&L>e||a===i&&L>f)return 1;for(var T=0;;){T++,z=D-J,r[E]<y?(A=0,B=r[E]):r[E]>y?(A=R[S+r[E]],B=N[O+r[E]]):(A=96,B=0),t=1<<D-J,u=1<<I,F=u;do u-=t,p[x+(M>>J)+u]=z<<24|A<<16|B|0;while(0!==u);for(t=1<<D-1;M&t;)t>>=1;if(0!==t?(M&=t-1,M+=t):M=0,E++,0===--P[D]){if(D===G)break;D=b[n+r[E]]}if(D>H&&(M&w)!==v){for(0===J&&(J=H),x+=F,I=D-J,K=1<<I;G>I+J&&(K-=P[I+J],!(0>=K));)I++,K<<=1;if(L+=1<<I,a===h&&L>e||a===i&&L>f)return 1;v=M&w,p[v]=H<<24|I<<16|x-q|0}}return 0!==M&&(p[x+M]=D-J<<24|64<<16|0),s.bits=H,0}},{"../utils/common":27}],37:[function(a,b){"use strict";b.exports={2:"need dictionary",1:"stream end",0:"","-1":"file error","-2":"stream error","-3":"data error","-4":"insufficient memory","-5":"buffer error","-6":"incompatible version"}},{}],38:[function(a,b,c){"use strict";function d(a){for(var b=a.length;--b>=0;)a[b]=0}function e(a){return 256>a?gb[a]:gb[256+(a>>>7)]}function f(a,b){a.pending_buf[a.pending++]=255&b,a.pending_buf[a.pending++]=b>>>8&255}function g(a,b,c){a.bi_valid>V-c?(a.bi_buf|=b<<a.bi_valid&65535,f(a,a.bi_buf),a.bi_buf=b>>V-a.bi_valid,a.bi_valid+=c-V):(a.bi_buf|=b<<a.bi_valid&65535,a.bi_valid+=c)}function h(a,b,c){g(a,c[2*b],c[2*b+1])}function i(a,b){var c=0;do c|=1&a,a>>>=1,c<<=1;while(--b>0);return c>>>1}function j(a){16===a.bi_valid?(f(a,a.bi_buf),a.bi_buf=0,a.bi_valid=0):a.bi_valid>=8&&(a.pending_buf[a.pending++]=255&a.bi_buf,a.bi_buf>>=8,a.bi_valid-=8)}function k(a,b){var c,d,e,f,g,h,i=b.dyn_tree,j=b.max_code,k=b.stat_desc.static_tree,l=b.stat_desc.has_stree,m=b.stat_desc.extra_bits,n=b.stat_desc.extra_base,o=b.stat_desc.max_length,p=0;for(f=0;U>=f;f++)a.bl_count[f]=0;for(i[2*a.heap[a.heap_max]+1]=0,c=a.heap_max+1;T>c;c++)d=a.heap[c],f=i[2*i[2*d+1]+1]+1,f>o&&(f=o,p++),i[2*d+1]=f,d>j||(a.bl_count[f]++,g=0,d>=n&&(g=m[d-n]),h=i[2*d],a.opt_len+=h*(f+g),l&&(a.static_len+=h*(k[2*d+1]+g)));if(0!==p){do{for(f=o-1;0===a.bl_count[f];)f--;a.bl_count[f]--,a.bl_count[f+1]+=2,a.bl_count[o]--,p-=2}while(p>0);for(f=o;0!==f;f--)for(d=a.bl_count[f];0!==d;)e=a.heap[--c],e>j||(i[2*e+1]!==f&&(a.opt_len+=(f-i[2*e+1])*i[2*e],i[2*e+1]=f),d--)}}function l(a,b,c){var d,e,f=new Array(U+1),g=0;for(d=1;U>=d;d++)f[d]=g=g+c[d-1]<<1;for(e=0;b>=e;e++){var h=a[2*e+1];0!==h&&(a[2*e]=i(f[h]++,h))}}function m(){var a,b,c,d,e,f=new Array(U+1);for(c=0,d=0;O-1>d;d++)for(ib[d]=c,a=0;a<1<<_[d];a++)hb[c++]=d;for(hb[c-1]=d,e=0,d=0;16>d;d++)for(jb[d]=e,a=0;a<1<<ab[d];a++)gb[e++]=d;for(e>>=7;R>d;d++)for(jb[d]=e<<7,a=0;a<1<<ab[d]-7;a++)gb[256+e++]=d;for(b=0;U>=b;b++)f[b]=0;for(a=0;143>=a;)eb[2*a+1]=8,a++,f[8]++;for(;255>=a;)eb[2*a+1]=9,a++,f[9]++;for(;279>=a;)eb[2*a+1]=7,a++,f[7]++;for(;287>=a;)eb[2*a+1]=8,a++,f[8]++;for(l(eb,Q+1,f),a=0;R>a;a++)fb[2*a+1]=5,fb[2*a]=i(a,5);kb=new nb(eb,_,P+1,Q,U),lb=new nb(fb,ab,0,R,U),mb=new nb(new Array(0),bb,0,S,W)}function n(a){var b;for(b=0;Q>b;b++)a.dyn_ltree[2*b]=0;for(b=0;R>b;b++)a.dyn_dtree[2*b]=0;for(b=0;S>b;b++)a.bl_tree[2*b]=0;a.dyn_ltree[2*X]=1,a.opt_len=a.static_len=0,a.last_lit=a.matches=0}function o(a){a.bi_valid>8?f(a,a.bi_buf):a.bi_valid>0&&(a.pending_buf[a.pending++]=a.bi_buf),a.bi_buf=0,a.bi_valid=0}function p(a,b,c,d){o(a),d&&(f(a,c),f(a,~c)),E.arraySet(a.pending_buf,a.window,b,c,a.pending),a.pending+=c}function q(a,b,c,d){var e=2*b,f=2*c;return a[e]<a[f]||a[e]===a[f]&&d[b]<=d[c]}function r(a,b,c){for(var d=a.heap[c],e=c<<1;e<=a.heap_len&&(e<a.heap_len&&q(b,a.heap[e+1],a.heap[e],a.depth)&&e++,!q(b,d,a.heap[e],a.depth));)a.heap[c]=a.heap[e],c=e,e<<=1;a.heap[c]=d}function s(a,b,c){var d,f,i,j,k=0;if(0!==a.last_lit)do d=a.pending_buf[a.d_buf+2*k]<<8|a.pending_buf[a.d_buf+2*k+1],f=a.pending_buf[a.l_buf+k],k++,0===d?h(a,f,b):(i=hb[f],h(a,i+P+1,b),j=_[i],0!==j&&(f-=ib[i],g(a,f,j)),d--,i=e(d),h(a,i,c),j=ab[i],0!==j&&(d-=jb[i],g(a,d,j)));while(k<a.last_lit);h(a,X,b)}function t(a,b){var c,d,e,f=b.dyn_tree,g=b.stat_desc.static_tree,h=b.stat_desc.has_stree,i=b.stat_desc.elems,j=-1;for(a.heap_len=0,a.heap_max=T,c=0;i>c;c++)0!==f[2*c]?(a.heap[++a.heap_len]=j=c,a.depth[c]=0):f[2*c+1]=0;for(;a.heap_len<2;)e=a.heap[++a.heap_len]=2>j?++j:0,f[2*e]=1,a.depth[e]=0,a.opt_len--,h&&(a.static_len-=g[2*e+1]);for(b.max_code=j,c=a.heap_len>>1;c>=1;c--)r(a,f,c);e=i;do c=a.heap[1],a.heap[1]=a.heap[a.heap_len--],r(a,f,1),d=a.heap[1],a.heap[--a.heap_max]=c,a.heap[--a.heap_max]=d,f[2*e]=f[2*c]+f[2*d],a.depth[e]=(a.depth[c]>=a.depth[d]?a.depth[c]:a.depth[d])+1,f[2*c+1]=f[2*d+1]=e,a.heap[1]=e++,r(a,f,1);while(a.heap_len>=2);a.heap[--a.heap_max]=a.heap[1],k(a,b),l(f,j,a.bl_count)}function u(a,b,c){var d,e,f=-1,g=b[1],h=0,i=7,j=4;for(0===g&&(i=138,j=3),b[2*(c+1)+1]=65535,d=0;c>=d;d++)e=g,g=b[2*(d+1)+1],++h<i&&e===g||(j>h?a.bl_tree[2*e]+=h:0!==e?(e!==f&&a.bl_tree[2*e]++,a.bl_tree[2*Y]++):10>=h?a.bl_tree[2*Z]++:a.bl_tree[2*$]++,h=0,f=e,0===g?(i=138,j=3):e===g?(i=6,j=3):(i=7,j=4))}function v(a,b,c){var d,e,f=-1,i=b[1],j=0,k=7,l=4;for(0===i&&(k=138,l=3),d=0;c>=d;d++)if(e=i,i=b[2*(d+1)+1],!(++j<k&&e===i)){if(l>j){do h(a,e,a.bl_tree);while(0!==--j)}else 0!==e?(e!==f&&(h(a,e,a.bl_tree),j--),h(a,Y,a.bl_tree),g(a,j-3,2)):10>=j?(h(a,Z,a.bl_tree),g(a,j-3,3)):(h(a,$,a.bl_tree),g(a,j-11,7));j=0,f=e,0===i?(k=138,l=3):e===i?(k=6,l=3):(k=7,l=4)}}function w(a){var b;for(u(a,a.dyn_ltree,a.l_desc.max_code),u(a,a.dyn_dtree,a.d_desc.max_code),t(a,a.bl_desc),b=S-1;b>=3&&0===a.bl_tree[2*cb[b]+1];b--);return a.opt_len+=3*(b+1)+5+5+4,b}function x(a,b,c,d){var e;for(g(a,b-257,5),g(a,c-1,5),g(a,d-4,4),e=0;d>e;e++)g(a,a.bl_tree[2*cb[e]+1],3);v(a,a.dyn_ltree,b-1),v(a,a.dyn_dtree,c-1)}function y(a){var b,c=4093624447;for(b=0;31>=b;b++,c>>>=1)if(1&c&&0!==a.dyn_ltree[2*b])return G;if(0!==a.dyn_ltree[18]||0!==a.dyn_ltree[20]||0!==a.dyn_ltree[26])return H;for(b=32;P>b;b++)if(0!==a.dyn_ltree[2*b])return H;return G}function z(a){pb||(m(),pb=!0),a.l_desc=new ob(a.dyn_ltree,kb),a.d_desc=new ob(a.dyn_dtree,lb),a.bl_desc=new ob(a.bl_tree,mb),a.bi_buf=0,a.bi_valid=0,n(a)}function A(a,b,c,d){g(a,(J<<1)+(d?1:0),3),p(a,b,c,!0)}function B(a){g(a,K<<1,3),h(a,X,eb),j(a)}function C(a,b,c,d){var e,f,h=0;a.level>0?(a.strm.data_type===I&&(a.strm.data_type=y(a)),t(a,a.l_desc),t(a,a.d_desc),h=w(a),e=a.opt_len+3+7>>>3,f=a.static_len+3+7>>>3,e>=f&&(e=f)):e=f=c+5,e>=c+4&&-1!==b?A(a,b,c,d):a.strategy===F||f===e?(g(a,(K<<1)+(d?1:0),3),s(a,eb,fb)):(g(a,(L<<1)+(d?1:0),3),x(a,a.l_desc.max_code+1,a.d_desc.max_code+1,h+1),s(a,a.dyn_ltree,a.dyn_dtree)),n(a),d&&o(a)}function D(a,b,c){return a.pending_buf[a.d_buf+2*a.last_lit]=b>>>8&255,a.pending_buf[a.d_buf+2*a.last_lit+1]=255&b,a.pending_buf[a.l_buf+a.last_lit]=255&c,a.last_lit++,0===b?a.dyn_ltree[2*c]++:(a.matches++,b--,a.dyn_ltree[2*(hb[c]+P+1)]++,a.dyn_dtree[2*e(b)]++),a.last_lit===a.lit_bufsize-1}var E=a("../utils/common"),F=4,G=0,H=1,I=2,J=0,K=1,L=2,M=3,N=258,O=29,P=256,Q=P+1+O,R=30,S=19,T=2*Q+1,U=15,V=16,W=7,X=256,Y=16,Z=17,$=18,_=[0,0,0,0,0,0,0,0,1,1,1,1,2,2,2,2,3,3,3,3,4,4,4,4,5,5,5,5,0],ab=[0,0,0,0,1,1,2,2,3,3,4,4,5,5,6,6,7,7,8,8,9,9,10,10,11,11,12,12,13,13],bb=[0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,2,3,7],cb=[16,17,18,0,8,7,9,6,10,5,11,4,12,3,13,2,14,1,15],db=512,eb=new Array(2*(Q+2));d(eb);var fb=new Array(2*R);d(fb);var gb=new Array(db);d(gb);var hb=new Array(N-M+1);d(hb);var ib=new Array(O);d(ib);var jb=new Array(R);d(jb);var kb,lb,mb,nb=function(a,b,c,d,e){this.static_tree=a,this.extra_bits=b,this.extra_base=c,this.elems=d,this.max_length=e,this.has_stree=a&&a.length},ob=function(a,b){this.dyn_tree=a,this.max_code=0,this.stat_desc=b},pb=!1;c._tr_init=z,c._tr_stored_block=A,c._tr_flush_block=C,c._tr_tally=D,c._tr_align=B},{"../utils/common":27}],39:[function(a,b){"use strict";function c(){this.input=null,this.next_in=0,this.avail_in=0,this.total_in=0,this.output=null,this.next_out=0,this.avail_out=0,this.total_out=0,this.msg="",this.state=null,this.data_type=2,this.adler=0}b.exports=c},{}]},{},[9])(9)});
\ No newline at end of file diff --git a/wqflask/wqflask/static/new/js_external/shapiro-wilk.js b/wqflask/wqflask/static/new/js_external/shapiro-wilk.js new file mode 100644 index 00000000..1084b9f5 --- /dev/null +++ b/wqflask/wqflask/static/new/js_external/shapiro-wilk.js @@ -0,0 +1,197 @@ +/* + * Ported from http://svn.r-project.org/R/trunk/src/library/stats/src/swilk.c + * + * R : A Computer Language for Statistical Data Analysis + * Copyright (C) 2000-12 The R Core Team. + * + * Based on Applied Statistics algorithms AS181, R94 + * (C) Royal Statistical Society 1982, 1995 + * + * This program is free software; you can redistribute it and/or modify + * it under the terms of the GNU General Public License as published by + * the Free Software Foundation; either version 2 of the License, or + * (at your option) any later version. + * + * This program is distributed in the hope that it will be useful, + * but WITHOUT ANY WARRANTY; without even the implied warranty of + * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the + * GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with this program; if not, a copy is available at + * http://www.r-project.org/Licenses/ + */ + +function sign(x) { + if (x == 0) + return 0; + return x > 0 ? 1 : -1; +} + +function ShapiroWilkW(x) +{ + function poly(cc, nord, x) + { + /* Algorithm AS 181.2 Appl. Statist. (1982) Vol. 31, No. 2 + Calculates the algebraic polynomial of order nord-1 with array of coefficients cc. + Zero order coefficient is cc(1) = cc[0] */ + var p; + var ret_val; + + ret_val = cc[0]; + if (nord > 1) { + p = x * cc[nord-1]; + for (j = nord - 2; j > 0; j--) + p = (p + cc[j]) * x; + ret_val += p; + } + return ret_val; + } + x = x.sort(function (a, b) { return a - b; }); + var n = x.length; + if (n < 3) + return undefined; + var nn2 = Math.floor(n / 2); + var a = new Array(Math.floor(nn2) + 1); /* 1-based */ + +/* ALGORITHM AS R94 APPL. STATIST. (1995) vol.44, no.4, 547-551. + + Calculates the Shapiro-Wilk W test and its significance level +*/ + var small = 1e-19; + + /* polynomial coefficients */ + var g = [ -2.273, 0.459 ]; + var c1 = [ 0, 0.221157, -0.147981, -2.07119, 4.434685, -2.706056 ]; + var c2 = [ 0, 0.042981, -0.293762, -1.752461, 5.682633, -3.582633 ]; + var c3 = [ 0.544, -0.39978, 0.025054, -6.714e-4 ]; + var c4 = [ 1.3822, -0.77857, 0.062767, -0.0020322 ]; + var c5 = [ -1.5861, -0.31082, -0.083751, 0.0038915 ]; + var c6 = [ -0.4803, -0.082676, 0.0030302 ]; + + /* Local variables */ + var i, j, i1; + + var ssassx, summ2, ssumm2, gamma, range; + var a1, a2, an, m, s, sa, xi, sx, xx, y, w1; + var fac, asa, an25, ssa, sax, rsn, ssx, xsx; + + var pw = 1; + an = n; + + if (n == 3) + a[1] = 0.70710678;/* = sqrt(1/2) */ + else { + an25 = an + 0.25; + summ2 = 0.0; + for (i = 1; i <= nn2; i++) { + a[i] = jStat.normal.inv((i - 0.375) / an25, 0, 1); // p(X <= x), + var r__1 = a[i]; + summ2 += r__1 * r__1; + } + summ2 *= 2; + ssumm2 = Math.sqrt(summ2); + rsn = 1 / Math.sqrt(an); + a1 = poly(c1, 6, rsn) - a[1] / ssumm2; + + /* Normalize a[] */ + if (n > 5) { + i1 = 3; + a2 = -a[2] / ssumm2 + poly(c2, 6, rsn); + fac = Math.sqrt((summ2 - 2 * (a[1] * a[1]) - 2 * (a[2] * a[2])) / (1 - 2 * (a1 * a1) - 2 * (a2 * a2))); + a[2] = a2; + } else { + i1 = 2; + fac = Math.sqrt((summ2 - 2 * (a[1] * a[1])) / ( 1 - 2 * (a1 * a1))); + } + a[1] = a1; + for (i = i1; i <= nn2; i++) + a[i] /= - fac; + } + +/* Check for zero range */ + + range = x[n - 1] - x[0]; + if (range < small) { + console.log('range is too small!') + return undefined; + } + + +/* Check for correct sort order on range - scaled X */ + + xx = x[0] / range; + sx = xx; + sa = -a[1]; + for (i = 1, j = n - 1; i < n; j--) { + xi = x[i] / range; + if (xx - xi > small) { + console.log("xx - xi is too big.", xx - xi); + return undefined; + } + sx += xi; + i++; + if (i != j) + sa += sign(i - j) * a[Math.min(i, j)]; + xx = xi; + } + if (n > 5000) { + console.log("n is too big!") + return undefined; + } + + +/* Calculate W statistic as squared correlation + between data and coefficients */ + + sa /= n; + sx /= n; + ssa = ssx = sax = 0.; + for (i = 0, j = n - 1; i < n; i++, j--) { + if (i != j) + asa = sign(i - j) * a[1 + Math.min(i, j)] - sa; + else + asa = -sa; + xsx = x[i] / range - sx; + ssa += asa * asa; + ssx += xsx * xsx; + sax += asa * xsx; + } + +/* W1 equals (1-W) calculated to avoid excessive rounding error + for W very near 1 (a potential problem in very large samples) */ + + ssassx = Math.sqrt(ssa * ssx); + w1 = (ssassx - sax) * (ssassx + sax) / (ssa * ssx); + var w = 1 - w1; + +/* Calculate significance level for W */ + + if (n == 3) {/* exact P value : */ + var pi6 = 1.90985931710274; /* = 6/pi */ + var stqr = 1.04719755119660; /* = asin(sqrt(3/4)) */ + pw = pi6 * (Math.asin(Math.sqrt(w)) - stqr); + if (pw < 0.) + pw = 0; + return w; + } + y = Math.log(w1); + xx = Math.log(an); + if (n <= 11) { + gamma = poly(g, 2, an); + if (y >= gamma) { + pw = 1e-99; /* an "obvious" value, was 'small' which was 1e-19f */ + return w; + } + y = -Math.log(gamma - y); + m = poly(c3, 4, an); + s = Math.exp(poly(c4, 4, an)); + } else { /* n >= 12 */ + m = poly(c5, 4, xx); + s = Math.exp(poly(c6, 3, xx)); + } + + pw = 0.5 - 0.5 * jStat.erf((y - m) / Math.sqrt(2) / s) + + return {w: w, p: pw}; +} diff --git a/wqflask/wqflask/static/new/packages/DataTables/css/jquery.dataTables.css b/wqflask/wqflask/static/new/packages/DataTables/css/jquery.dataTables.css index 7a674d3a..931ec6b3 100755 --- a/wqflask/wqflask/static/new/packages/DataTables/css/jquery.dataTables.css +++ b/wqflask/wqflask/static/new/packages/DataTables/css/jquery.dataTables.css @@ -1,224 +1,455 @@ - /* - * Table + * Table styles */ table.dataTable { - margin: 0 auto; - clear: both; - width: 100%; -} - -table.dataTable thead th { - padding: 3px 18px 3px 10px; - border-bottom: 1px solid black; - font-weight: bold; - cursor: pointer; - *cursor: hand; + //width: 100%; + margin: 0 auto; + clear: both; + border-collapse: separate; + border-spacing: 0; + /* + * Header and footer styles + */ + /* + * Body styles + */ } - +table.dataTable thead th, table.dataTable tfoot th { - padding: 3px 18px 3px 10px; - border-top: 1px solid black; - font-weight: bold; + font-weight: bold; } - -table.dataTable td { - padding: 3px 10px; +table.dataTable thead th, +table.dataTable thead td { + padding: 10px 18px; + border-bottom: 1px solid #111; } - -table.dataTable td.center, +table.dataTable thead th:active, +table.dataTable thead td:active { + outline: none; +} +table.dataTable tfoot th, +table.dataTable tfoot td { + padding: 10px 18px 6px 18px; + border-top: 1px solid #111; +} +table.dataTable thead .sorting, +table.dataTable thead .sorting_asc, +table.dataTable thead .sorting_desc { + cursor: pointer; + *cursor: hand; +} +table.dataTable thead .sorting, +table.dataTable thead .sorting_asc, +table.dataTable thead .sorting_desc, +table.dataTable thead .sorting_asc_disabled, +table.dataTable thead .sorting_desc_disabled { + background-repeat: no-repeat; + background-position: center right; +} +table.dataTable thead .sorting { + background-image: url("../images/sort_both.png"); +} +table.dataTable thead .sorting_asc { + background-image: url("../images/sort_asc.png"); +} +table.dataTable thead .sorting_desc { + background-image: url("../images/sort_desc.png"); +} +table.dataTable thead .sorting_asc_disabled { + background-image: url("../images/sort_asc_disabled.png"); +} +table.dataTable thead .sorting_desc_disabled { + background-image: url("../images/sort_desc_disabled.png"); +} +table.dataTable tbody tr { + background-color: #ffffff; +} +table.dataTable tbody tr.selected { + background-color: #ffff99; +} +table.dataTable tbody th, +table.dataTable tbody td { + padding: 8px 10px; +} +table.dataTable.row-border tbody th, table.dataTable.row-border tbody td, table.dataTable.display tbody th, table.dataTable.display tbody td { + border-top: 1px solid #ddd; +} +table.dataTable.row-border tbody tr:first-child th, +table.dataTable.row-border tbody tr:first-child td, table.dataTable.display tbody tr:first-child th, +table.dataTable.display tbody tr:first-child td { + border-top: none; +} +table.dataTable.cell-border tbody th, table.dataTable.cell-border tbody td { + border-top: 1px solid #ddd; + border-right: 1px solid #ddd; +} +table.dataTable.cell-border tbody tr th:first-child, +table.dataTable.cell-border tbody tr td:first-child { + border-left: 1px solid #ddd; +} +table.dataTable.cell-border tbody tr:first-child th, +table.dataTable.cell-border tbody tr:first-child td { + border-top: none; +} +table.dataTable.stripe tbody tr.odd, table.dataTable.display tbody tr.odd { + background-color: #f9f9f9; +} +table.dataTable.stripe tbody tr.odd.selected, table.dataTable.display tbody tr.odd.selected { + background-color: #abb9d3; +} +table.dataTable.hover tbody tr:hover, table.dataTable.display tbody tr:hover { + background-color: whitesmoke; +} +table.dataTable.hover tbody tr:hover.selected, table.dataTable.display tbody tr:hover.selected { + background-color: #a9b7d1; +} +table.dataTable.order-column tbody tr > .sorting_1, +table.dataTable.order-column tbody tr > .sorting_2, +table.dataTable.order-column tbody tr > .sorting_3, table.dataTable.display tbody tr > .sorting_1, +table.dataTable.display tbody tr > .sorting_2, +table.dataTable.display tbody tr > .sorting_3 { + background-color: #f9f9f9; +} +table.dataTable.order-column tbody tr.selected > .sorting_1, +table.dataTable.order-column tbody tr.selected > .sorting_2, +table.dataTable.order-column tbody tr.selected > .sorting_3, table.dataTable.display tbody tr.selected > .sorting_1, +table.dataTable.display tbody tr.selected > .sorting_2, +table.dataTable.display tbody tr.selected > .sorting_3 { + background-color: #acbad4; +} +table.dataTable.display tbody tr.odd > .sorting_1, table.dataTable.order-column.stripe tbody tr.odd > .sorting_1 { + background-color: #f1f1f1; +} +table.dataTable.display tbody tr.odd > .sorting_2, table.dataTable.order-column.stripe tbody tr.odd > .sorting_2 { + background-color: #f3f3f3; +} +table.dataTable.display tbody tr.odd > .sorting_3, table.dataTable.order-column.stripe tbody tr.odd > .sorting_3 { + background-color: whitesmoke; +} +table.dataTable.display tbody tr.odd.selected > .sorting_1, table.dataTable.order-column.stripe tbody tr.odd.selected > .sorting_1 { + background-color: #a6b3cd; +} +table.dataTable.display tbody tr.odd.selected > .sorting_2, table.dataTable.order-column.stripe tbody tr.odd.selected > .sorting_2 { + background-color: #a7b5ce; +} +table.dataTable.display tbody tr.odd.selected > .sorting_3, table.dataTable.order-column.stripe tbody tr.odd.selected > .sorting_3 { + background-color: #a9b6d0; +} +table.dataTable.display tbody tr.even > .sorting_1, table.dataTable.order-column.stripe tbody tr.even > .sorting_1 { + background-color: #f9f9f9; +} +table.dataTable.display tbody tr.even > .sorting_2, table.dataTable.order-column.stripe tbody tr.even > .sorting_2 { + background-color: #fbfbfb; +} +table.dataTable.display tbody tr.even > .sorting_3, table.dataTable.order-column.stripe tbody tr.even > .sorting_3 { + background-color: #fdfdfd; +} +table.dataTable.display tbody tr.even.selected > .sorting_1, table.dataTable.order-column.stripe tbody tr.even.selected > .sorting_1 { + background-color: #acbad4; +} +table.dataTable.display tbody tr.even.selected > .sorting_2, table.dataTable.order-column.stripe tbody tr.even.selected > .sorting_2 { + background-color: #adbbd6; +} +table.dataTable.display tbody tr.even.selected > .sorting_3, table.dataTable.order-column.stripe tbody tr.even.selected > .sorting_3 { + background-color: #afbdd8; +} +table.dataTable.display tbody tr:hover > .sorting_1, table.dataTable.order-column.hover tbody tr:hover > .sorting_1 { + background-color: #eaeaea; +} +table.dataTable.display tbody tr:hover > .sorting_2, table.dataTable.order-column.hover tbody tr:hover > .sorting_2 { + background-color: #ebebeb; +} +table.dataTable.display tbody tr:hover > .sorting_3, table.dataTable.order-column.hover tbody tr:hover > .sorting_3 { + background-color: #eeeeee; +} +table.dataTable.display tbody tr:hover.selected > .sorting_1, table.dataTable.order-column.hover tbody tr:hover.selected > .sorting_1 { + background-color: #a1aec7; +} +table.dataTable.display tbody tr:hover.selected > .sorting_2, table.dataTable.order-column.hover tbody tr:hover.selected > .sorting_2 { + background-color: #a2afc8; +} +table.dataTable.display tbody tr:hover.selected > .sorting_3, table.dataTable.order-column.hover tbody tr:hover.selected > .sorting_3 { + background-color: #a4b2cb; +} +table.dataTable.no-footer { + border-bottom: 1px solid #111; +} +table.dataTable.nowrap th, table.dataTable.nowrap td { + white-space: nowrap; +} +table.dataTable.compact thead th, +table.dataTable.compact thead td { + padding: 4px 17px 4px 4px; +} +table.dataTable.compact tfoot th, +table.dataTable.compact tfoot td { + padding: 4px; +} +table.dataTable.compact tbody th, +table.dataTable.compact tbody td { + padding: 4px; +} +table.dataTable th.dt-left, +table.dataTable td.dt-left { + text-align: left; +} +table.dataTable th.dt-center, +table.dataTable td.dt-center, table.dataTable td.dataTables_empty { - text-align: center; + text-align: center; +} +table.dataTable th.dt-right, +table.dataTable td.dt-right { + text-align: right; +} +table.dataTable th.dt-justify, +table.dataTable td.dt-justify { + text-align: justify; +} +table.dataTable th.dt-nowrap, +table.dataTable td.dt-nowrap { + white-space: nowrap; +} +table.dataTable thead th.dt-head-left, +table.dataTable thead td.dt-head-left, +table.dataTable tfoot th.dt-head-left, +table.dataTable tfoot td.dt-head-left { + text-align: left; +} +table.dataTable thead th.dt-head-center, +table.dataTable thead td.dt-head-center, +table.dataTable tfoot th.dt-head-center, +table.dataTable tfoot td.dt-head-center { + text-align: center; +} +table.dataTable thead th.dt-head-right, +table.dataTable thead td.dt-head-right, +table.dataTable tfoot th.dt-head-right, +table.dataTable tfoot td.dt-head-right { + text-align: right; +} +table.dataTable thead th.dt-head-justify, +table.dataTable thead td.dt-head-justify, +table.dataTable tfoot th.dt-head-justify, +table.dataTable tfoot td.dt-head-justify { + text-align: justify; +} +table.dataTable thead th.dt-head-nowrap, +table.dataTable thead td.dt-head-nowrap, +table.dataTable tfoot th.dt-head-nowrap, +table.dataTable tfoot td.dt-head-nowrap { + white-space: nowrap; +} +table.dataTable tbody th.dt-body-left, +table.dataTable tbody td.dt-body-left { + text-align: left; +} +table.dataTable tbody th.dt-body-center, +table.dataTable tbody td.dt-body-center { + text-align: center; +} +table.dataTable tbody th.dt-body-right, +table.dataTable tbody td.dt-body-right { + text-align: right; +} +table.dataTable tbody th.dt-body-justify, +table.dataTable tbody td.dt-body-justify { + text-align: justify; +} +table.dataTable tbody th.dt-body-nowrap, +table.dataTable tbody td.dt-body-nowrap { + white-space: nowrap; } -table.dataTable tr.odd { background-color: #E2E4FF; } -table.dataTable tr.even { background-color: white; } - -table.dataTable tr.odd td.sorting_1 { background-color: #D3D6FF; } -table.dataTable tr.odd td.sorting_2 { background-color: #DADCFF; } -table.dataTable tr.odd td.sorting_3 { background-color: #E0E2FF; } -table.dataTable tr.even td.sorting_1 { background-color: #EAEBFF; } -table.dataTable tr.even td.sorting_2 { background-color: #F2F3FF; } -table.dataTable tr.even td.sorting_3 { background-color: #F9F9FF; } - -table.dataTable tr.outlier td{ background-color: #FFFF00; } - +table.dataTable, +table.dataTable th, +table.dataTable td { + -webkit-box-sizing: content-box; + -moz-box-sizing: content-box; + box-sizing: content-box; +} /* - * Table wrapper + * Control feature layout */ .dataTables_wrapper { - position: relative; - clear: both; - float: left; - *zoom: 1; + position: relative; + clear: both; + *zoom: 1; + zoom: 1; } - - -/* - * Page length menu - */ -.dataTables_length { - float: left; +.dataTables_wrapper .dataTables_length { + float: left; } - - -/* - * Filter - */ -.dataTables_filter { - float: right; - text-align: right; +.dataTables_wrapper .dataTables_filter { + float: right; + text-align: right; } - - -/* - * Table information - */ -.dataTables_info { - clear: both; - float: left; +.dataTables_wrapper .dataTables_filter input { + margin-left: 0.5em; } - - -/* - * Pagination - */ -.dataTables_paginate { - float: right; - text-align: right; +.dataTables_wrapper .dataTables_info { + clear: both; + float: left; + padding-top: 0.755em; } - -/* Two button pagination - previous / next */ -.paginate_disabled_previous, -.paginate_enabled_previous, -.paginate_disabled_next, -.paginate_enabled_next { - height: 19px; - float: left; - cursor: pointer; - *cursor: hand; - color: #111 !important; -} -.paginate_disabled_previous:hover, -.paginate_enabled_previous:hover, -.paginate_disabled_next:hover, -.paginate_enabled_next:hover { - text-decoration: none !important; -} -.paginate_disabled_previous:active, -.paginate_enabled_previous:active, -.paginate_disabled_next:active, -.paginate_enabled_next:active { - outline: none; +.dataTables_wrapper .dataTables_paginate { + float: right; + text-align: right; + padding-top: 0.25em; } - -.paginate_disabled_previous, -.paginate_disabled_next { - color: #666 !important; +.dataTables_wrapper .dataTables_paginate .paginate_button { + box-sizing: border-box; + display: inline-block; + min-width: 1.5em; + padding: 0.5em 1em; + margin-left: 2px; + text-align: center; + text-decoration: none !important; + cursor: pointer; + *cursor: hand; + color: #333 !important; + border: 1px solid transparent; } -.paginate_disabled_previous, -.paginate_enabled_previous { - padding-left: 23px; +.dataTables_wrapper .dataTables_paginate .paginate_button.current, .dataTables_wrapper .dataTables_paginate .paginate_button.current:hover { + color: #333 !important; + border: 1px solid #cacaca; + background-color: white; + background: -webkit-gradient(linear, left top, left bottom, color-stop(0%, white), color-stop(100%, #dcdcdc)); + /* Chrome,Safari4+ */ + background: -webkit-linear-gradient(top, white 0%, #dcdcdc 100%); + /* Chrome10+,Safari5.1+ */ + background: -moz-linear-gradient(top, white 0%, #dcdcdc 100%); + /* FF3.6+ */ + background: -ms-linear-gradient(top, white 0%, #dcdcdc 100%); + /* IE10+ */ + background: -o-linear-gradient(top, white 0%, #dcdcdc 100%); + /* Opera 11.10+ */ + background: linear-gradient(to bottom, white 0%, #dcdcdc 100%); + /* W3C */ } -.paginate_disabled_next, -.paginate_enabled_next { - padding-right: 23px; - margin-left: 10px; +.dataTables_wrapper .dataTables_paginate .paginate_button.disabled, .dataTables_wrapper .dataTables_paginate .paginate_button.disabled:hover, .dataTables_wrapper .dataTables_paginate .paginate_button.disabled:active { + cursor: default; + color: #666 !important; + border: 1px solid transparent; + background: transparent; + box-shadow: none; } - -.paginate_enabled_previous { background: url('../images/back_enabled.png') no-repeat top left; } -.paginate_enabled_previous:hover { background: url('../images/back_enabled_hover.png') no-repeat top left; } -.paginate_disabled_previous { background: url('../images/back_disabled.png') no-repeat top left; } - -.paginate_enabled_next { background: url('../images/forward_enabled.png') no-repeat top right; } -.paginate_enabled_next:hover { background: url('../images/forward_enabled_hover.png') no-repeat top right; } -.paginate_disabled_next { background: url('../images/forward_disabled.png') no-repeat top right; } - -/* Full number pagination */ -.paging_full_numbers { - height: 22px; - line-height: 22px; +.dataTables_wrapper .dataTables_paginate .paginate_button:hover { + color: white !important; + border: 1px solid #111; + background-color: #585858; + background: -webkit-gradient(linear, left top, left bottom, color-stop(0%, #585858), color-stop(100%, #111)); + /* Chrome,Safari4+ */ + background: -webkit-linear-gradient(top, #585858 0%, #111 100%); + /* Chrome10+,Safari5.1+ */ + background: -moz-linear-gradient(top, #585858 0%, #111 100%); + /* FF3.6+ */ + background: -ms-linear-gradient(top, #585858 0%, #111 100%); + /* IE10+ */ + background: -o-linear-gradient(top, #585858 0%, #111 100%); + /* Opera 11.10+ */ + background: linear-gradient(to bottom, #585858 0%, #111 100%); + /* W3C */ } -.paging_full_numbers a:active { - outline: none +.dataTables_wrapper .dataTables_paginate .paginate_button:active { + outline: none; + background-color: #2b2b2b; + background: -webkit-gradient(linear, left top, left bottom, color-stop(0%, #2b2b2b), color-stop(100%, #0c0c0c)); + /* Chrome,Safari4+ */ + background: -webkit-linear-gradient(top, #2b2b2b 0%, #0c0c0c 100%); + /* Chrome10+,Safari5.1+ */ + background: -moz-linear-gradient(top, #2b2b2b 0%, #0c0c0c 100%); + /* FF3.6+ */ + background: -ms-linear-gradient(top, #2b2b2b 0%, #0c0c0c 100%); + /* IE10+ */ + background: -o-linear-gradient(top, #2b2b2b 0%, #0c0c0c 100%); + /* Opera 11.10+ */ + background: linear-gradient(to bottom, #2b2b2b 0%, #0c0c0c 100%); + /* W3C */ + box-shadow: inset 0 0 3px #111; } -.paging_full_numbers a:hover { - text-decoration: none; +.dataTables_wrapper .dataTables_paginate .ellipsis { + padding: 0 1em; } - -.paging_full_numbers a.paginate_button, -.paging_full_numbers a.paginate_active { - border: 1px solid #aaa; - -webkit-border-radius: 5px; - -moz-border-radius: 5px; - border-radius: 5px; - padding: 2px 5px; - margin: 0 3px; - cursor: pointer; - *cursor: hand; - color: #333 !important; +.dataTables_wrapper .dataTables_processing { + position: absolute; + top: 50%; + left: 50%; + width: 100%; + height: 40px; + margin-left: -50%; + margin-top: -25px; + padding-top: 20px; + text-align: center; + font-size: 1.2em; + background-color: white; + background: -webkit-gradient(linear, left top, right top, color-stop(0%, rgba(255, 255, 255, 0)), color-stop(25%, rgba(255, 255, 255, 0.9)), color-stop(75%, rgba(255, 255, 255, 0.9)), color-stop(100%, rgba(255, 255, 255, 0))); + /* Chrome,Safari4+ */ + background: -webkit-linear-gradient(left, rgba(255, 255, 255, 0) 0%, rgba(255, 255, 255, 0.9) 25%, rgba(255, 255, 255, 0.9) 75%, rgba(255, 255, 255, 0) 100%); + /* Chrome10+,Safari5.1+ */ + background: -moz-linear-gradient(left, rgba(255, 255, 255, 0) 0%, rgba(255, 255, 255, 0.9) 25%, rgba(255, 255, 255, 0.9) 75%, rgba(255, 255, 255, 0) 100%); + /* FF3.6+ */ + background: -ms-linear-gradient(left, rgba(255, 255, 255, 0) 0%, rgba(255, 255, 255, 0.9) 25%, rgba(255, 255, 255, 0.9) 75%, rgba(255, 255, 255, 0) 100%); + /* IE10+ */ + background: -o-linear-gradient(left, rgba(255, 255, 255, 0) 0%, rgba(255, 255, 255, 0.9) 25%, rgba(255, 255, 255, 0.9) 75%, rgba(255, 255, 255, 0) 100%); + /* Opera 11.10+ */ + background: linear-gradient(to right, rgba(255, 255, 255, 0) 0%, rgba(255, 255, 255, 0.9) 25%, rgba(255, 255, 255, 0.9) 75%, rgba(255, 255, 255, 0) 100%); + /* W3C */ } - -.paging_full_numbers a.paginate_button { - background-color: #ddd; +.dataTables_wrapper .dataTables_length, +.dataTables_wrapper .dataTables_filter, +.dataTables_wrapper .dataTables_info, +.dataTables_wrapper .dataTables_processing, +.dataTables_wrapper .dataTables_paginate { + color: #333; } - -.paging_full_numbers a.paginate_button:hover { - background-color: #ccc; - text-decoration: none !important; +.dataTables_wrapper .dataTables_scroll { + clear: both; } - -.paging_full_numbers a.paginate_active { - background-color: #99B3FF; +.dataTables_wrapper .dataTables_scroll div.dataTables_scrollBody { + *margin-top: -1px; + -webkit-overflow-scrolling: touch; } - - -/* - * Processing indicator - */ -.dataTables_processing { - position: absolute; - top: 50%; - left: 50%; - width: 250px; - height: 30px; - margin-left: -125px; - margin-top: -15px; - padding: 14px 0 2px 0; - border: 1px solid #ddd; - text-align: center; - color: #999; - font-size: 14px; - background-color: white; +.dataTables_wrapper .dataTables_scroll div.dataTables_scrollBody th > div.dataTables_sizing, +.dataTables_wrapper .dataTables_scroll div.dataTables_scrollBody td > div.dataTables_sizing { + height: 0; + overflow: hidden; + margin: 0 !important; + padding: 0 !important; } - - -/* - * Sorting - */ -.sorting { background: url('../images/sort_both.png') no-repeat center right; } -.sorting_asc { background: url('../images/sort_asc.png') no-repeat center right; } -.sorting_desc { background: url('../images/sort_desc.png') no-repeat center right; } - -.sorting_asc_disabled { background: url('../images/sort_asc_disabled.png') no-repeat center right; } -.sorting_desc_disabled { background: url('../images/sort_desc_disabled.png') no-repeat center right; } - -table.dataTable thead th:active, -table.dataTable thead td:active { - outline: none; +.dataTables_wrapper.no-footer .dataTables_scrollBody { + border-bottom: 1px solid #111; } - - -/* - * Scrolling - */ -.dataTables_scroll { - clear: both; +.dataTables_wrapper.no-footer div.dataTables_scrollHead table, +.dataTables_wrapper.no-footer div.dataTables_scrollBody table { + border-bottom: none; } - -.dataTables_scrollBody { - *margin-top: -1px; - -webkit-overflow-scrolling: touch; +.dataTables_wrapper:after { + visibility: hidden; + display: block; + content: ""; + clear: both; + height: 0; } +@media screen and (max-width: 767px) { + .dataTables_wrapper .dataTables_info, + .dataTables_wrapper .dataTables_paginate { + float: none; + text-align: center; + } + .dataTables_wrapper .dataTables_paginate { + margin-top: 0.5em; + } +} +@media screen and (max-width: 640px) { + .dataTables_wrapper .dataTables_length, + .dataTables_wrapper .dataTables_filter { + float: none; + text-align: center; + } + .dataTables_wrapper 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.dataTables_length,.dataTables_wrapper .dataTables_filter{float:none;text-align:center}.dataTables_wrapper .dataTables_filter{margin-top:0.5em}} diff --git a/wqflask/wqflask/static/new/packages/DataTables/css/jquery.dataTables_themeroller.css b/wqflask/wqflask/static/new/packages/DataTables/css/jquery.dataTables_themeroller.css index cf1d4ed7..1426a44a 100755 --- a/wqflask/wqflask/static/new/packages/DataTables/css/jquery.dataTables_themeroller.css +++ b/wqflask/wqflask/static/new/packages/DataTables/css/jquery.dataTables_themeroller.css @@ -1,244 +1,416 @@ - - /* - * Table + * Table styles */ table.dataTable { - margin: 0 auto; - clear: both; - width: 100%; - border-collapse: collapse; -} - -table.dataTable thead th { - padding: 3px 0px 3px 10px; - cursor: pointer; - *cursor: hand; -} - + width: 100%; + margin: 0 auto; + clear: both; + border-collapse: separate; + border-spacing: 0; + /* + * Header and footer styles + */ + /* + * Body styles + */ +} +table.dataTable thead th, +table.dataTable thead td, +table.dataTable tfoot th, +table.dataTable tfoot td { + padding: 4px 10px; +} +table.dataTable thead th, table.dataTable tfoot th { - padding: 3px 10px; -} - -table.dataTable td { - padding: 3px 10px; -} - -table.dataTable td.center, -table.dataTable td.dataTables_empty { - text-align: center; + font-weight: bold; } - -table.dataTable tr.odd { background-color: #E2E4FF; } -table.dataTable tr.even { background-color: white; } - -table.dataTable tr.odd td.sorting_1 { background-color: #D3D6FF; } -table.dataTable tr.odd td.sorting_2 { background-color: #DADCFF; } -table.dataTable tr.odd td.sorting_3 { background-color: #E0E2FF; } -table.dataTable tr.even td.sorting_1 { background-color: #EAEBFF; } -table.dataTable tr.even td.sorting_2 { background-color: #F2F3FF; } -table.dataTable tr.even td.sorting_3 { background-color: #F9F9FF; } - - -/* - * Table wrapper - */ -.dataTables_wrapper { - position: relative; - clear: both; - *zoom: 1; -} -.dataTables_wrapper .ui-widget-header { - font-weight: normal; +table.dataTable thead th:active, +table.dataTable thead td:active { + outline: none; } -.dataTables_wrapper .ui-toolbar { - padding: 5px; -} - - -/* - * Page length menu - */ -.dataTables_length { - float: left; -} - - -/* - * Filter - */ -.dataTables_filter { - float: right; - text-align: right; -} - - -/* - * Table information - */ -.dataTables_info { - padding-top: 3px; - clear: both; - float: left; -} - - -/* - * Pagination - */ -.dataTables_paginate { - float: right; - text-align: right; +table.dataTable thead .sorting_asc, +table.dataTable thead .sorting_desc, +table.dataTable thead .sorting { + cursor: pointer; + *cursor: hand; } - -.dataTables_paginate .ui-button { - margin-right: -0.1em !important; +table.dataTable thead th div.DataTables_sort_wrapper { + position: relative; + padding-right: 10px; } - -.paging_two_button .ui-button { - float: left; - cursor: pointer; - * cursor: hand; +table.dataTable thead th div.DataTables_sort_wrapper span { + position: absolute; + top: 50%; + margin-top: -8px; + right: -5px; } - -.paging_full_numbers .ui-button { - padding: 2px 6px; - margin: 0; - cursor: pointer; - * cursor: hand; - color: #333 !important; +table.dataTable thead th.ui-state-default { + border-right-width: 0; } - -/* Two button pagination - previous / next */ -.paginate_disabled_previous, -.paginate_enabled_previous, -.paginate_disabled_next, -.paginate_enabled_next { - height: 19px; - float: left; - cursor: pointer; - *cursor: hand; - color: #111 !important; -} -.paginate_disabled_previous:hover, -.paginate_enabled_previous:hover, -.paginate_disabled_next:hover, -.paginate_enabled_next:hover { - text-decoration: none !important; -} -.paginate_disabled_previous:active, -.paginate_enabled_previous:active, -.paginate_disabled_next:active, -.paginate_enabled_next:active { - outline: none; +table.dataTable thead th.ui-state-default:last-child { + border-right-width: 1px; } - -.paginate_disabled_previous, -.paginate_disabled_next { - color: #666 !important; -} -.paginate_disabled_previous, -.paginate_enabled_previous { - padding-left: 23px; +table.dataTable tbody tr { + background-color: #ffffff; } -.paginate_disabled_next, -.paginate_enabled_next { - padding-right: 23px; - margin-left: 10px; +table.dataTable tbody tr.selected { + background-color: #B0BED9; } - -.paginate_enabled_previous { background: url('../images/back_enabled.png') no-repeat top left; } -.paginate_enabled_previous:hover { background: url('../images/back_enabled_hover.png') no-repeat top left; } -.paginate_disabled_previous { background: url('../images/back_disabled.png') no-repeat top left; } - -.paginate_enabled_next { background: url('../images/forward_enabled.png') no-repeat top right; } -.paginate_enabled_next:hover { background: url('../images/forward_enabled_hover.png') no-repeat top right; } -.paginate_disabled_next { background: url('../images/forward_disabled.png') no-repeat top right; } - -/* Full number pagination */ -.paging_full_numbers a:active { - outline: none +table.dataTable tbody th, +table.dataTable tbody td { + padding: 8px 10px; } -.paging_full_numbers a:hover { - text-decoration: none; -} - -.paging_full_numbers a.paginate_button, -.paging_full_numbers a.paginate_active { - border: 1px solid #aaa; - -webkit-border-radius: 5px; - -moz-border-radius: 5px; - border-radius: 5px; - padding: 2px 5px; - margin: 0 3px; - cursor: pointer; - *cursor: hand; - color: #333 !important; -} - -.paging_full_numbers a.paginate_button { - background-color: #ddd; -} - -.paging_full_numbers a.paginate_button:hover { - background-color: #ccc; - text-decoration: none !important; +table.dataTable th.center, +table.dataTable td.center, +table.dataTable td.dataTables_empty { + text-align: center; } - -.paging_full_numbers a.paginate_active { - background-color: #99B3FF; +table.dataTable th.right, +table.dataTable td.right { + text-align: right; } - - -/* - * Processing indicator - */ -.dataTables_processing { - position: absolute; - top: 50%; - left: 50%; - width: 250px; - height: 30px; - margin-left: -125px; - margin-top: -15px; - padding: 14px 0 2px 0; - border: 1px solid #ddd; - text-align: center; - color: #999; - font-size: 14px; - background-color: white; +table.dataTable.row-border tbody th, table.dataTable.row-border tbody td, table.dataTable.display tbody th, table.dataTable.display tbody td { + border-top: 1px solid #ddd; +} +table.dataTable.row-border tbody tr:first-child th, +table.dataTable.row-border tbody tr:first-child td, table.dataTable.display tbody tr:first-child th, +table.dataTable.display tbody tr:first-child td { + border-top: none; +} +table.dataTable.cell-border tbody th, table.dataTable.cell-border tbody td { + border-top: 1px solid #ddd; + border-right: 1px solid #ddd; +} +table.dataTable.cell-border tbody tr th:first-child, +table.dataTable.cell-border tbody tr td:first-child { + border-left: 1px solid #ddd; +} +table.dataTable.cell-border tbody tr:first-child th, +table.dataTable.cell-border tbody tr:first-child td { + border-top: none; +} +table.dataTable.stripe tbody tr.odd, table.dataTable.display tbody tr.odd { + background-color: #f9f9f9; +} +table.dataTable.stripe tbody tr.odd.selected, table.dataTable.display tbody tr.odd.selected { + background-color: #abb9d3; +} +table.dataTable.hover tbody tr:hover, +table.dataTable.hover tbody tr.odd:hover, +table.dataTable.hover tbody tr.even:hover, table.dataTable.display tbody tr:hover, +table.dataTable.display tbody tr.odd:hover, +table.dataTable.display tbody tr.even:hover { + background-color: whitesmoke; +} +table.dataTable.hover tbody tr:hover.selected, +table.dataTable.hover tbody tr.odd:hover.selected, +table.dataTable.hover tbody tr.even:hover.selected, table.dataTable.display tbody tr:hover.selected, +table.dataTable.display tbody tr.odd:hover.selected, +table.dataTable.display tbody tr.even:hover.selected { + background-color: #a9b7d1; +} +table.dataTable.order-column tbody tr > .sorting_1, +table.dataTable.order-column tbody tr > .sorting_2, +table.dataTable.order-column tbody tr > .sorting_3, table.dataTable.display tbody tr > .sorting_1, +table.dataTable.display tbody tr > .sorting_2, +table.dataTable.display tbody tr > .sorting_3 { + background-color: #f9f9f9; +} +table.dataTable.order-column tbody tr.selected > .sorting_1, +table.dataTable.order-column tbody tr.selected > .sorting_2, +table.dataTable.order-column tbody tr.selected > .sorting_3, table.dataTable.display tbody tr.selected > .sorting_1, +table.dataTable.display tbody tr.selected > .sorting_2, +table.dataTable.display tbody tr.selected > .sorting_3 { + background-color: #acbad4; +} +table.dataTable.display tbody tr.odd > .sorting_1, table.dataTable.order-column.stripe tbody tr.odd > .sorting_1 { + background-color: #f1f1f1; +} +table.dataTable.display tbody tr.odd > .sorting_2, table.dataTable.order-column.stripe tbody tr.odd > .sorting_2 { + background-color: #f3f3f3; +} +table.dataTable.display tbody tr.odd > .sorting_3, table.dataTable.order-column.stripe tbody tr.odd > .sorting_3 { + background-color: whitesmoke; +} +table.dataTable.display tbody tr.odd.selected > .sorting_1, table.dataTable.order-column.stripe tbody tr.odd.selected > .sorting_1 { + background-color: #a6b3cd; +} +table.dataTable.display tbody tr.odd.selected > .sorting_2, table.dataTable.order-column.stripe tbody tr.odd.selected > .sorting_2 { + background-color: #a7b5ce; +} +table.dataTable.display tbody tr.odd.selected > .sorting_3, table.dataTable.order-column.stripe tbody tr.odd.selected > .sorting_3 { + background-color: #a9b6d0; +} +table.dataTable.display tbody tr.even > .sorting_1, table.dataTable.order-column.stripe tbody tr.even > .sorting_1 { + background-color: #f9f9f9; +} +table.dataTable.display tbody tr.even > .sorting_2, table.dataTable.order-column.stripe tbody tr.even > .sorting_2 { + background-color: #fbfbfb; +} +table.dataTable.display tbody tr.even > .sorting_3, table.dataTable.order-column.stripe tbody tr.even > .sorting_3 { + background-color: #fdfdfd; +} +table.dataTable.display tbody tr.even.selected > .sorting_1, table.dataTable.order-column.stripe tbody tr.even.selected > .sorting_1 { + background-color: #acbad4; +} +table.dataTable.display tbody tr.even.selected > .sorting_2, table.dataTable.order-column.stripe tbody tr.even.selected > .sorting_2 { + background-color: #adbbd6; +} +table.dataTable.display tbody tr.even.selected > .sorting_3, table.dataTable.order-column.stripe tbody tr.even.selected > .sorting_3 { + background-color: #afbdd8; +} +table.dataTable.display tbody tr:hover > .sorting_1, +table.dataTable.display tbody tr.odd:hover > .sorting_1, +table.dataTable.display tbody tr.even:hover > .sorting_1, table.dataTable.order-column.hover tbody tr:hover > .sorting_1, +table.dataTable.order-column.hover tbody tr.odd:hover > .sorting_1, +table.dataTable.order-column.hover tbody tr.even:hover > .sorting_1 { + background-color: #eaeaea; +} +table.dataTable.display tbody tr:hover > .sorting_2, +table.dataTable.display tbody tr.odd:hover > .sorting_2, +table.dataTable.display tbody tr.even:hover > .sorting_2, table.dataTable.order-column.hover tbody tr:hover > .sorting_2, +table.dataTable.order-column.hover tbody tr.odd:hover > .sorting_2, +table.dataTable.order-column.hover tbody tr.even:hover > .sorting_2 { + background-color: #ebebeb; +} +table.dataTable.display tbody tr:hover > .sorting_3, +table.dataTable.display tbody tr.odd:hover > .sorting_3, +table.dataTable.display tbody tr.even:hover > .sorting_3, table.dataTable.order-column.hover tbody tr:hover > .sorting_3, +table.dataTable.order-column.hover tbody tr.odd:hover > .sorting_3, +table.dataTable.order-column.hover tbody tr.even:hover > .sorting_3 { + background-color: #eeeeee; +} +table.dataTable.display tbody tr:hover.selected > .sorting_1, +table.dataTable.display tbody tr.odd:hover.selected > .sorting_1, +table.dataTable.display tbody tr.even:hover.selected > .sorting_1, table.dataTable.order-column.hover tbody tr:hover.selected > .sorting_1, +table.dataTable.order-column.hover tbody tr.odd:hover.selected > .sorting_1, +table.dataTable.order-column.hover tbody tr.even:hover.selected > .sorting_1 { + background-color: #a1aec7; +} +table.dataTable.display tbody tr:hover.selected > .sorting_2, +table.dataTable.display tbody tr.odd:hover.selected > .sorting_2, +table.dataTable.display tbody tr.even:hover.selected > .sorting_2, table.dataTable.order-column.hover tbody tr:hover.selected > .sorting_2, +table.dataTable.order-column.hover tbody tr.odd:hover.selected > .sorting_2, +table.dataTable.order-column.hover tbody tr.even:hover.selected > .sorting_2 { + background-color: #a2afc8; +} +table.dataTable.display tbody tr:hover.selected > .sorting_3, +table.dataTable.display tbody tr.odd:hover.selected > .sorting_3, +table.dataTable.display tbody tr.even:hover.selected > .sorting_3, table.dataTable.order-column.hover tbody tr:hover.selected > .sorting_3, +table.dataTable.order-column.hover tbody tr.odd:hover.selected > .sorting_3, +table.dataTable.order-column.hover tbody tr.even:hover.selected > .sorting_3 { + background-color: #a4b2cb; +} +table.dataTable.nowrap th, table.dataTable.nowrap td { + white-space: nowrap; +} +table.dataTable.compact thead th, +table.dataTable.compact thead td { + padding: 5px 9px; +} +table.dataTable.compact tfoot th, +table.dataTable.compact tfoot td { + padding: 5px 9px 3px 9px; +} +table.dataTable.compact tbody th, +table.dataTable.compact tbody td { + padding: 4px 5px; +} +table.dataTable th.dt-left, +table.dataTable td.dt-left { + text-align: left; +} +table.dataTable th.dt-center, +table.dataTable td.dt-center, +table.dataTable td.dataTables_empty { + text-align: center; +} +table.dataTable th.dt-right, +table.dataTable td.dt-right { + text-align: right; +} +table.dataTable th.dt-justify, +table.dataTable td.dt-justify { + text-align: justify; +} +table.dataTable th.dt-nowrap, +table.dataTable td.dt-nowrap { + white-space: nowrap; +} +table.dataTable thead th.dt-head-left, +table.dataTable thead td.dt-head-left, +table.dataTable tfoot th.dt-head-left, +table.dataTable tfoot td.dt-head-left { + text-align: left; +} +table.dataTable thead th.dt-head-center, +table.dataTable thead td.dt-head-center, +table.dataTable tfoot th.dt-head-center, +table.dataTable tfoot td.dt-head-center { + text-align: center; +} +table.dataTable thead th.dt-head-right, +table.dataTable thead td.dt-head-right, +table.dataTable tfoot th.dt-head-right, +table.dataTable tfoot td.dt-head-right { + text-align: right; +} +table.dataTable thead th.dt-head-justify, +table.dataTable thead td.dt-head-justify, +table.dataTable tfoot th.dt-head-justify, +table.dataTable tfoot td.dt-head-justify { + text-align: justify; +} +table.dataTable thead th.dt-head-nowrap, +table.dataTable thead td.dt-head-nowrap, +table.dataTable tfoot th.dt-head-nowrap, +table.dataTable tfoot td.dt-head-nowrap { + white-space: nowrap; +} +table.dataTable tbody th.dt-body-left, +table.dataTable tbody td.dt-body-left { + text-align: left; +} +table.dataTable tbody th.dt-body-center, +table.dataTable tbody td.dt-body-center { + text-align: center; +} +table.dataTable tbody th.dt-body-right, +table.dataTable tbody td.dt-body-right { + text-align: right; +} +table.dataTable tbody th.dt-body-justify, +table.dataTable tbody td.dt-body-justify { + text-align: justify; +} +table.dataTable tbody th.dt-body-nowrap, +table.dataTable tbody td.dt-body-nowrap { + white-space: nowrap; +} + +table.dataTable, +table.dataTable th, +table.dataTable td { + -webkit-box-sizing: content-box; + -moz-box-sizing: content-box; + box-sizing: content-box; } - /* - * Sorting + * Control feature layout */ -table.dataTable thead th div.DataTables_sort_wrapper { - position: relative; - padding-right: 20px; -} - -table.dataTable thead th div.DataTables_sort_wrapper span { - position: absolute; - top: 50%; - margin-top: -8px; - right: 0; -} - -table.dataTable th:active { - outline: none; +.dataTables_wrapper { + position: relative; + clear: both; + *zoom: 1; + zoom: 1; +} +.dataTables_wrapper .dataTables_length { + float: left; +} +.dataTables_wrapper .dataTables_filter { + float: right; + text-align: right; +} +.dataTables_wrapper .dataTables_filter input { + margin-left: 0.5em; +} +.dataTables_wrapper .dataTables_info { + clear: both; + float: left; + padding-top: 0.55em; +} +.dataTables_wrapper .dataTables_paginate { + float: right; + text-align: right; +} +.dataTables_wrapper .dataTables_paginate .fg-button { + box-sizing: border-box; + display: inline-block; + min-width: 1.5em; + padding: 0.5em; + margin-left: 2px; + text-align: center; + text-decoration: none !important; + cursor: pointer; + *cursor: hand; + color: #333 !important; + border: 1px solid transparent; +} +.dataTables_wrapper .dataTables_paginate .fg-button:active { + outline: none; +} +.dataTables_wrapper .dataTables_paginate .fg-button:first-child { + border-top-left-radius: 3px; + border-bottom-left-radius: 3px; +} +.dataTables_wrapper .dataTables_paginate .fg-button:last-child { + border-top-right-radius: 3px; + border-bottom-right-radius: 3px; +} +.dataTables_wrapper .dataTables_processing { + position: absolute; + top: 50%; + left: 50%; + width: 100%; + height: 40px; + margin-left: -50%; + margin-top: -25px; + padding-top: 20px; + text-align: center; + font-size: 1.2em; + background-color: white; + background: -webkit-gradient(linear, left top, right top, color-stop(0%, rgba(255, 255, 255, 0)), color-stop(25%, rgba(255, 255, 255, 0.9)), color-stop(75%, rgba(255, 255, 255, 0.9)), color-stop(100%, rgba(255, 255, 255, 0))); + /* Chrome,Safari4+ */ + background: -webkit-linear-gradient(left, rgba(255, 255, 255, 0) 0%, rgba(255, 255, 255, 0.9) 25%, rgba(255, 255, 255, 0.9) 75%, rgba(255, 255, 255, 0) 100%); + /* Chrome10+,Safari5.1+ */ + background: -moz-linear-gradient(left, rgba(255, 255, 255, 0) 0%, rgba(255, 255, 255, 0.9) 25%, rgba(255, 255, 255, 0.9) 75%, rgba(255, 255, 255, 0) 100%); + /* FF3.6+ */ + background: -ms-linear-gradient(left, rgba(255, 255, 255, 0) 0%, rgba(255, 255, 255, 0.9) 25%, rgba(255, 255, 255, 0.9) 75%, rgba(255, 255, 255, 0) 100%); + /* IE10+ */ + background: -o-linear-gradient(left, rgba(255, 255, 255, 0) 0%, rgba(255, 255, 255, 0.9) 25%, rgba(255, 255, 255, 0.9) 75%, rgba(255, 255, 255, 0) 100%); + /* Opera 11.10+ */ + background: linear-gradient(to right, rgba(255, 255, 255, 0) 0%, rgba(255, 255, 255, 0.9) 25%, rgba(255, 255, 255, 0.9) 75%, rgba(255, 255, 255, 0) 100%); + /* W3C */ +} +.dataTables_wrapper .dataTables_length, +.dataTables_wrapper .dataTables_filter, +.dataTables_wrapper .dataTables_info, +.dataTables_wrapper .dataTables_processing, +.dataTables_wrapper .dataTables_paginate { + color: #333; +} +.dataTables_wrapper .dataTables_scroll { + clear: both; +} +.dataTables_wrapper .dataTables_scrollBody { + *margin-top: -1px; + -webkit-overflow-scrolling: touch; } - - -/* - * Scrolling - */ -.dataTables_scroll { - clear: both; +.dataTables_wrapper .ui-widget-header { + font-weight: normal; } - -.dataTables_scrollBody { - *margin-top: -1px; - -webkit-overflow-scrolling: touch; +.dataTables_wrapper .ui-toolbar { + padding: 8px; +} +.dataTables_wrapper:after { + visibility: hidden; + display: block; + content: ""; + clear: both; + height: 0; +} + +@media screen and (max-width: 767px) { + .dataTables_wrapper .dataTables_length, + .dataTables_wrapper .dataTables_filter, + .dataTables_wrapper .dataTables_info, + .dataTables_wrapper .dataTables_paginate { + float: none; + text-align: center; + } + .dataTables_wrapper .dataTables_filter, + .dataTables_wrapper .dataTables_paginate { + margin-top: 0.5em; + } } - diff --git a/wqflask/wqflask/static/new/packages/DataTables/extensions/buttons.bootstrap.css b/wqflask/wqflask/static/new/packages/DataTables/extensions/buttons.bootstrap.css new file mode 100644 index 00000000..461dd2b0 --- /dev/null +++ b/wqflask/wqflask/static/new/packages/DataTables/extensions/buttons.bootstrap.css @@ -0,0 +1,89 @@ +div.dt-button-info { + position: fixed; + top: 50%; + left: 50%; + width: 400px; + margin-top: -100px; + margin-left: -200px; + background-color: white; + border: 2px solid #111; + box-shadow: 3px 3px 8px rgba(0, 0, 0, 0.3); + border-radius: 3px; + text-align: center; + z-index: 21; +} +div.dt-button-info h2 { + padding: 0.5em; + margin: 0; + font-weight: normal; + border-bottom: 1px solid #ddd; + background-color: #f3f3f3; +} +div.dt-button-info > div { + padding: 1em; +} + +ul.dt-button-collection.dropdown-menu { + display: block; + z-index: 2002; + -webkit-column-gap: 8px; + -moz-column-gap: 8px; + -ms-column-gap: 8px; + -o-column-gap: 8px; + column-gap: 8px; +} +ul.dt-button-collection.dropdown-menu.fixed { + position: fixed; + top: 50%; + left: 50%; + margin-left: -75px; +} +ul.dt-button-collection.dropdown-menu.fixed.two-column { + margin-left: -150px; +} +ul.dt-button-collection.dropdown-menu.fixed.three-column { + margin-left: -225px; +} +ul.dt-button-collection.dropdown-menu.fixed.four-column { + margin-left: -300px; +} +ul.dt-button-collection.dropdown-menu > * { + -webkit-column-break-inside: avoid; + break-inside: avoid; +} +ul.dt-button-collection.dropdown-menu.two-column { + width: 300px; + padding-bottom: 1px; + -webkit-column-count: 2; + -moz-column-count: 2; + -ms-column-count: 2; + -o-column-count: 2; + column-count: 2; +} +ul.dt-button-collection.dropdown-menu.three-column { + width: 450px; + padding-bottom: 1px; + -webkit-column-count: 3; + -moz-column-count: 3; + -ms-column-count: 3; + -o-column-count: 3; + column-count: 3; +} +ul.dt-button-collection.dropdown-menu.four-column { + width: 600px; + padding-bottom: 1px; + -webkit-column-count: 4; + -moz-column-count: 4; + -ms-column-count: 4; + -o-column-count: 4; + column-count: 4; +} + +div.dt-button-background { + position: fixed; + top: 0; + left: 0; + width: 100%; + height: 100%; + z-index: 2001; +} diff --git a/wqflask/wqflask/static/new/packages/DataTables/extensions/buttons.dataTables.css b/wqflask/wqflask/static/new/packages/DataTables/extensions/buttons.dataTables.css new file mode 100644 index 00000000..15b6c263 --- /dev/null +++ b/wqflask/wqflask/static/new/packages/DataTables/extensions/buttons.dataTables.css @@ -0,0 +1,297 @@ +div.dt-button-info { + position: fixed; + top: 50%; + left: 50%; + width: 400px; + margin-top: -100px; + margin-left: -200px; + background-color: white; + border: 2px solid #111; + box-shadow: 3px 3px 8px rgba(0, 0, 0, 0.3); + border-radius: 3px; + text-align: center; + z-index: 21; +} +div.dt-button-info h2 { + padding: 0.5em; + margin: 0; + font-weight: normal; + border-bottom: 1px solid #ddd; + background-color: #f3f3f3; +} +div.dt-button-info > div { + padding: 1em; +} + +button.dt-button, +div.dt-button, +a.dt-button { + position: relative; + display: inline-block; + box-sizing: border-box; + margin-right: 0.333em; + padding: 0.5em 1em; + border: 1px solid #999; + border-radius: 2px; + cursor: pointer; + font-size: 0.88em; + color: black; + white-space: nowrap; + overflow: hidden; + background-color: #e9e9e9; + /* Fallback */ + background-image: -webkit-linear-gradient(top, white 0%, #e9e9e9 100%); + /* Chrome 10+, Saf5.1+, iOS 5+ */ + background-image: -moz-linear-gradient(top, white 0%, #e9e9e9 100%); + /* FF3.6 */ + background-image: -ms-linear-gradient(top, white 0%, #e9e9e9 100%); + /* IE10 */ + background-image: -o-linear-gradient(top, white 0%, #e9e9e9 100%); + /* Opera 11.10+ */ + background-image: linear-gradient(top, white 0%, #e9e9e9 100%); + filter: progid:DXImageTransform.Microsoft.gradient(GradientType=0,StartColorStr='white', EndColorStr='#e9e9e9'); + -webkit-user-select: none; + -moz-user-select: none; + -ms-user-select: none; + user-select: none; + text-decoration: none; + outline: none; +} +button.dt-button.disabled, +div.dt-button.disabled, +a.dt-button.disabled { + color: #999; + border: 1px solid #d0d0d0; + cursor: default; + background-color: #f9f9f9; + /* Fallback */ + background-image: -webkit-linear-gradient(top, #ffffff 0%, #f9f9f9 100%); + /* Chrome 10+, Saf5.1+, iOS 5+ */ + background-image: -moz-linear-gradient(top, #ffffff 0%, #f9f9f9 100%); + /* FF3.6 */ + background-image: -ms-linear-gradient(top, #ffffff 0%, #f9f9f9 100%); + /* IE10 */ + background-image: -o-linear-gradient(top, #ffffff 0%, #f9f9f9 100%); + /* Opera 11.10+ */ + background-image: linear-gradient(top, #ffffff 0%, #f9f9f9 100%); + filter: progid:DXImageTransform.Microsoft.gradient(GradientType=0,StartColorStr='#ffffff', EndColorStr='#f9f9f9'); +} +button.dt-button:active:not(.disabled), button.dt-button.active:not(.disabled), +div.dt-button:active:not(.disabled), +div.dt-button.active:not(.disabled), +a.dt-button:active:not(.disabled), +a.dt-button.active:not(.disabled) { + background-color: #e2e2e2; + /* Fallback */ + background-image: -webkit-linear-gradient(top, #f3f3f3 0%, #e2e2e2 100%); + /* Chrome 10+, Saf5.1+, iOS 5+ */ + background-image: -moz-linear-gradient(top, #f3f3f3 0%, #e2e2e2 100%); + /* FF3.6 */ + background-image: -ms-linear-gradient(top, #f3f3f3 0%, #e2e2e2 100%); + /* IE10 */ + background-image: -o-linear-gradient(top, #f3f3f3 0%, #e2e2e2 100%); + /* Opera 11.10+ */ + background-image: linear-gradient(top, #f3f3f3 0%, #e2e2e2 100%); + filter: progid:DXImageTransform.Microsoft.gradient(GradientType=0,StartColorStr='#f3f3f3', EndColorStr='#e2e2e2'); + box-shadow: inset 1px 1px 3px #999999; +} +button.dt-button:active:not(.disabled):hover:not(.disabled), button.dt-button.active:not(.disabled):hover:not(.disabled), +div.dt-button:active:not(.disabled):hover:not(.disabled), +div.dt-button.active:not(.disabled):hover:not(.disabled), +a.dt-button:active:not(.disabled):hover:not(.disabled), +a.dt-button.active:not(.disabled):hover:not(.disabled) { + box-shadow: inset 1px 1px 3px #999999; + background-color: #cccccc; + /* Fallback */ + background-image: -webkit-linear-gradient(top, #eaeaea 0%, #cccccc 100%); + /* Chrome 10+, Saf5.1+, iOS 5+ */ + background-image: -moz-linear-gradient(top, #eaeaea 0%, #cccccc 100%); + /* FF3.6 */ + background-image: -ms-linear-gradient(top, #eaeaea 0%, #cccccc 100%); + /* IE10 */ + background-image: -o-linear-gradient(top, #eaeaea 0%, #cccccc 100%); + /* Opera 11.10+ */ + background-image: linear-gradient(top, #eaeaea 0%, #cccccc 100%); + filter: progid:DXImageTransform.Microsoft.gradient(GradientType=0,StartColorStr='#eaeaea', EndColorStr='#cccccc'); +} +button.dt-button:hover, +div.dt-button:hover, +a.dt-button:hover { + text-decoration: none; +} +button.dt-button:hover:not(.disabled), +div.dt-button:hover:not(.disabled), +a.dt-button:hover:not(.disabled) { + border: 1px solid #666; + background-color: #e0e0e0; + /* Fallback */ + background-image: -webkit-linear-gradient(top, #f9f9f9 0%, #e0e0e0 100%); + /* Chrome 10+, Saf5.1+, iOS 5+ */ + background-image: -moz-linear-gradient(top, #f9f9f9 0%, #e0e0e0 100%); + /* FF3.6 */ + background-image: -ms-linear-gradient(top, #f9f9f9 0%, #e0e0e0 100%); + /* IE10 */ + background-image: -o-linear-gradient(top, #f9f9f9 0%, #e0e0e0 100%); + /* Opera 11.10+ */ + background-image: linear-gradient(top, #f9f9f9 0%, #e0e0e0 100%); + filter: progid:DXImageTransform.Microsoft.gradient(GradientType=0,StartColorStr='#f9f9f9', EndColorStr='#e0e0e0'); +} +button.dt-button:focus:not(.disabled), +div.dt-button:focus:not(.disabled), +a.dt-button:focus:not(.disabled) { + border: 1px solid #426c9e; + text-shadow: 0 1px 0 #c4def1; + outline: none; + background-color: #79ace9; + /* Fallback */ + background-image: -webkit-linear-gradient(top, #bddef4 0%, #79ace9 100%); + /* Chrome 10+, Saf5.1+, iOS 5+ */ + background-image: -moz-linear-gradient(top, #bddef4 0%, #79ace9 100%); + /* FF3.6 */ + background-image: -ms-linear-gradient(top, #bddef4 0%, #79ace9 100%); + /* IE10 */ + background-image: -o-linear-gradient(top, #bddef4 0%, #79ace9 100%); + /* Opera 11.10+ */ + background-image: linear-gradient(top, #bddef4 0%, #79ace9 100%); + filter: progid:DXImageTransform.Microsoft.gradient(GradientType=0,StartColorStr='#bddef4', EndColorStr='#79ace9'); +} + +.dt-button embed { + outline: none; +} + +div.dt-buttons { + position: relative; + float: left; +} +div.dt-buttons.buttons-right { + float: right; +} + +div.dt-button-collection { + position: absolute; + top: 0; + left: 0; + width: 150px; + margin-top: 3px; + padding: 8px 8px 4px 8px; + border: 1px solid #ccc; + border: 1px solid rgba(0, 0, 0, 0.4); + background-color: white; + overflow: hidden; + z-index: 2002; + border-radius: 5px; + box-shadow: 3px 3px 5px rgba(0, 0, 0, 0.3); + z-index: 2002; + -webkit-column-gap: 8px; + -moz-column-gap: 8px; + -ms-column-gap: 8px; + -o-column-gap: 8px; + column-gap: 8px; +} +div.dt-button-collection button.dt-button, +div.dt-button-collection div.dt-button, +div.dt-button-collection a.dt-button { + position: relative; + left: 0; + right: 0; + display: block; + float: none; + margin-bottom: 4px; + margin-right: 0; +} +div.dt-button-collection button.dt-button:active:not(.disabled), div.dt-button-collection button.dt-button.active:not(.disabled), +div.dt-button-collection div.dt-button:active:not(.disabled), +div.dt-button-collection div.dt-button.active:not(.disabled), +div.dt-button-collection a.dt-button:active:not(.disabled), +div.dt-button-collection a.dt-button.active:not(.disabled) { + background-color: #dadada; + /* Fallback */ + background-image: -webkit-linear-gradient(top, #f0f0f0 0%, #dadada 100%); + /* Chrome 10+, Saf5.1+, iOS 5+ */ + background-image: -moz-linear-gradient(top, #f0f0f0 0%, #dadada 100%); + /* FF3.6 */ + background-image: -ms-linear-gradient(top, #f0f0f0 0%, #dadada 100%); + /* IE10 */ + background-image: -o-linear-gradient(top, #f0f0f0 0%, #dadada 100%); + /* Opera 11.10+ */ + background-image: linear-gradient(top, #f0f0f0 0%, #dadada 100%); + filter: progid:DXImageTransform.Microsoft.gradient(GradientType=0,StartColorStr='#f0f0f0', EndColorStr='#dadada'); + box-shadow: inset 1px 1px 3px #666; +} +div.dt-button-collection.fixed { + position: fixed; + top: 50%; + left: 50%; + margin-left: -75px; +} +div.dt-button-collection.fixed.two-column { + margin-left: -150px; +} +div.dt-button-collection.fixed.three-column { + margin-left: -225px; +} +div.dt-button-collection.fixed.four-column { + margin-left: -300px; +} +div.dt-button-collection > * { + -webkit-column-break-inside: avoid; + break-inside: avoid; +} +div.dt-button-collection.two-column { + width: 300px; + padding-bottom: 1px; + -webkit-column-count: 2; + -moz-column-count: 2; + -ms-column-count: 2; + -o-column-count: 2; + column-count: 2; +} +div.dt-button-collection.three-column { + width: 450px; + padding-bottom: 1px; + -webkit-column-count: 3; + -moz-column-count: 3; + -ms-column-count: 3; + -o-column-count: 3; + column-count: 3; +} +div.dt-button-collection.four-column { + width: 600px; + padding-bottom: 1px; + -webkit-column-count: 4; + -moz-column-count: 4; + -ms-column-count: 4; + -o-column-count: 4; + column-count: 4; +} + +div.dt-button-background { + position: fixed; + top: 0; + left: 0; + width: 100%; + height: 100%; + background: rgba(0, 0, 0, 0.7); + /* Fallback */ + background: -ms-radial-gradient(center, ellipse farthest-corner, rgba(0, 0, 0, 0.3) 0%, rgba(0, 0, 0, 0.7) 100%); + /* IE10 Consumer Preview */ + background: -moz-radial-gradient(center, ellipse farthest-corner, rgba(0, 0, 0, 0.3) 0%, rgba(0, 0, 0, 0.7) 100%); + /* Firefox */ + background: -o-radial-gradient(center, ellipse farthest-corner, rgba(0, 0, 0, 0.3) 0%, rgba(0, 0, 0, 0.7) 100%); + /* Opera */ + background: -webkit-gradient(radial, center center, 0, center center, 497, color-stop(0, rgba(0, 0, 0, 0.3)), color-stop(1, rgba(0, 0, 0, 0.7))); + /* Webkit (Safari/Chrome 10) */ + background: -webkit-radial-gradient(center, ellipse farthest-corner, rgba(0, 0, 0, 0.3) 0%, rgba(0, 0, 0, 0.7) 100%); + /* Webkit (Chrome 11+) */ + background: radial-gradient(ellipse farthest-corner at center, rgba(0, 0, 0, 0.3) 0%, rgba(0, 0, 0, 0.7) 100%); + /* W3C Markup, IE10 Release Preview */ + z-index: 2001; +} + +@media screen and (max-width: 640px) { + div.dt-buttons { + float: none !important; + text-align: center; + } +} diff --git a/wqflask/wqflask/static/new/packages/DataTables/extensions/dataTables.colReorder.js b/wqflask/wqflask/static/new/packages/DataTables/extensions/dataTables.colReorder.js new file mode 100644 index 00000000..58e7656e --- /dev/null +++ b/wqflask/wqflask/static/new/packages/DataTables/extensions/dataTables.colReorder.js @@ -0,0 +1,1372 @@ +/*! ColReorder 1.1.3 + * ©2010-2014 SpryMedia Ltd - datatables.net/license + */ + +/** + * @summary ColReorder + * @description Provide the ability to reorder columns in a DataTable + * @version 1.1.3 + * @file dataTables.colReorder.js + * @author SpryMedia Ltd (www.sprymedia.co.uk) + * @contact www.sprymedia.co.uk/contact + * @copyright Copyright 2010-2014 SpryMedia Ltd. + * + * This source file is free software, available under the following license: + * MIT license - http://datatables.net/license/mit + * + * This source file is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY + * or FITNESS FOR A PARTICULAR PURPOSE. See the license files for details. + * + * For details please refer to: http://www.datatables.net + */ + +(function(window, document, undefined) { + + +/** + * Switch the key value pairing of an index array to be value key (i.e. the old value is now the + * key). For example consider [ 2, 0, 1 ] this would be returned as [ 1, 2, 0 ]. + * @method fnInvertKeyValues + * @param array aIn Array to switch around + * @returns array + */ +function fnInvertKeyValues( aIn ) +{ + var aRet=[]; + for ( var i=0, iLen=aIn.length ; i<iLen ; i++ ) + { + aRet[ aIn[i] ] = i; + } + return aRet; +} + + +/** + * Modify an array by switching the position of two elements + * @method fnArraySwitch + * @param array aArray Array to consider, will be modified by reference (i.e. no return) + * @param int iFrom From point + * @param int iTo Insert point + * @returns void + */ +function fnArraySwitch( aArray, iFrom, iTo ) +{ + var mStore = aArray.splice( iFrom, 1 )[0]; + aArray.splice( iTo, 0, mStore ); +} + + +/** + * Switch the positions of nodes in a parent node (note this is specifically designed for + * table rows). Note this function considers all element nodes under the parent! + * @method fnDomSwitch + * @param string sTag Tag to consider + * @param int iFrom Element to move + * @param int Point to element the element to (before this point), can be null for append + * @returns void + */ +function fnDomSwitch( nParent, iFrom, iTo ) +{ + var anTags = []; + for ( var i=0, iLen=nParent.childNodes.length ; i<iLen ; i++ ) + { + if ( nParent.childNodes[i].nodeType == 1 ) + { + anTags.push( nParent.childNodes[i] ); + } + } + var nStore = anTags[ iFrom ]; + + if ( iTo !== null ) + { + nParent.insertBefore( nStore, anTags[iTo] ); + } + else + { + nParent.appendChild( nStore ); + } +} + + + +var factory = function( $, DataTable ) { +"use strict"; + +/** + * Plug-in for DataTables which will reorder the internal column structure by taking the column + * from one position (iFrom) and insert it into a given point (iTo). + * @method $.fn.dataTableExt.oApi.fnColReorder + * @param object oSettings DataTables settings object - automatically added by DataTables! + * @param int iFrom Take the column to be repositioned from this point + * @param int iTo and insert it into this point + * @returns void + */ +$.fn.dataTableExt.oApi.fnColReorder = function ( oSettings, iFrom, iTo ) +{ + var v110 = $.fn.dataTable.Api ? true : false; + var i, iLen, j, jLen, iCols=oSettings.aoColumns.length, nTrs, oCol; + var attrMap = function ( obj, prop, mapping ) { + if ( ! obj[ prop ] ) { + return; + } + + var a = obj[ prop ].split('.'); + var num = a.shift(); + + if ( isNaN( num*1 ) ) { + return; + } + + obj[ prop ] = mapping[ num*1 ]+'.'+a.join('.'); + }; + + /* Sanity check in the input */ + if ( iFrom == iTo ) + { + /* Pointless reorder */ + return; + } + + if ( iFrom < 0 || iFrom >= iCols ) + { + this.oApi._fnLog( oSettings, 1, "ColReorder 'from' index is out of bounds: "+iFrom ); + return; + } + + if ( iTo < 0 || iTo >= iCols ) + { + this.oApi._fnLog( oSettings, 1, "ColReorder 'to' index is out of bounds: "+iTo ); + return; + } + + /* + * Calculate the new column array index, so we have a mapping between the old and new + */ + var aiMapping = []; + for ( i=0, iLen=iCols ; i<iLen ; i++ ) + { + aiMapping[i] = i; + } + fnArraySwitch( aiMapping, iFrom, iTo ); + var aiInvertMapping = fnInvertKeyValues( aiMapping ); + + + /* + * Convert all internal indexing to the new column order indexes + */ + /* Sorting */ + for ( i=0, iLen=oSettings.aaSorting.length ; i<iLen ; i++ ) + { + oSettings.aaSorting[i][0] = aiInvertMapping[ oSettings.aaSorting[i][0] ]; + } + + /* Fixed sorting */ + if ( oSettings.aaSortingFixed !== null ) + { + for ( i=0, iLen=oSettings.aaSortingFixed.length ; i<iLen ; i++ ) + { + oSettings.aaSortingFixed[i][0] = aiInvertMapping[ oSettings.aaSortingFixed[i][0] ]; + } + } + + /* Data column sorting (the column which the sort for a given column should take place on) */ + for ( i=0, iLen=iCols ; i<iLen ; i++ ) + { + oCol = oSettings.aoColumns[i]; + for ( j=0, jLen=oCol.aDataSort.length ; j<jLen ; j++ ) + { + oCol.aDataSort[j] = aiInvertMapping[ oCol.aDataSort[j] ]; + } + + // Update the column indexes + if ( v110 ) { + oCol.idx = aiInvertMapping[ oCol.idx ]; + } + } + + if ( v110 ) { + // Update 1.10 optimised sort class removal variable + $.each( oSettings.aLastSort, function (i, val) { + oSettings.aLastSort[i].src = aiInvertMapping[ val.src ]; + } ); + } + + /* Update the Get and Set functions for each column */ + for ( i=0, iLen=iCols ; i<iLen ; i++ ) + { + oCol = oSettings.aoColumns[i]; + + if ( typeof oCol.mData == 'number' ) { + oCol.mData = aiInvertMapping[ oCol.mData ]; + + // regenerate the get / set functions + oSettings.oApi._fnColumnOptions( oSettings, i, {} ); + } + else if ( $.isPlainObject( oCol.mData ) ) { + // HTML5 data sourced + attrMap( oCol.mData, '_', aiInvertMapping ); + attrMap( oCol.mData, 'filter', aiInvertMapping ); + attrMap( oCol.mData, 'sort', aiInvertMapping ); + attrMap( oCol.mData, 'type', aiInvertMapping ); + + // regenerate the get / set functions + oSettings.oApi._fnColumnOptions( oSettings, i, {} ); + } + } + + + /* + * Move the DOM elements + */ + if ( oSettings.aoColumns[iFrom].bVisible ) + { + /* Calculate the current visible index and the point to insert the node before. The insert + * before needs to take into account that there might not be an element to insert before, + * in which case it will be null, and an appendChild should be used + */ + var iVisibleIndex = this.oApi._fnColumnIndexToVisible( oSettings, iFrom ); + var iInsertBeforeIndex = null; + + i = iTo < iFrom ? iTo : iTo + 1; + while ( iInsertBeforeIndex === null && i < iCols ) + { + iInsertBeforeIndex = this.oApi._fnColumnIndexToVisible( oSettings, i ); + i++; + } + + /* Header */ + nTrs = oSettings.nTHead.getElementsByTagName('tr'); + for ( i=0, iLen=nTrs.length ; i<iLen ; i++ ) + { + fnDomSwitch( nTrs[i], iVisibleIndex, iInsertBeforeIndex ); + } + + /* Footer */ + if ( oSettings.nTFoot !== null ) + { + nTrs = oSettings.nTFoot.getElementsByTagName('tr'); + for ( i=0, iLen=nTrs.length ; i<iLen ; i++ ) + { + fnDomSwitch( nTrs[i], iVisibleIndex, iInsertBeforeIndex ); + } + } + + /* Body */ + for ( i=0, iLen=oSettings.aoData.length ; i<iLen ; i++ ) + { + if ( oSettings.aoData[i].nTr !== null ) + { + fnDomSwitch( oSettings.aoData[i].nTr, iVisibleIndex, iInsertBeforeIndex ); + } + } + } + + /* + * Move the internal array elements + */ + /* Columns */ + fnArraySwitch( oSettings.aoColumns, iFrom, iTo ); + + /* Search columns */ + fnArraySwitch( oSettings.aoPreSearchCols, iFrom, iTo ); + + /* Array array - internal data anodes cache */ + for ( i=0, iLen=oSettings.aoData.length ; i<iLen ; i++ ) + { + var data = oSettings.aoData[i]; + + if ( v110 ) { + // DataTables 1.10+ + if ( data.anCells ) { + fnArraySwitch( data.anCells, iFrom, iTo ); + } + + // For DOM sourced data, the invalidate will reread the cell into + // the data array, but for data sources as an array, they need to + // be flipped + if ( data.src !== 'dom' && $.isArray( data._aData ) ) { + fnArraySwitch( data._aData, iFrom, iTo ); + } + } + else { + // DataTables 1.9- + if ( $.isArray( data._aData ) ) { + fnArraySwitch( data._aData, iFrom, iTo ); + } + fnArraySwitch( data._anHidden, iFrom, iTo ); + } + } + + /* Reposition the header elements in the header layout array */ + for ( i=0, iLen=oSettings.aoHeader.length ; i<iLen ; i++ ) + { + fnArraySwitch( oSettings.aoHeader[i], iFrom, iTo ); + } + + if ( oSettings.aoFooter !== null ) + { + for ( i=0, iLen=oSettings.aoFooter.length ; i<iLen ; i++ ) + { + fnArraySwitch( oSettings.aoFooter[i], iFrom, iTo ); + } + } + + // In 1.10 we need to invalidate row cached data for sorting, filtering etc + if ( v110 ) { + var api = new $.fn.dataTable.Api( oSettings ); + api.rows().invalidate(); + } + + /* + * Update DataTables' event handlers + */ + + /* Sort listener */ + for ( i=0, iLen=iCols ; i<iLen ; i++ ) + { + $(oSettings.aoColumns[i].nTh).off('click.DT'); + this.oApi._fnSortAttachListener( oSettings, oSettings.aoColumns[i].nTh, i ); + } + + + /* Fire an event so other plug-ins can update */ + $(oSettings.oInstance).trigger( 'column-reorder', [ oSettings, { + "iFrom": iFrom, + "iTo": iTo, + "aiInvertMapping": aiInvertMapping + } ] ); +}; + + +/** + * ColReorder provides column visibility control for DataTables + * @class ColReorder + * @constructor + * @param {object} dt DataTables settings object + * @param {object} opts ColReorder options + */ +var ColReorder = function( dt, opts ) +{ + var oDTSettings; + + if ( $.fn.dataTable.Api ) { + oDTSettings = new $.fn.dataTable.Api( dt ).settings()[0]; + } + // 1.9 compatibility + else if ( dt.fnSettings ) { + // DataTables object, convert to the settings object + oDTSettings = dt.fnSettings(); + } + else if ( typeof dt === 'string' ) { + // jQuery selector + if ( $.fn.dataTable.fnIsDataTable( $(dt)[0] ) ) { + oDTSettings = $(dt).eq(0).dataTable().fnSettings(); + } + } + else if ( dt.nodeName && dt.nodeName.toLowerCase() === 'table' ) { + // Table node + if ( $.fn.dataTable.fnIsDataTable( dt.nodeName ) ) { + oDTSettings = $(dt.nodeName).dataTable().fnSettings(); + } + } + else if ( dt instanceof jQuery ) { + // jQuery object + if ( $.fn.dataTable.fnIsDataTable( dt[0] ) ) { + oDTSettings = dt.eq(0).dataTable().fnSettings(); + } + } + else { + // DataTables settings object + oDTSettings = dt; + } + + // Ensure that we can't initialise on the same table twice + if ( oDTSettings._colReorder ) { + throw "ColReorder already initialised on table #"+oDTSettings.nTable.id; + } + + // Convert from camelCase to Hungarian, just as DataTables does + var camelToHungarian = $.fn.dataTable.camelToHungarian; + if ( camelToHungarian ) { + camelToHungarian( ColReorder.defaults, ColReorder.defaults, true ); + camelToHungarian( ColReorder.defaults, opts || {} ); + } + + + /* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * + * Public class variables + * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */ + + /** + * @namespace Settings object which contains customisable information for ColReorder instance + */ + this.s = { + /** + * DataTables settings object + * @property dt + * @type Object + * @default null + */ + "dt": null, + + /** + * Initialisation object used for this instance + * @property init + * @type object + * @default {} + */ + "init": $.extend( true, {}, ColReorder.defaults, opts ), + + /** + * Number of columns to fix (not allow to be reordered) + * @property fixed + * @type int + * @default 0 + */ + "fixed": 0, + + /** + * Number of columns to fix counting from right (not allow to be reordered) + * @property fixedRight + * @type int + * @default 0 + */ + "fixedRight": 0, + + /** + * Callback function for once the reorder has been done + * @property reorderCallback + * @type function + * @default null + */ + "reorderCallback": null, + + /** + * @namespace Information used for the mouse drag + */ + "mouse": { + "startX": -1, + "startY": -1, + "offsetX": -1, + "offsetY": -1, + "target": -1, + "targetIndex": -1, + "fromIndex": -1 + }, + + /** + * Information which is used for positioning the insert cusor and knowing where to do the + * insert. Array of objects with the properties: + * x: x-axis position + * to: insert point + * @property aoTargets + * @type array + * @default [] + */ + "aoTargets": [] + }; + + + /** + * @namespace Common and useful DOM elements for the class instance + */ + this.dom = { + /** + * Dragging element (the one the mouse is moving) + * @property drag + * @type element + * @default null + */ + "drag": null, + + /** + * The insert cursor + * @property pointer + * @type element + * @default null + */ + "pointer": null + }; + + + /* Constructor logic */ + this.s.dt = oDTSettings; + this.s.dt._colReorder = this; + this._fnConstruct(); + + /* Add destroy callback */ + oDTSettings.oApi._fnCallbackReg(oDTSettings, 'aoDestroyCallback', $.proxy(this._fnDestroy, this), 'ColReorder'); + + return this; +}; + + + +ColReorder.prototype = { + /* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * + * Public methods + * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */ + + /** + * Reset the column ordering to the original ordering that was detected on + * start up. + * @return {this} Returns `this` for chaining. + * + * @example + * // DataTables initialisation with ColReorder + * var table = $('#example').dataTable( { + * "sDom": 'Rlfrtip' + * } ); + * + * // Add click event to a button to reset the ordering + * $('#resetOrdering').click( function (e) { + * e.preventDefault(); + * $.fn.dataTable.ColReorder( table ).fnReset(); + * } ); + */ + "fnReset": function () + { + var a = []; + for ( var i=0, iLen=this.s.dt.aoColumns.length ; i<iLen ; i++ ) + { + a.push( this.s.dt.aoColumns[i]._ColReorder_iOrigCol ); + } + + this._fnOrderColumns( a ); + + return this; + }, + + /** + * `Deprecated` - Get the current order of the columns, as an array. + * @return {array} Array of column identifiers + * @deprecated `fnOrder` should be used in preference to this method. + * `fnOrder` acts as a getter/setter. + */ + "fnGetCurrentOrder": function () + { + return this.fnOrder(); + }, + + /** + * Get the current order of the columns, as an array. Note that the values + * given in the array are unique identifiers for each column. Currently + * these are the original ordering of the columns that was detected on + * start up, but this could potentially change in future. + * @return {array} Array of column identifiers + * + * @example + * // Get column ordering for the table + * var order = $.fn.dataTable.ColReorder( dataTable ).fnOrder(); + *//** + * Set the order of the columns, from the positions identified in the + * ordering array given. Note that ColReorder takes a brute force approach + * to reordering, so it is possible multiple reordering events will occur + * before the final order is settled upon. + * @param {array} [set] Array of column identifiers in the new order. Note + * that every column must be included, uniquely, in this array. + * @return {this} Returns `this` for chaining. + * + * @example + * // Swap the first and second columns + * $.fn.dataTable.ColReorder( dataTable ).fnOrder( [1, 0, 2, 3, 4] ); + * + * @example + * // Move the first column to the end for the table `#example` + * var curr = $.fn.dataTable.ColReorder( '#example' ).fnOrder(); + * var first = curr.shift(); + * curr.push( first ); + * $.fn.dataTable.ColReorder( '#example' ).fnOrder( curr ); + * + * @example + * // Reverse the table's order + * $.fn.dataTable.ColReorder( '#example' ).fnOrder( + * $.fn.dataTable.ColReorder( '#example' ).fnOrder().reverse() + * ); + */ + "fnOrder": function ( set ) + { + if ( set === undefined ) + { + var a = []; + for ( var i=0, iLen=this.s.dt.aoColumns.length ; i<iLen ; i++ ) + { + a.push( this.s.dt.aoColumns[i]._ColReorder_iOrigCol ); + } + return a; + } + + this._fnOrderColumns( fnInvertKeyValues( set ) ); + + return this; + }, + + + /* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * + * Private methods (they are of course public in JS, but recommended as private) + * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */ + + /** + * Constructor logic + * @method _fnConstruct + * @returns void + * @private + */ + "_fnConstruct": function () + { + var that = this; + var iLen = this.s.dt.aoColumns.length; + var i; + + /* Columns discounted from reordering - counting left to right */ + if ( this.s.init.iFixedColumns ) + { + this.s.fixed = this.s.init.iFixedColumns; + } + + /* Columns discounted from reordering - counting right to left */ + this.s.fixedRight = this.s.init.iFixedColumnsRight ? + this.s.init.iFixedColumnsRight : + 0; + + /* Drop callback initialisation option */ + if ( this.s.init.fnReorderCallback ) + { + this.s.reorderCallback = this.s.init.fnReorderCallback; + } + + /* Add event handlers for the drag and drop, and also mark the original column order */ + for ( i = 0; i < iLen; i++ ) + { + if ( i > this.s.fixed-1 && i < iLen - this.s.fixedRight ) + { + this._fnMouseListener( i, this.s.dt.aoColumns[i].nTh ); + } + + /* Mark the original column order for later reference */ + this.s.dt.aoColumns[i]._ColReorder_iOrigCol = i; + } + + /* State saving */ + this.s.dt.oApi._fnCallbackReg( this.s.dt, 'aoStateSaveParams', function (oS, oData) { + that._fnStateSave.call( that, oData ); + }, "ColReorder_State" ); + + /* An initial column order has been specified */ + var aiOrder = null; + if ( this.s.init.aiOrder ) + { + aiOrder = this.s.init.aiOrder.slice(); + } + + /* State loading, overrides the column order given */ + if ( this.s.dt.oLoadedState && typeof this.s.dt.oLoadedState.ColReorder != 'undefined' && + this.s.dt.oLoadedState.ColReorder.length == this.s.dt.aoColumns.length ) + { + aiOrder = this.s.dt.oLoadedState.ColReorder; + } + + /* If we have an order to apply - do so */ + if ( aiOrder ) + { + /* We might be called during or after the DataTables initialisation. If before, then we need + * to wait until the draw is done, if after, then do what we need to do right away + */ + if ( !that.s.dt._bInitComplete ) + { + var bDone = false; + this.s.dt.aoDrawCallback.push( { + "fn": function () { + if ( !that.s.dt._bInitComplete && !bDone ) + { + bDone = true; + var resort = fnInvertKeyValues( aiOrder ); + that._fnOrderColumns.call( that, resort ); + } + }, + "sName": "ColReorder_Pre" + } ); + } + else + { + var resort = fnInvertKeyValues( aiOrder ); + that._fnOrderColumns.call( that, resort ); + } + } + else { + this._fnSetColumnIndexes(); + } + }, + + + /** + * Set the column order from an array + * @method _fnOrderColumns + * @param array a An array of integers which dictate the column order that should be applied + * @returns void + * @private + */ + "_fnOrderColumns": function ( a ) + { + if ( a.length != this.s.dt.aoColumns.length ) + { + this.s.dt.oInstance.oApi._fnLog( this.s.dt, 1, "ColReorder - array reorder does not "+ + "match known number of columns. Skipping." ); + return; + } + + for ( var i=0, iLen=a.length ; i<iLen ; i++ ) + { + var currIndex = $.inArray( i, a ); + if ( i != currIndex ) + { + /* Reorder our switching array */ + fnArraySwitch( a, currIndex, i ); + + /* Do the column reorder in the table */ + this.s.dt.oInstance.fnColReorder( currIndex, i ); + } + } + + /* When scrolling we need to recalculate the column sizes to allow for the shift */ + if ( this.s.dt.oScroll.sX !== "" || this.s.dt.oScroll.sY !== "" ) + { + this.s.dt.oInstance.fnAdjustColumnSizing( false ); + } + + /* Save the state */ + this.s.dt.oInstance.oApi._fnSaveState( this.s.dt ); + + this._fnSetColumnIndexes(); + + if ( this.s.reorderCallback !== null ) + { + this.s.reorderCallback.call( this ); + } + }, + + + /** + * Because we change the indexes of columns in the table, relative to their starting point + * we need to reorder the state columns to what they are at the starting point so we can + * then rearrange them again on state load! + * @method _fnStateSave + * @param object oState DataTables state + * @returns string JSON encoded cookie string for DataTables + * @private + */ + "_fnStateSave": function ( oState ) + { + var i, iLen, aCopy, iOrigColumn; + var oSettings = this.s.dt; + var columns = oSettings.aoColumns; + + oState.ColReorder = []; + + /* Sorting */ + if ( oState.aaSorting ) { + // 1.10.0- + for ( i=0 ; i<oState.aaSorting.length ; i++ ) { + oState.aaSorting[i][0] = columns[ oState.aaSorting[i][0] ]._ColReorder_iOrigCol; + } + + var aSearchCopy = $.extend( true, [], oState.aoSearchCols ); + + for ( i=0, iLen=columns.length ; i<iLen ; i++ ) + { + iOrigColumn = columns[i]._ColReorder_iOrigCol; + + /* Column filter */ + oState.aoSearchCols[ iOrigColumn ] = aSearchCopy[i]; + + /* Visibility */ + oState.abVisCols[ iOrigColumn ] = columns[i].bVisible; + + /* Column reordering */ + oState.ColReorder.push( iOrigColumn ); + } + } + else if ( oState.order ) { + // 1.10.1+ + for ( i=0 ; i<oState.order.length ; i++ ) { + oState.order[i][0] = columns[ oState.order[i][0] ]._ColReorder_iOrigCol; + } + + var stateColumnsCopy = $.extend( true, [], oState.columns ); + + for ( i=0, iLen=columns.length ; i<iLen ; i++ ) + { + iOrigColumn = columns[i]._ColReorder_iOrigCol; + + /* Columns */ + oState.columns[ iOrigColumn ] = stateColumnsCopy[i]; + + /* Column reordering */ + oState.ColReorder.push( iOrigColumn ); + } + } + }, + + + /* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * + * Mouse drop and drag + */ + + /** + * Add a mouse down listener to a particluar TH element + * @method _fnMouseListener + * @param int i Column index + * @param element nTh TH element clicked on + * @returns void + * @private + */ + "_fnMouseListener": function ( i, nTh ) + { + var that = this; + $(nTh).on( 'mousedown.ColReorder', function (e) { + e.preventDefault(); + that._fnMouseDown.call( that, e, nTh ); + } ); + }, + + + /** + * Mouse down on a TH element in the table header + * @method _fnMouseDown + * @param event e Mouse event + * @param element nTh TH element to be dragged + * @returns void + * @private + */ + "_fnMouseDown": function ( e, nTh ) + { + var that = this; + + /* Store information about the mouse position */ + var target = $(e.target).closest('th, td'); + var offset = target.offset(); + var idx = parseInt( $(nTh).attr('data-column-index'), 10 ); + + if ( idx === undefined ) { + return; + } + + this.s.mouse.startX = e.pageX; + this.s.mouse.startY = e.pageY; + this.s.mouse.offsetX = e.pageX - offset.left; + this.s.mouse.offsetY = e.pageY - offset.top; + this.s.mouse.target = this.s.dt.aoColumns[ idx ].nTh;//target[0]; + this.s.mouse.targetIndex = idx; + this.s.mouse.fromIndex = idx; + + this._fnRegions(); + + /* Add event handlers to the document */ + $(document) + .on( 'mousemove.ColReorder', function (e) { + that._fnMouseMove.call( that, e ); + } ) + .on( 'mouseup.ColReorder', function (e) { + that._fnMouseUp.call( that, e ); + } ); + }, + + + /** + * Deal with a mouse move event while dragging a node + * @method _fnMouseMove + * @param event e Mouse event + * @returns void + * @private + */ + "_fnMouseMove": function ( e ) + { + var that = this; + + if ( this.dom.drag === null ) + { + /* Only create the drag element if the mouse has moved a specific distance from the start + * point - this allows the user to make small mouse movements when sorting and not have a + * possibly confusing drag element showing up + */ + if ( Math.pow( + Math.pow(e.pageX - this.s.mouse.startX, 2) + + Math.pow(e.pageY - this.s.mouse.startY, 2), 0.5 ) < 5 ) + { + return; + } + this._fnCreateDragNode(); + } + + /* Position the element - we respect where in the element the click occured */ + this.dom.drag.css( { + left: e.pageX - this.s.mouse.offsetX, + top: e.pageY - this.s.mouse.offsetY + } ); + + /* Based on the current mouse position, calculate where the insert should go */ + var bSet = false; + var lastToIndex = this.s.mouse.toIndex; + + for ( var i=1, iLen=this.s.aoTargets.length ; i<iLen ; i++ ) + { + if ( e.pageX < this.s.aoTargets[i-1].x + ((this.s.aoTargets[i].x-this.s.aoTargets[i-1].x)/2) ) + { + this.dom.pointer.css( 'left', this.s.aoTargets[i-1].x ); + this.s.mouse.toIndex = this.s.aoTargets[i-1].to; + bSet = true; + break; + } + } + + // The insert element wasn't positioned in the array (less than + // operator), so we put it at the end + if ( !bSet ) + { + this.dom.pointer.css( 'left', this.s.aoTargets[this.s.aoTargets.length-1].x ); + this.s.mouse.toIndex = this.s.aoTargets[this.s.aoTargets.length-1].to; + } + + // Perform reordering if realtime updating is on and the column has moved + if ( this.s.init.bRealtime && lastToIndex !== this.s.mouse.toIndex ) { + this.s.dt.oInstance.fnColReorder( this.s.mouse.fromIndex, this.s.mouse.toIndex ); + this.s.mouse.fromIndex = this.s.mouse.toIndex; + this._fnRegions(); + } + }, + + + /** + * Finish off the mouse drag and insert the column where needed + * @method _fnMouseUp + * @param event e Mouse event + * @returns void + * @private + */ + "_fnMouseUp": function ( e ) + { + var that = this; + + $(document).off( 'mousemove.ColReorder mouseup.ColReorder' ); + + if ( this.dom.drag !== null ) + { + /* Remove the guide elements */ + this.dom.drag.remove(); + this.dom.pointer.remove(); + this.dom.drag = null; + this.dom.pointer = null; + + /* Actually do the reorder */ + this.s.dt.oInstance.fnColReorder( this.s.mouse.fromIndex, this.s.mouse.toIndex ); + this._fnSetColumnIndexes(); + + /* When scrolling we need to recalculate the column sizes to allow for the shift */ + if ( this.s.dt.oScroll.sX !== "" || this.s.dt.oScroll.sY !== "" ) + { + this.s.dt.oInstance.fnAdjustColumnSizing( false ); + } + + /* Save the state */ + this.s.dt.oInstance.oApi._fnSaveState( this.s.dt ); + + if ( this.s.reorderCallback !== null ) + { + this.s.reorderCallback.call( this ); + } + } + }, + + + /** + * Calculate a cached array with the points of the column inserts, and the + * 'to' points + * @method _fnRegions + * @returns void + * @private + */ + "_fnRegions": function () + { + var aoColumns = this.s.dt.aoColumns; + + this.s.aoTargets.splice( 0, this.s.aoTargets.length ); + + this.s.aoTargets.push( { + "x": $(this.s.dt.nTable).offset().left, + "to": 0 + } ); + + var iToPoint = 0; + for ( var i=0, iLen=aoColumns.length ; i<iLen ; i++ ) + { + /* For the column / header in question, we want it's position to remain the same if the + * position is just to it's immediate left or right, so we only incremement the counter for + * other columns + */ + if ( i != this.s.mouse.fromIndex ) + { + iToPoint++; + } + + if ( aoColumns[i].bVisible ) + { + this.s.aoTargets.push( { + "x": $(aoColumns[i].nTh).offset().left + $(aoColumns[i].nTh).outerWidth(), + "to": iToPoint + } ); + } + } + + /* Disallow columns for being reordered by drag and drop, counting right to left */ + if ( this.s.fixedRight !== 0 ) + { + this.s.aoTargets.splice( this.s.aoTargets.length - this.s.fixedRight ); + } + + /* Disallow columns for being reordered by drag and drop, counting left to right */ + if ( this.s.fixed !== 0 ) + { + this.s.aoTargets.splice( 0, this.s.fixed ); + } + }, + + + /** + * Copy the TH element that is being drags so the user has the idea that they are actually + * moving it around the page. + * @method _fnCreateDragNode + * @returns void + * @private + */ + "_fnCreateDragNode": function () + { + var scrolling = this.s.dt.oScroll.sX !== "" || this.s.dt.oScroll.sY !== ""; + + var origCell = this.s.dt.aoColumns[ this.s.mouse.targetIndex ].nTh; + var origTr = origCell.parentNode; + var origThead = origTr.parentNode; + var origTable = origThead.parentNode; + var cloneCell = $(origCell).clone(); + + // This is a slightly odd combination of jQuery and DOM, but it is the + // fastest and least resource intensive way I could think of cloning + // the table with just a single header cell in it. + this.dom.drag = $(origTable.cloneNode(false)) + .addClass( 'DTCR_clonedTable' ) + .append( + $(origThead.cloneNode(false)).append( + $(origTr.cloneNode(false)).append( + cloneCell[0] + ) + ) + ) + .css( { + position: 'absolute', + top: 0, + left: 0, + width: $(origCell).outerWidth(), + height: $(origCell).outerHeight() + } ) + .appendTo( 'body' ); + + this.dom.pointer = $('<div></div>') + .addClass( 'DTCR_pointer' ) + .css( { + position: 'absolute', + top: scrolling ? + $('div.dataTables_scroll', this.s.dt.nTableWrapper).offset().top : + $(this.s.dt.nTable).offset().top, + height : scrolling ? + $('div.dataTables_scroll', this.s.dt.nTableWrapper).height() : + $(this.s.dt.nTable).height() + } ) + .appendTo( 'body' ); + }, + + /** + * Clean up ColReorder memory references and event handlers + * @method _fnDestroy + * @returns void + * @private + */ + "_fnDestroy": function () + { + var i, iLen; + + for ( i=0, iLen=this.s.dt.aoDrawCallback.length ; i<iLen ; i++ ) + { + if ( this.s.dt.aoDrawCallback[i].sName === 'ColReorder_Pre' ) + { + this.s.dt.aoDrawCallback.splice( i, 1 ); + break; + } + } + + $(this.s.dt.nTHead).find( '*' ).off( '.ColReorder' ); + + $.each( this.s.dt.aoColumns, function (i, column) { + $(column.nTh).removeAttr('data-column-index'); + } ); + + this.s.dt._colReorder = null; + this.s = null; + }, + + + /** + * Add a data attribute to the column headers, so we know the index of + * the row to be reordered. This allows fast detection of the index, and + * for this plug-in to work with FixedHeader which clones the nodes. + * @private + */ + "_fnSetColumnIndexes": function () + { + $.each( this.s.dt.aoColumns, function (i, column) { + $(column.nTh).attr('data-column-index', i); + } ); + } +}; + + + + + +/* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * + * Static parameters + * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */ + + +/** + * ColReorder default settings for initialisation + * @namespace + * @static + */ +ColReorder.defaults = { + /** + * Predefined ordering for the columns that will be applied automatically + * on initialisation. If not specified then the order that the columns are + * found to be in the HTML is the order used. + * @type array + * @default null + * @static + * @example + * // Using the `oColReorder` option in the DataTables options object + * $('#example').dataTable( { + * "sDom": 'Rlfrtip', + * "oColReorder": { + * "aiOrder": [ 4, 3, 2, 1, 0 ] + * } + * } ); + * + * @example + * // Using `new` constructor + * $('#example').dataTable() + * + * new $.fn.dataTable.ColReorder( '#example', { + * "aiOrder": [ 4, 3, 2, 1, 0 ] + * } ); + */ + aiOrder: null, + + /** + * Redraw the table's column ordering as the end user draws the column + * (`true`) or wait until the mouse is released (`false` - default). Note + * that this will perform a redraw on each reordering, which involves an + * Ajax request each time if you are using server-side processing in + * DataTables. + * @type boolean + * @default false + * @static + * @example + * // Using the `oColReorder` option in the DataTables options object + * $('#example').dataTable( { + * "sDom": 'Rlfrtip', + * "oColReorder": { + * "bRealtime": true + * } + * } ); + * + * @example + * // Using `new` constructor + * $('#example').dataTable() + * + * new $.fn.dataTable.ColReorder( '#example', { + * "bRealtime": true + * } ); + */ + bRealtime: false, + + /** + * Indicate how many columns should be fixed in position (counting from the + * left). This will typically be 1 if used, but can be as high as you like. + * @type int + * @default 0 + * @static + * @example + * // Using the `oColReorder` option in the DataTables options object + * $('#example').dataTable( { + * "sDom": 'Rlfrtip', + * "oColReorder": { + * "iFixedColumns": 1 + * } + * } ); + * + * @example + * // Using `new` constructor + * $('#example').dataTable() + * + * new $.fn.dataTable.ColReorder( '#example', { + * "iFixedColumns": 1 + * } ); + */ + iFixedColumns: 0, + + /** + * As `iFixedColumnsRight` but counting from the right. + * @type int + * @default 0 + * @static + * @example + * // Using the `oColReorder` option in the DataTables options object + * $('#example').dataTable( { + * "sDom": 'Rlfrtip', + * "oColReorder": { + * "iFixedColumnsRight": 1 + * } + * } ); + * + * @example + * // Using `new` constructor + * $('#example').dataTable() + * + * new $.fn.dataTable.ColReorder( '#example', { + * "iFixedColumnsRight": 1 + * } ); + */ + iFixedColumnsRight: 0, + + /** + * Callback function that is fired when columns are reordered + * @type function():void + * @default null + * @static + * @example + * // Using the `oColReorder` option in the DataTables options object + * $('#example').dataTable( { + * "sDom": 'Rlfrtip', + * "oColReorder": { + * "fnReorderCallback": function () { + * alert( 'Columns reordered' ); + * } + * } + * } ); + * + * @example + * // Using `new` constructor + * $('#example').dataTable() + * + * new $.fn.dataTable.ColReorder( '#example', { + * "fnReorderCallback": function () { + * alert( 'Columns reordered' ); + * } + * } ); + */ + fnReorderCallback: null +}; + + + +/* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * + * Constants + * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */ + +/** + * ColReorder version + * @constant version + * @type String + * @default As code + */ +ColReorder.version = "1.1.3"; + + + +/* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * + * DataTables interfaces + * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */ + +// Expose +$.fn.dataTable.ColReorder = ColReorder; +$.fn.DataTable.ColReorder = ColReorder; + + +// Register a new feature with DataTables +if ( typeof $.fn.dataTable == "function" && + typeof $.fn.dataTableExt.fnVersionCheck == "function" && + $.fn.dataTableExt.fnVersionCheck('1.9.3') ) +{ + $.fn.dataTableExt.aoFeatures.push( { + "fnInit": function( settings ) { + var table = settings.oInstance; + + if ( ! settings._colReorder ) { + var dtInit = settings.oInit; + var opts = dtInit.colReorder || dtInit.oColReorder || {}; + + new ColReorder( settings, opts ); + } + else { + table.oApi._fnLog( settings, 1, "ColReorder attempted to initialise twice. Ignoring second" ); + } + + return null; /* No node for DataTables to insert */ + }, + "cFeature": "R", + "sFeature": "ColReorder" + } ); +} +else { + alert( "Warning: ColReorder requires DataTables 1.9.3 or greater - www.datatables.net/download"); +} + + +// API augmentation +if ( $.fn.dataTable.Api ) { + $.fn.dataTable.Api.register( 'colReorder.reset()', function () { + return this.iterator( 'table', function ( ctx ) { + ctx._colReorder.fnReset(); + } ); + } ); + + $.fn.dataTable.Api.register( 'colReorder.order()', function ( set ) { + if ( set ) { + return this.iterator( 'table', function ( ctx ) { + ctx._colReorder.fnOrder( set ); + } ); + } + + return this.context.length ? + this.context[0]._colReorder.fnOrder() : + null; + } ); +} + +return ColReorder; +}; // /factory + + +// Define as an AMD module if possible +if ( typeof define === 'function' && define.amd ) { + define( ['jquery', 'datatables'], factory ); +} +else if ( typeof exports === 'object' ) { + // Node/CommonJS + factory( require('jquery'), require('datatables') ); +} +else if ( jQuery && !jQuery.fn.dataTable.ColReorder ) { + // Otherwise simply initialise as normal, stopping multiple evaluation + factory( jQuery, jQuery.fn.dataTable ); +} + + +})(window, document);
\ No newline at end of file diff --git a/wqflask/wqflask/static/new/packages/DataTables/extensions/dataTables.colResize.js b/wqflask/wqflask/static/new/packages/DataTables/extensions/dataTables.colResize.js new file mode 100644 index 00000000..2712750a --- /dev/null +++ b/wqflask/wqflask/static/new/packages/DataTables/extensions/dataTables.colResize.js @@ -0,0 +1,846 @@ +/*! ColResize 0.0.10 + */ + +/** + * @summary ColResize + * @description Provide the ability to resize columns in a DataTable + * @version 0.0.10 + * @file dataTables.colResize.js + * @author Silvacom Ltd. + * + * For details please refer to: http://www.datatables.net + * + * Special thank to everyone who has contributed to this plug in + * - dykstrad + * - tdillan (for 0.0.3 and 0.0.5 bug fixes) + * - kylealonius (for 0.0.8 bug fix) + * - the86freak (for 0.0.9 bug fix) + */ + +(function (window, document, undefined) { + + /* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * + * DataTables plug-in API functions test + * + * This are required by ColResize in order to perform the tasks required, and also keep this + * code portable, to be used for other column resize projects with DataTables, if needed. + * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */ + + var factory = function ($, DataTable) { + "use strict"; + + /** + * Plug-in for DataTables which will resize the columns depending on the handle clicked + * @method $.fn.dataTableExt.oApi.fnColResize + * @param object oSettings DataTables settings object - automatically added by DataTables! + * @param int iCol Take the column to be resized + * @returns void + */ + $.fn.dataTableExt.oApi.fnColResize = function (oSettings, iCol) { + var v110 = $.fn.dataTable.Api ? true : false; + + /* + * Update DataTables' event handlers + */ + + /* Fire an event so other plug-ins can update */ + $(oSettings.oInstance).trigger('column-resize', [ oSettings, { + "iCol": iCol + } ]); + }; + + /** + * ColResize provides column resize control for DataTables + * @class ColResize + * @constructor + * @param {object} dt DataTables settings object + * @param {object} opts ColResize options + */ + var ColResize = function (dt, opts) { + var oDTSettings; + + if ($.fn.dataTable.Api) { + oDTSettings = new $.fn.dataTable.Api(dt).settings()[0]; + } + // 1.9 compatibility + else if (dt.fnSettings) { + // DataTables object, convert to the settings object + oDTSettings = dt.fnSettings(); + } + else if (typeof dt === 'string') { + // jQuery selector + if ($.fn.dataTable.fnIsDataTable($(dt)[0])) { + oDTSettings = $(dt).eq(0).dataTable().fnSettings(); + } + } + else if (dt.nodeName && dt.nodeName.toLowerCase() === 'table') { + // Table node + if ($.fn.dataTable.fnIsDataTable(dt.nodeName)) { + oDTSettings = $(dt.nodeName).dataTable().fnSettings(); + } + } + else if (dt instanceof jQuery) { + // jQuery object + if ($.fn.dataTable.fnIsDataTable(dt[0])) { + oDTSettings = dt.eq(0).dataTable().fnSettings(); + } + } + else { + // DataTables settings object + oDTSettings = dt; + } + + // Convert from camelCase to Hungarian, just as DataTables does + if ($.fn.dataTable.camelToHungarian) { + $.fn.dataTable.camelToHungarian(ColResize.defaults, opts || {}); + } + + + /* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * + * Public class variables + * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */ + + /** + * @namespace Settings object which contains customizable information for ColResize instance + */ + this.s = { + /** + * DataTables settings object + * @property dt + * @type Object + * @default null + */ + "dt": null, + + /** + * Initialisation object used for this instance + * @property init + * @type object + * @default {} + */ + "init": $.extend(true, {}, ColResize.defaults, opts), + + /** + * @namespace Information used for the mouse drag + */ + "mouse": { + "startX": -1, + "startY": -1, + "targetIndex": -1, + "targetColumn": -1, + "neighbourIndex": -1, + "neighbourColumn": -1 + }, + + /** + * Status variable keeping track of mouse down status + * @property isMousedown + * @type boolean + * @default false + */ + "isMousedown": false + }; + + + /** + * @namespace Common and useful DOM elements for the class instance + */ + this.dom = { + /** + * Resizing element (the one the mouse is resizing) + * @property resize + * @type element + * @default null + */ + "resizeCol": null, + + /** + * Resizing element neighbour (the column next to the one the mouse is resizing) + * This is for fixed table resizing. + * @property resize + * @type element + * @default null + */ + "resizeColNeighbour": null, + + /** + * Array of events to be restored, used for overriding existing events from other plugins for a time. + * @property restoreEvents + * @type array + * @default [] + */ + "restoreEvents": [] + }; + + + /* Constructor logic */ + this.s.dt = oDTSettings.oInstance.fnSettings(); + this.s.dt._colResize = this; + this._fnConstruct(); + + /* Add destroy callback */ + oDTSettings.oApi._fnCallbackReg(oDTSettings, 'aoDestroyCallback', $.proxy(this._fnDestroy, this), 'ColResize'); + + return this; + }; + + + ColResize.prototype = { + /* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * + * Public methods + * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */ + + /** + * Reset the column widths to the original widths that was detected on + * start up. + * @return {this} Returns `this` for chaining. + * + * @example + * // DataTables initialisation with ColResize + * var table = $('#example').dataTable( { + * "sDom": 'Zlfrtip' + * } ); + * + * // Add click event to a button to reset the ordering + * $('#resetOrdering').click( function (e) { + * e.preventDefault(); + * $.fn.dataTable.ColResize( table ).fnReset(); + * } ); + */ + "fnReset": function () { + var a = []; + for (var i = 0, iLen = this.s.dt.aoColumns.length; i < iLen; i++) { + this.s.dt.aoColumns[i].width = this.s.dt.aoColumns[i]._ColResize_iOrigWidth; + } + + this.s.dt.adjust().draw(); + + return this; + }, + + + /* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * + * Private methods (they are of course public in JS, but recommended as private) + * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */ + + /** + * Constructor logic + * @method _fnConstruct + * @returns void + * @private + */ + "_fnConstruct": function () { + var that = this; + var iLen = that.s.dt.aoColumns.length; + var i; + + that._fnSetupMouseListeners(); + + /* Add event handlers for the resize handles */ + for (i = 0; i < iLen; i++) { + /* Mark the original column width for later reference */ + this.s.dt.aoColumns[i]._ColResize_iOrigWidth = this.s.dt.aoColumns[i].width; + } + + this._fnSetColumnIndexes(); + + /* State saving */ + this.s.dt.oApi._fnCallbackReg( this.s.dt, 'aoStateSaveParams', function (oS, oData) { + that._fnStateSave.call(that, oData); + }, "ColResize_State" ); + + // State loading + this._fnStateLoad(); + }, + + /** + * @method _fnStateSave + * @param object oState DataTables state + * @private + */ + "_fnStateSave": function (oState) { + this.s.dt.aoColumns.forEach(function(col, index) { + oState.columns[index].width = col.sWidthOrig; + }); + }, + + /** + * If state has been loaded, apply the saved widths to the columns + * @method _fnStateLoad + * @private + */ + "_fnStateLoad": function() { + var that = this, + loadedState = this.s.dt.oLoadedState; + if (loadedState && loadedState.columns) { + var colStates = loadedState.columns, + currCols = this.s.dt.aoColumns; + // Only apply the saved widths if the number of columns is the same. + // Otherwise, we don't know if we're applying the width to the correct column. + if (colStates.length > 0 && colStates.length === currCols.length) { + colStates.forEach(function(state, index) { + var col = that.s.dt.aoColumns[index]; + if (state.width) { + col.sWidthOrig = col.sWidth = state.width; + } + }); + } + } + }, + + /** + * Remove events of type from obj add it to restoreEvents array to be restored at a later time + * @param until string flag when to restore the event + * @param obj Object to remove events from + * @param type type of event to remove + * @param namespace namespace of the event being removed + */ + "_fnDelayEvents": function (until, obj, type, namespace) { + var that = this; + //Get the events for the object + var events = $._data($(obj).get(0), 'events'); + $.each(events, function (i, o) { + //If the event type matches + if (i == type) { + //Loop through the possible many events with that type + $.each(o, function (k, v) { + //Somehow it is possible for the event to be undefined make sure it is defined first + if (v) { + if (namespace) { + //Add the event to the array of events to be restored later + that.dom.restoreEvents.push({"until": until, "obj": obj, "type": v.type, "namespace": v.namespace, "handler": v.handler}); + //If the namespace matches + if (v.namespace == namespace) { + //Turn off/unbind the event + $(obj).off(type + "." + namespace); + } + } else { + //Add the event to the array of events to be restored later + that.dom.restoreEvents.push({"until": until, "obj": obj, "type": v.type, "namespace": null, "handler": v.handler}); + //Turn off/unbind the event + $(obj).off(type); + } + } + }); + } + }); + }, + + /** + * Loop through restoreEvents array and restore the events on the elements provided + */ + "_fnRestoreEvents": function (until) { + var that = this; + //Loop through the events to be restored + var i; + for (i = that.dom.restoreEvents.length; i--;) { + if (that.dom.restoreEvents[i].until == undefined || that.dom.restoreEvents[i].until == null || that.dom.restoreEvents[i].until == until) { + if (that.dom.restoreEvents[i].namespace) { + //Turn on the event for the object provided + $(that.dom.restoreEvents[i].obj).off(that.dom.restoreEvents[i].type + "." + that.dom.restoreEvents[i].namespace).on(that.dom.restoreEvents[i].type + "." + that.dom.restoreEvents[i].namespace, that.dom.restoreEvents[i].handler); + that.dom.restoreEvents.splice(i, 1); + } else { + //Turn on the event for the object provided + $(that.dom.restoreEvents[i].obj).off(that.dom.restoreEvents[i].type).on(that.dom.restoreEvents[i].type, that.dom.restoreEvents[i].handler); + that.dom.restoreEvents.splice(i, 1); + } + } + } + }, + + /* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * + * Mouse drop and drag + */ + + "_fnSetupMouseListeners":function() { + var that = this; + $(that.s.dt.nTableWrapper).off("mouseenter.ColResize").on("mouseenter.ColResize","th",function(e) { + e.preventDefault(); + that._fnMouseEnter.call(that, e, this); + }); + $(that.s.dt.nTableWrapper).off("mouseleave.ColResize").on("mouseleave.ColResize","th",function(e) { + e.preventDefault(); + that._fnMouseLeave.call(that, e, this); + }); + }, + + /** + * Add mouse listeners to the resize handle on TH element + * @method _fnMouseListener + * @param i Column index + * @param nTh TH resize handle element clicked on + * @returns void + * @private + */ + "_fnMouseListener": function (i, nTh) { + var that = this; + $(nTh).off('mouseenter.ColResize').on('mouseenter.ColResize', function (e) { + e.preventDefault(); + that._fnMouseEnter.call(that, e, nTh); + }); + $(nTh).off('mouseleave.ColResize').on('mouseleave.ColResize', function (e) { + e.preventDefault(); + that._fnMouseLeave.call(that, e, nTh); + }); + }, + + /** + * + * @param e Mouse event + * @param nTh TH element that the mouse is over + */ + "_fnMouseEnter": function (e, nTh) { + var that = this; + if(!that.s.isMousedown) { + //Once the mouse has entered the cell add mouse move event to see if the mouse is over resize handle + $(nTh).off('mousemove.ColResizeHandle').on('mousemove.ColResizeHandle', function (e) { + e.preventDefault(); + that._fnResizeHandleCheck.call(that, e, nTh); + }); + } + }, + + /** + * Clear mouse events when the mouse has left the th + * @param e Mouse event + * @param nTh TH element that the mouse has just left + */ + "_fnMouseLeave": function (e, nTh) { + //Once the mouse has left the TH make suure to remove the mouse move listener + $(nTh).off('mousemove.ColResizeHandle'); + }, + + /** + * Mouse down on a TH element in the table header + * @method _fnMouseDown + * @param event e Mouse event + * @param element nTh TH element to be resized + * @returns void + * @private + */ + "_fnMouseDown": function (e, nTh) { + var that = this; + + that.s.isMousedown = true; + + /* Store information about the mouse position */ + var target = $(e.target).closest('th, td'); + var offset = target.offset(); + + /* Store information about the mouse position for resize calculations in mouse move function */ + this.s.mouse.startX = e.pageX; + this.s.mouse.startY = e.pageY; + + //Store the indexes of the columns the mouse is down on + var idx = that.dom.resizeCol[0].cellIndex; + + // the last column has no 'right-side' neighbour + // with fixed this can make the table smaller + if (that.dom.resizeColNeighbour[0] === undefined){ + var idxNeighbour = 0; + } else { + var idxNeighbour = that.dom.resizeColNeighbour[0].cellIndex; + } + + + + if (idx === undefined) { + return; + } + + this.s.mouse.targetIndex = idx; + this.s.mouse.targetColumn = this.s.dt.aoColumns[ idx ]; + + this.s.mouse.neighbourIndex = idxNeighbour; + this.s.mouse.neighbourColumn = this.s.dt.aoColumns[ idxNeighbour ]; + + /* Add event handlers to the document */ + $(document) + .off('mousemove.ColResize').on('mousemove.ColResize', function (e) { + that._fnMouseMove.call(that, e); + }) + .off('mouseup.ColResize').on('mouseup.ColResize', function (e) { + that._fnMouseUp.call(that, e); + }); + }, + + /** + * Deal with a mouse move event while dragging to resize a column + * @method _fnMouseMove + * @param e Mouse event + * @returns void + * @private + */ + "_fnMouseMove": function (e) { + var that = this; + + var offset = $(that.s.mouse.targetColumn.nTh).offset(); + var relativeX = (e.pageX - offset.left); + var distFromLeft = relativeX; + var distFromRight = $(that.s.mouse.targetColumn.nTh).outerWidth() - relativeX - 1; + + //Change in mouse x position + var dx = e.pageX - that.s.mouse.startX; + //Get the minimum width of the column (default minimum 10px) + var minColumnWidth = Math.max(parseInt($(that.s.mouse.targetColumn.nTh).css('min-width')), 10); + //Store the previous width of the column + var prevWidth = $(that.s.mouse.targetColumn.nTh).width(); + //As long as the cursor is past the handle, resize the columns + if ((dx > 0 && distFromRight <= 0) || (dx < 0 && distFromRight >= 0)) { + if (!that.s.init.tableWidthFixed) { + //As long as the width is larger than the minimum + var newColWidth = Math.max(minColumnWidth, prevWidth + dx); + //Get the width difference (take into account the columns minimum width) + var widthDiff = newColWidth - prevWidth; + var colResizeIdx = parseInt(that.dom.resizeCol.attr("data-column-index")); + //Set datatable column widths + that.s.mouse.targetColumn.sWidthOrig = that.s.mouse.targetColumn.sWidth = that.s.mouse.targetColumn.width = newColWidth + "px"; + var domCols = $(that.s.dt.nTableWrapper).find("th[data-column-index='"+colResizeIdx+"']"); + //For each table expand the width by the same amount as the column + //This accounts for other datatable plugins like FixedColumns + domCols.parents("table").each(function() { + if(!$(this).parent().hasClass("DTFC_LeftBodyLiner")) { + var newWidth = $(this).width() + widthDiff; + $(this).width(newWidth); + } else { + var newWidth =$(that.s.dt.nTableWrapper).find(".DTFC_LeftHeadWrapper").children("table").width(); + $(this).parents(".DTFC_LeftWrapper").width(newWidth); + $(this).parent().width(newWidth+15); + $(this).width(newWidth); + } + }); + //Apply the new width to the columns after the table has been resized + domCols.width(that.s.mouse.targetColumn.width); + } else { + //A neighbour column must exist in order to resize a column in a table with a fixed width + if (that.s.mouse.neighbourColumn) { + //Get the minimum width of the neighbor column (default minimum 10px) + var minColumnNeighbourWidth = Math.max(parseInt($(that.s.mouse.neighbourColumn.nTh).css('min-width')), 10); + //Store the previous width of the neighbour column + var prevNeighbourWidth = $(that.s.mouse.neighbourColumn.nTh).width(); + //As long as the width is larger than the minimum + var newColWidth = Math.max(minColumnWidth, prevWidth + dx); + var newColNeighbourWidth = Math.max(minColumnNeighbourWidth, prevNeighbourWidth - dx); + //Get the width difference (take into account the columns minimum width) + var widthDiff = newColWidth - prevWidth; + var widthDiffNeighbour = newColNeighbourWidth - prevNeighbourWidth; + //Get the column index for the column being changed + var colResizeIdx = parseInt(that.dom.resizeCol.attr("data-column-index")); + var neighbourColResizeIdx = parseInt(that.dom.resizeColNeighbour.attr("data-column-index")); + //Set datatable column widths + that.s.mouse.neighbourColumn.sWidthOrig = that.s.mouse.neighbourColumn.sWidth = that.s.mouse.neighbourColumn.width = newColNeighbourWidth + "px"; + that.s.mouse.targetColumn.sWidthOrig = that.s.mouse.targetColumn.sWidth = that.s.mouse.targetColumn.width = newColWidth + "px"; + //Get list of columns based on column index in all affected tables tables. This accounts for other plugins like FixedColumns + var domNeighbourCols = $(that.s.dt.nTableWrapper).find("th[data-column-index='" + neighbourColResizeIdx + "']"); + var domCols = $(that.s.dt.nTableWrapper).find("th[data-column-index='" + colResizeIdx + "']"); + //If dx if positive (the width is getting larger) shrink the neighbour columns first + if(dx>0) { + domNeighbourCols.width(that.s.mouse.neighbourColumn.width); + domCols.width(that.s.mouse.targetColumn.width); + } else { + //Apply the new width to the columns then to the neighbour columns + domCols.width(that.s.mouse.targetColumn.width); + domNeighbourCols.width(that.s.mouse.neighbourColumn.width); + } + } + } + } + that.s.mouse.startX = e.pageX; + }, + + /** + * Check to see if the mouse is over the resize handle area + * @param e + * @param nTh + */ + "_fnResizeHandleCheck": function (e, nTh) { + var that = this; + + var offset = $(nTh).offset(); + var relativeX = (e.pageX - offset.left); + var relativeY = (e.pageY - offset.top); + var distFromLeft = relativeX; + var distFromRight = $(nTh).outerWidth() - relativeX - 1; + + var handleBuffer = this.s.init.handleWidth / 2; + var leftHandleOn = distFromLeft < handleBuffer; + var rightHandleOn = distFromRight < handleBuffer; + + //If this is the first table cell + if ($(nTh).prev("th").length == 0) { + if(this.s.init.rtl) + rightHandleOn = false; + else + leftHandleOn = false; + } + //If this is the last cell and the table is fixed width don't let them expand the last cell directly + if ($(nTh).next("th").length == 0 && this.s.init.tableWidthFixed) { + if(this.s.init.rtl) + leftHandleOn = false; + else + rightHandleOn = false; + } + + var resizeAvailable = leftHandleOn||rightHandleOn; + + //If table is in right to left mode flip which TH is being resized + if (that.s.init.rtl) { + //Handle is to the left + if (leftHandleOn) { + that.dom.resizeCol = $(nTh); + that.dom.resizeColNeighbour = $(nTh).next(); + } else if (rightHandleOn) { + that.dom.resizeCol = $(nTh).prev(); + that.dom.resizeColNeighbour = $(nTh); + } + } else { + //Handle is to the right + if (rightHandleOn) { + that.dom.resizeCol = $(nTh); + that.dom.resizeColNeighbour = $(nTh).next(); + } else if (leftHandleOn) { + that.dom.resizeCol = $(nTh).prev(); + that.dom.resizeColNeighbour = $(nTh); + } + } + + //If table width is fixed make sure both columns are resizable else just check the one. + if(this.s.init.tableWidthFixed) + resizeAvailable &= this.s.init.exclude.indexOf(parseInt($(that.dom.resizeCol).attr("data-column-index"))) == -1 && this.s.init.exclude.indexOf(parseInt($(that.dom.resizeColNeighbour).attr("data-column-index"))) == -1; + else + resizeAvailable &= this.s.init.exclude.indexOf(parseInt($(that.dom.resizeCol).attr("data-column-index"))) == -1; + + $(nTh).off('mousedown.ColResize'); + if (resizeAvailable) { + $(nTh).css("cursor", "ew-resize"); + + //Delay other mousedown events from the Reorder plugin + that._fnDelayEvents(null, nTh, "mousedown", "ColReorder"); + that._fnDelayEvents("click", nTh, "click", "DT"); + + $(nTh).off('mousedown.ColResize').on('mousedown.ColResize', function (e) { + e.preventDefault(); + that._fnMouseDown.call(that, e, nTh); + }) + .off('click.ColResize').on('click.ColResize', function (e) { + that._fnClick.call(that, e); + }); + } else { + $(nTh).css("cursor", "pointer"); + $(nTh).off('mousedown.ColResize click.ColResize'); + //Restore any events that were removed + that._fnRestoreEvents(); + //This is to restore column sorting on click functionality + if (!that.s.isMousedown) + //Restore click event if mouse is not down + this._fnRestoreEvents("click"); + } + }, + + "_fnClick": function (e) { + var that = this; + that.s.isMousedown = false; + e.stopImmediatePropagation(); + }, + + /** + * Finish off the mouse drag + * @method _fnMouseUp + * @param e Mouse event + * @returns void + * @private + */ + "_fnMouseUp": function (e) { + var that = this; + that.s.isMousedown = false; + + //Fix width of column to be the size the dom is limited to (for when user sets min-width on a column) + that.s.mouse.targetColumn.width = that.dom.resizeCol.width(); + + $(document).off('mousemove.ColResize mouseup.ColResize'); + this.s.dt.oInstance.fnAdjustColumnSizing(); + //Table width fix, prevents extra gaps between tables + var LeftWrapper = $(that.s.dt.nTableWrapper).find(".DTFC_LeftWrapper"); + var DTFC_LeftWidth = LeftWrapper.width(); + LeftWrapper.children(".DTFC_LeftHeadWrapper").children("table").width(DTFC_LeftWidth); + + if (that.s.init.resizeCallback) { + that.s.init.resizeCallback.call(that, that.s.mouse.targetColumn); + } + }, + + /** + * Clean up ColResize memory references and event handlers + * @method _fnDestroy + * @returns void + * @private + */ + "_fnDestroy": function () { + var i, iLen; + + for (i = 0, iLen = this.s.dt.aoDrawCallback.length; i < iLen; i++) { + if (this.s.dt.aoDrawCallback[i].sName === 'ColResize_Pre') { + this.s.dt.aoDrawCallback.splice(i, 1); + break; + } + } + + $(this.s.dt.nTHead).find('*').off('.ColResize'); + + $.each(this.s.dt.aoColumns, function (i, column) { + $(column.nTh).removeAttr('data-column-index'); + }); + + this.s.dt._colResize = null; + this.s = null; + }, + + + /** + * Add a data attribute to the column headers, so we know the index of + * the row to be reordered. This allows fast detection of the index, and + * for this plug-in to work with FixedHeader which clones the nodes. + * @private + */ + "_fnSetColumnIndexes": function () { + $.each(this.s.dt.aoColumns, function (i, column) { + $(column.nTh).attr('data-column-index', i); + }); + } + }; + + + /* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * + * Static parameters + * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */ + + + /** + * ColResize default settings for initialisation + * @namespace + * @static + */ + ColResize.defaults = { + /** + * Callback function that is fired when columns are resized + * @type function():void + * @default null + * @static + */ + "resizeCallback": null, + + /** + * Exclude array for columns that are not resizable + * @property exclude + * @type array of indexes that are excluded from resizing + * @default [] + */ + "exclude": [], + + /** + * Check to see if user is using a fixed table width or dynamic + * if true: + * -Columns will resize themselves and their neighbour + * -If neighbour is excluded resize will not occur + * if false: + * -Columns will resize themselves and increase or decrease the width of the table accordingly + */ + "tableWidthFixed": true, + + /** + * Width of the resize handle in pixels + * @property handleWidth + * @type int (pixels) + * @default 10 + */ + "handleWidth": 10, + + /** + * Right to left support, when true flips which column they are resizing on mouse down + * @property rtl + * @type bool + * @default false + */ + "rtl": false + }; + + + /* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * + * Constants + * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */ + + /** + * ColResize version + * @constant version + * @type String + * @default As code + */ + ColResize.version = "0.0.10"; + + + /* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * + * DataTables interfaces + * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * */ + + // Expose + $.fn.dataTable.ColResize = ColResize; + $.fn.DataTable.ColResize = ColResize; + + + // Register a new feature with DataTables + if (typeof $.fn.dataTable == "function" && + typeof $.fn.dataTableExt.fnVersionCheck == "function" && + $.fn.dataTableExt.fnVersionCheck('1.9.3')) { + $.fn.dataTableExt.aoFeatures.push({ + "fnInit": function (settings) { + var table = settings.oInstance; + + if (!settings._colResize) { + var dtInit = settings.oInit; + var opts = dtInit.colResize || dtInit.oColResize || {}; + + new ColResize(settings, opts); + } + else { + table.oApi._fnLog(settings, 1, "ColResize attempted to initialise twice. Ignoring second"); + } + + return null; + /* No node for DataTables to insert */ + }, + "cFeature": "Z", + "sFeature": "ColResize" + }); + } else { + alert("Warning: ColResize requires DataTables 1.9.3 or greater - www.datatables.net/download"); + } + + +// API augmentation + if ($.fn.dataTable.Api) { + $.fn.dataTable.Api.register('colResize.reset()', function () { + return this.iterator('table', function (ctx) { + ctx._colResize.fnReset(); + }); + }); + } + + return ColResize; + }; // /factory + + +// Define as an AMD module if possible +if ( typeof define === 'function' && define.amd ) { + define( ['jquery', 'datatables'], factory ); +} +else if ( typeof exports === 'object' ) { + // Node/CommonJS + factory( require('jquery'), require('datatables') ); +} +else if (jQuery && !jQuery.fn.dataTable.ColResize) { + // Otherwise simply initialise as normal, stopping multiple evaluation + factory(jQuery, jQuery.fn.dataTable); +} + + +})(window, document);
\ No newline at end of file diff --git a/wqflask/wqflask/static/new/packages/DataTables/extensions/dataTables.colResize2.js b/wqflask/wqflask/static/new/packages/DataTables/extensions/dataTables.colResize2.js new file mode 100644 index 00000000..6ef9907a --- /dev/null +++ b/wqflask/wqflask/static/new/packages/DataTables/extensions/dataTables.colResize2.js @@ -0,0 +1,943 @@ +var dt; +(function (dt) { + var ColResize = (function () { + function ColResize($, api, settings) { + this.$ = $; + this.tableSize = -1; + this.initialized = false; + this.dt = {}; + this.dom = { + fixedLayout: false, + fixedHeader: null, + winResizeTimer: null, + mouse: { + startX: -1, + startWidth: null + }, + table: { + prevWidth: null + }, + origState: true, + resize: false, + scrollHead: null, + scrollHeadTable: null, + scrollFoot: null, + scrollFootTable: null, + scrollFootInner: null, + scrollBody: null, + scrollBodyTable: null, + scrollX: false, + scrollY: false + }; + this.settings = this.$.extend(true, {}, dt.ColResize.defaultSettings, settings); + this.dt.settings = api.settings()[0]; + this.dt.api = api; + this.dt.settings.colResize = this; + this.registerCallbacks(); + } + ColResize.prototype.initialize = function () { + var _this = this; + this.$.each(this.dt.settings.aoColumns, function (i, col) { + return _this.setupColumn(col); + }); + + //Initialize fixedHeader if specified + if (this.settings.fixedHeader) + this.setupFixedHeader(); + + //Save scroll head and body if found + this.dom.scrollHead = this.$('div.' + this.dt.settings.oClasses.sScrollHead, this.dt.settings.nTableWrapper); + this.dom.scrollHeadInner = this.$('div.' + this.dt.settings.oClasses.sScrollHeadInner, this.dom.scrollHead); + this.dom.scrollHeadTable = this.$('div.' + this.dt.settings.oClasses.sScrollHeadInner + ' > table', this.dom.scrollHead); + + this.dom.scrollFoot = this.$('div.' + this.dt.settings.oClasses.sScrollFoot, this.dt.settings.nTableWrapper); + this.dom.scrollFootInner = this.$('div.' + this.dt.settings.oClasses.sScrollFootInner, this.dom.scrollFoot); + this.dom.scrollFootTable = this.$('div.' + this.dt.settings.oClasses.sScrollFootInner + ' > table', this.dom.scrollFoot); + + this.dom.scrollBody = this.$('div.' + this.dt.settings.oClasses.sScrollBody, this.dt.settings.nTableWrapper); + this.dom.scrollBodyTable = this.$('> table', this.dom.scrollBody); + this.dt.api.on('draw.dt', this.onDraw.bind(this)); + if (this.dom.scrollFootTable) { + this.dt.api.on('colPinFcDraw.dt', function (e, colPin, data) { + if (data.leftClone.header) + _this.$('tfoot', data.leftClone.header).remove(); + if (data.leftClone.footer) + _this.$('thead', data.leftClone.footer).remove(); + if (data.rightClone.header) + _this.$('tfoot', data.rightClone.header).remove(); + if (data.rightClone.footer) + _this.$('thead', data.rightClone.footer).remove(); + }); + } + + this.dom.scrollX = this.dt.settings.oInit.sScrollX === undefined ? false : true; + this.dom.scrollY = this.dt.settings.oInit.sScrollY === undefined ? false : true; + + //SaveTableWidth + this.dt.settings.sTableWidthOrig = this.$(this.dt.settings.nTable).width(); + this.updateTableSize(); + + this.dt.settings.oFeatures.bAutoWidthOrig = this.dt.settings.oFeatures.bAutoWidth; + this.dt.settings.oFeatures.bAutoWidth = false; + + if (this.dt.settings.oInit.bStateSave && this.dt.settings.oLoadedState) { + this.loadState(this.dt.settings.oLoadedState); + } + + this.onDraw(); + this.dom.table.preWidth = parseFloat(this.dom.scrollBodyTable.css('width')); + + if (!this.dom.scrollX && this.dom.scrollY && this.settings.fixedLayout && this.dt.settings._reszEvt) { + //We have to manually resize columns on window resize + var eventName = 'resize.DT-' + this.dt.settings.sInstance; + this.$(window).off(eventName); + this.$(window).on(eventName, function () { + _this.proportionallyColumnSizing(); + //api._fnAdjustColumnSizing(this.dt.settings); + }); + } + + if (this.dom.scrollX || this.dom.scrollY) { + this.dt.api.on('column-sizing.dt', this.fixFootAndHeadTables.bind(this)); + this.dt.api.on('column-visibility.dt', this.fixFootAndHeadTables.bind(this)); + } + + this.initialized = true; + this.dt.settings.oApi._fnCallbackFire(this.dt.settings, 'colResizeInitCompleted', 'colResizeInitCompleted', [this]); + }; + + ColResize.prototype.setupColumn = function (col) { + var _this = this; + var $th = this.$(col.nTh); + if (col.resizable === false) + return; + + // listen to mousemove event for resize + $th.on('mousemove.ColResize', function (e) { + if (_this.dom.resize || col.resizable === false) + return; + + /* Store information about the mouse position */ + var $thTarget = e.target.nodeName.toUpperCase() == 'TH' ? _this.$(e.target) : _this.$(e.target).closest('TH'); + var offset = $thTarget.offset(); + var nLength = $thTarget.innerWidth(); + + /* are we on the col border (if so, resize col) */ + if (Math.abs(e.pageX - Math.round(offset.left + nLength)) <= 5) { + $thTarget.css({ 'cursor': 'col-resize' }); + } else + $thTarget.css({ 'cursor': 'pointer' }); + }); + + //Save the original width + col._ColResize_sWidthOrig = col.sWidthOrig; + col.initWidth = $th.width(); + col.minWidthOrig = col.minWidth; + + $th.on('dblclick.ColResize', function (e) { + _this.onDblClick(e, $th, col); + }); + + $th.off('mousedown.ColReorder'); + + // listen to mousedown event + $th.on('mousedown.ColResize', function (e) { + return _this.onMouseDown(e, col); + }); + }; + + ColResize.prototype.setupFixedHeader = function () { + var fhSettings = this.settings.fixedHeader === true ? undefined : this.settings.fixedHeader; + + //If left or right option was set to true disable resizing for the first or last column + if (this.$.isPlainObject(fhSettings)) { + var columns = this.dt.settings.aoColumns; + if (fhSettings.left === true) + columns[0].resizable = false; + if (fhSettings.right === true) + columns[columns.length - 1].resizable = false; + } + + this.dom.fixedHeader = new this.$.fn.dataTable.FixedHeader(this.dt.api, fhSettings); + var origUpdateClones = this.dom.fixedHeader._fnUpdateClones; + var that = this; + + //FixeHeader doesn't have any callback after updating the clones so we have to wrap the orig function + this.dom.fixedHeader._fnUpdateClones = function () { + origUpdateClones.apply(this, arguments); + that.memorizeFixedHeaderNodes(); + }; + + //As we missed the first call of _fnUpdateClones we have to call memorizeFixedHeaderNodes function manually + this.memorizeFixedHeaderNodes(); + }; + + ColResize.prototype.memorizeFixedHeaderNodes = function () { + var _this = this; + var fhSettings = this.dom.fixedHeader.fnGetSettings(); + var fhCache = fhSettings.aoCache; + var i, col; + for (i = 0; i < fhCache.length; i++) { + var type = fhCache[i].sType; + var propName; + var selector; + switch (type) { + case 'fixedHeader': + propName = 'fhTh'; + selector = 'thead>tr>th'; + this.dt.settings.fhTHead = fhCache[i].nNode; + break; + case 'fixedFooter': + propName = 'fhTf'; + selector = 'thead>tr>th'; + + //prepend a cloned thead to the floating footer table so that resizing will work correctly + var tfoot = this.$(fhCache[i].nNode); + var thead = this.$(this.dt.settings.nTHead).clone().css({ height: 0, visibility: 'hidden' }); + this.$('tr', thead).css('height', 0); + this.$('tr>th', thead).css({ + 'height': 0, + 'padding-bottom': 0, + 'padding-top': 0, + 'border-bottom-width': 0, + 'border-top-width': 0, + 'line-height': 0 + }); + tfoot.prepend(thead); + this.$('tfoot>tr>th', tfoot).css('width', ''); + this.dt.settings.fhTFoot = fhCache[i].nNode; + break; + default: + continue; + } + + this.$(selector, fhCache[i].nNode).each(function (j, th) { + col = _this.getVisibleColumn(j); + col[propName] = th; + }); + } + }; + + //zero based index + ColResize.prototype.getVisibleColumn = function (idx) { + var columns = this.dt.settings.aoColumns; + var currVisColIdx = -1; + for (var i = 0; i < columns.length; i++) { + if (!columns[i].bVisible) + continue; + currVisColIdx++; + if (currVisColIdx == idx) + return columns[i]; + } + return null; + }; + + ColResize.prototype.updateTableSize = function () { + if (this.dom.scrollX && this.dom.scrollHeadTable.length) + this.tableSize = this.dom.scrollHeadTable.width(); + else + this.tableSize = -1; + }; + + ColResize.prototype.proportionallyColumnSizing = function () { + var _this = this; + var prevWidths = [], newWidths = [], prevWidth, newWidth, newTableWidth, prevTableWidth, moveLength, multiplier, cWidth, i, j, delay = 500, prevTotalColWidths = 0, currTotalColWidths, columnRestWidths = [], columns = this.dt.settings.aoColumns, bodyTableColumns = this.$('thead th', this.dom.scrollBodyTable), headTableColumns = this.$('thead th', this.dom.scrollHeadTable), footTableColumns = this.dom.scrollFootTable.length ? this.$('thead th', this.dom.scrollFootTable) : [], visColumns = []; + + for (i = 0; i < columns.length; i++) { + if (!columns[i].bVisible) + continue; + visColumns.push(columns[i]); + columnRestWidths.push(0); //set default value + } + + for (i = 0; i < bodyTableColumns.length; i++) { + cWidth = parseFloat(bodyTableColumns[i].style.width); + prevTotalColWidths += cWidth; + prevWidths.push(cWidth); + } + + for (i = 0; i < bodyTableColumns.length; i++) { + bodyTableColumns[i].style.width = ''; + } + + //Get the new table width calculated by the browser + newTableWidth = parseFloat(this.dom.scrollBodyTable.css('width')); + + //Get the old table width + prevTableWidth = this.dom.table.preWidth; + moveLength = newTableWidth - prevTableWidth; + if (moveLength == 0) { + for (i = 0; i < bodyTableColumns.length; i++) { + bodyTableColumns[i].style.width = prevWidths[i] + 'px'; + } + return; + } + + //var tot = 0; + currTotalColWidths = prevTotalColWidths; + for (i = 0; i < visColumns.length; i++) { + //For each column calculate the new width + prevWidth = prevWidths[i]; + multiplier = (+(prevWidth / prevTotalColWidths).toFixed(2)); + + //tot += multiplier; + newWidth = prevWidth + (moveLength * multiplier) + columnRestWidths[i]; + currTotalColWidths -= prevWidth; + + //Check whether the column can be resized to the new calculated value + //if not, set it to the min or max width depends on the moveLength value + if (!this.canResizeColumn(visColumns[i], newWidth)) { + cWidth = moveLength > 0 ? this.getColumnMaxWidth(visColumns[i]) : this.getColumnMinWidth(visColumns[i]); + var rest = newWidth - cWidth; + newWidth = cWidth; + + for (j = (i + 1); j < visColumns.length; j++) { + columnRestWidths[j] += rest * (+(visColumns[j] / currTotalColWidths).toFixed(2)); + } + } + newWidths.push(newWidth); + } + + //Apply the calculated column widths to the headers cells + var tablesWidth = this.dom.scrollBodyTable.outerWidth() + 'px'; + for (i = 0; i < headTableColumns.length; i++) { + headTableColumns[i].style.width = newWidths[i] + 'px'; + } + this.dom.scrollHeadTable.css('width', tablesWidth); + this.dom.scrollHeadInner.css('width', tablesWidth); + + for (i = 0; i < bodyTableColumns.length; i++) { + bodyTableColumns[i].style.width = newWidths[i] + 'px'; + } + + if (this.dom.scrollFootTable.length) { + for (i = 0; i < footTableColumns.length; i++) { + footTableColumns[i].style.width = newWidths[i] + 'px'; + } + this.dom.scrollFootTable[0].style.width = tablesWidth; + this.dom.scrollFootInner[0].style.width = tablesWidth; + } + + //console.log('moveLength: ' + moveLength + ' multiplier: ' + tot); + //console.log(newWidths); + this.dom.table.preWidth = newTableWidth; + + //Call afterResizing function after the window stops resizing + if (this.dom.winResizeTimer) + clearTimeout(this.dom.winResizeTimer); + this.dom.winResizeTimer = setTimeout(function () { + _this.afterResizing(); + _this.dom.winResizeTimer = null; + }, delay); + }; + + ColResize.prototype.getColumnIndex = function (col) { + //Get the current column position + var colIdx = -1; + for (var i = 0; i < this.dt.settings.aoColumns.length; i++) { + if (this.dt.settings.aoColumns[i] === col) { + colIdx = i; + break; + } + } + return colIdx; + }; + + ColResize.prototype.getColumnEvent = function (th, type, ns) { + var event; + var thEvents = this.$._data(th, "events"); + this.$.each(thEvents[type] || [], function (idx, handler) { + if (handler.namespace === ns) + event = handler; + }); + return event; + }; + + ColResize.prototype.loadState = function (data) { + var _this = this; + var i, col; + + var onInit = function () { + if (_this.settings.fixedLayout) { + _this.setTablesLayout('fixed'); + } else { + _this.setTablesLayout('auto'); + } + if (!data.colResize) { + if (_this.dt.settings.oFeatures.bAutoWidthOrig) + _this.dt.settings.oFeatures.bAutoWidth = true; + else if (_this.dt.settings.sTableWidthOrig) + _this.$(_this.dt.settings.nTable).width(_this.dt.settings.sTableWidthOrig); + + for (i = 0; i < _this.dt.settings.aoColumns.length; i++) { + col = _this.dt.settings.aoColumns[i]; + if (col._ColResize_sWidthOrig) { + col.sWidthOrig = col._ColResize_sWidthOrig; + } + } + _this.dom.origState = true; + } else { + var columns = data.colResize.columns || []; + var wMap = {}; + + if (_this.dt.settings.oFeatures.bAutoWidth) { + _this.dt.settings.oFeatures.bAutoWidth = false; + } + + if (_this.dom.scrollX && data.colResize.tableSize > 0) { + _this.dom.scrollHeadTable.width(data.colResize.tableSize); + _this.dom.scrollHeadInner.width(data.colResize.tableSize); + _this.dom.scrollBodyTable.width(data.colResize.tableSize); + _this.dom.scrollFootTable.width(data.colResize.tableSize); + } + + for (i = 0; i < columns.length; i++) { + wMap[i] = columns[i]; + } + for (i = 0; i < _this.dt.settings.aoColumns.length; i++) { + col = _this.dt.settings.aoColumns[i]; + var idx = col._ColReorder_iOrigCol != null ? col._ColReorder_iOrigCol : i; + col.sWidth = wMap[idx]; + col.sWidthOrig = wMap[idx]; + col.nTh.style.width = columns[i]; + + //Check for FixedHeader + if (col.fhTh) + col.fhTh.style.width = columns[i]; + if (col.fhTf) + col.fhTf.style.width = columns[i]; + } + _this.dom.origState = false; + } + + _this.dt.api.columns.adjust(); + if (_this.dom.scrollX || _this.dom.scrollY) + _this.dt.api.draw(false); + }; + + if (this.initialized) { + onInit(); + return; + } + this.dt.settings.oApi._fnCallbackReg(this.dt.settings, 'colResizeInitCompleted', function () { + onInit(); + }, "ColResize_Init"); + }; + + ColResize.prototype.saveState = function (data) { + if (!this.dt.settings._bInitComplete) { + var oData = this.dt.settings.fnStateLoadCallback.call(this.dt.settings.oInstance, this.dt.settings); + if (oData && oData.colResize) + data.colResize = oData.colResize; + return; + } + this.updateTableSize(); + data.colResize = { + columns: [], + tableSize: this.tableSize + }; + + data.colResize.columns.length = this.dt.settings.aoColumns.length; + for (var i = 0; i < this.dt.settings.aoColumns.length; i++) { + var col = this.dt.settings.aoColumns[i]; + var idx = col._ColReorder_iOrigCol != null ? col._ColReorder_iOrigCol : i; + data.colResize.columns[idx] = col.sWidth; + } + }; + + ColResize.prototype.registerCallbacks = function () { + var _this = this; + /* State saving */ + this.dt.settings.oApi._fnCallbackReg(this.dt.settings, 'aoStateSaveParams', function (oS, oData) { + _this.saveState(oData); + }, "ColResize_StateSave"); + + /* State loading */ + this.dt.settings.oApi._fnCallbackReg(this.dt.settings, 'aoStateLoaded', function (oS, oData) { + _this.loadState(oData); + }, "ColResize_StateLoad"); + + if (this.$.fn.DataTable.models.oSettings.remoteStateInitCompleted !== undefined) { + //Integrate with remote state + this.dt.settings.oApi._fnCallbackReg(this.dt.settings, 'remoteStateLoadedParams', function (s, data) { + _this.loadState(data); + }, "ColResize_StateLoad"); + this.dt.settings.oApi._fnCallbackReg(this.dt.settings, 'remoteStateSaveParams', function (s, data) { + _this.saveState(data); + }, "ColResize_StateSave"); + } + }; + + ColResize.prototype.setTablesLayout = function (value) { + if (this.dom.scrollX || this.dom.scrollY) { + this.dom.scrollHeadTable.css('table-layout', value); + this.dom.scrollBodyTable.css('table-layout', value); + this.dom.scrollFootTable.css('table-layout', value); + } else { + this.$(this.dt.settings.nTable).css('table-layout', value); + } + this.dom.fixedLayout = value == 'fixed'; + }; + + //only when scrollX or scrollY are enabled + ColResize.prototype.fixFootAndHeadTables = function (e) { + var _this = this; + if (e != null && e.target !== this.dt.settings.nTable) + return; + + if (this.dom.scrollFootTable.length) { + this.$('thead', this.dom.scrollFootTable).remove(); + this.dom.scrollFootTable.prepend(this.$('thead', this.dom.scrollBodyTable).clone()); + } + this.$('tfoot', this.dom.scrollHeadTable).remove(); + this.dom.scrollHeadTable.append(this.$('tfoot', this.dom.scrollBodyTable).clone()); + var removeFooterWidth = function (table) { + _this.$('tfoot>tr>th', table).each(function (i, th) { + _this.$(th).css('width', ''); + }); + }; + + //Remove all tfoot headers widths + removeFooterWidth(this.dom.scrollFootTable); + removeFooterWidth(this.dom.scrollBodyTable); + removeFooterWidth(this.dom.scrollHeadTable); + }; + + ColResize.prototype.onDraw = function (e) { + if (e != null && e.target !== this.dt.settings.nTable) + return; + if (this.dom.scrollX || this.dom.scrollY) { + this.fixFootAndHeadTables(); + + //Fix the header table padding + if (this.dt.settings._bInitComplete) { + var borderWidth = this.dom.scrollHeadTable.outerWidth() - this.dom.scrollHeadTable.innerWidth(); + var paddingType = this.dt.settings.oBrowser.bScrollbarLeft ? 'padding-left' : 'padding-right'; + var paddingVal = parseFloat(this.dom.scrollHeadInner.css(paddingType)); + this.dom.scrollHeadInner.css(paddingType, (paddingVal + borderWidth) + 'px'); + } + } + + var autoWidthTypes = []; + if (this.settings.dblClick == 'autoMinFit' || !this.settings.fixedLayout) + autoWidthTypes.push('autoMinWidth'); + if (this.settings.dblClick == 'autoFit') + autoWidthTypes.push('autoWidth'); + + //Call this only once so that the table will be cloned only one time + if (autoWidthTypes.length) + this.updateColumnsAutoWidth(autoWidthTypes); + + if (!this.settings.fixedLayout) { + var columns = this.dt.settings.aoColumns; + var i; + for (i = 0; i < columns.length; i++) { + if (!columns[i].bVisible) + continue; + columns[i].minWidth = Math.max((columns[i].minWidthOrig || 0), columns[i].autoMinWidth); + + //We have to resize if the current column width if is less that the column minWidth + if (this.$(columns[i].nTh).width() < columns[i].minWidth) + this.resize(columns[i], columns[i].minWidth); + } + } else { + if (!this.dom.fixedLayout) { + this.setTablesLayout('fixed'); + this.afterResizing(); + } + } + }; + + ColResize.prototype.getTableAutoColWidths = function (table, types) { + var widths = {}, i, colIdx; + var $table = this.$(table); + for (i = 0; i < types.length; i++) { + widths[types[i]] = []; + } + if (!types.length || !$table.length) + return widths; + + var clnTable = $table.clone().removeAttr('id').css('table-layout', 'auto'); + + // Remove any assigned widths from the footer (from scrolling) + clnTable.find('thead th, tfoot th, tfoot td').css('width', ''); + var container = this.$('<div />').css({ + 'position': 'absolute', + 'width': '9999px', + 'height': '9999px' + }); + container.append(clnTable); + this.$(this.dt.settings.nTableWrapper).append(container); + + var headerCols = this.$('thead>tr>th', clnTable); + + for (i = 0; i < types.length; i++) { + var type = types[i]; + var fn = ''; + switch (type) { + case 'autoMinWidth': + clnTable.css('width', '1px'); + fn = 'width'; + break; + case 'autoWidth': + clnTable.css('width', 'auto'); + fn = 'outerWidth'; + break; + default: + throw 'Invalid widthType ' + type; + } + for (colIdx = 0; colIdx < headerCols.length; colIdx++) { + widths[type].push(this.$(headerCols[colIdx])[fn]()); + } + } + + container.remove(); + return widths; + }; + + ColResize.prototype.updateColumnsAutoWidth = function (types) { + var columns = this.dt.settings.aoColumns; + var i, j, colLen, type, visColIdx = 0; + var widths = {}; + if (this.dom.scrollX || this.dom.scrollY) { + var headWidths = this.getTableAutoColWidths(this.dom.scrollHeadTable, types); + var bodyWidths = this.getTableAutoColWidths(this.dom.scrollBodyTable, types); + var footWidths = this.getTableAutoColWidths(this.dom.scrollFootTable, types); + + for (i = 0; i < types.length; i++) { + type = types[i]; + widths[type] = []; + footWidths[type].length = headWidths[type].length; + colLen = headWidths[type].length; + for (j = 0; j < colLen; j++) { + widths[type].push(Math.max(headWidths[type][j], bodyWidths[type][j], (footWidths[type][j] || 0))); + } + } + } else { + widths = this.getTableAutoColWidths(this.dt.settings.nTable, types); + } + + for (i = 0; i < columns.length; i++) { + if (!columns[i].bVisible) + continue; + for (j = 0; j < types.length; j++) { + type = types[j]; + columns[i][type] = widths[type][visColIdx]; + } + visColIdx++; + } + }; + + ColResize.prototype.overrideClickHander = function (col, $th) { + var dtClickEvent = this.getColumnEvent($th.get(0), 'click', 'DT'); + + //Remove the DataTables event so that ordering will not occur + if (dtClickEvent) { + $th.off('click.DT'); + this.$(document).one('click.ColResize', function (e) { + $th.on('click.DT', dtClickEvent.handler); + }); + } + }; + + ColResize.prototype.onDblClick = function (e, $th, col) { + if (e.target !== $th.get(0)) + return; + if ($th.css('cursor') != 'col-resize') + return; + + var width; + switch (this.settings.dblClick) { + case 'autoMinFit': + width = col.autoMinWidth; + break; + case 'autoFit': + width = col.autoWidth; + break; + default: + width = col.initWidth; + } + this.resize(col, width); + }; + + ColResize.prototype.onMouseDown = function (e, col) { + var _this = this; + if (e.target !== col.nTh && e.target !== col.fhTh) + return true; + + var $th = e.target === col.nTh ? this.$(col.nTh) : this.$(col.fhTh); + + if ($th.css('cursor') != 'col-resize' || col.resizable === false) { + var colReorder = this.dt.settings._colReorder; + if (colReorder) { + colReorder._fnMouseDown.call(colReorder, e, e.target); //Here we fix the e.preventDefault() in ColReorder so that we can have working inputs in header + } + return true; + } + this.dom.mouse.startX = e.pageX; + this.dom.mouse.prevX = e.pageX; + this.dom.mouse.startWidth = $th.width(); + this.dom.resize = true; + + this.beforeResizing(col); + + /* Add event handlers to the document */ + this.$(document).on('mousemove.ColResize', function (event) { + _this.onMouseMove(event, col); + }); + this.overrideClickHander(col, $th); + this.$(document).one('mouseup.ColResize', function (event) { + _this.onMouseUp(event, col); + }); + + return false; + }; + + ColResize.prototype.resize = function (col, width) { + var colWidth = this.$(col.nTh).width(); + var moveLength = width - this.$(col.nTh).width(); + this.beforeResizing(col); + var resized = this.resizeColumn(col, colWidth, moveLength, moveLength); + this.afterResizing(); + return resized; + }; + + ColResize.prototype.beforeResizing = function (col) { + //if (this.settings.fixedLayout && !this.dom.fixedLayout) + // this.setTablesLayout('fixed'); + }; + + ColResize.prototype.afterResizing = function () { + var i; + var columns = this.dt.settings.aoColumns; + for (i = 0; i < columns.length; i++) { + if (!columns[i].bVisible) + continue; + columns[i].sWidth = this.$(columns[i].nTh).css('width'); + } + + //Update the internal storage of the table's width (in case we changed it because the user resized some column and scrollX was enabled + this.updateTableSize(); + + //Save the state + this.dt.settings.oInstance.oApi._fnSaveState(this.dt.settings); + this.dom.origState = false; + }; + + ColResize.prototype.onMouseUp = function (e, col) { + this.$(document).off('mousemove.ColResize'); + if (!this.dom.resize) + return; + this.dom.resize = false; + this.afterResizing(); + }; + + ColResize.prototype.canResizeColumn = function (col, newWidth) { + return (col.resizable === undefined || col.resizable) && this.settings.minWidth <= newWidth && (!col.minWidth || col.minWidth <= newWidth) && (!this.settings.maxWidth || this.settings.maxWidth >= newWidth) && (!col.maxWidth || col.maxWidth >= newWidth); + }; + + ColResize.prototype.getColumnMaxWidth = function (col) { + return col.maxWidth ? col.maxWidth : this.settings.maxWidth; + }; + + ColResize.prototype.getColumnMinWidth = function (col) { + return col.minWidth ? col.minWidth : this.settings.minWidth; + }; + + ColResize.prototype.getPrevResizableColumnIdx = function (col, moveLength) { + var columns = this.dt.settings.aoColumns; + var colIdx = ColResizeHelper.indexOf(columns, col); + for (var i = colIdx; i >= 0; i--) { + if (!columns[i].bVisible) + continue; + var newWidth = this.$(columns[i].nTh).width() + moveLength; + if (this.canResizeColumn(columns[i], newWidth)) + return i; + } + return -1; + }; + + ColResize.prototype.getNextResizableColumnIdx = function (col, moveLength) { + var columns = this.dt.settings.aoColumns; + var colIdx = ColResizeHelper.indexOf(columns, col); + for (var i = (colIdx + 1); i < columns.length; i++) { + if (!columns[i].bVisible) + continue; + var newWidth = this.$(columns[i].nTh).width() - moveLength; + if (this.canResizeColumn(columns[i], newWidth)) + return i; + } + return -1; + }; + + ColResize.prototype.resizeColumn = function (col, startWidth, moveLength, lastMoveLength) { + if (moveLength == 0 || lastMoveLength == 0 || col.resizable === false) + return false; + var i; + var columns = this.dt.settings.aoColumns; + var headCol = this.$(col.nTh); + var headColNext = headCol.next(); + var colIdx = this.getColumnIndex(col); + var thWidth = startWidth + moveLength; + var thNextWidth; + var nextColIdx; + + if (!this.dom.scrollX) { + if (lastMoveLength < 0) { + thWidth = headColNext.width() - lastMoveLength; + nextColIdx = this.getPrevResizableColumnIdx(col, lastMoveLength); + if (nextColIdx < 0) + return false; + headCol = headColNext; + colIdx = colIdx + 1; + headColNext = this.$(columns[nextColIdx].nTh); + thNextWidth = headColNext.width() + lastMoveLength; + } else { + thWidth = headCol.width() + lastMoveLength; + nextColIdx = this.getNextResizableColumnIdx(col, lastMoveLength); + + //If there is no columns that can be shrinked dont resize anymore + if (nextColIdx < 0) + return false; + headColNext = this.$(columns[nextColIdx].nTh); + thNextWidth = headColNext.width() - lastMoveLength; + + if ((this.settings.maxWidth && this.settings.maxWidth < thWidth) || col.maxWidth && col.maxWidth < thWidth) + return false; + } + if (!this.canResizeColumn(columns[nextColIdx], thNextWidth) || !this.canResizeColumn(columns[colIdx], thWidth)) + return false; + headColNext.width(thNextWidth); + + //If fixed header is present we have to resize the cloned column too + if (this.dom.fixedHeader) { + this.$(columns[nextColIdx].fhTh).width(thNextWidth); + this.$(columns[colIdx].fhTh).width(thWidth); + + //If fixedfooter was enabled resize that too + if (columns[nextColIdx].fhTf) { + this.$(columns[nextColIdx].fhTf).width(thNextWidth); + this.$(columns[colIdx].fhTf).width(thWidth); + } + } + } else { + if (!this.canResizeColumn(col, thWidth)) + return false; + var tSize = this.tableSize + moveLength + 'px'; + this.dom.scrollHeadInner.css('width', tSize); + this.dom.scrollHeadTable.css('width', tSize); + this.dom.scrollBodyTable.css('width', tSize); + this.dom.scrollFootTable.css('width', tSize); + } + headCol.width(thWidth); + + //scrollX or scrollY enabled + if (this.dom.scrollBody.length) { + var colDomIdx = 0; + for (i = 0; i < this.dt.settings.aoColumns.length && i != colIdx; i++) { + if (this.dt.settings.aoColumns[i].bVisible) + colDomIdx++; + } + + //Get the table + var bodyCol = this.$('thead>tr>th:nth(' + colDomIdx + ')', this.dom.scrollBodyTable); + var footCol = this.$('thead>tr>th:nth(' + colDomIdx + ')', this.dom.scrollFootTable); + + //This will happen only when scrollY is used without scrollX + if (!this.dom.scrollX) { + var nextColDomIdx = 0; + for (i = 0; i < this.dt.settings.aoColumns.length && i != nextColIdx; i++) { + if (this.dt.settings.aoColumns[i].bVisible) + nextColDomIdx++; + } + var bodyColNext = this.$('thead>tr>th:nth(' + nextColDomIdx + ')', this.dom.scrollBodyTable); + var footColNext = this.$('thead>tr>th:nth(' + nextColDomIdx + ')', this.dom.scrollFootTable); + + bodyColNext.width(thNextWidth); + if (thWidth > 0) + bodyCol.width(thWidth); + + footColNext.width(thNextWidth); + if (thWidth > 0) + footCol.width(thWidth); + } + + //Resize the table and the column + if (this.dom.scrollX && thWidth > 0) { + bodyCol.width(thWidth); + footCol.width(thWidth); + } + } + return true; + }; + + ColResize.prototype.onMouseMove = function (e, col) { + var moveLength = e.pageX - this.dom.mouse.startX; + var lastMoveLength = e.pageX - this.dom.mouse.prevX; + this.resizeColumn(col, this.dom.mouse.startWidth, moveLength, lastMoveLength); + this.dom.mouse.prevX = e.pageX; + }; + + ColResize.prototype.destroy = function () { + }; + ColResize.defaultSettings = { + minWidth: 1, + maxWidth: null, + fixedLayout: true, + fixedHeader: null, + dblClick: 'initWidth' + }; + return ColResize; + })(); + dt.ColResize = ColResize; + + var ColResizeHelper = (function () { + function ColResizeHelper() { + } + ColResizeHelper.indexOf = function (arr, item, equalFun) { + if (typeof equalFun === "undefined") { equalFun = null; } + for (var i = 0; i < arr.length; i++) { + if (equalFun) { + if (equalFun(arr[i], item)) + return i; + } else if (arr[i] === item) + return i; + } + return -1; + }; + return ColResizeHelper; + })(); + dt.ColResizeHelper = ColResizeHelper; +})(dt || (dt = {})); + +(function ($, window, document, undefined) { + //Register events + $.fn.DataTable.models.oSettings.colResizeInitCompleted = []; + + //Register api function + $.fn.DataTable.Api.register('colResize.init()', function (settings) { + var colResize = new dt.ColResize($, this, settings); + if (this.settings()[0]._bInitComplete) + colResize.initialize(); + else + this.one('init.dt', function () { + colResize.initialize(); + }); + return null; + }); + + $.fn.DataTable.Api.register('column().resize()', function (width) { + var oSettings = this.settings()[0]; + var colResize = oSettings.colResize; + return colResize.resize(oSettings.aoColumns[this[0][0]], width); + }); + + //Add as feature + $.fn.dataTable.ext.feature.push({ + "fnInit": function (oSettings) { + return oSettings.oInstance.api().colResize.init(oSettings.oInit.colResize); + }, + "cFeature": "J", + "sFeature": "ColResize" + }); +}(jQuery, window, document, undefined));
\ No newline at end of file diff --git a/wqflask/wqflask/static/new/packages/DataTables/extensions/dataTables.fixedHeader.css b/wqflask/wqflask/static/new/packages/DataTables/extensions/dataTables.fixedHeader.css new file mode 100644 index 00000000..4001ab12 --- /dev/null +++ b/wqflask/wqflask/static/new/packages/DataTables/extensions/dataTables.fixedHeader.css @@ -0,0 +1,4 @@ +div.FixedHeader_Cloned th, +div.FixedHeader_Cloned td { + background-color: white !important; +} diff --git a/wqflask/wqflask/static/new/packages/DataTables/extensions/dataTables.fixedHeader.min.js b/wqflask/wqflask/static/new/packages/DataTables/extensions/dataTables.fixedHeader.min.js new file mode 100644 index 00000000..e8d19608 --- /dev/null +++ b/wqflask/wqflask/static/new/packages/DataTables/extensions/dataTables.fixedHeader.min.js @@ -0,0 +1,14 @@ +/*! + FixedHeader 3.0.0 + ©2009-2015 SpryMedia Ltd - datatables.net/license +*/ +(function(h,j){var g=function(e,i){var g=0,f=function(b,a){if(!(this instanceof f))throw"FixedHeader must be initialised with the 'new' keyword.";!0===a&&(a={});b=new i.Api(b);this.c=e.extend(!0,{},f.defaults,a);this.s={dt:b,position:{theadTop:0,tbodyTop:0,tfootTop:0,tfootBottom:0,width:0,left:0,tfootHeight:0,theadHeight:0,windowHeight:e(h).height(),visible:!0},headerMode:null,footerMode:null,namespace:".dtfc"+g++};this.dom={floatingHeader:null,thead:e(b.table().header()),tbody:e(b.table().body()), +tfoot:e(b.table().footer()),header:{host:null,floating:null,placeholder:null},footer:{host:null,floating:null,placeholder:null}};this.dom.header.host=this.dom.thead.parent();this.dom.footer.host=this.dom.tfoot.parent();var c=b.settings()[0];if(c._fixedHeader)throw"FixedHeader already initialised on table "+c.nTable.id;c._fixedHeader=this;this._constructor()};f.prototype={update:function(){this._positions();this._scroll(!0)},_constructor:function(){var b=this,a=this.s.dt;e(h).on("scroll"+this.s.namespace, +function(){b._scroll()}).on("resize"+this.s.namespace,function(){b.s.position.windowHeight=e(h).height();b._positions();b._scroll(!0)});a.on("column-reorder.dt.dtfc column-visibility.dt.dtfc",function(){b._positions();b._scroll(!0)}).on("draw.dtfc",function(){b._positions();b._scroll()});a.on("destroy.dtfc",function(){a.off(".dtfc");e(h).off(this.s.namespace)});this._positions();this._scroll()},_clone:function(b,a){var c=this.s.dt,d=this.dom[b],k="header"===b?this.dom.thead:this.dom.tfoot;!a&&d.floating? +d.floating.removeClass("fixedHeader-floating fixedHeader-locked"):(d.floating&&(d.placeholder.remove(),d.floating.children().detach(),d.floating.remove()),d.floating=e(c.table().node().cloneNode(!1)).removeAttr("id").append(k).appendTo("body"),d.placeholder=k.clone(!1),d.host.append(d.placeholder),"footer"===b&&this._footerMatch(d.placeholder,d.floating))},_footerMatch:function(b,a){var c=function(d){var c=e(d,b).map(function(){return e(this).width()}).toArray();e(d,a).each(function(a){e(this).width(c[a])})}; +c("th");c("td")},_footerUnsize:function(){var b=this.dom.footer.floating;b&&e("th, td",b).css("width","")},_modeChange:function(b,a,c){var d=this.dom[a],e=this.s.position;"in-place"===b?(d.placeholder&&(d.placeholder.remove(),d.placeholder=null),d.host.append("header"===a?this.dom.thead:this.dom.tfoot),d.floating&&(d.floating.remove(),d.floating=null),"footer"===a&&this._footerUnsize()):"in"===b?(this._clone(a,c),d.floating.addClass("fixedHeader-floating").css("header"===a?"top":"bottom",this.c[a+ +"Offset"]).css("left",e.left+"px").css("width",e.width+"px"),"footer"===a&&d.floating.css("top","")):"below"===b?(this._clone(a,c),d.floating.addClass("fixedHeader-locked").css("top",e.tfootTop-e.theadHeight).css("left",e.left+"px").css("width",e.width+"px")):"above"===b&&(this._clone(a,c),d.floating.addClass("fixedHeader-locked").css("top",e.tbodyTop).css("left",e.left+"px").css("width",e.width+"px"));this.s[a+"Mode"]=b},_positions:function(){var b=this.s.dt.table(),a=this.s.position,c=this.dom, +b=e(b.node()),d=b.children("thead"),f=b.children("tfoot"),c=c.tbody;a.visible=b.is(":visible");a.width=b.outerWidth();a.left=b.offset().left;a.theadTop=d.offset().top;a.tbodyTop=c.offset().top;a.theadHeight=a.tbodyTop-a.theadTop;f.length?(a.tfootTop=f.offset().top,a.tfootBottom=a.tfootTop+f.outerHeight(),a.tfootHeight=a.tfootBottom-a.tfootTop):(a.tfootTop=a.tbodyTop+c.outerHeight(),a.tfootBottom=a.tfootTop,a.tfootHeight=a.tfootTop)},_scroll:function(b){var a=e(j).scrollTop(),c=this.s.position,d;this.c.header&& +(d=!c.visible||a<=c.theadTop-this.c.headerOffset?"in-place":a<=c.tfootTop-c.theadHeight-this.c.headerOffset?"in":"below",(b||d!==this.s.headerMode)&&this._modeChange(d,"header",b));this.c.footer&&this.dom.tfoot.length&&(a=!c.visible||a+c.windowHeight>=c.tfootBottom+this.c.footerOffset?"in-place":c.windowHeight+a>c.tbodyTop+c.tfootHeight+this.c.footerOffset?"in":"above",(b||a!==this.s.footerMode)&&this._modeChange(a,"footer",b))}};f.version="3.0.0";f.defaults={header:!0,footer:!1,headerOffset:0,footerOffset:0}; +e.fn.dataTable.FixedHeader=f;e.fn.DataTable.FixedHeader=f;e(j).on("init.dt.dtb",function(b,a){if("dt"===b.namespace){var c=a.oInit.fixedHeader||i.defaults.fixedHeader;c&&!a._buttons&&new f(a,c)}});i.Api.register("fixedHeader()",function(){});i.Api.register("fixedHeader.adjust()",function(){return this.iterator("table",function(b){(b=b._fixedHeader)&&b.update()})});return f};"function"===typeof define&&define.amd?define(["jquery","datatables"],g):"object"===typeof exports?g(require("jquery"),require("datatables")): +jQuery&&!jQuery.fn.dataTable.FixedHeader&&g(jQuery,jQuery.fn.dataTable)})(window,document); diff --git a/wqflask/wqflask/static/new/packages/DataTables/js/jquery.dataTables.js b/wqflask/wqflask/static/new/packages/DataTables/js/jquery.dataTables.js index 1d8a220b..1364bafc 100755 --- a/wqflask/wqflask/static/new/packages/DataTables/js/jquery.dataTables.js +++ b/wqflask/wqflask/static/new/packages/DataTables/js/jquery.dataTables.js @@ -1,4942 +1,5321 @@ +/*! DataTables 1.10.7 + * ©2008-2014 SpryMedia Ltd - datatables.net/license + */ + /** * @summary DataTables - * @description Paginate, search and sort HTML tables - * @version 1.9.4 + * @description Paginate, search and order HTML tables + * @version 1.10.7 * @file jquery.dataTables.js - * @author Allan Jardine (www.sprymedia.co.uk) + * @author SpryMedia Ltd (www.sprymedia.co.uk) * @contact www.sprymedia.co.uk/contact + * @copyright Copyright 2008-2014 SpryMedia Ltd. * - * @copyright Copyright 2008-2012 Allan Jardine, all rights reserved. + * This source file is free software, available under the following license: + * MIT license - http://datatables.net/license * - * This source file is free software, under either the GPL v2 license or a - * BSD style license, available at: - * http://datatables.net/license_gpl2 - * http://datatables.net/license_bsd - * - * This source file is distributed in the hope that it will be useful, but - * WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY + * This source file is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY * or FITNESS FOR A PARTICULAR PURPOSE. See the license files for details. - * + * * For details please refer to: http://www.datatables.net */ /*jslint evil: true, undef: true, browser: true */ -/*globals $, jQuery,define,_fnExternApiFunc,_fnInitialise,_fnInitComplete,_fnLanguageCompat,_fnAddColumn,_fnColumnOptions,_fnAddData,_fnCreateTr,_fnGatherData,_fnBuildHead,_fnDrawHead,_fnDraw,_fnReDraw,_fnAjaxUpdate,_fnAjaxParameters,_fnAjaxUpdateDraw,_fnServerParams,_fnAddOptionsHtml,_fnFeatureHtmlTable,_fnScrollDraw,_fnAdjustColumnSizing,_fnFeatureHtmlFilter,_fnFilterComplete,_fnFilterCustom,_fnFilterColumn,_fnFilter,_fnBuildSearchArray,_fnBuildSearchRow,_fnFilterCreateSearch,_fnDataToSearch,_fnSort,_fnSortAttachListener,_fnSortingClasses,_fnFeatureHtmlPaginate,_fnPageChange,_fnFeatureHtmlInfo,_fnUpdateInfo,_fnFeatureHtmlLength,_fnFeatureHtmlProcessing,_fnProcessingDisplay,_fnVisibleToColumnIndex,_fnColumnIndexToVisible,_fnNodeToDataIndex,_fnVisbleColumns,_fnCalculateEnd,_fnConvertToWidth,_fnCalculateColumnWidths,_fnScrollingWidthAdjust,_fnGetWidestNode,_fnGetMaxLenString,_fnStringToCss,_fnDetectType,_fnSettingsFromNode,_fnGetDataMaster,_fnGetTrNodes,_fnGetTdNodes,_fnEscapeRegex,_fnDeleteIndex,_fnReOrderIndex,_fnColumnOrdering,_fnLog,_fnClearTable,_fnSaveState,_fnLoadState,_fnCreateCookie,_fnReadCookie,_fnDetectHeader,_fnGetUniqueThs,_fnScrollBarWidth,_fnApplyToChildren,_fnMap,_fnGetRowData,_fnGetCellData,_fnSetCellData,_fnGetObjectDataFn,_fnSetObjectDataFn,_fnApplyColumnDefs,_fnBindAction,_fnCallbackReg,_fnCallbackFire,_fnJsonString,_fnRender,_fnNodeToColumnIndex,_fnInfoMacros,_fnBrowserDetect,_fnGetColumns*/ +/*globals $,require,jQuery,define,_selector_run,_selector_opts,_selector_first,_selector_row_indexes,_ext,_Api,_api_register,_api_registerPlural,_re_new_lines,_re_html,_re_formatted_numeric,_re_escape_regex,_empty,_intVal,_numToDecimal,_isNumber,_isHtml,_htmlNumeric,_pluck,_pluck_order,_range,_stripHtml,_unique,_fnBuildAjax,_fnAjaxUpdate,_fnAjaxParameters,_fnAjaxUpdateDraw,_fnAjaxDataSrc,_fnAddColumn,_fnColumnOptions,_fnAdjustColumnSizing,_fnVisibleToColumnIndex,_fnColumnIndexToVisible,_fnVisbleColumns,_fnGetColumns,_fnColumnTypes,_fnApplyColumnDefs,_fnHungarianMap,_fnCamelToHungarian,_fnLanguageCompat,_fnBrowserDetect,_fnAddData,_fnAddTr,_fnNodeToDataIndex,_fnNodeToColumnIndex,_fnGetCellData,_fnSetCellData,_fnSplitObjNotation,_fnGetObjectDataFn,_fnSetObjectDataFn,_fnGetDataMaster,_fnClearTable,_fnDeleteIndex,_fnInvalidate,_fnGetRowElements,_fnCreateTr,_fnBuildHead,_fnDrawHead,_fnDraw,_fnReDraw,_fnAddOptionsHtml,_fnDetectHeader,_fnGetUniqueThs,_fnFeatureHtmlFilter,_fnFilterComplete,_fnFilterCustom,_fnFilterColumn,_fnFilter,_fnFilterCreateSearch,_fnEscapeRegex,_fnFilterData,_fnFeatureHtmlInfo,_fnUpdateInfo,_fnInfoMacros,_fnInitialise,_fnInitComplete,_fnLengthChange,_fnFeatureHtmlLength,_fnFeatureHtmlPaginate,_fnPageChange,_fnFeatureHtmlProcessing,_fnProcessingDisplay,_fnFeatureHtmlTable,_fnScrollDraw,_fnApplyToChildren,_fnCalculateColumnWidths,_fnThrottle,_fnConvertToWidth,_fnScrollingWidthAdjust,_fnGetWidestNode,_fnGetMaxLenString,_fnStringToCss,_fnScrollBarWidth,_fnSortFlatten,_fnSort,_fnSortAria,_fnSortListener,_fnSortAttachListener,_fnSortingClasses,_fnSortData,_fnSaveState,_fnLoadState,_fnSettingsFromNode,_fnLog,_fnMap,_fnBindAction,_fnCallbackReg,_fnCallbackFire,_fnLengthOverflow,_fnRenderer,_fnDataSource,_fnRowAttributes*/ (/** @lends <global> */function( window, document, undefined ) { (function( factory ) { "use strict"; - // Define as an AMD module if possible - if ( typeof define === 'function' && define.amd ) - { - define( ['jquery'], factory ); + if ( typeof define === 'function' && define.amd ) { + // Define as an AMD module if possible + define( 'datatables', ['jquery'], factory ); } - /* Define using browser globals otherwise - * Prevent multiple instantiations if the script is loaded twice - */ - else if ( jQuery && !jQuery.fn.dataTable ) - { + else if ( typeof exports === 'object' ) { + // Node/CommonJS + module.exports = factory( require( 'jquery' ) ); + } + else if ( jQuery && !jQuery.fn.dataTable ) { + // Define using browser globals otherwise + // Prevent multiple instantiations if the script is loaded twice factory( jQuery ); } } (/** @lends <global> */function( $ ) { "use strict"; - /** - * DataTables is a plug-in for the jQuery Javascript library. It is a - * highly flexible tool, based upon the foundations of progressive - * enhancement, which will add advanced interaction controls to any - * HTML table. For a full list of features please refer to - * <a href="http://datatables.net">DataTables.net</a>. + + /** + * DataTables is a plug-in for the jQuery Javascript library. It is a highly + * flexible tool, based upon the foundations of progressive enhancement, + * which will add advanced interaction controls to any HTML table. For a + * full list of features please refer to + * [DataTables.net](href="http://datatables.net). * - * Note that the <i>DataTable</i> object is not a global variable but is - * aliased to <i>jQuery.fn.DataTable</i> and <i>jQuery.fn.dataTable</i> through which - * it may be accessed. + * Note that the `DataTable` object is not a global variable but is aliased + * to `jQuery.fn.DataTable` and `jQuery.fn.dataTable` through which it may + * be accessed. * * @class - * @param {object} [oInit={}] Configuration object for DataTables. Options + * @param {object} [init={}] Configuration object for DataTables. Options * are defined by {@link DataTable.defaults} - * @requires jQuery 1.3+ - * + * @requires jQuery 1.7+ + * * @example * // Basic initialisation * $(document).ready( function { * $('#example').dataTable(); * } ); - * + * * @example * // Initialisation with configuration options - in this case, disable * // pagination and sorting. * $(document).ready( function { * $('#example').dataTable( { - * "bPaginate": false, - * "bSort": false + * "paginate": false, + * "sort": false * } ); * } ); */ - var DataTable = function( oInit ) - { - - - /** - * Add a column to the list used for the table with default values - * @param {object} oSettings dataTables settings object - * @param {node} nTh The th element for this column - * @memberof DataTable#oApi - */ - function _fnAddColumn( oSettings, nTh ) - { - var oDefaults = DataTable.defaults.columns; - var iCol = oSettings.aoColumns.length; - var oCol = $.extend( {}, DataTable.models.oColumn, oDefaults, { - "sSortingClass": oSettings.oClasses.sSortable, - "sSortingClassJUI": oSettings.oClasses.sSortJUI, - "nTh": nTh ? nTh : document.createElement('th'), - "sTitle": oDefaults.sTitle ? oDefaults.sTitle : nTh ? nTh.innerHTML : '', - "aDataSort": oDefaults.aDataSort ? oDefaults.aDataSort : [iCol], - "mData": oDefaults.mData ? oDefaults.oDefaults : iCol - } ); - oSettings.aoColumns.push( oCol ); - - /* Add a column specific filter */ - if ( oSettings.aoPreSearchCols[ iCol ] === undefined || oSettings.aoPreSearchCols[ iCol ] === null ) - { - oSettings.aoPreSearchCols[ iCol ] = $.extend( {}, DataTable.models.oSearch ); + var DataTable; + + + /* + * It is useful to have variables which are scoped locally so only the + * DataTables functions can access them and they don't leak into global space. + * At the same time these functions are often useful over multiple files in the + * core and API, so we list, or at least document, all variables which are used + * by DataTables as private variables here. This also ensures that there is no + * clashing of variable names and that they can easily referenced for reuse. + */ + + + // Defined else where + // _selector_run + // _selector_opts + // _selector_first + // _selector_row_indexes + + var _ext; // DataTable.ext + var _Api; // DataTable.Api + var _api_register; // DataTable.Api.register + var _api_registerPlural; // DataTable.Api.registerPlural + + var _re_dic = {}; + var _re_new_lines = /[\r\n]/g; + var _re_html = /<.*?>/g; + var _re_date_start = /^[\w\+\-]/; + var _re_date_end = /[\w\+\-]$/; + + // Escape regular expression special characters + var _re_escape_regex = new RegExp( '(\\' + [ '/', '.', '*', '+', '?', '|', '(', ')', '[', ']', '{', '}', '\\', '$', '^', '-' ].join('|\\') + ')', 'g' ); + + // http://en.wikipedia.org/wiki/Foreign_exchange_market + // - \u20BD - Russian ruble. + // - \u20a9 - South Korean Won + // - \u20BA - Turkish Lira + // - \u20B9 - Indian Rupee + // - R - Brazil (R$) and South Africa + // - fr - Swiss Franc + // - kr - Swedish krona, Norwegian krone and Danish krone + // - \u2009 is thin space and \u202F is narrow no-break space, both used in many + // standards as thousands separators. + var _re_formatted_numeric = /[',$£€¥%\u2009\u202F\u20BD\u20a9\u20BArfk]/gi; + + + var _empty = function ( d ) { + return !d || d === true || d === '-' ? true : false; + }; + + + var _intVal = function ( s ) { + var integer = parseInt( s, 10 ); + return !isNaN(integer) && isFinite(s) ? integer : null; + }; + + // Convert from a formatted number with characters other than `.` as the + // decimal place, to a Javascript number + var _numToDecimal = function ( num, decimalPoint ) { + // Cache created regular expressions for speed as this function is called often + if ( ! _re_dic[ decimalPoint ] ) { + _re_dic[ decimalPoint ] = new RegExp( _fnEscapeRegex( decimalPoint ), 'g' ); + } + return typeof num === 'string' && decimalPoint !== '.' ? + num.replace( /\./g, '' ).replace( _re_dic[ decimalPoint ], '.' ) : + num; + }; + + + var _isNumber = function ( d, decimalPoint, formatted ) { + var strType = typeof d === 'string'; + + // If empty return immediately so there must be a number if it is a + // formatted string (this stops the string "k", or "kr", etc being detected + // as a formatted number for currency + if ( _empty( d ) ) { + return true; + } + + if ( decimalPoint && strType ) { + d = _numToDecimal( d, decimalPoint ); + } + + if ( formatted && strType ) { + d = d.replace( _re_formatted_numeric, '' ); + } + + return !isNaN( parseFloat(d) ) && isFinite( d ); + }; + + + // A string without HTML in it can be considered to be HTML still + var _isHtml = function ( d ) { + return _empty( d ) || typeof d === 'string'; + }; + + + var _htmlNumeric = function ( d, decimalPoint, formatted ) { + if ( _empty( d ) ) { + return true; + } + + var html = _isHtml( d ); + return ! html ? + null : + _isNumber( _stripHtml( d ), decimalPoint, formatted ) ? + true : + null; + }; + + + var _pluck = function ( a, prop, prop2 ) { + var out = []; + var i=0, ien=a.length; + + // Could have the test in the loop for slightly smaller code, but speed + // is essential here + if ( prop2 !== undefined ) { + for ( ; i<ien ; i++ ) { + if ( a[i] && a[i][ prop ] ) { + out.push( a[i][ prop ][ prop2 ] ); + } } - else - { - var oPre = oSettings.aoPreSearchCols[ iCol ]; - - /* Don't require that the user must specify bRegex, bSmart or bCaseInsensitive */ - if ( oPre.bRegex === undefined ) - { - oPre.bRegex = true; + } + else { + for ( ; i<ien ; i++ ) { + if ( a[i] ) { + out.push( a[i][ prop ] ); } - - if ( oPre.bSmart === undefined ) - { - oPre.bSmart = true; + } + } + + return out; + }; + + + // Basically the same as _pluck, but rather than looping over `a` we use `order` + // as the indexes to pick from `a` + var _pluck_order = function ( a, order, prop, prop2 ) + { + var out = []; + var i=0, ien=order.length; + + // Could have the test in the loop for slightly smaller code, but speed + // is essential here + if ( prop2 !== undefined ) { + for ( ; i<ien ; i++ ) { + if ( a[ order[i] ][ prop ] ) { + out.push( a[ order[i] ][ prop ][ prop2 ] ); } - - if ( oPre.bCaseInsensitive === undefined ) - { - oPre.bCaseInsensitive = true; + } + } + else { + for ( ; i<ien ; i++ ) { + out.push( a[ order[i] ][ prop ] ); + } + } + + return out; + }; + + + var _range = function ( len, start ) + { + var out = []; + var end; + + if ( start === undefined ) { + start = 0; + end = len; + } + else { + end = start; + start = len; + } + + for ( var i=start ; i<end ; i++ ) { + out.push( i ); + } + + return out; + }; + + + var _removeEmpty = function ( a ) + { + var out = []; + + for ( var i=0, ien=a.length ; i<ien ; i++ ) { + if ( a[i] ) { // careful - will remove all falsy values! + out.push( a[i] ); + } + } + + return out; + }; + + + var _stripHtml = function ( d ) { + return d.replace( _re_html, '' ); + }; + + + /** + * Find the unique elements in a source array. + * + * @param {array} src Source array + * @return {array} Array of unique items + * @ignore + */ + var _unique = function ( src ) + { + // A faster unique method is to use object keys to identify used values, + // but this doesn't work with arrays or objects, which we must also + // consider. See jsperf.com/compare-array-unique-versions/4 for more + // information. + var + out = [], + val, + i, ien=src.length, + j, k=0; + + again: for ( i=0 ; i<ien ; i++ ) { + val = src[i]; + + for ( j=0 ; j<k ; j++ ) { + if ( out[j] === val ) { + continue again; } } - - /* Use the column options function to initialise classes etc */ - _fnColumnOptions( oSettings, iCol, null ); + + out.push( val ); + k++; } - - - /** - * Apply options for a column - * @param {object} oSettings dataTables settings object - * @param {int} iCol column index to consider - * @param {object} oOptions object with sType, bVisible and bSearchable etc - * @memberof DataTable#oApi - */ - function _fnColumnOptions( oSettings, iCol, oOptions ) - { - var oCol = oSettings.aoColumns[ iCol ]; - - /* User specified column options */ - if ( oOptions !== undefined && oOptions !== null ) + + return out; + }; + + + + /** + * Create a mapping object that allows camel case parameters to be looked up + * for their Hungarian counterparts. The mapping is stored in a private + * parameter called `_hungarianMap` which can be accessed on the source object. + * @param {object} o + * @memberof DataTable#oApi + */ + function _fnHungarianMap ( o ) + { + var + hungarian = 'a aa ai ao as b fn i m o s ', + match, + newKey, + map = {}; + + $.each( o, function (key, val) { + match = key.match(/^([^A-Z]+?)([A-Z])/); + + if ( match && hungarian.indexOf(match[1]+' ') !== -1 ) { - /* Backwards compatibility for mDataProp */ - if ( oOptions.mDataProp && !oOptions.mData ) + newKey = key.replace( match[0], match[2].toLowerCase() ); + map[ newKey ] = key; + + if ( match[1] === 'o' ) { - oOptions.mData = oOptions.mDataProp; + _fnHungarianMap( o[key] ); } - - if ( oOptions.sType !== undefined ) + } + } ); + + o._hungarianMap = map; + } + + + /** + * Convert from camel case parameters to Hungarian, based on a Hungarian map + * created by _fnHungarianMap. + * @param {object} src The model object which holds all parameters that can be + * mapped. + * @param {object} user The object to convert from camel case to Hungarian. + * @param {boolean} force When set to `true`, properties which already have a + * Hungarian value in the `user` object will be overwritten. Otherwise they + * won't be. + * @memberof DataTable#oApi + */ + function _fnCamelToHungarian ( src, user, force ) + { + if ( ! src._hungarianMap ) { + _fnHungarianMap( src ); + } + + var hungarianKey; + + $.each( user, function (key, val) { + hungarianKey = src._hungarianMap[ key ]; + + if ( hungarianKey !== undefined && (force || user[hungarianKey] === undefined) ) + { + // For objects, we need to buzz down into the object to copy parameters + if ( hungarianKey.charAt(0) === 'o' ) { - oCol.sType = oOptions.sType; - oCol._bAutoType = false; + // Copy the camelCase options over to the hungarian + if ( ! user[ hungarianKey ] ) { + user[ hungarianKey ] = {}; + } + $.extend( true, user[hungarianKey], user[key] ); + + _fnCamelToHungarian( src[hungarianKey], user[hungarianKey], force ); } - - $.extend( oCol, oOptions ); - _fnMap( oCol, oOptions, "sWidth", "sWidthOrig" ); - - /* iDataSort to be applied (backwards compatibility), but aDataSort will take - * priority if defined - */ - if ( oOptions.iDataSort !== undefined ) - { - oCol.aDataSort = [ oOptions.iDataSort ]; + else { + user[hungarianKey] = user[ key ]; } - _fnMap( oCol, oOptions, "aDataSort" ); } - - /* Cache the data get and set functions for speed */ - var mRender = oCol.mRender ? _fnGetObjectDataFn( oCol.mRender ) : null; - var mData = _fnGetObjectDataFn( oCol.mData ); - - oCol.fnGetData = function (oData, sSpecific) { - var innerData = mData( oData, sSpecific ); - - if ( oCol.mRender && (sSpecific && sSpecific !== '') ) - { - return mRender( innerData, sSpecific, oData ); + } ); + } + + + /** + * Language compatibility - when certain options are given, and others aren't, we + * need to duplicate the values over, in order to provide backwards compatibility + * with older language files. + * @param {object} oSettings dataTables settings object + * @memberof DataTable#oApi + */ + function _fnLanguageCompat( lang ) + { + var defaults = DataTable.defaults.oLanguage; + var zeroRecords = lang.sZeroRecords; + + /* Backwards compatibility - if there is no sEmptyTable given, then use the same as + * sZeroRecords - assuming that is given. + */ + if ( ! lang.sEmptyTable && zeroRecords && + defaults.sEmptyTable === "No data available in table" ) + { + _fnMap( lang, lang, 'sZeroRecords', 'sEmptyTable' ); + } + + /* Likewise with loading records */ + if ( ! lang.sLoadingRecords && zeroRecords && + defaults.sLoadingRecords === "Loading..." ) + { + _fnMap( lang, lang, 'sZeroRecords', 'sLoadingRecords' ); + } + + // Old parameter name of the thousands separator mapped onto the new + if ( lang.sInfoThousands ) { + lang.sThousands = lang.sInfoThousands; + } + + var decimal = lang.sDecimal; + if ( decimal ) { + _addNumericSort( decimal ); + } + } + + + /** + * Map one parameter onto another + * @param {object} o Object to map + * @param {*} knew The new parameter name + * @param {*} old The old parameter name + */ + var _fnCompatMap = function ( o, knew, old ) { + if ( o[ knew ] !== undefined ) { + o[ old ] = o[ knew ]; + } + }; + + + /** + * Provide backwards compatibility for the main DT options. Note that the new + * options are mapped onto the old parameters, so this is an external interface + * change only. + * @param {object} init Object to map + */ + function _fnCompatOpts ( init ) + { + _fnCompatMap( init, 'ordering', 'bSort' ); + _fnCompatMap( init, 'orderMulti', 'bSortMulti' ); + _fnCompatMap( init, 'orderClasses', 'bSortClasses' ); + _fnCompatMap( init, 'orderCellsTop', 'bSortCellsTop' ); + _fnCompatMap( init, 'order', 'aaSorting' ); + _fnCompatMap( init, 'orderFixed', 'aaSortingFixed' ); + _fnCompatMap( init, 'paging', 'bPaginate' ); + _fnCompatMap( init, 'pagingType', 'sPaginationType' ); + _fnCompatMap( init, 'pageLength', 'iDisplayLength' ); + _fnCompatMap( init, 'searching', 'bFilter' ); + + // Column search objects are in an array, so it needs to be converted + // element by element + var searchCols = init.aoSearchCols; + + if ( searchCols ) { + for ( var i=0, ien=searchCols.length ; i<ien ; i++ ) { + if ( searchCols[i] ) { + _fnCamelToHungarian( DataTable.models.oSearch, searchCols[i] ); } - return innerData; - }; - oCol.fnSetData = _fnSetObjectDataFn( oCol.mData ); - - /* Feature sorting overrides column specific when off */ - if ( !oSettings.oFeatures.bSort ) - { - oCol.bSortable = false; } - - /* Check that the class assignment is correct for sorting */ - if ( !oCol.bSortable || - ($.inArray('asc', oCol.asSorting) == -1 && $.inArray('desc', oCol.asSorting) == -1) ) - { - oCol.sSortingClass = oSettings.oClasses.sSortableNone; - oCol.sSortingClassJUI = ""; + } + } + + + /** + * Provide backwards compatibility for column options. Note that the new options + * are mapped onto the old parameters, so this is an external interface change + * only. + * @param {object} init Object to map + */ + function _fnCompatCols ( init ) + { + _fnCompatMap( init, 'orderable', 'bSortable' ); + _fnCompatMap( init, 'orderData', 'aDataSort' ); + _fnCompatMap( init, 'orderSequence', 'asSorting' ); + _fnCompatMap( init, 'orderDataType', 'sortDataType' ); + + // orderData can be given as an integer + var dataSort = init.aDataSort; + if ( dataSort && ! $.isArray( dataSort ) ) { + init.aDataSort = [ dataSort ]; + } + } + + + /** + * Browser feature detection for capabilities, quirks + * @param {object} settings dataTables settings object + * @memberof DataTable#oApi + */ + function _fnBrowserDetect( settings ) + { + var browser = settings.oBrowser; + + // Scrolling feature / quirks detection + var n = $('<div/>') + .css( { + position: 'absolute', + top: 0, + left: 0, + height: 1, + width: 1, + overflow: 'hidden' + } ) + .append( + $('<div/>') + .css( { + position: 'absolute', + top: 1, + left: 1, + width: 100, + overflow: 'scroll' + } ) + .append( + $('<div class="test"/>') + .css( { + width: '100%', + height: 10 + } ) + ) + ) + .appendTo( 'body' ); + + var test = n.find('.test'); + + // IE6/7 will oversize a width 100% element inside a scrolling element, to + // include the width of the scrollbar, while other browsers ensure the inner + // element is contained without forcing scrolling + browser.bScrollOversize = test[0].offsetWidth === 100; + + // In rtl text layout, some browsers (most, but not all) will place the + // scrollbar on the left, rather than the right. + browser.bScrollbarLeft = Math.round( test.offset().left ) !== 1; + + n.remove(); + } + + + /** + * Array.prototype reduce[Right] method, used for browsers which don't support + * JS 1.6. Done this way to reduce code size, since we iterate either way + * @param {object} settings dataTables settings object + * @memberof DataTable#oApi + */ + function _fnReduce ( that, fn, init, start, end, inc ) + { + var + i = start, + value, + isSet = false; + + if ( init !== undefined ) { + value = init; + isSet = true; + } + + while ( i !== end ) { + if ( ! that.hasOwnProperty(i) ) { + continue; } - else if ( $.inArray('asc', oCol.asSorting) == -1 && $.inArray('desc', oCol.asSorting) == -1 ) - { - oCol.sSortingClass = oSettings.oClasses.sSortable; - oCol.sSortingClassJUI = oSettings.oClasses.sSortJUI; + + value = isSet ? + fn( value, that[i], i, that ) : + that[i]; + + isSet = true; + i += inc; + } + + return value; + } + + /** + * Add a column to the list used for the table with default values + * @param {object} oSettings dataTables settings object + * @param {node} nTh The th element for this column + * @memberof DataTable#oApi + */ + function _fnAddColumn( oSettings, nTh ) + { + // Add column to aoColumns array + var oDefaults = DataTable.defaults.column; + var iCol = oSettings.aoColumns.length; + var oCol = $.extend( {}, DataTable.models.oColumn, oDefaults, { + "nTh": nTh ? nTh : document.createElement('th'), + "sTitle": oDefaults.sTitle ? oDefaults.sTitle : nTh ? nTh.innerHTML : '', + "aDataSort": oDefaults.aDataSort ? oDefaults.aDataSort : [iCol], + "mData": oDefaults.mData ? oDefaults.mData : iCol, + idx: iCol + } ); + oSettings.aoColumns.push( oCol ); + + // Add search object for column specific search. Note that the `searchCols[ iCol ]` + // passed into extend can be undefined. This allows the user to give a default + // with only some of the parameters defined, and also not give a default + var searchCols = oSettings.aoPreSearchCols; + searchCols[ iCol ] = $.extend( {}, DataTable.models.oSearch, searchCols[ iCol ] ); + + // Use the default column options function to initialise classes etc + _fnColumnOptions( oSettings, iCol, $(nTh).data() ); + } + + + /** + * Apply options for a column + * @param {object} oSettings dataTables settings object + * @param {int} iCol column index to consider + * @param {object} oOptions object with sType, bVisible and bSearchable etc + * @memberof DataTable#oApi + */ + function _fnColumnOptions( oSettings, iCol, oOptions ) + { + var oCol = oSettings.aoColumns[ iCol ]; + var oClasses = oSettings.oClasses; + var th = $(oCol.nTh); + + // Try to get width information from the DOM. We can't get it from CSS + // as we'd need to parse the CSS stylesheet. `width` option can override + if ( ! oCol.sWidthOrig ) { + // Width attribute + oCol.sWidthOrig = th.attr('width') || null; + + // Style attribute + var t = (th.attr('style') || '').match(/width:\s*(\d+[px|em|%]+)/); + if ( t ) { + oCol.sWidthOrig = t[1]; } - else if ( $.inArray('asc', oCol.asSorting) != -1 && $.inArray('desc', oCol.asSorting) == -1 ) + } + + /* User specified column options */ + if ( oOptions !== undefined && oOptions !== null ) + { + // Backwards compatibility + _fnCompatCols( oOptions ); + + // Map camel case parameters to their Hungarian counterparts + _fnCamelToHungarian( DataTable.defaults.column, oOptions ); + + /* Backwards compatibility for mDataProp */ + if ( oOptions.mDataProp !== undefined && !oOptions.mData ) { - oCol.sSortingClass = oSettings.oClasses.sSortableAsc; - oCol.sSortingClassJUI = oSettings.oClasses.sSortJUIAscAllowed; + oOptions.mData = oOptions.mDataProp; } - else if ( $.inArray('asc', oCol.asSorting) == -1 && $.inArray('desc', oCol.asSorting) != -1 ) + + if ( oOptions.sType ) { - oCol.sSortingClass = oSettings.oClasses.sSortableDesc; - oCol.sSortingClassJUI = oSettings.oClasses.sSortJUIDescAllowed; + oCol._sManualType = oOptions.sType; } - } - - - /** - * Adjust the table column widths for new data. Note: you would probably want to - * do a redraw after calling this function! - * @param {object} oSettings dataTables settings object - * @memberof DataTable#oApi - */ - function _fnAdjustColumnSizing ( oSettings ) - { - /* Not interested in doing column width calculation if auto-width is disabled */ - if ( oSettings.oFeatures.bAutoWidth === false ) + + // `class` is a reserved word in Javascript, so we need to provide + // the ability to use a valid name for the camel case input + if ( oOptions.className && ! oOptions.sClass ) { - return false; + oOptions.sClass = oOptions.className; } - - _fnCalculateColumnWidths( oSettings ); - for ( var i=0 , iLen=oSettings.aoColumns.length ; i<iLen ; i++ ) + + $.extend( oCol, oOptions ); + _fnMap( oCol, oOptions, "sWidth", "sWidthOrig" ); + + /* iDataSort to be applied (backwards compatibility), but aDataSort will take + * priority if defined + */ + if ( oOptions.iDataSort !== undefined ) { - oSettings.aoColumns[i].nTh.style.width = oSettings.aoColumns[i].sWidth; + oCol.aDataSort = [ oOptions.iDataSort ]; } + _fnMap( oCol, oOptions, "aDataSort" ); } - - - /** - * Covert the index of a visible column to the index in the data array (take account - * of hidden columns) - * @param {object} oSettings dataTables settings object - * @param {int} iMatch Visible column index to lookup - * @returns {int} i the data index - * @memberof DataTable#oApi - */ - function _fnVisibleToColumnIndex( oSettings, iMatch ) - { - var aiVis = _fnGetColumns( oSettings, 'bVisible' ); - - return typeof aiVis[iMatch] === 'number' ? - aiVis[iMatch] : - null; + + /* Cache the data get and set functions for speed */ + var mDataSrc = oCol.mData; + var mData = _fnGetObjectDataFn( mDataSrc ); + var mRender = oCol.mRender ? _fnGetObjectDataFn( oCol.mRender ) : null; + + var attrTest = function( src ) { + return typeof src === 'string' && src.indexOf('@') !== -1; + }; + oCol._bAttrSrc = $.isPlainObject( mDataSrc ) && ( + attrTest(mDataSrc.sort) || attrTest(mDataSrc.type) || attrTest(mDataSrc.filter) + ); + + oCol.fnGetData = function (rowData, type, meta) { + var innerData = mData( rowData, type, undefined, meta ); + + return mRender && type ? + mRender( innerData, type, rowData, meta ) : + innerData; + }; + oCol.fnSetData = function ( rowData, val, meta ) { + return _fnSetObjectDataFn( mDataSrc )( rowData, val, meta ); + }; + + // Indicate if DataTables should read DOM data as an object or array + // Used in _fnGetRowElements + if ( typeof mDataSrc !== 'number' ) { + oSettings._rowReadObject = true; } - - - /** - * Covert the index of an index in the data array and convert it to the visible - * column index (take account of hidden columns) - * @param {int} iMatch Column index to lookup - * @param {object} oSettings dataTables settings object - * @returns {int} i the data index - * @memberof DataTable#oApi - */ - function _fnColumnIndexToVisible( oSettings, iMatch ) + + /* Feature sorting overrides column specific when off */ + if ( !oSettings.oFeatures.bSort ) { - var aiVis = _fnGetColumns( oSettings, 'bVisible' ); - var iPos = $.inArray( iMatch, aiVis ); - - return iPos !== -1 ? iPos : null; + oCol.bSortable = false; + th.addClass( oClasses.sSortableNone ); // Have to add class here as order event isn't called } - - - /** - * Get the number of visible columns - * @param {object} oSettings dataTables settings object - * @returns {int} i the number of visible columns - * @memberof DataTable#oApi - */ - function _fnVisbleColumns( oSettings ) + + /* Check that the class assignment is correct for sorting */ + var bAsc = $.inArray('asc', oCol.asSorting) !== -1; + var bDesc = $.inArray('desc', oCol.asSorting) !== -1; + if ( !oCol.bSortable || (!bAsc && !bDesc) ) { - return _fnGetColumns( oSettings, 'bVisible' ).length; + oCol.sSortingClass = oClasses.sSortableNone; + oCol.sSortingClassJUI = ""; } - - - /** - * Get an array of column indexes that match a given property - * @param {object} oSettings dataTables settings object - * @param {string} sParam Parameter in aoColumns to look for - typically - * bVisible or bSearchable - * @returns {array} Array of indexes with matched properties - * @memberof DataTable#oApi - */ - function _fnGetColumns( oSettings, sParam ) + else if ( bAsc && !bDesc ) { - var a = []; - - $.map( oSettings.aoColumns, function(val, i) { - if ( val[sParam] ) { - a.push( i ); - } - } ); - - return a; + oCol.sSortingClass = oClasses.sSortableAsc; + oCol.sSortingClassJUI = oClasses.sSortJUIAscAllowed; } - - - /** - * Get the sort type based on an input string - * @param {string} sData data we wish to know the type of - * @returns {string} type (defaults to 'string' if no type can be detected) - * @memberof DataTable#oApi - */ - function _fnDetectType( sData ) + else if ( !bAsc && bDesc ) { - var aTypes = DataTable.ext.aTypes; - var iLen = aTypes.length; - - for ( var i=0 ; i<iLen ; i++ ) - { - var sType = aTypes[i]( sData ); - if ( sType !== null ) - { - return sType; - } - } - - return 'string'; + oCol.sSortingClass = oClasses.sSortableDesc; + oCol.sSortingClassJUI = oClasses.sSortJUIDescAllowed; } - - - /** - * Figure out how to reorder a display list - * @param {object} oSettings dataTables settings object - * @returns array {int} aiReturn index list for reordering - * @memberof DataTable#oApi - */ - function _fnReOrderIndex ( oSettings, sColumns ) + else { - var aColumns = sColumns.split(','); - var aiReturn = []; - - for ( var i=0, iLen=oSettings.aoColumns.length ; i<iLen ; i++ ) - { - for ( var j=0 ; j<iLen ; j++ ) - { - if ( oSettings.aoColumns[i].sName == aColumns[j] ) - { - aiReturn.push( j ); - break; - } - } - } - - return aiReturn; + oCol.sSortingClass = oClasses.sSortable; + oCol.sSortingClassJUI = oClasses.sSortJUI; } - - - /** - * Get the column ordering that DataTables expects - * @param {object} oSettings dataTables settings object - * @returns {string} comma separated list of names - * @memberof DataTable#oApi - */ - function _fnColumnOrdering ( oSettings ) + } + + + /** + * Adjust the table column widths for new data. Note: you would probably want to + * do a redraw after calling this function! + * @param {object} settings dataTables settings object + * @memberof DataTable#oApi + */ + function _fnAdjustColumnSizing ( settings ) + { + /* Not interested in doing column width calculation if auto-width is disabled */ + if ( settings.oFeatures.bAutoWidth !== false ) { - var sNames = ''; - for ( var i=0, iLen=oSettings.aoColumns.length ; i<iLen ; i++ ) - { - sNames += oSettings.aoColumns[i].sName+','; - } - if ( sNames.length == iLen ) + var columns = settings.aoColumns; + + _fnCalculateColumnWidths( settings ); + for ( var i=0 , iLen=columns.length ; i<iLen ; i++ ) { - return ""; + columns[i].nTh.style.width = columns[i].sWidth; } - return sNames.slice(0, -1); } - - - /** - * Take the column definitions and static columns arrays and calculate how - * they relate to column indexes. The callback function will then apply the - * definition found for a column to a suitable configuration object. - * @param {object} oSettings dataTables settings object - * @param {array} aoColDefs The aoColumnDefs array that is to be applied - * @param {array} aoCols The aoColumns array that defines columns individually - * @param {function} fn Callback function - takes two parameters, the calculated - * column index and the definition for that column. - * @memberof DataTable#oApi - */ - function _fnApplyColumnDefs( oSettings, aoColDefs, aoCols, fn ) + + var scroll = settings.oScroll; + if ( scroll.sY !== '' || scroll.sX !== '') { - var i, iLen, j, jLen, k, kLen; - - // Column definitions with aTargets - if ( aoColDefs ) - { - /* Loop over the definitions array - loop in reverse so first instance has priority */ - for ( i=aoColDefs.length-1 ; i>=0 ; i-- ) - { - /* Each definition can target multiple columns, as it is an array */ - var aTargets = aoColDefs[i].aTargets; - if ( !$.isArray( aTargets ) ) - { - _fnLog( oSettings, 1, 'aTargets must be an array of targets, not a '+(typeof aTargets) ); - } - - for ( j=0, jLen=aTargets.length ; j<jLen ; j++ ) - { - if ( typeof aTargets[j] === 'number' && aTargets[j] >= 0 ) - { - /* Add columns that we don't yet know about */ - while( oSettings.aoColumns.length <= aTargets[j] ) - { - _fnAddColumn( oSettings ); - } - - /* Integer, basic index */ - fn( aTargets[j], aoColDefs[i] ); + _fnScrollDraw( settings ); + } + + _fnCallbackFire( settings, null, 'column-sizing', [settings] ); + } + + + /** + * Covert the index of a visible column to the index in the data array (take account + * of hidden columns) + * @param {object} oSettings dataTables settings object + * @param {int} iMatch Visible column index to lookup + * @returns {int} i the data index + * @memberof DataTable#oApi + */ + function _fnVisibleToColumnIndex( oSettings, iMatch ) + { + var aiVis = _fnGetColumns( oSettings, 'bVisible' ); + + return typeof aiVis[iMatch] === 'number' ? + aiVis[iMatch] : + null; + } + + + /** + * Covert the index of an index in the data array and convert it to the visible + * column index (take account of hidden columns) + * @param {int} iMatch Column index to lookup + * @param {object} oSettings dataTables settings object + * @returns {int} i the data index + * @memberof DataTable#oApi + */ + function _fnColumnIndexToVisible( oSettings, iMatch ) + { + var aiVis = _fnGetColumns( oSettings, 'bVisible' ); + var iPos = $.inArray( iMatch, aiVis ); + + return iPos !== -1 ? iPos : null; + } + + + /** + * Get the number of visible columns + * @param {object} oSettings dataTables settings object + * @returns {int} i the number of visible columns + * @memberof DataTable#oApi + */ + function _fnVisbleColumns( oSettings ) + { + return _fnGetColumns( oSettings, 'bVisible' ).length; + } + + + /** + * Get an array of column indexes that match a given property + * @param {object} oSettings dataTables settings object + * @param {string} sParam Parameter in aoColumns to look for - typically + * bVisible or bSearchable + * @returns {array} Array of indexes with matched properties + * @memberof DataTable#oApi + */ + function _fnGetColumns( oSettings, sParam ) + { + var a = []; + + $.map( oSettings.aoColumns, function(val, i) { + if ( val[sParam] ) { + a.push( i ); + } + } ); + + return a; + } + + + /** + * Calculate the 'type' of a column + * @param {object} settings dataTables settings object + * @memberof DataTable#oApi + */ + function _fnColumnTypes ( settings ) + { + var columns = settings.aoColumns; + var data = settings.aoData; + var types = DataTable.ext.type.detect; + var i, ien, j, jen, k, ken; + var col, cell, detectedType, cache; + + // For each column, spin over the + for ( i=0, ien=columns.length ; i<ien ; i++ ) { + col = columns[i]; + cache = []; + + if ( ! col.sType && col._sManualType ) { + col.sType = col._sManualType; + } + else if ( ! col.sType ) { + for ( j=0, jen=types.length ; j<jen ; j++ ) { + for ( k=0, ken=data.length ; k<ken ; k++ ) { + // Use a cache array so we only need to get the type data + // from the formatter once (when using multiple detectors) + if ( cache[k] === undefined ) { + cache[k] = _fnGetCellData( settings, k, i, 'type' ); } - else if ( typeof aTargets[j] === 'number' && aTargets[j] < 0 ) - { - /* Negative integer, right to left column counting */ - fn( oSettings.aoColumns.length+aTargets[j], aoColDefs[i] ); + + detectedType = types[j]( cache[k], settings ); + + // If null, then this type can't apply to this column, so + // rather than testing all cells, break out. There is an + // exception for the last type which is `html`. We need to + // scan all rows since it is possible to mix string and HTML + // types + if ( ! detectedType && j !== types.length-1 ) { + break; } - else if ( typeof aTargets[j] === 'string' ) - { - /* Class name matching on TH element */ - for ( k=0, kLen=oSettings.aoColumns.length ; k<kLen ; k++ ) - { - if ( aTargets[j] == "_all" || - $(oSettings.aoColumns[k].nTh).hasClass( aTargets[j] ) ) - { - fn( k, aoColDefs[i] ); - } - } + + // Only a single match is needed for html type since it is + // bottom of the pile and very similar to string + if ( detectedType === 'html' ) { + break; } } + + // Type is valid for all data points in the column - use this + // type + if ( detectedType ) { + col.sType = detectedType; + break; + } } - } - - // Statically defined columns array - if ( aoCols ) - { - for ( i=0, iLen=aoCols.length ; i<iLen ; i++ ) - { - fn( i, aoCols[i] ); + + // Fall back - if no type was detected, always use string + if ( ! col.sType ) { + col.sType = 'string'; } } } - - /** - * Add a data array to the table, creating DOM node etc. This is the parallel to - * _fnGatherData, but for adding rows from a Javascript source, rather than a - * DOM source. - * @param {object} oSettings dataTables settings object - * @param {array} aData data array to be added - * @returns {int} >=0 if successful (index of new aoData entry), -1 if failed - * @memberof DataTable#oApi - */ - function _fnAddData ( oSettings, aDataSupplied ) + } + + + /** + * Take the column definitions and static columns arrays and calculate how + * they relate to column indexes. The callback function will then apply the + * definition found for a column to a suitable configuration object. + * @param {object} oSettings dataTables settings object + * @param {array} aoColDefs The aoColumnDefs array that is to be applied + * @param {array} aoCols The aoColumns array that defines columns individually + * @param {function} fn Callback function - takes two parameters, the calculated + * column index and the definition for that column. + * @memberof DataTable#oApi + */ + function _fnApplyColumnDefs( oSettings, aoColDefs, aoCols, fn ) + { + var i, iLen, j, jLen, k, kLen, def; + var columns = oSettings.aoColumns; + + // Column definitions with aTargets + if ( aoColDefs ) { - var oCol; - - /* Take an independent copy of the data source so we can bash it about as we wish */ - var aDataIn = ($.isArray(aDataSupplied)) ? - aDataSupplied.slice() : - $.extend( true, {}, aDataSupplied ); - - /* Create the object for storing information about this new row */ - var iRow = oSettings.aoData.length; - var oData = $.extend( true, {}, DataTable.models.oRow ); - oData._aData = aDataIn; - oSettings.aoData.push( oData ); - - /* Create the cells */ - var nTd, sThisType; - for ( var i=0, iLen=oSettings.aoColumns.length ; i<iLen ; i++ ) + /* Loop over the definitions array - loop in reverse so first instance has priority */ + for ( i=aoColDefs.length-1 ; i>=0 ; i-- ) { - oCol = oSettings.aoColumns[i]; - - /* Use rendered data for filtering / sorting */ - if ( typeof oCol.fnRender === 'function' && oCol.bUseRendered && oCol.mData !== null ) - { - _fnSetCellData( oSettings, iRow, i, _fnRender(oSettings, iRow, i) ); - } - else - { - _fnSetCellData( oSettings, iRow, i, _fnGetCellData( oSettings, iRow, i ) ); - } - - /* See if we should auto-detect the column type */ - if ( oCol._bAutoType && oCol.sType != 'string' ) + def = aoColDefs[i]; + + /* Each definition can target multiple columns, as it is an array */ + var aTargets = def.targets !== undefined ? + def.targets : + def.aTargets; + + if ( ! $.isArray( aTargets ) ) { - /* Attempt to auto detect the type - same as _fnGatherData() */ - var sVarType = _fnGetCellData( oSettings, iRow, i, 'type' ); - if ( sVarType !== null && sVarType !== '' ) - { - sThisType = _fnDetectType( sVarType ); - if ( oCol.sType === null ) - { - oCol.sType = sThisType; - } - else if ( oCol.sType != sThisType && oCol.sType != "html" ) - { - /* String is always the 'fallback' option */ - oCol.sType = 'string'; - } - } + aTargets = [ aTargets ]; } - } - - /* Add to the display array */ - oSettings.aiDisplayMaster.push( iRow ); - - /* Create the DOM information */ - if ( !oSettings.oFeatures.bDeferRender ) - { - _fnCreateTr( oSettings, iRow ); - } - - return iRow; - } - - - /** - * Read in the data from the target table from the DOM - * @param {object} oSettings dataTables settings object - * @memberof DataTable#oApi - */ - function _fnGatherData( oSettings ) - { - var iLoop, i, iLen, j, jLen, jInner, - nTds, nTrs, nTd, nTr, aLocalData, iThisIndex, - iRow, iRows, iColumn, iColumns, sNodeName, - oCol, oData; - - /* - * Process by row first - * Add the data object for the whole table - storing the tr node. Note - no point in getting - * DOM based data if we are going to go and replace it with Ajax source data. - */ - if ( oSettings.bDeferLoading || oSettings.sAjaxSource === null ) - { - nTr = oSettings.nTBody.firstChild; - while ( nTr ) + + for ( j=0, jLen=aTargets.length ; j<jLen ; j++ ) { - if ( nTr.nodeName.toUpperCase() == "TR" ) + if ( typeof aTargets[j] === 'number' && aTargets[j] >= 0 ) { - iThisIndex = oSettings.aoData.length; - nTr._DT_RowIndex = iThisIndex; - oSettings.aoData.push( $.extend( true, {}, DataTable.models.oRow, { - "nTr": nTr - } ) ); - - oSettings.aiDisplayMaster.push( iThisIndex ); - nTd = nTr.firstChild; - jInner = 0; - while ( nTd ) + /* Add columns that we don't yet know about */ + while( columns.length <= aTargets[j] ) { - sNodeName = nTd.nodeName.toUpperCase(); - if ( sNodeName == "TD" || sNodeName == "TH" ) - { - _fnSetCellData( oSettings, iThisIndex, jInner, $.trim(nTd.innerHTML) ); - jInner++; - } - nTd = nTd.nextSibling; + _fnAddColumn( oSettings ); } + + /* Integer, basic index */ + fn( aTargets[j], def ); } - nTr = nTr.nextSibling; - } - } - - /* Gather in the TD elements of the Table - note that this is basically the same as - * fnGetTdNodes, but that function takes account of hidden columns, which we haven't yet - * setup! - */ - nTrs = _fnGetTrNodes( oSettings ); - nTds = []; - for ( i=0, iLen=nTrs.length ; i<iLen ; i++ ) - { - nTd = nTrs[i].firstChild; - while ( nTd ) - { - sNodeName = nTd.nodeName.toUpperCase(); - if ( sNodeName == "TD" || sNodeName == "TH" ) + else if ( typeof aTargets[j] === 'number' && aTargets[j] < 0 ) { - nTds.push( nTd ); + /* Negative integer, right to left column counting */ + fn( columns.length+aTargets[j], def ); } - nTd = nTd.nextSibling; - } - } - - /* Now process by column */ - for ( iColumn=0, iColumns=oSettings.aoColumns.length ; iColumn<iColumns ; iColumn++ ) - { - oCol = oSettings.aoColumns[iColumn]; - - /* Get the title of the column - unless there is a user set one */ - if ( oCol.sTitle === null ) - { - oCol.sTitle = oCol.nTh.innerHTML; - } - - var - bAutoType = oCol._bAutoType, - bRender = typeof oCol.fnRender === 'function', - bClass = oCol.sClass !== null, - bVisible = oCol.bVisible, - nCell, sThisType, sRendered, sValType; - - /* A single loop to rule them all (and be more efficient) */ - if ( bAutoType || bRender || bClass || !bVisible ) - { - for ( iRow=0, iRows=oSettings.aoData.length ; iRow<iRows ; iRow++ ) + else if ( typeof aTargets[j] === 'string' ) { - oData = oSettings.aoData[iRow]; - nCell = nTds[ (iRow*iColumns) + iColumn ]; - - /* Type detection */ - if ( bAutoType && oCol.sType != 'string' ) + /* Class name matching on TH element */ + for ( k=0, kLen=columns.length ; k<kLen ; k++ ) { - sValType = _fnGetCellData( oSettings, iRow, iColumn, 'type' ); - if ( sValType !== '' ) + if ( aTargets[j] == "_all" || + $(columns[k].nTh).hasClass( aTargets[j] ) ) { - sThisType = _fnDetectType( sValType ); - if ( oCol.sType === null ) - { - oCol.sType = sThisType; - } - else if ( oCol.sType != sThisType && - oCol.sType != "html" ) - { - /* String is always the 'fallback' option */ - oCol.sType = 'string'; - } + fn( k, def ); } } - - if ( oCol.mRender ) - { - // mRender has been defined, so we need to get the value and set it - nCell.innerHTML = _fnGetCellData( oSettings, iRow, iColumn, 'display' ); - } - else if ( oCol.mData !== iColumn ) - { - // If mData is not the same as the column number, then we need to - // get the dev set value. If it is the column, no point in wasting - // time setting the value that is already there! - nCell.innerHTML = _fnGetCellData( oSettings, iRow, iColumn, 'display' ); - } - - /* Rendering */ - if ( bRender ) - { - sRendered = _fnRender( oSettings, iRow, iColumn ); - nCell.innerHTML = sRendered; - if ( oCol.bUseRendered ) - { - /* Use the rendered data for filtering / sorting */ - _fnSetCellData( oSettings, iRow, iColumn, sRendered ); - } - } - - /* Classes */ - if ( bClass ) - { - nCell.className += ' '+oCol.sClass; - } - - /* Column visibility */ - if ( !bVisible ) - { - oData._anHidden[iColumn] = nCell; - nCell.parentNode.removeChild( nCell ); - } - else - { - oData._anHidden[iColumn] = null; - } - - if ( oCol.fnCreatedCell ) - { - oCol.fnCreatedCell.call( oSettings.oInstance, - nCell, _fnGetCellData( oSettings, iRow, iColumn, 'display' ), oData._aData, iRow, iColumn - ); - } } } } - - /* Row created callbacks */ - if ( oSettings.aoRowCreatedCallback.length !== 0 ) - { - for ( i=0, iLen=oSettings.aoData.length ; i<iLen ; i++ ) - { - oData = oSettings.aoData[i]; - _fnCallbackFire( oSettings, 'aoRowCreatedCallback', null, [oData.nTr, oData._aData, i] ); - } - } - } - - - /** - * Take a TR element and convert it to an index in aoData - * @param {object} oSettings dataTables settings object - * @param {node} n the TR element to find - * @returns {int} index if the node is found, null if not - * @memberof DataTable#oApi - */ - function _fnNodeToDataIndex( oSettings, n ) - { - return (n._DT_RowIndex!==undefined) ? n._DT_RowIndex : null; } - - - /** - * Take a TD element and convert it into a column data index (not the visible index) - * @param {object} oSettings dataTables settings object - * @param {int} iRow The row number the TD/TH can be found in - * @param {node} n The TD/TH element to find - * @returns {int} index if the node is found, -1 if not - * @memberof DataTable#oApi - */ - function _fnNodeToColumnIndex( oSettings, iRow, n ) + + // Statically defined columns array + if ( aoCols ) { - var anCells = _fnGetTdNodes( oSettings, iRow ); - - for ( var i=0, iLen=oSettings.aoColumns.length ; i<iLen ; i++ ) + for ( i=0, iLen=aoCols.length ; i<iLen ; i++ ) { - if ( anCells[i] === n ) - { - return i; - } + fn( i, aoCols[i] ); } - return -1; } - - - /** - * Get an array of data for a given row from the internal data cache - * @param {object} oSettings dataTables settings object - * @param {int} iRow aoData row id - * @param {string} sSpecific data get type ('type' 'filter' 'sort') - * @param {array} aiColumns Array of column indexes to get data from - * @returns {array} Data array - * @memberof DataTable#oApi - */ - function _fnGetRowData( oSettings, iRow, sSpecific, aiColumns ) + } + + /** + * Add a data array to the table, creating DOM node etc. This is the parallel to + * _fnGatherData, but for adding rows from a Javascript source, rather than a + * DOM source. + * @param {object} oSettings dataTables settings object + * @param {array} aData data array to be added + * @param {node} [nTr] TR element to add to the table - optional. If not given, + * DataTables will create a row automatically + * @param {array} [anTds] Array of TD|TH elements for the row - must be given + * if nTr is. + * @returns {int} >=0 if successful (index of new aoData entry), -1 if failed + * @memberof DataTable#oApi + */ + function _fnAddData ( oSettings, aDataIn, nTr, anTds ) + { + /* Create the object for storing information about this new row */ + var iRow = oSettings.aoData.length; + var oData = $.extend( true, {}, DataTable.models.oRow, { + src: nTr ? 'dom' : 'data' + } ); + + oData._aData = aDataIn; + oSettings.aoData.push( oData ); + + /* Create the cells */ + var nTd, sThisType; + var columns = oSettings.aoColumns; + for ( var i=0, iLen=columns.length ; i<iLen ; i++ ) { - var out = []; - for ( var i=0, iLen=aiColumns.length ; i<iLen ; i++ ) - { - out.push( _fnGetCellData( oSettings, iRow, aiColumns[i], sSpecific ) ); + // When working with a row, the data source object must be populated. In + // all other cases, the data source object is already populated, so we + // don't overwrite it, which might break bindings etc + if ( nTr ) { + _fnSetCellData( oSettings, iRow, i, _fnGetCellData( oSettings, iRow, i ) ); } - return out; + columns[i].sType = null; } - - - /** - * Get the data for a given cell from the internal cache, taking into account data mapping - * @param {object} oSettings dataTables settings object - * @param {int} iRow aoData row id - * @param {int} iCol Column index - * @param {string} sSpecific data get type ('display', 'type' 'filter' 'sort') - * @returns {*} Cell data - * @memberof DataTable#oApi - */ - function _fnGetCellData( oSettings, iRow, iCol, sSpecific ) + + /* Add to the display array */ + oSettings.aiDisplayMaster.push( iRow ); + + /* Create the DOM information, or register it if already present */ + if ( nTr || ! oSettings.oFeatures.bDeferRender ) { - var sData; - var oCol = oSettings.aoColumns[iCol]; - var oData = oSettings.aoData[iRow]._aData; - - if ( (sData=oCol.fnGetData( oData, sSpecific )) === undefined ) - { - if ( oSettings.iDrawError != oSettings.iDraw && oCol.sDefaultContent === null ) - { - _fnLog( oSettings, 0, "Requested unknown parameter "+ - (typeof oCol.mData=='function' ? '{mData function}' : "'"+oCol.mData+"'")+ - " from the data source for row "+iRow ); - oSettings.iDrawError = oSettings.iDraw; - } - return oCol.sDefaultContent; - } - - /* When the data source is null, we can use default column data */ - if ( sData === null && oCol.sDefaultContent !== null ) - { - sData = oCol.sDefaultContent; - } - else if ( typeof sData === 'function' ) - { - /* If the data source is a function, then we run it and use the return */ - return sData(); - } - - if ( sSpecific == 'display' && sData === null ) - { - return ''; + _fnCreateTr( oSettings, iRow, nTr, anTds ); + } + + return iRow; + } + + + /** + * Add one or more TR elements to the table. Generally we'd expect to + * use this for reading data from a DOM sourced table, but it could be + * used for an TR element. Note that if a TR is given, it is used (i.e. + * it is not cloned). + * @param {object} settings dataTables settings object + * @param {array|node|jQuery} trs The TR element(s) to add to the table + * @returns {array} Array of indexes for the added rows + * @memberof DataTable#oApi + */ + function _fnAddTr( settings, trs ) + { + var row; + + // Allow an individual node to be passed in + if ( ! (trs instanceof $) ) { + trs = $(trs); + } + + return trs.map( function (i, el) { + row = _fnGetRowElements( settings, el ); + return _fnAddData( settings, row.data, el, row.cells ); + } ); + } + + + /** + * Take a TR element and convert it to an index in aoData + * @param {object} oSettings dataTables settings object + * @param {node} n the TR element to find + * @returns {int} index if the node is found, null if not + * @memberof DataTable#oApi + */ + function _fnNodeToDataIndex( oSettings, n ) + { + return (n._DT_RowIndex!==undefined) ? n._DT_RowIndex : null; + } + + + /** + * Take a TD element and convert it into a column data index (not the visible index) + * @param {object} oSettings dataTables settings object + * @param {int} iRow The row number the TD/TH can be found in + * @param {node} n The TD/TH element to find + * @returns {int} index if the node is found, -1 if not + * @memberof DataTable#oApi + */ + function _fnNodeToColumnIndex( oSettings, iRow, n ) + { + return $.inArray( n, oSettings.aoData[ iRow ].anCells ); + } + + + /** + * Get the data for a given cell from the internal cache, taking into account data mapping + * @param {object} settings dataTables settings object + * @param {int} rowIdx aoData row id + * @param {int} colIdx Column index + * @param {string} type data get type ('display', 'type' 'filter' 'sort') + * @returns {*} Cell data + * @memberof DataTable#oApi + */ + function _fnGetCellData( settings, rowIdx, colIdx, type ) + { + var draw = settings.iDraw; + var col = settings.aoColumns[colIdx]; + var rowData = settings.aoData[rowIdx]._aData; + var defaultContent = col.sDefaultContent; + var cellData = col.fnGetData( rowData, type, { + settings: settings, + row: rowIdx, + col: colIdx + } ); + + if ( cellData === undefined ) { + if ( settings.iDrawError != draw && defaultContent === null ) { + _fnLog( settings, 0, "Requested unknown parameter "+ + (typeof col.mData=='function' ? '{function}' : "'"+col.mData+"'")+ + " for row "+rowIdx, 4 ); + settings.iDrawError = draw; } - return sData; + return defaultContent; } - - - /** - * Set the value for a specific cell, into the internal data cache - * @param {object} oSettings dataTables settings object - * @param {int} iRow aoData row id - * @param {int} iCol Column index - * @param {*} val Value to set - * @memberof DataTable#oApi - */ - function _fnSetCellData( oSettings, iRow, iCol, val ) + + /* When the data source is null, we can use default column data */ + if ( (cellData === rowData || cellData === null) && defaultContent !== null ) { + cellData = defaultContent; + } + else if ( typeof cellData === 'function' ) { + // If the data source is a function, then we run it and use the return, + // executing in the scope of the data object (for instances) + return cellData.call( rowData ); + } + + if ( cellData === null && type == 'display' ) { + return ''; + } + return cellData; + } + + + /** + * Set the value for a specific cell, into the internal data cache + * @param {object} settings dataTables settings object + * @param {int} rowIdx aoData row id + * @param {int} colIdx Column index + * @param {*} val Value to set + * @memberof DataTable#oApi + */ + function _fnSetCellData( settings, rowIdx, colIdx, val ) + { + var col = settings.aoColumns[colIdx]; + var rowData = settings.aoData[rowIdx]._aData; + + col.fnSetData( rowData, val, { + settings: settings, + row: rowIdx, + col: colIdx + } ); + } + + + // Private variable that is used to match action syntax in the data property object + var __reArray = /\[.*?\]$/; + var __reFn = /\(\)$/; + + /** + * Split string on periods, taking into account escaped periods + * @param {string} str String to split + * @return {array} Split string + */ + function _fnSplitObjNotation( str ) + { + return $.map( str.match(/(\\.|[^\.])+/g), function ( s ) { + return s.replace(/\\./g, '.'); + } ); + } + + + /** + * Return a function that can be used to get data from a source object, taking + * into account the ability to use nested objects as a source + * @param {string|int|function} mSource The data source for the object + * @returns {function} Data get function + * @memberof DataTable#oApi + */ + function _fnGetObjectDataFn( mSource ) + { + if ( $.isPlainObject( mSource ) ) { - var oCol = oSettings.aoColumns[iCol]; - var oData = oSettings.aoData[iRow]._aData; - - oCol.fnSetData( oData, val ); + /* Build an object of get functions, and wrap them in a single call */ + var o = {}; + $.each( mSource, function (key, val) { + if ( val ) { + o[key] = _fnGetObjectDataFn( val ); + } + } ); + + return function (data, type, row, meta) { + var t = o[type] || o._; + return t !== undefined ? + t(data, type, row, meta) : + data; + }; } - - - // Private variable that is used to match array syntax in the data property object - var __reArray = /\[.*?\]$/; - - /** - * Return a function that can be used to get data from a source object, taking - * into account the ability to use nested objects as a source - * @param {string|int|function} mSource The data source for the object - * @returns {function} Data get function - * @memberof DataTable#oApi - */ - function _fnGetObjectDataFn( mSource ) + else if ( mSource === null ) { - if ( mSource === null ) - { - /* Give an empty string for rendering / sorting etc */ - return function (data, type) { - return null; - }; - } - else if ( typeof mSource === 'function' ) - { - return function (data, type, extra) { - return mSource( data, type, extra ); - }; - } - else if ( typeof mSource === 'string' && (mSource.indexOf('.') !== -1 || mSource.indexOf('[') !== -1) ) - { - /* If there is a . in the source string then the data source is in a - * nested object so we loop over the data for each level to get the next - * level down. On each loop we test for undefined, and if found immediately - * return. This allows entire objects to be missing and sDefaultContent to - * be used if defined, rather than throwing an error - */ - var fetchData = function (data, type, src) { - var a = src.split('.'); - var arrayNotation, out, innerSrc; - - if ( src !== "" ) - { - for ( var i=0, iLen=a.length ; i<iLen ; i++ ) - { - // Check if we are dealing with an array notation request - arrayNotation = a[i].match(__reArray); - - if ( arrayNotation ) { - a[i] = a[i].replace(__reArray, ''); - - // Condition allows simply [] to be passed in - if ( a[i] !== "" ) { - data = data[ a[i] ]; - } - out = []; - - // Get the remainder of the nested object to get - a.splice( 0, i+1 ); - innerSrc = a.join('.'); - - // Traverse each entry in the array getting the properties requested - for ( var j=0, jLen=data.length ; j<jLen ; j++ ) { - out.push( fetchData( data[j], type, innerSrc ) ); - } - - // If a string is given in between the array notation indicators, that - // is used to join the strings together, otherwise an array is returned - var join = arrayNotation[0].substring(1, arrayNotation[0].length-1); - data = (join==="") ? out : out.join(join); - - // The inner call to fetchData has already traversed through the remainder - // of the source requested, so we exit from the loop - break; - } - - if ( data === null || data[ a[i] ] === undefined ) - { - return undefined; - } - data = data[ a[i] ]; - } - } - - return data; - }; - - return function (data, type) { - return fetchData( data, type, mSource ); - }; - } - else - { - /* Array or flat object mapping */ - return function (data, type) { - return data[mSource]; - }; - } + /* Give an empty string for rendering / sorting etc */ + return function (data) { // type, row and meta also passed, but not used + return data; + }; } - - - /** - * Return a function that can be used to set data from a source object, taking - * into account the ability to use nested objects as a source - * @param {string|int|function} mSource The data source for the object - * @returns {function} Data set function - * @memberof DataTable#oApi - */ - function _fnSetObjectDataFn( mSource ) + else if ( typeof mSource === 'function' ) { - if ( mSource === null ) - { - /* Nothing to do when the data source is null */ - return function (data, val) {}; - } - else if ( typeof mSource === 'function' ) - { - return function (data, val) { - mSource( data, 'set', val ); - }; - } - else if ( typeof mSource === 'string' && (mSource.indexOf('.') !== -1 || mSource.indexOf('[') !== -1) ) - { - /* Like the get, we need to get data from a nested object */ - var setData = function (data, val, src) { - var a = src.split('.'), b; - var arrayNotation, o, innerSrc; - - for ( var i=0, iLen=a.length-1 ; i<iLen ; i++ ) + return function (data, type, row, meta) { + return mSource( data, type, row, meta ); + }; + } + else if ( typeof mSource === 'string' && (mSource.indexOf('.') !== -1 || + mSource.indexOf('[') !== -1 || mSource.indexOf('(') !== -1) ) + { + /* If there is a . in the source string then the data source is in a + * nested object so we loop over the data for each level to get the next + * level down. On each loop we test for undefined, and if found immediately + * return. This allows entire objects to be missing and sDefaultContent to + * be used if defined, rather than throwing an error + */ + var fetchData = function (data, type, src) { + var arrayNotation, funcNotation, out, innerSrc; + + if ( src !== "" ) + { + var a = _fnSplitObjNotation( src ); + + for ( var i=0, iLen=a.length ; i<iLen ; i++ ) { - // Check if we are dealing with an array notation request + // Check if we are dealing with special notation arrayNotation = a[i].match(__reArray); - + funcNotation = a[i].match(__reFn); + if ( arrayNotation ) { + // Array notation a[i] = a[i].replace(__reArray, ''); - data[ a[i] ] = []; - - // Get the remainder of the nested object to set so we can recurse - b = a.slice(); - b.splice( 0, i+1 ); - innerSrc = b.join('.'); - - // Traverse each entry in the array setting the properties requested - for ( var j=0, jLen=val.length ; j<jLen ; j++ ) - { - o = {}; - setData( o, val[j], innerSrc ); - data[ a[i] ].push( o ); + + // Condition allows simply [] to be passed in + if ( a[i] !== "" ) { + data = data[ a[i] ]; } - - // The inner call to setData has already traversed through the remainder - // of the source and has set the data, thus we can exit here - return; + out = []; + + // Get the remainder of the nested object to get + a.splice( 0, i+1 ); + innerSrc = a.join('.'); + + // Traverse each entry in the array getting the properties requested + for ( var j=0, jLen=data.length ; j<jLen ; j++ ) { + out.push( fetchData( data[j], type, innerSrc ) ); + } + + // If a string is given in between the array notation indicators, that + // is used to join the strings together, otherwise an array is returned + var join = arrayNotation[0].substring(1, arrayNotation[0].length-1); + data = (join==="") ? out : out.join(join); + + // The inner call to fetchData has already traversed through the remainder + // of the source requested, so we exit from the loop + break; } - - // If the nested object doesn't currently exist - since we are - // trying to set the value - create it - if ( data[ a[i] ] === null || data[ a[i] ] === undefined ) + else if ( funcNotation ) + { + // Function call + a[i] = a[i].replace(__reFn, ''); + data = data[ a[i] ](); + continue; + } + + if ( data === null || data[ a[i] ] === undefined ) { - data[ a[i] ] = {}; + return undefined; } data = data[ a[i] ]; } - - // If array notation is used, we just want to strip it and use the property name - // and assign the value. If it isn't used, then we get the result we want anyway - data[ a[a.length-1].replace(__reArray, '') ] = val; - }; - - return function (data, val) { - return setData( data, val, mSource ); - }; - } - else - { - /* Array or flat object mapping */ - return function (data, val) { - data[mSource] = val; - }; - } - } - - - /** - * Return an array with the full table data - * @param {object} oSettings dataTables settings object - * @returns array {array} aData Master data array - * @memberof DataTable#oApi - */ - function _fnGetDataMaster ( oSettings ) - { - var aData = []; - var iLen = oSettings.aoData.length; - for ( var i=0 ; i<iLen; i++ ) - { - aData.push( oSettings.aoData[i]._aData ); - } - return aData; + } + + return data; + }; + + return function (data, type) { // row and meta also passed, but not used + return fetchData( data, type, mSource ); + }; } - - - /** - * Nuke the table - * @param {object} oSettings dataTables settings object - * @memberof DataTable#oApi - */ - function _fnClearTable( oSettings ) + else { - oSettings.aoData.splice( 0, oSettings.aoData.length ); - oSettings.aiDisplayMaster.splice( 0, oSettings.aiDisplayMaster.length ); - oSettings.aiDisplay.splice( 0, oSettings.aiDisplay.length ); - _fnCalculateEnd( oSettings ); + /* Array or flat object mapping */ + return function (data, type) { // row and meta also passed, but not used + return data[mSource]; + }; } - - - /** - * Take an array of integers (index array) and remove a target integer (value - not - * the key!) - * @param {array} a Index array to target - * @param {int} iTarget value to find - * @memberof DataTable#oApi - */ - function _fnDeleteIndex( a, iTarget ) + } + + + /** + * Return a function that can be used to set data from a source object, taking + * into account the ability to use nested objects as a source + * @param {string|int|function} mSource The data source for the object + * @returns {function} Data set function + * @memberof DataTable#oApi + */ + function _fnSetObjectDataFn( mSource ) + { + if ( $.isPlainObject( mSource ) ) { - var iTargetIndex = -1; - - for ( var i=0, iLen=a.length ; i<iLen ; i++ ) - { - if ( a[i] == iTarget ) - { - iTargetIndex = i; - } - else if ( a[i] > iTarget ) - { - a[i]--; - } - } - - if ( iTargetIndex != -1 ) - { - a.splice( iTargetIndex, 1 ); - } + /* Unlike get, only the underscore (global) option is used for for + * setting data since we don't know the type here. This is why an object + * option is not documented for `mData` (which is read/write), but it is + * for `mRender` which is read only. + */ + return _fnSetObjectDataFn( mSource._ ); } - - - /** - * Call the developer defined fnRender function for a given cell (row/column) with - * the required parameters and return the result. - * @param {object} oSettings dataTables settings object - * @param {int} iRow aoData index for the row - * @param {int} iCol aoColumns index for the column - * @returns {*} Return of the developer's fnRender function - * @memberof DataTable#oApi - */ - function _fnRender( oSettings, iRow, iCol ) + else if ( mSource === null ) { - var oCol = oSettings.aoColumns[iCol]; - - return oCol.fnRender( { - "iDataRow": iRow, - "iDataColumn": iCol, - "oSettings": oSettings, - "aData": oSettings.aoData[iRow]._aData, - "mDataProp": oCol.mData - }, _fnGetCellData(oSettings, iRow, iCol, 'display') ); + /* Nothing to do when the data source is null */ + return function () {}; } - /** - * Create a new TR element (and it's TD children) for a row - * @param {object} oSettings dataTables settings object - * @param {int} iRow Row to consider - * @memberof DataTable#oApi - */ - function _fnCreateTr ( oSettings, iRow ) + else if ( typeof mSource === 'function' ) { - var oData = oSettings.aoData[iRow]; - var nTd; - - if ( oData.nTr === null ) - { - oData.nTr = document.createElement('tr'); - - /* Use a private property on the node to allow reserve mapping from the node - * to the aoData array for fast look up - */ - oData.nTr._DT_RowIndex = iRow; - - /* Special parameters can be given by the data source to be used on the row */ - if ( oData._aData.DT_RowId ) - { - oData.nTr.id = oData._aData.DT_RowId; - } - - if ( oData._aData.DT_RowClass ) - { - oData.nTr.className = oData._aData.DT_RowClass; - } - - /* Process each column */ - for ( var i=0, iLen=oSettings.aoColumns.length ; i<iLen ; i++ ) - { - var oCol = oSettings.aoColumns[i]; - nTd = document.createElement( oCol.sCellType ); - - /* Render if needed - if bUseRendered is true then we already have the rendered - * value in the data source - so can just use that - */ - nTd.innerHTML = (typeof oCol.fnRender === 'function' && (!oCol.bUseRendered || oCol.mData === null)) ? - _fnRender( oSettings, iRow, i ) : - _fnGetCellData( oSettings, iRow, i, 'display' ); - - /* Add user defined class */ - if ( oCol.sClass !== null ) - { - nTd.className = oCol.sClass; - } - - if ( oCol.bVisible ) - { - oData.nTr.appendChild( nTd ); - oData._anHidden[i] = null; - } - else - { - oData._anHidden[i] = nTd; - } - - if ( oCol.fnCreatedCell ) - { - oCol.fnCreatedCell.call( oSettings.oInstance, - nTd, _fnGetCellData( oSettings, iRow, i, 'display' ), oData._aData, iRow, i - ); - } - } - - _fnCallbackFire( oSettings, 'aoRowCreatedCallback', null, [oData.nTr, oData._aData, iRow] ); - } + return function (data, val, meta) { + mSource( data, 'set', val, meta ); + }; } - - - /** - * Create the HTML header for the table - * @param {object} oSettings dataTables settings object - * @memberof DataTable#oApi - */ - function _fnBuildHead( oSettings ) + else if ( typeof mSource === 'string' && (mSource.indexOf('.') !== -1 || + mSource.indexOf('[') !== -1 || mSource.indexOf('(') !== -1) ) { - var i, nTh, iLen, j, jLen; - var iThs = $('th, td', oSettings.nTHead).length; - var iCorrector = 0; - var jqChildren; - - /* If there is a header in place - then use it - otherwise it's going to get nuked... */ - if ( iThs !== 0 ) - { - /* We've got a thead from the DOM, so remove hidden columns and apply width to vis cols */ - for ( i=0, iLen=oSettings.aoColumns.length ; i<iLen ; i++ ) + /* Like the get, we need to get data from a nested object */ + var setData = function (data, val, src) { + var a = _fnSplitObjNotation( src ), b; + var aLast = a[a.length-1]; + var arrayNotation, funcNotation, o, innerSrc; + + for ( var i=0, iLen=a.length-1 ; i<iLen ; i++ ) { - nTh = oSettings.aoColumns[i].nTh; - nTh.setAttribute('role', 'columnheader'); - if ( oSettings.aoColumns[i].bSortable ) - { - nTh.setAttribute('tabindex', oSettings.iTabIndex); - nTh.setAttribute('aria-controls', oSettings.sTableId); - } - - if ( oSettings.aoColumns[i].sClass !== null ) + // Check if we are dealing with an array notation request + arrayNotation = a[i].match(__reArray); + funcNotation = a[i].match(__reFn); + + if ( arrayNotation ) { - $(nTh).addClass( oSettings.aoColumns[i].sClass ); + a[i] = a[i].replace(__reArray, ''); + data[ a[i] ] = []; + + // Get the remainder of the nested object to set so we can recurse + b = a.slice(); + b.splice( 0, i+1 ); + innerSrc = b.join('.'); + + // Traverse each entry in the array setting the properties requested + for ( var j=0, jLen=val.length ; j<jLen ; j++ ) + { + o = {}; + setData( o, val[j], innerSrc ); + data[ a[i] ].push( o ); + } + + // The inner call to setData has already traversed through the remainder + // of the source and has set the data, thus we can exit here + return; } - - /* Set the title of the column if it is user defined (not what was auto detected) */ - if ( oSettings.aoColumns[i].sTitle != nTh.innerHTML ) + else if ( funcNotation ) { - nTh.innerHTML = oSettings.aoColumns[i].sTitle; + // Function call + a[i] = a[i].replace(__reFn, ''); + data = data[ a[i] ]( val ); } - } - } - else - { - /* We don't have a header in the DOM - so we are going to have to create one */ - var nTr = document.createElement( "tr" ); - - for ( i=0, iLen=oSettings.aoColumns.length ; i<iLen ; i++ ) - { - nTh = oSettings.aoColumns[i].nTh; - nTh.innerHTML = oSettings.aoColumns[i].sTitle; - nTh.setAttribute('tabindex', '0'); - - if ( oSettings.aoColumns[i].sClass !== null ) + + // If the nested object doesn't currently exist - since we are + // trying to set the value - create it + if ( data[ a[i] ] === null || data[ a[i] ] === undefined ) { - $(nTh).addClass( oSettings.aoColumns[i].sClass ); + data[ a[i] ] = {}; } - - nTr.appendChild( nTh ); + data = data[ a[i] ]; } - $(oSettings.nTHead).html( '' )[0].appendChild( nTr ); - _fnDetectHeader( oSettings.aoHeader, oSettings.nTHead ); - } - - /* ARIA role for the rows */ - $(oSettings.nTHead).children('tr').attr('role', 'row'); - - /* Add the extra markup needed by jQuery UI's themes */ - if ( oSettings.bJUI ) - { - for ( i=0, iLen=oSettings.aoColumns.length ; i<iLen ; i++ ) + + // Last item in the input - i.e, the actual set + if ( aLast.match(__reFn ) ) { - nTh = oSettings.aoColumns[i].nTh; - - var nDiv = document.createElement('div'); - nDiv.className = oSettings.oClasses.sSortJUIWrapper; - $(nTh).contents().appendTo(nDiv); - - var nSpan = document.createElement('span'); - nSpan.className = oSettings.oClasses.sSortIcon; - nDiv.appendChild( nSpan ); - nTh.appendChild( nDiv ); + // Function call + data = data[ aLast.replace(__reFn, '') ]( val ); } - } - - if ( oSettings.oFeatures.bSort ) - { - for ( i=0 ; i<oSettings.aoColumns.length ; i++ ) + else { - if ( oSettings.aoColumns[i].bSortable !== false ) - { - _fnSortAttachListener( oSettings, oSettings.aoColumns[i].nTh, i ); - } - else - { - $(oSettings.aoColumns[i].nTh).addClass( oSettings.oClasses.sSortableNone ); - } + // If array notation is used, we just want to strip it and use the property name + // and assign the value. If it isn't used, then we get the result we want anyway + data[ aLast.replace(__reArray, '') ] = val; } - } - - /* Deal with the footer - add classes if required */ - if ( oSettings.oClasses.sFooterTH !== "" ) + }; + + return function (data, val) { // meta is also passed in, but not used + return setData( data, val, mSource ); + }; + } + else + { + /* Array or flat object mapping */ + return function (data, val) { // meta is also passed in, but not used + data[mSource] = val; + }; + } + } + + + /** + * Return an array with the full table data + * @param {object} oSettings dataTables settings object + * @returns array {array} aData Master data array + * @memberof DataTable#oApi + */ + function _fnGetDataMaster ( settings ) + { + return _pluck( settings.aoData, '_aData' ); + } + + + /** + * Nuke the table + * @param {object} oSettings dataTables settings object + * @memberof DataTable#oApi + */ + function _fnClearTable( settings ) + { + settings.aoData.length = 0; + settings.aiDisplayMaster.length = 0; + settings.aiDisplay.length = 0; + } + + + /** + * Take an array of integers (index array) and remove a target integer (value - not + * the key!) + * @param {array} a Index array to target + * @param {int} iTarget value to find + * @memberof DataTable#oApi + */ + function _fnDeleteIndex( a, iTarget, splice ) + { + var iTargetIndex = -1; + + for ( var i=0, iLen=a.length ; i<iLen ; i++ ) + { + if ( a[i] == iTarget ) { - $(oSettings.nTFoot).children('tr').children('th').addClass( oSettings.oClasses.sFooterTH ); + iTargetIndex = i; } - - /* Cache the footer elements */ - if ( oSettings.nTFoot !== null ) + else if ( a[i] > iTarget ) { - var anCells = _fnGetUniqueThs( oSettings, null, oSettings.aoFooter ); - for ( i=0, iLen=oSettings.aoColumns.length ; i<iLen ; i++ ) - { - if ( anCells[i] ) - { - oSettings.aoColumns[i].nTf = anCells[i]; - if ( oSettings.aoColumns[i].sClass ) - { - $(anCells[i]).addClass( oSettings.aoColumns[i].sClass ); - } - } - } + a[i]--; } } - - - /** - * Draw the header (or footer) element based on the column visibility states. The - * methodology here is to use the layout array from _fnDetectHeader, modified for - * the instantaneous column visibility, to construct the new layout. The grid is - * traversed over cell at a time in a rows x columns grid fashion, although each - * cell insert can cover multiple elements in the grid - which is tracks using the - * aApplied array. Cell inserts in the grid will only occur where there isn't - * already a cell in that position. - * @param {object} oSettings dataTables settings object - * @param array {objects} aoSource Layout array from _fnDetectHeader - * @param {boolean} [bIncludeHidden=false] If true then include the hidden columns in the calc, - * @memberof DataTable#oApi - */ - function _fnDrawHead( oSettings, aoSource, bIncludeHidden ) + + if ( iTargetIndex != -1 && splice === undefined ) { - var i, iLen, j, jLen, k, kLen, n, nLocalTr; - var aoLocal = []; - var aApplied = []; - var iColumns = oSettings.aoColumns.length; - var iRowspan, iColspan; - - if ( bIncludeHidden === undefined ) - { - bIncludeHidden = false; - } - - /* Make a copy of the master layout array, but without the visible columns in it */ - for ( i=0, iLen=aoSource.length ; i<iLen ; i++ ) - { - aoLocal[i] = aoSource[i].slice(); - aoLocal[i].nTr = aoSource[i].nTr; - - /* Remove any columns which are currently hidden */ - for ( j=iColumns-1 ; j>=0 ; j-- ) - { - if ( !oSettings.aoColumns[j].bVisible && !bIncludeHidden ) - { - aoLocal[i].splice( j, 1 ); - } - } - - /* Prep the applied array - it needs an element for each row */ - aApplied.push( [] ); + a.splice( iTargetIndex, 1 ); + } + } + + + /** + * Mark cached data as invalid such that a re-read of the data will occur when + * the cached data is next requested. Also update from the data source object. + * + * @param {object} settings DataTables settings object + * @param {int} rowIdx Row index to invalidate + * @param {string} [src] Source to invalidate from: undefined, 'auto', 'dom' + * or 'data' + * @param {int} [colIdx] Column index to invalidate. If undefined the whole + * row will be invalidated + * @memberof DataTable#oApi + * + * @todo For the modularisation of v1.11 this will need to become a callback, so + * the sort and filter methods can subscribe to it. That will required + * initialisation options for sorting, which is why it is not already baked in + */ + function _fnInvalidate( settings, rowIdx, src, colIdx ) + { + var row = settings.aoData[ rowIdx ]; + var i, ien; + var cellWrite = function ( cell, col ) { + // This is very frustrating, but in IE if you just write directly + // to innerHTML, and elements that are overwritten are GC'ed, + // even if there is a reference to them elsewhere + while ( cell.childNodes.length ) { + cell.removeChild( cell.firstChild ); } - - for ( i=0, iLen=aoLocal.length ; i<iLen ; i++ ) - { - nLocalTr = aoLocal[i].nTr; - - /* All cells are going to be replaced, so empty out the row */ - if ( nLocalTr ) - { - while( (n = nLocalTr.firstChild) ) - { - nLocalTr.removeChild( n ); - } + + cell.innerHTML = _fnGetCellData( settings, rowIdx, col, 'display' ); + }; + + // Are we reading last data from DOM or the data object? + if ( src === 'dom' || ((! src || src === 'auto') && row.src === 'dom') ) { + // Read the data from the DOM + row._aData = _fnGetRowElements( + settings, row, colIdx, colIdx === undefined ? undefined : row._aData + ) + .data; + } + else { + // Reading from data object, update the DOM + var cells = row.anCells; + + if ( cells ) { + if ( colIdx !== undefined ) { + cellWrite( cells[colIdx], colIdx ); } - - for ( j=0, jLen=aoLocal[i].length ; j<jLen ; j++ ) - { - iRowspan = 1; - iColspan = 1; - - /* Check to see if there is already a cell (row/colspan) covering our target - * insert point. If there is, then there is nothing to do. - */ - if ( aApplied[i][j] === undefined ) - { - nLocalTr.appendChild( aoLocal[i][j].cell ); - aApplied[i][j] = 1; - - /* Expand the cell to cover as many rows as needed */ - while ( aoLocal[i+iRowspan] !== undefined && - aoLocal[i][j].cell == aoLocal[i+iRowspan][j].cell ) - { - aApplied[i+iRowspan][j] = 1; - iRowspan++; - } - - /* Expand the cell to cover as many columns as needed */ - while ( aoLocal[i][j+iColspan] !== undefined && - aoLocal[i][j].cell == aoLocal[i][j+iColspan].cell ) - { - /* Must update the applied array over the rows for the columns */ - for ( k=0 ; k<iRowspan ; k++ ) - { - aApplied[i+k][j+iColspan] = 1; - } - iColspan++; - } - - /* Do the actual expansion in the DOM */ - aoLocal[i][j].cell.rowSpan = iRowspan; - aoLocal[i][j].cell.colSpan = iColspan; + else { + for ( i=0, ien=cells.length ; i<ien ; i++ ) { + cellWrite( cells[i], i ); } } } } - - - /** - * Insert the required TR nodes into the table for display - * @param {object} oSettings dataTables settings object - * @memberof DataTable#oApi - */ - function _fnDraw( oSettings ) - { - /* Provide a pre-callback function which can be used to cancel the draw is false is returned */ - var aPreDraw = _fnCallbackFire( oSettings, 'aoPreDrawCallback', 'preDraw', [oSettings] ); - if ( $.inArray( false, aPreDraw ) !== -1 ) - { - _fnProcessingDisplay( oSettings, false ); - return; + + // For both row and cell invalidation, the cached data for sorting and + // filtering is nulled out + row._aSortData = null; + row._aFilterData = null; + + // Invalidate the type for a specific column (if given) or all columns since + // the data might have changed + var cols = settings.aoColumns; + if ( colIdx !== undefined ) { + cols[ colIdx ].sType = null; + } + else { + for ( i=0, ien=cols.length ; i<ien ; i++ ) { + cols[i].sType = null; } - - var i, iLen, n; - var anRows = []; - var iRowCount = 0; - var iStripes = oSettings.asStripeClasses.length; - var iOpenRows = oSettings.aoOpenRows.length; - - oSettings.bDrawing = true; - - /* Check and see if we have an initial draw position from state saving */ - if ( oSettings.iInitDisplayStart !== undefined && oSettings.iInitDisplayStart != -1 ) - { - if ( oSettings.oFeatures.bServerSide ) - { - oSettings._iDisplayStart = oSettings.iInitDisplayStart; - } - else - { - oSettings._iDisplayStart = (oSettings.iInitDisplayStart >= oSettings.fnRecordsDisplay()) ? - 0 : oSettings.iInitDisplayStart; + + // Update DataTables special `DT_*` attributes for the row + _fnRowAttributes( row ); + } + } + + + /** + * Build a data source object from an HTML row, reading the contents of the + * cells that are in the row. + * + * @param {object} settings DataTables settings object + * @param {node|object} TR element from which to read data or existing row + * object from which to re-read the data from the cells + * @param {int} [colIdx] Optional column index + * @param {array|object} [d] Data source object. If `colIdx` is given then this + * parameter should also be given and will be used to write the data into. + * Only the column in question will be written + * @returns {object} Object with two parameters: `data` the data read, in + * document order, and `cells` and array of nodes (they can be useful to the + * caller, so rather than needing a second traversal to get them, just return + * them from here). + * @memberof DataTable#oApi + */ + function _fnGetRowElements( settings, row, colIdx, d ) + { + var + tds = [], + td = row.firstChild, + name, col, o, i=0, contents, + columns = settings.aoColumns, + objectRead = settings._rowReadObject; + + // Allow the data object to be passed in, or construct + d = d || objectRead ? {} : []; + + var attr = function ( str, td ) { + if ( typeof str === 'string' ) { + var idx = str.indexOf('@'); + + if ( idx !== -1 ) { + var attr = str.substring( idx+1 ); + var setter = _fnSetObjectDataFn( str ); + setter( d, td.getAttribute( attr ) ); } - oSettings.iInitDisplayStart = -1; - _fnCalculateEnd( oSettings ); - } - - /* Server-side processing draw intercept */ - if ( oSettings.bDeferLoading ) - { - oSettings.bDeferLoading = false; - oSettings.iDraw++; } - else if ( !oSettings.oFeatures.bServerSide ) - { - oSettings.iDraw++; - } - else if ( !oSettings.bDestroying && !_fnAjaxUpdate( oSettings ) ) - { - return; - } - - if ( oSettings.aiDisplay.length !== 0 ) - { - var iStart = oSettings._iDisplayStart; - var iEnd = oSettings._iDisplayEnd; - - if ( oSettings.oFeatures.bServerSide ) - { - iStart = 0; - iEnd = oSettings.aoData.length; - } - - for ( var j=iStart ; j<iEnd ; j++ ) - { - var aoData = oSettings.aoData[ oSettings.aiDisplay[j] ]; - if ( aoData.nTr === null ) - { - _fnCreateTr( oSettings, oSettings.aiDisplay[j] ); - } - - var nRow = aoData.nTr; - - /* Remove the old striping classes and then add the new one */ - if ( iStripes !== 0 ) - { - var sStripe = oSettings.asStripeClasses[ iRowCount % iStripes ]; - if ( aoData._sRowStripe != sStripe ) - { - $(nRow).removeClass( aoData._sRowStripe ).addClass( sStripe ); - aoData._sRowStripe = sStripe; - } - } - - /* Row callback functions - might want to manipulate the row */ - _fnCallbackFire( oSettings, 'aoRowCallback', null, - [nRow, oSettings.aoData[ oSettings.aiDisplay[j] ]._aData, iRowCount, j] ); - - anRows.push( nRow ); - iRowCount++; - - /* If there is an open row - and it is attached to this parent - attach it on redraw */ - if ( iOpenRows !== 0 ) - { - for ( var k=0 ; k<iOpenRows ; k++ ) - { - if ( nRow == oSettings.aoOpenRows[k].nParent ) - { - anRows.push( oSettings.aoOpenRows[k].nTr ); - break; - } + }; + + // Read data from a cell and store into the data object + var cellProcess = function ( cell ) { + if ( colIdx === undefined || colIdx === i ) { + col = columns[i]; + contents = $.trim(cell.innerHTML); + + if ( col && col._bAttrSrc ) { + var setter = _fnSetObjectDataFn( col.mData._ ); + setter( d, contents ); + + attr( col.mData.sort, cell ); + attr( col.mData.type, cell ); + attr( col.mData.filter, cell ); + } + else { + // Depending on the `data` option for the columns the data can + // be read to either an object or an array. + if ( objectRead ) { + if ( ! col._setter ) { + // Cache the setter function + col._setter = _fnSetObjectDataFn( col.mData ); } + col._setter( d, contents ); } - } - } - else - { - /* Table is empty - create a row with an empty message in it */ - anRows[ 0 ] = document.createElement( 'tr' ); - - if ( oSettings.asStripeClasses[0] ) - { - anRows[ 0 ].className = oSettings.asStripeClasses[0]; - } - - var oLang = oSettings.oLanguage; - var sZero = oLang.sZeroRecords; - if ( oSettings.iDraw == 1 && oSettings.sAjaxSource !== null && !oSettings.oFeatures.bServerSide ) - { - sZero = oLang.sLoadingRecords; - } - else if ( oLang.sEmptyTable && oSettings.fnRecordsTotal() === 0 ) - { - sZero = oLang.sEmptyTable; - } - - var nTd = document.createElement( 'td' ); - nTd.setAttribute( 'valign', "top" ); - nTd.colSpan = _fnVisbleColumns( oSettings ); - nTd.className = oSettings.oClasses.sRowEmpty; - nTd.innerHTML = _fnInfoMacros( oSettings, sZero ); - - anRows[ iRowCount ].appendChild( nTd ); - } - - /* Header and footer callbacks */ - _fnCallbackFire( oSettings, 'aoHeaderCallback', 'header', [ $(oSettings.nTHead).children('tr')[0], - _fnGetDataMaster( oSettings ), oSettings._iDisplayStart, oSettings.fnDisplayEnd(), oSettings.aiDisplay ] ); - - _fnCallbackFire( oSettings, 'aoFooterCallback', 'footer', [ $(oSettings.nTFoot).children('tr')[0], - _fnGetDataMaster( oSettings ), oSettings._iDisplayStart, oSettings.fnDisplayEnd(), oSettings.aiDisplay ] ); - - /* - * Need to remove any old row from the display - note we can't just empty the tbody using - * $().html('') since this will unbind the jQuery event handlers (even although the node - * still exists!) - equally we can't use innerHTML, since IE throws an exception. - */ - var - nAddFrag = document.createDocumentFragment(), - nRemoveFrag = document.createDocumentFragment(), - nBodyPar, nTrs; - - if ( oSettings.nTBody ) - { - nBodyPar = oSettings.nTBody.parentNode; - nRemoveFrag.appendChild( oSettings.nTBody ); - - /* When doing infinite scrolling, only remove child rows when sorting, filtering or start - * up. When not infinite scroll, always do it. - */ - if ( !oSettings.oScroll.bInfinite || !oSettings._bInitComplete || - oSettings.bSorted || oSettings.bFiltered ) - { - while( (n = oSettings.nTBody.firstChild) ) - { - oSettings.nTBody.removeChild( n ); + else { + d[i] = contents; } } - - /* Put the draw table into the dom */ - for ( i=0, iLen=anRows.length ; i<iLen ; i++ ) - { - nAddFrag.appendChild( anRows[i] ); - } - - oSettings.nTBody.appendChild( nAddFrag ); - if ( nBodyPar !== null ) - { - nBodyPar.appendChild( oSettings.nTBody ); - } } - - /* Call all required callback functions for the end of a draw */ - _fnCallbackFire( oSettings, 'aoDrawCallback', 'draw', [oSettings] ); - - /* Draw is complete, sorting and filtering must be as well */ - oSettings.bSorted = false; - oSettings.bFiltered = false; - oSettings.bDrawing = false; - - if ( oSettings.oFeatures.bServerSide ) - { - _fnProcessingDisplay( oSettings, false ); - if ( !oSettings._bInitComplete ) - { - _fnInitComplete( oSettings ); + + i++; + }; + + if ( td ) { + // `tr` element was passed in + while ( td ) { + name = td.nodeName.toUpperCase(); + + if ( name == "TD" || name == "TH" ) { + cellProcess( td ); + tds.push( td ); } + + td = td.nextSibling; } } - - - /** - * Redraw the table - taking account of the various features which are enabled - * @param {object} oSettings dataTables settings object - * @memberof DataTable#oApi - */ - function _fnReDraw( oSettings ) - { - if ( oSettings.oFeatures.bSort ) - { - /* Sorting will refilter and draw for us */ - _fnSort( oSettings, oSettings.oPreviousSearch ); - } - else if ( oSettings.oFeatures.bFilter ) - { - /* Filtering will redraw for us */ - _fnFilterComplete( oSettings, oSettings.oPreviousSearch ); - } - else - { - _fnCalculateEnd( oSettings ); - _fnDraw( oSettings ); + else { + // Existing row object passed in + tds = row.anCells; + + for ( var j=0, jen=tds.length ; j<jen ; j++ ) { + cellProcess( tds[j] ); } } - - - /** - * Add the options to the page HTML for the table - * @param {object} oSettings dataTables settings object - * @memberof DataTable#oApi - */ - function _fnAddOptionsHtml ( oSettings ) + + return { + data: d, + cells: tds + }; + } + /** + * Create a new TR element (and it's TD children) for a row + * @param {object} oSettings dataTables settings object + * @param {int} iRow Row to consider + * @param {node} [nTrIn] TR element to add to the table - optional. If not given, + * DataTables will create a row automatically + * @param {array} [anTds] Array of TD|TH elements for the row - must be given + * if nTr is. + * @memberof DataTable#oApi + */ + function _fnCreateTr ( oSettings, iRow, nTrIn, anTds ) + { + var + row = oSettings.aoData[iRow], + rowData = row._aData, + cells = [], + nTr, nTd, oCol, + i, iLen; + + if ( row.nTr === null ) { - /* - * Create a temporary, empty, div which we can later on replace with what we have generated - * we do it this way to rendering the 'options' html offline - speed :-) - */ - var nHolding = $('<div></div>')[0]; - oSettings.nTable.parentNode.insertBefore( nHolding, oSettings.nTable ); - - /* - * All DataTables are wrapped in a div + nTr = nTrIn || document.createElement('tr'); + + row.nTr = nTr; + row.anCells = cells; + + /* Use a private property on the node to allow reserve mapping from the node + * to the aoData array for fast look up */ - oSettings.nTableWrapper = $('<div id="'+oSettings.sTableId+'_wrapper" class="'+oSettings.oClasses.sWrapper+'" role="grid"></div>')[0]; - oSettings.nTableReinsertBefore = oSettings.nTable.nextSibling; - - /* Track where we want to insert the option */ - var nInsertNode = oSettings.nTableWrapper; - - /* Loop over the user set positioning and place the elements as needed */ - var aDom = oSettings.sDom.split(''); - var nTmp, iPushFeature, cOption, nNewNode, cNext, sAttr, j; - for ( var i=0 ; i<aDom.length ; i++ ) + nTr._DT_RowIndex = iRow; + + /* Special parameters can be given by the data source to be used on the row */ + _fnRowAttributes( row ); + + /* Process each column */ + for ( i=0, iLen=oSettings.aoColumns.length ; i<iLen ; i++ ) { - iPushFeature = 0; - cOption = aDom[i]; - - if ( cOption == '<' ) - { - /* New container div */ - nNewNode = $('<div></div>')[0]; - - /* Check to see if we should append an id and/or a class name to the container */ - cNext = aDom[i+1]; - if ( cNext == "'" || cNext == '"' ) - { - sAttr = ""; - j = 2; - while ( aDom[i+j] != cNext ) - { - sAttr += aDom[i+j]; - j++; - } - - /* Replace jQuery UI constants */ - if ( sAttr == "H" ) - { - sAttr = oSettings.oClasses.sJUIHeader; - } - else if ( sAttr == "F" ) - { - sAttr = oSettings.oClasses.sJUIFooter; - } - - /* The attribute can be in the format of "#id.class", "#id" or "class" This logic - * breaks the string into parts and applies them as needed - */ - if ( sAttr.indexOf('.') != -1 ) - { - var aSplit = sAttr.split('.'); - nNewNode.id = aSplit[0].substr(1, aSplit[0].length-1); - nNewNode.className = aSplit[1]; - } - else if ( sAttr.charAt(0) == "#" ) - { - nNewNode.id = sAttr.substr(1, sAttr.length-1); - } - else - { - nNewNode.className = sAttr; - } - - i += j; /* Move along the position array */ - } - - nInsertNode.appendChild( nNewNode ); - nInsertNode = nNewNode; - } - else if ( cOption == '>' ) - { - /* End container div */ - nInsertNode = nInsertNode.parentNode; - } - else if ( cOption == 'l' && oSettings.oFeatures.bPaginate && oSettings.oFeatures.bLengthChange ) - { - /* Length */ - nTmp = _fnFeatureHtmlLength( oSettings ); - iPushFeature = 1; - } - else if ( cOption == 'f' && oSettings.oFeatures.bFilter ) - { - /* Filter */ - nTmp = _fnFeatureHtmlFilter( oSettings ); - iPushFeature = 1; - } - else if ( cOption == 'r' && oSettings.oFeatures.bProcessing ) - { - /* pRocessing */ - nTmp = _fnFeatureHtmlProcessing( oSettings ); - iPushFeature = 1; - } - else if ( cOption == 't' ) + oCol = oSettings.aoColumns[i]; + + nTd = nTrIn ? anTds[i] : document.createElement( oCol.sCellType ); + cells.push( nTd ); + + // Need to create the HTML if new, or if a rendering function is defined + if ( !nTrIn || oCol.mRender || oCol.mData !== i ) { - /* Table */ - nTmp = _fnFeatureHtmlTable( oSettings ); - iPushFeature = 1; + nTd.innerHTML = _fnGetCellData( oSettings, iRow, i, 'display' ); } - else if ( cOption == 'i' && oSettings.oFeatures.bInfo ) + + /* Add user defined class */ + if ( oCol.sClass ) { - /* Info */ - nTmp = _fnFeatureHtmlInfo( oSettings ); - iPushFeature = 1; + nTd.className += ' '+oCol.sClass; } - else if ( cOption == 'p' && oSettings.oFeatures.bPaginate ) + + // Visibility - add or remove as required + if ( oCol.bVisible && ! nTrIn ) { - /* Pagination */ - nTmp = _fnFeatureHtmlPaginate( oSettings ); - iPushFeature = 1; + nTr.appendChild( nTd ); } - else if ( DataTable.ext.aoFeatures.length !== 0 ) + else if ( ! oCol.bVisible && nTrIn ) { - /* Plug-in features */ - var aoFeatures = DataTable.ext.aoFeatures; - for ( var k=0, kLen=aoFeatures.length ; k<kLen ; k++ ) - { - if ( cOption == aoFeatures[k].cFeature ) - { - nTmp = aoFeatures[k].fnInit( oSettings ); - if ( nTmp ) - { - iPushFeature = 1; - } - break; - } - } + nTd.parentNode.removeChild( nTd ); } - - /* Add to the 2D features array */ - if ( iPushFeature == 1 && nTmp !== null ) + + if ( oCol.fnCreatedCell ) { - if ( typeof oSettings.aanFeatures[cOption] !== 'object' ) - { - oSettings.aanFeatures[cOption] = []; - } - oSettings.aanFeatures[cOption].push( nTmp ); - nInsertNode.appendChild( nTmp ); + oCol.fnCreatedCell.call( oSettings.oInstance, + nTd, _fnGetCellData( oSettings, iRow, i ), rowData, iRow, i + ); } } - - /* Built our DOM structure - replace the holding div with what we want */ - nHolding.parentNode.replaceChild( oSettings.nTableWrapper, nHolding ); + + _fnCallbackFire( oSettings, 'aoRowCreatedCallback', null, [nTr, rowData, iRow] ); } - - - /** - * Use the DOM source to create up an array of header cells. The idea here is to - * create a layout grid (array) of rows x columns, which contains a reference - * to the cell that that point in the grid (regardless of col/rowspan), such that - * any column / row could be removed and the new grid constructed - * @param array {object} aLayout Array to store the calculated layout in - * @param {node} nThead The header/footer element for the table - * @memberof DataTable#oApi - */ - function _fnDetectHeader ( aLayout, nThead ) - { - var nTrs = $(nThead).children('tr'); - var nTr, nCell; - var i, k, l, iLen, jLen, iColShifted, iColumn, iColspan, iRowspan; - var bUnique; - var fnShiftCol = function ( a, i, j ) { - var k = a[i]; - while ( k[j] ) { - j++; - } - return j; - }; - - aLayout.splice( 0, aLayout.length ); - - /* We know how many rows there are in the layout - so prep it */ - for ( i=0, iLen=nTrs.length ; i<iLen ; i++ ) - { - aLayout.push( [] ); + + // Remove once webkit bug 131819 and Chromium bug 365619 have been resolved + // and deployed + row.nTr.setAttribute( 'role', 'row' ); + } + + + /** + * Add attributes to a row based on the special `DT_*` parameters in a data + * source object. + * @param {object} DataTables row object for the row to be modified + * @memberof DataTable#oApi + */ + function _fnRowAttributes( row ) + { + var tr = row.nTr; + var data = row._aData; + + if ( tr ) { + if ( data.DT_RowId ) { + tr.id = data.DT_RowId; } - - /* Calculate a layout array */ - for ( i=0, iLen=nTrs.length ; i<iLen ; i++ ) - { - nTr = nTrs[i]; - iColumn = 0; - - /* For every cell in the row... */ - nCell = nTr.firstChild; - while ( nCell ) { - if ( nCell.nodeName.toUpperCase() == "TD" || - nCell.nodeName.toUpperCase() == "TH" ) - { - /* Get the col and rowspan attributes from the DOM and sanitise them */ - iColspan = nCell.getAttribute('colspan') * 1; - iRowspan = nCell.getAttribute('rowspan') * 1; - iColspan = (!iColspan || iColspan===0 || iColspan===1) ? 1 : iColspan; - iRowspan = (!iRowspan || iRowspan===0 || iRowspan===1) ? 1 : iRowspan; - - /* There might be colspan cells already in this row, so shift our target - * accordingly - */ - iColShifted = fnShiftCol( aLayout, i, iColumn ); - - /* Cache calculation for unique columns */ - bUnique = iColspan === 1 ? true : false; - - /* If there is col / rowspan, copy the information into the layout grid */ - for ( l=0 ; l<iColspan ; l++ ) - { - for ( k=0 ; k<iRowspan ; k++ ) - { - aLayout[i+k][iColShifted+l] = { - "cell": nCell, - "unique": bUnique - }; - aLayout[i+k].nTr = nTr; - } - } - } - nCell = nCell.nextSibling; - } + + if ( data.DT_RowClass ) { + // Remove any classes added by DT_RowClass before + var a = data.DT_RowClass.split(' '); + row.__rowc = row.__rowc ? + _unique( row.__rowc.concat( a ) ) : + a; + + $(tr) + .removeClass( row.__rowc.join(' ') ) + .addClass( data.DT_RowClass ); } - } - - - /** - * Get an array of unique th elements, one for each column - * @param {object} oSettings dataTables settings object - * @param {node} nHeader automatically detect the layout from this node - optional - * @param {array} aLayout thead/tfoot layout from _fnDetectHeader - optional - * @returns array {node} aReturn list of unique th's - * @memberof DataTable#oApi - */ - function _fnGetUniqueThs ( oSettings, nHeader, aLayout ) - { - var aReturn = []; - if ( !aLayout ) - { - aLayout = oSettings.aoHeader; - if ( nHeader ) - { - aLayout = []; - _fnDetectHeader( aLayout, nHeader ); - } + + if ( data.DT_RowAttr ) { + $(tr).attr( data.DT_RowAttr ); } - - for ( var i=0, iLen=aLayout.length ; i<iLen ; i++ ) - { - for ( var j=0, jLen=aLayout[i].length ; j<jLen ; j++ ) - { - if ( aLayout[i][j].unique && - (!aReturn[j] || !oSettings.bSortCellsTop) ) - { - aReturn[j] = aLayout[i][j].cell; - } - } + + if ( data.DT_RowData ) { + $(tr).data( data.DT_RowData ); } - - return aReturn; } - - - - /** - * Update the table using an Ajax call - * @param {object} oSettings dataTables settings object - * @returns {boolean} Block the table drawing or not - * @memberof DataTable#oApi - */ - function _fnAjaxUpdate( oSettings ) - { - if ( oSettings.bAjaxDataGet ) - { - oSettings.iDraw++; - _fnProcessingDisplay( oSettings, true ); - var iColumns = oSettings.aoColumns.length; - var aoData = _fnAjaxParameters( oSettings ); - _fnServerParams( oSettings, aoData ); - - oSettings.fnServerData.call( oSettings.oInstance, oSettings.sAjaxSource, aoData, - function(json) { - _fnAjaxUpdateDraw( oSettings, json ); - }, oSettings ); - return false; - } - else - { - return true; - } + } + + + /** + * Create the HTML header for the table + * @param {object} oSettings dataTables settings object + * @memberof DataTable#oApi + */ + function _fnBuildHead( oSettings ) + { + var i, ien, cell, row, column; + var thead = oSettings.nTHead; + var tfoot = oSettings.nTFoot; + var createHeader = $('th, td', thead).length === 0; + var classes = oSettings.oClasses; + var columns = oSettings.aoColumns; + + if ( createHeader ) { + row = $('<tr/>').appendTo( thead ); } - - - /** - * Build up the parameters in an object needed for a server-side processing request - * @param {object} oSettings dataTables settings object - * @returns {bool} block the table drawing or not - * @memberof DataTable#oApi - */ - function _fnAjaxParameters( oSettings ) - { - var iColumns = oSettings.aoColumns.length; - var aoData = [], mDataProp, aaSort, aDataSort; - var i, j; - - aoData.push( { "name": "sEcho", "value": oSettings.iDraw } ); - aoData.push( { "name": "iColumns", "value": iColumns } ); - aoData.push( { "name": "sColumns", "value": _fnColumnOrdering(oSettings) } ); - aoData.push( { "name": "iDisplayStart", "value": oSettings._iDisplayStart } ); - aoData.push( { "name": "iDisplayLength", "value": oSettings.oFeatures.bPaginate !== false ? - oSettings._iDisplayLength : -1 } ); - - for ( i=0 ; i<iColumns ; i++ ) - { - mDataProp = oSettings.aoColumns[i].mData; - aoData.push( { "name": "mDataProp_"+i, "value": typeof(mDataProp)==="function" ? 'function' : mDataProp } ); + + for ( i=0, ien=columns.length ; i<ien ; i++ ) { + column = columns[i]; + cell = $( column.nTh ).addClass( column.sClass ); + + if ( createHeader ) { + cell.appendTo( row ); } - - /* Filtering */ - if ( oSettings.oFeatures.bFilter !== false ) - { - aoData.push( { "name": "sSearch", "value": oSettings.oPreviousSearch.sSearch } ); - aoData.push( { "name": "bRegex", "value": oSettings.oPreviousSearch.bRegex } ); - for ( i=0 ; i<iColumns ; i++ ) - { - aoData.push( { "name": "sSearch_"+i, "value": oSettings.aoPreSearchCols[i].sSearch } ); - aoData.push( { "name": "bRegex_"+i, "value": oSettings.aoPreSearchCols[i].bRegex } ); - aoData.push( { "name": "bSearchable_"+i, "value": oSettings.aoColumns[i].bSearchable } ); + + // 1.11 move into sorting + if ( oSettings.oFeatures.bSort ) { + cell.addClass( column.sSortingClass ); + + if ( column.bSortable !== false ) { + cell + .attr( 'tabindex', oSettings.iTabIndex ) + .attr( 'aria-controls', oSettings.sTableId ); + + _fnSortAttachListener( oSettings, column.nTh, i ); } } - - /* Sorting */ - if ( oSettings.oFeatures.bSort !== false ) - { - var iCounter = 0; - - aaSort = ( oSettings.aaSortingFixed !== null ) ? - oSettings.aaSortingFixed.concat( oSettings.aaSorting ) : - oSettings.aaSorting.slice(); - - for ( i=0 ; i<aaSort.length ; i++ ) - { - aDataSort = oSettings.aoColumns[ aaSort[i][0] ].aDataSort; - - for ( j=0 ; j<aDataSort.length ; j++ ) - { - aoData.push( { "name": "iSortCol_"+iCounter, "value": aDataSort[j] } ); - aoData.push( { "name": "sSortDir_"+iCounter, "value": aaSort[i][1] } ); - iCounter++; - } - } - aoData.push( { "name": "iSortingCols", "value": iCounter } ); - - for ( i=0 ; i<iColumns ; i++ ) - { - aoData.push( { "name": "bSortable_"+i, "value": oSettings.aoColumns[i].bSortable } ); - } + + if ( column.sTitle != cell.html() ) { + cell.html( column.sTitle ); } - - return aoData; + + _fnRenderer( oSettings, 'header' )( + oSettings, cell, column, classes + ); } - - - /** - * Add Ajax parameters from plug-ins - * @param {object} oSettings dataTables settings object - * @param array {objects} aoData name/value pairs to send to the server - * @memberof DataTable#oApi - */ - function _fnServerParams( oSettings, aoData ) - { - _fnCallbackFire( oSettings, 'aoServerParams', 'serverParams', [aoData] ); + + if ( createHeader ) { + _fnDetectHeader( oSettings.aoHeader, thead ); } - - /** - * Data the data from the server (nuking the old) and redraw the table - * @param {object} oSettings dataTables settings object - * @param {object} json json data return from the server. - * @param {string} json.sEcho Tracking flag for DataTables to match requests - * @param {int} json.iTotalRecords Number of records in the data set, not accounting for filtering - * @param {int} json.iTotalDisplayRecords Number of records in the data set, accounting for filtering - * @param {array} json.aaData The data to display on this page - * @param {string} [json.sColumns] Column ordering (sName, comma separated) - * @memberof DataTable#oApi - */ - function _fnAjaxUpdateDraw ( oSettings, json ) - { - if ( json.sEcho !== undefined ) - { - /* Protect against old returns over-writing a new one. Possible when you get - * very fast interaction, and later queries are completed much faster - */ - if ( json.sEcho*1 < oSettings.iDraw ) - { - return; - } - else - { - oSettings.iDraw = json.sEcho * 1; - } - } - - if ( !oSettings.oScroll.bInfinite || - (oSettings.oScroll.bInfinite && (oSettings.bSorted || oSettings.bFiltered)) ) - { - _fnClearTable( oSettings ); - } - oSettings._iRecordsTotal = parseInt(json.iTotalRecords, 10); - oSettings._iRecordsDisplay = parseInt(json.iTotalDisplayRecords, 10); - - /* Determine if reordering is required */ - var sOrdering = _fnColumnOrdering(oSettings); - var bReOrder = (json.sColumns !== undefined && sOrdering !== "" && json.sColumns != sOrdering ); - var aiIndex; - if ( bReOrder ) - { - aiIndex = _fnReOrderIndex( oSettings, json.sColumns ); - } - - var aData = _fnGetObjectDataFn( oSettings.sAjaxDataProp )( json ); - for ( var i=0, iLen=aData.length ; i<iLen ; i++ ) - { - if ( bReOrder ) - { - /* If we need to re-order, then create a new array with the correct order and add it */ - var aDataSorted = []; - for ( var j=0, jLen=oSettings.aoColumns.length ; j<jLen ; j++ ) - { - aDataSorted.push( aData[i][ aiIndex[j] ] ); - } - _fnAddData( oSettings, aDataSorted ); - } - else - { - /* No re-order required, sever got it "right" - just straight add */ - _fnAddData( oSettings, aData[i] ); + /* ARIA role for the rows */ + $(thead).find('>tr').attr('role', 'row'); + + /* Deal with the footer - add classes if required */ + $(thead).find('>tr>th, >tr>td').addClass( classes.sHeaderTH ); + $(tfoot).find('>tr>th, >tr>td').addClass( classes.sFooterTH ); + + // Cache the footer cells. Note that we only take the cells from the first + // row in the footer. If there is more than one row the user wants to + // interact with, they need to use the table().foot() method. Note also this + // allows cells to be used for multiple columns using colspan + if ( tfoot !== null ) { + var cells = oSettings.aoFooter[0]; + + for ( i=0, ien=cells.length ; i<ien ; i++ ) { + column = columns[i]; + column.nTf = cells[i].cell; + + if ( column.sClass ) { + $(column.nTf).addClass( column.sClass ); } } - oSettings.aiDisplay = oSettings.aiDisplayMaster.slice(); - - oSettings.bAjaxDataGet = false; - _fnDraw( oSettings ); - oSettings.bAjaxDataGet = true; - _fnProcessingDisplay( oSettings, false ); } - - - - /** - * Generate the node required for filtering text - * @returns {node} Filter control element - * @param {object} oSettings dataTables settings object - * @memberof DataTable#oApi - */ - function _fnFeatureHtmlFilter ( oSettings ) + } + + + /** + * Draw the header (or footer) element based on the column visibility states. The + * methodology here is to use the layout array from _fnDetectHeader, modified for + * the instantaneous column visibility, to construct the new layout. The grid is + * traversed over cell at a time in a rows x columns grid fashion, although each + * cell insert can cover multiple elements in the grid - which is tracks using the + * aApplied array. Cell inserts in the grid will only occur where there isn't + * already a cell in that position. + * @param {object} oSettings dataTables settings object + * @param array {objects} aoSource Layout array from _fnDetectHeader + * @param {boolean} [bIncludeHidden=false] If true then include the hidden columns in the calc, + * @memberof DataTable#oApi + */ + function _fnDrawHead( oSettings, aoSource, bIncludeHidden ) + { + var i, iLen, j, jLen, k, kLen, n, nLocalTr; + var aoLocal = []; + var aApplied = []; + var iColumns = oSettings.aoColumns.length; + var iRowspan, iColspan; + + if ( ! aoSource ) { - var oPreviousSearch = oSettings.oPreviousSearch; - - var sSearchStr = oSettings.oLanguage.sSearch; - sSearchStr = (sSearchStr.indexOf('_INPUT_') !== -1) ? - sSearchStr.replace('_INPUT_', '<input type="text" />') : - sSearchStr==="" ? '<input type="text" />' : sSearchStr+' <input type="text" />'; - - var nFilter = document.createElement( 'div' ); - nFilter.className = oSettings.oClasses.sFilter; - nFilter.innerHTML = '<label>'+sSearchStr+'</label>'; - if ( !oSettings.aanFeatures.f ) - { - nFilter.id = oSettings.sTableId+'_filter'; - } - - var jqFilter = $('input[type="text"]', nFilter); - - // Store a reference to the input element, so other input elements could be - // added to the filter wrapper if needed (submit button for example) - nFilter._DT_Input = jqFilter[0]; - - jqFilter.val( oPreviousSearch.sSearch.replace('"','"') ); - jqFilter.bind( 'keyup.DT', function(e) { - /* Update all other filter input elements for the new display */ - var n = oSettings.aanFeatures.f; - var val = this.value==="" ? "" : this.value; // mental IE8 fix :-( - - for ( var i=0, iLen=n.length ; i<iLen ; i++ ) - { - if ( n[i] != $(this).parents('div.dataTables_filter')[0] ) - { - $(n[i]._DT_Input).val( val ); - } - } - - /* Now do the filter */ - if ( val != oPreviousSearch.sSearch ) - { - _fnFilterComplete( oSettings, { - "sSearch": val, - "bRegex": oPreviousSearch.bRegex, - "bSmart": oPreviousSearch.bSmart , - "bCaseInsensitive": oPreviousSearch.bCaseInsensitive - } ); - } - } ); - - jqFilter - .attr('aria-controls', oSettings.sTableId) - .bind( 'keypress.DT', function(e) { - /* Prevent form submission */ - if ( e.keyCode == 13 ) - { - return false; - } - } - ); - - return nFilter; + return; } - - - /** - * Filter the table using both the global filter and column based filtering - * @param {object} oSettings dataTables settings object - * @param {object} oSearch search information - * @param {int} [iForce] force a research of the master array (1) or not (undefined or 0) - * @memberof DataTable#oApi - */ - function _fnFilterComplete ( oSettings, oInput, iForce ) + + if ( bIncludeHidden === undefined ) { - var oPrevSearch = oSettings.oPreviousSearch; - var aoPrevSearch = oSettings.aoPreSearchCols; - var fnSaveFilter = function ( oFilter ) { - /* Save the filtering values */ - oPrevSearch.sSearch = oFilter.sSearch; - oPrevSearch.bRegex = oFilter.bRegex; - oPrevSearch.bSmart = oFilter.bSmart; - oPrevSearch.bCaseInsensitive = oFilter.bCaseInsensitive; - }; - - /* In server-side processing all filtering is done by the server, so no point hanging around here */ - if ( !oSettings.oFeatures.bServerSide ) - { - /* Global filter */ - _fnFilter( oSettings, oInput.sSearch, iForce, oInput.bRegex, oInput.bSmart, oInput.bCaseInsensitive ); - fnSaveFilter( oInput ); - - /* Now do the individual column filter */ - for ( var i=0 ; i<oSettings.aoPreSearchCols.length ; i++ ) - { - _fnFilterColumn( oSettings, aoPrevSearch[i].sSearch, i, aoPrevSearch[i].bRegex, - aoPrevSearch[i].bSmart, aoPrevSearch[i].bCaseInsensitive ); - } - - /* Custom filtering */ - _fnFilterCustom( oSettings ); - } - else - { - fnSaveFilter( oInput ); - } - - /* Tell the draw function we have been filtering */ - oSettings.bFiltered = true; - $(oSettings.oInstance).trigger('filter', oSettings); - - /* Redraw the table */ - oSettings._iDisplayStart = 0; - _fnCalculateEnd( oSettings ); - _fnDraw( oSettings ); - - /* Rebuild search array 'offline' */ - _fnBuildSearchArray( oSettings, 0 ); + bIncludeHidden = false; } - - - /** - * Apply custom filtering functions - * @param {object} oSettings dataTables settings object - * @memberof DataTable#oApi - */ - function _fnFilterCustom( oSettings ) + + /* Make a copy of the master layout array, but without the visible columns in it */ + for ( i=0, iLen=aoSource.length ; i<iLen ; i++ ) { - var afnFilters = DataTable.ext.afnFiltering; - var aiFilterColumns = _fnGetColumns( oSettings, 'bSearchable' ); - - for ( var i=0, iLen=afnFilters.length ; i<iLen ; i++ ) + aoLocal[i] = aoSource[i].slice(); + aoLocal[i].nTr = aoSource[i].nTr; + + /* Remove any columns which are currently hidden */ + for ( j=iColumns-1 ; j>=0 ; j-- ) { - var iCorrector = 0; - for ( var j=0, jLen=oSettings.aiDisplay.length ; j<jLen ; j++ ) + if ( !oSettings.aoColumns[j].bVisible && !bIncludeHidden ) { - var iDisIndex = oSettings.aiDisplay[j-iCorrector]; - var bTest = afnFilters[i]( - oSettings, - _fnGetRowData( oSettings, iDisIndex, 'filter', aiFilterColumns ), - iDisIndex - ); - - /* Check if we should use this row based on the filtering function */ - if ( !bTest ) - { - oSettings.aiDisplay.splice( j-iCorrector, 1 ); - iCorrector++; - } + aoLocal[i].splice( j, 1 ); } } + + /* Prep the applied array - it needs an element for each row */ + aApplied.push( [] ); } - - - /** - * Filter the table on a per-column basis - * @param {object} oSettings dataTables settings object - * @param {string} sInput string to filter on - * @param {int} iColumn column to filter - * @param {bool} bRegex treat search string as a regular expression or not - * @param {bool} bSmart use smart filtering or not - * @param {bool} bCaseInsensitive Do case insenstive matching or not - * @memberof DataTable#oApi - */ - function _fnFilterColumn ( oSettings, sInput, iColumn, bRegex, bSmart, bCaseInsensitive ) + + for ( i=0, iLen=aoLocal.length ; i<iLen ; i++ ) { - if ( sInput === "" ) - { - return; - } - - var iIndexCorrector = 0; - var rpSearch = _fnFilterCreateSearch( sInput, bRegex, bSmart, bCaseInsensitive ); - - for ( var i=oSettings.aiDisplay.length-1 ; i>=0 ; i-- ) + nLocalTr = aoLocal[i].nTr; + + /* All cells are going to be replaced, so empty out the row */ + if ( nLocalTr ) { - var sData = _fnDataToSearch( _fnGetCellData( oSettings, oSettings.aiDisplay[i], iColumn, 'filter' ), - oSettings.aoColumns[iColumn].sType ); - if ( ! rpSearch.test( sData ) ) + while( (n = nLocalTr.firstChild) ) { - oSettings.aiDisplay.splice( i, 1 ); - iIndexCorrector++; + nLocalTr.removeChild( n ); } } - } - - - /** - * Filter the data table based on user input and draw the table - * @param {object} oSettings dataTables settings object - * @param {string} sInput string to filter on - * @param {int} iForce optional - force a research of the master array (1) or not (undefined or 0) - * @param {bool} bRegex treat as a regular expression or not - * @param {bool} bSmart perform smart filtering or not - * @param {bool} bCaseInsensitive Do case insenstive matching or not - * @memberof DataTable#oApi - */ - function _fnFilter( oSettings, sInput, iForce, bRegex, bSmart, bCaseInsensitive ) - { - var i; - var rpSearch = _fnFilterCreateSearch( sInput, bRegex, bSmart, bCaseInsensitive ); - var oPrevSearch = oSettings.oPreviousSearch; - - /* Check if we are forcing or not - optional parameter */ - if ( !iForce ) - { - iForce = 0; - } - - /* Need to take account of custom filtering functions - always filter */ - if ( DataTable.ext.afnFiltering.length !== 0 ) - { - iForce = 1; - } - - /* - * If the input is blank - we want the full data set - */ - if ( sInput.length <= 0 ) - { - oSettings.aiDisplay.splice( 0, oSettings.aiDisplay.length); - oSettings.aiDisplay = oSettings.aiDisplayMaster.slice(); - } - else + + for ( j=0, jLen=aoLocal[i].length ; j<jLen ; j++ ) { - /* - * We are starting a new search or the new search string is smaller - * then the old one (i.e. delete). Search from the master array - */ - if ( oSettings.aiDisplay.length == oSettings.aiDisplayMaster.length || - oPrevSearch.sSearch.length > sInput.length || iForce == 1 || - sInput.indexOf(oPrevSearch.sSearch) !== 0 ) + iRowspan = 1; + iColspan = 1; + + /* Check to see if there is already a cell (row/colspan) covering our target + * insert point. If there is, then there is nothing to do. + */ + if ( aApplied[i][j] === undefined ) { - /* Nuke the old display array - we are going to rebuild it */ - oSettings.aiDisplay.splice( 0, oSettings.aiDisplay.length); - - /* Force a rebuild of the search array */ - _fnBuildSearchArray( oSettings, 1 ); - - /* Search through all records to populate the search array - * The the oSettings.aiDisplayMaster and asDataSearch arrays have 1 to 1 - * mapping - */ - for ( i=0 ; i<oSettings.aiDisplayMaster.length ; i++ ) + nLocalTr.appendChild( aoLocal[i][j].cell ); + aApplied[i][j] = 1; + + /* Expand the cell to cover as many rows as needed */ + while ( aoLocal[i+iRowspan] !== undefined && + aoLocal[i][j].cell == aoLocal[i+iRowspan][j].cell ) { - if ( rpSearch.test(oSettings.asDataSearch[i]) ) - { - oSettings.aiDisplay.push( oSettings.aiDisplayMaster[i] ); - } + aApplied[i+iRowspan][j] = 1; + iRowspan++; } - } - else - { - /* Using old search array - refine it - do it this way for speed - * Don't have to search the whole master array again - */ - var iIndexCorrector = 0; - - /* Search the current results */ - for ( i=0 ; i<oSettings.asDataSearch.length ; i++ ) + + /* Expand the cell to cover as many columns as needed */ + while ( aoLocal[i][j+iColspan] !== undefined && + aoLocal[i][j].cell == aoLocal[i][j+iColspan].cell ) { - if ( ! rpSearch.test(oSettings.asDataSearch[i]) ) + /* Must update the applied array over the rows for the columns */ + for ( k=0 ; k<iRowspan ; k++ ) { - oSettings.aiDisplay.splice( i-iIndexCorrector, 1 ); - iIndexCorrector++; - } - } - } - } - } - - - /** - * Create an array which can be quickly search through - * @param {object} oSettings dataTables settings object - * @param {int} iMaster use the master data array - optional - * @memberof DataTable#oApi - */ - function _fnBuildSearchArray ( oSettings, iMaster ) - { - if ( !oSettings.oFeatures.bServerSide ) - { - /* Clear out the old data */ - oSettings.asDataSearch = []; - - var aiFilterColumns = _fnGetColumns( oSettings, 'bSearchable' ); - var aiIndex = (iMaster===1) ? - oSettings.aiDisplayMaster : - oSettings.aiDisplay; - - for ( var i=0, iLen=aiIndex.length ; i<iLen ; i++ ) - { - oSettings.asDataSearch[i] = _fnBuildSearchRow( - oSettings, - _fnGetRowData( oSettings, aiIndex[i], 'filter', aiFilterColumns ) - ); + aApplied[i+k][j+iColspan] = 1; + } + iColspan++; + } + + /* Do the actual expansion in the DOM */ + $(aoLocal[i][j].cell) + .attr('rowspan', iRowspan) + .attr('colspan', iColspan); } } } - - - /** - * Create a searchable string from a single data row - * @param {object} oSettings dataTables settings object - * @param {array} aData Row data array to use for the data to search - * @memberof DataTable#oApi - */ - function _fnBuildSearchRow( oSettings, aData ) + } + + + /** + * Insert the required TR nodes into the table for display + * @param {object} oSettings dataTables settings object + * @memberof DataTable#oApi + */ + function _fnDraw( oSettings ) + { + /* Provide a pre-callback function which can be used to cancel the draw is false is returned */ + var aPreDraw = _fnCallbackFire( oSettings, 'aoPreDrawCallback', 'preDraw', [oSettings] ); + if ( $.inArray( false, aPreDraw ) !== -1 ) { - var sSearch = aData.join(' '); - - /* If it looks like there is an HTML entity in the string, attempt to decode it */ - if ( sSearch.indexOf('&') !== -1 ) - { - sSearch = $('<div>').html(sSearch).text(); - } - - // Strip newline characters - return sSearch.replace( /[\n\r]/g, " " ); + _fnProcessingDisplay( oSettings, false ); + return; } - - /** - * Build a regular expression object suitable for searching a table - * @param {string} sSearch string to search for - * @param {bool} bRegex treat as a regular expression or not - * @param {bool} bSmart perform smart filtering or not - * @param {bool} bCaseInsensitive Do case insensitive matching or not - * @returns {RegExp} constructed object - * @memberof DataTable#oApi - */ - function _fnFilterCreateSearch( sSearch, bRegex, bSmart, bCaseInsensitive ) + + var i, iLen, n; + var anRows = []; + var iRowCount = 0; + var asStripeClasses = oSettings.asStripeClasses; + var iStripes = asStripeClasses.length; + var iOpenRows = oSettings.aoOpenRows.length; + var oLang = oSettings.oLanguage; + var iInitDisplayStart = oSettings.iInitDisplayStart; + var bServerSide = _fnDataSource( oSettings ) == 'ssp'; + var aiDisplay = oSettings.aiDisplay; + + oSettings.bDrawing = true; + + /* Check and see if we have an initial draw position from state saving */ + if ( iInitDisplayStart !== undefined && iInitDisplayStart !== -1 ) + { + oSettings._iDisplayStart = bServerSide ? + iInitDisplayStart : + iInitDisplayStart >= oSettings.fnRecordsDisplay() ? + 0 : + iInitDisplayStart; + + oSettings.iInitDisplayStart = -1; + } + + var iDisplayStart = oSettings._iDisplayStart; + var iDisplayEnd = oSettings.fnDisplayEnd(); + + /* Server-side processing draw intercept */ + if ( oSettings.bDeferLoading ) { - var asSearch, sRegExpString; - - if ( bSmart ) - { - /* Generate the regular expression to use. Something along the lines of: - * ^(?=.*?\bone\b)(?=.*?\btwo\b)(?=.*?\bthree\b).*$ - */ - asSearch = bRegex ? sSearch.split( ' ' ) : _fnEscapeRegex( sSearch ).split( ' ' ); - sRegExpString = '^(?=.*?'+asSearch.join( ')(?=.*?' )+').*$'; - return new RegExp( sRegExpString, bCaseInsensitive ? "i" : "" ); - } - else - { - sSearch = bRegex ? sSearch : _fnEscapeRegex( sSearch ); - return new RegExp( sSearch, bCaseInsensitive ? "i" : "" ); - } + oSettings.bDeferLoading = false; + oSettings.iDraw++; + _fnProcessingDisplay( oSettings, false ); } - - - /** - * Convert raw data into something that the user can search on - * @param {string} sData data to be modified - * @param {string} sType data type - * @returns {string} search string - * @memberof DataTable#oApi - */ - function _fnDataToSearch ( sData, sType ) + else if ( !bServerSide ) { - if ( typeof DataTable.ext.ofnSearch[sType] === "function" ) - { - return DataTable.ext.ofnSearch[sType]( sData ); - } - else if ( sData === null ) - { - return ''; - } - else if ( sType == "html" ) - { - return sData.replace(/[\r\n]/g," ").replace( /<.*?>/g, "" ); - } - else if ( typeof sData === "string" ) - { - return sData.replace(/[\r\n]/g," "); - } - return sData; + oSettings.iDraw++; } - - - /** - * scape a string such that it can be used in a regular expression - * @param {string} sVal string to escape - * @returns {string} escaped string - * @memberof DataTable#oApi - */ - function _fnEscapeRegex ( sVal ) + else if ( !oSettings.bDestroying && !_fnAjaxUpdate( oSettings ) ) { - var acEscape = [ '/', '.', '*', '+', '?', '|', '(', ')', '[', ']', '{', '}', '\\', '$', '^', '-' ]; - var reReplace = new RegExp( '(\\' + acEscape.join('|\\') + ')', 'g' ); - return sVal.replace(reReplace, '\\$1'); + return; } - - - /** - * Generate the node required for the info display - * @param {object} oSettings dataTables settings object - * @returns {node} Information element - * @memberof DataTable#oApi - */ - function _fnFeatureHtmlInfo ( oSettings ) + + if ( aiDisplay.length !== 0 ) { - var nInfo = document.createElement( 'div' ); - nInfo.className = oSettings.oClasses.sInfo; - - /* Actions that are to be taken once only for this feature */ - if ( !oSettings.aanFeatures.i ) + var iStart = bServerSide ? 0 : iDisplayStart; + var iEnd = bServerSide ? oSettings.aoData.length : iDisplayEnd; + + for ( var j=iStart ; j<iEnd ; j++ ) { - /* Add draw callback */ - oSettings.aoDrawCallback.push( { - "fn": _fnUpdateInfo, - "sName": "information" - } ); - - /* Add id */ - nInfo.id = oSettings.sTableId+'_info'; + var iDataIndex = aiDisplay[j]; + var aoData = oSettings.aoData[ iDataIndex ]; + if ( aoData.nTr === null ) + { + _fnCreateTr( oSettings, iDataIndex ); + } + + var nRow = aoData.nTr; + + /* Remove the old striping classes and then add the new one */ + if ( iStripes !== 0 ) + { + var sStripe = asStripeClasses[ iRowCount % iStripes ]; + if ( aoData._sRowStripe != sStripe ) + { + $(nRow).removeClass( aoData._sRowStripe ).addClass( sStripe ); + aoData._sRowStripe = sStripe; + } + } + + // Row callback functions - might want to manipulate the row + // iRowCount and j are not currently documented. Are they at all + // useful? + _fnCallbackFire( oSettings, 'aoRowCallback', null, + [nRow, aoData._aData, iRowCount, j] ); + + anRows.push( nRow ); + iRowCount++; } - oSettings.nTable.setAttribute( 'aria-describedby', oSettings.sTableId+'_info' ); - - return nInfo; } - - - /** - * Update the information elements in the display - * @param {object} oSettings dataTables settings object - * @memberof DataTable#oApi - */ - function _fnUpdateInfo ( oSettings ) + else { - /* Show information about the table */ - if ( !oSettings.oFeatures.bInfo || oSettings.aanFeatures.i.length === 0 ) - { - return; - } - - var - oLang = oSettings.oLanguage, - iStart = oSettings._iDisplayStart+1, - iEnd = oSettings.fnDisplayEnd(), - iMax = oSettings.fnRecordsTotal(), - iTotal = oSettings.fnRecordsDisplay(), - sOut; - - if ( iTotal === 0 ) + /* Table is empty - create a row with an empty message in it */ + var sZero = oLang.sZeroRecords; + if ( oSettings.iDraw == 1 && _fnDataSource( oSettings ) == 'ajax' ) { - /* Empty record set */ - sOut = oLang.sInfoEmpty; - } - else { - /* Normal record set */ - sOut = oLang.sInfo; + sZero = oLang.sLoadingRecords; } - - if ( iTotal != iMax ) + else if ( oLang.sEmptyTable && oSettings.fnRecordsTotal() === 0 ) { - /* Record set after filtering */ - sOut += ' ' + oLang.sInfoFiltered; - } - - // Convert the macros - sOut += oLang.sInfoPostFix; - sOut = _fnInfoMacros( oSettings, sOut ); - - if ( oLang.fnInfoCallback !== null ) - { - sOut = oLang.fnInfoCallback.call( oSettings.oInstance, - oSettings, iStart, iEnd, iMax, iTotal, sOut ); - } - - var n = oSettings.aanFeatures.i; - for ( var i=0, iLen=n.length ; i<iLen ; i++ ) - { - $(n[i]).html( sOut ); + sZero = oLang.sEmptyTable; } + + anRows[ 0 ] = $( '<tr/>', { 'class': iStripes ? asStripeClasses[0] : '' } ) + .append( $('<td />', { + 'valign': 'top', + 'colSpan': _fnVisbleColumns( oSettings ), + 'class': oSettings.oClasses.sRowEmpty + } ).html( sZero ) )[0]; } - - - function _fnInfoMacros ( oSettings, str ) - { - var - iStart = oSettings._iDisplayStart+1, - sStart = oSettings.fnFormatNumber( iStart ), - iEnd = oSettings.fnDisplayEnd(), - sEnd = oSettings.fnFormatNumber( iEnd ), - iTotal = oSettings.fnRecordsDisplay(), - sTotal = oSettings.fnFormatNumber( iTotal ), - iMax = oSettings.fnRecordsTotal(), - sMax = oSettings.fnFormatNumber( iMax ); - - // When infinite scrolling, we are always starting at 1. _iDisplayStart is used only - // internally - if ( oSettings.oScroll.bInfinite ) - { - sStart = oSettings.fnFormatNumber( 1 ); - } - - return str. - replace(/_START_/g, sStart). - replace(/_END_/g, sEnd). - replace(/_TOTAL_/g, sTotal). - replace(/_MAX_/g, sMax); + + /* Header and footer callbacks */ + _fnCallbackFire( oSettings, 'aoHeaderCallback', 'header', [ $(oSettings.nTHead).children('tr')[0], + _fnGetDataMaster( oSettings ), iDisplayStart, iDisplayEnd, aiDisplay ] ); + + _fnCallbackFire( oSettings, 'aoFooterCallback', 'footer', [ $(oSettings.nTFoot).children('tr')[0], + _fnGetDataMaster( oSettings ), iDisplayStart, iDisplayEnd, aiDisplay ] ); + + var body = $(oSettings.nTBody); + + body.children().detach(); + body.append( $(anRows) ); + + /* Call all required callback functions for the end of a draw */ + _fnCallbackFire( oSettings, 'aoDrawCallback', 'draw', [oSettings] ); + + /* Draw is complete, sorting and filtering must be as well */ + oSettings.bSorted = false; + oSettings.bFiltered = false; + oSettings.bDrawing = false; + } + + + /** + * Redraw the table - taking account of the various features which are enabled + * @param {object} oSettings dataTables settings object + * @param {boolean} [holdPosition] Keep the current paging position. By default + * the paging is reset to the first page + * @memberof DataTable#oApi + */ + function _fnReDraw( settings, holdPosition ) + { + var + features = settings.oFeatures, + sort = features.bSort, + filter = features.bFilter; + + if ( sort ) { + _fnSort( settings ); } - - - - /** - * Draw the table for the first time, adding all required features - * @param {object} oSettings dataTables settings object - * @memberof DataTable#oApi - */ - function _fnInitialise ( oSettings ) + + if ( filter ) { + _fnFilterComplete( settings, settings.oPreviousSearch ); + } + else { + // No filtering, so we want to just use the display master + settings.aiDisplay = settings.aiDisplayMaster.slice(); + } + + if ( holdPosition !== true ) { + settings._iDisplayStart = 0; + } + + // Let any modules know about the draw hold position state (used by + // scrolling internally) + settings._drawHold = holdPosition; + + _fnDraw( settings ); + + settings._drawHold = false; + } + + + /** + * Add the options to the page HTML for the table + * @param {object} oSettings dataTables settings object + * @memberof DataTable#oApi + */ + function _fnAddOptionsHtml ( oSettings ) + { + var classes = oSettings.oClasses; + var table = $(oSettings.nTable); + var holding = $('<div/>').insertBefore( table ); // Holding element for speed + var features = oSettings.oFeatures; + + // All DataTables are wrapped in a div + var insert = $('<div/>', { + id: oSettings.sTableId+'_wrapper', + 'class': classes.sWrapper + (oSettings.nTFoot ? '' : ' '+classes.sNoFooter) + } ); + + oSettings.nHolding = holding[0]; + oSettings.nTableWrapper = insert[0]; + oSettings.nTableReinsertBefore = oSettings.nTable.nextSibling; + + /* Loop over the user set positioning and place the elements as needed */ + var aDom = oSettings.sDom.split(''); + var featureNode, cOption, nNewNode, cNext, sAttr, j; + for ( var i=0 ; i<aDom.length ; i++ ) { - var i, iLen, iAjaxStart=oSettings.iInitDisplayStart; - - /* Ensure that the table data is fully initialised */ - if ( oSettings.bInitialised === false ) - { - setTimeout( function(){ _fnInitialise( oSettings ); }, 200 ); - return; - } - - /* Show the display HTML options */ - _fnAddOptionsHtml( oSettings ); - - /* Build and draw the header / footer for the table */ - _fnBuildHead( oSettings ); - _fnDrawHead( oSettings, oSettings.aoHeader ); - if ( oSettings.nTFoot ) - { - _fnDrawHead( oSettings, oSettings.aoFooter ); - } - - /* Okay to show that something is going on now */ - _fnProcessingDisplay( oSettings, true ); - - /* Calculate sizes for columns */ - if ( oSettings.oFeatures.bAutoWidth ) - { - _fnCalculateColumnWidths( oSettings ); - } - - for ( i=0, iLen=oSettings.aoColumns.length ; i<iLen ; i++ ) + featureNode = null; + cOption = aDom[i]; + + if ( cOption == '<' ) { - if ( oSettings.aoColumns[i].sWidth !== null ) + /* New container div */ + nNewNode = $('<div/>')[0]; + + /* Check to see if we should append an id and/or a class name to the container */ + cNext = aDom[i+1]; + if ( cNext == "'" || cNext == '"' ) { - oSettings.aoColumns[i].nTh.style.width = _fnStringToCss( oSettings.aoColumns[i].sWidth ); - } - } - - /* If there is default sorting required - let's do it. The sort function will do the - * drawing for us. Otherwise we draw the table regardless of the Ajax source - this allows - * the table to look initialised for Ajax sourcing data (show 'loading' message possibly) - */ - if ( oSettings.oFeatures.bSort ) - { - _fnSort( oSettings ); - } - else if ( oSettings.oFeatures.bFilter ) - { - _fnFilterComplete( oSettings, oSettings.oPreviousSearch ); - } - else - { - oSettings.aiDisplay = oSettings.aiDisplayMaster.slice(); - _fnCalculateEnd( oSettings ); - _fnDraw( oSettings ); - } - - /* if there is an ajax source load the data */ - if ( oSettings.sAjaxSource !== null && !oSettings.oFeatures.bServerSide ) - { - var aoData = []; - _fnServerParams( oSettings, aoData ); - oSettings.fnServerData.call( oSettings.oInstance, oSettings.sAjaxSource, aoData, function(json) { - var aData = (oSettings.sAjaxDataProp !== "") ? - _fnGetObjectDataFn( oSettings.sAjaxDataProp )(json) : json; - - /* Got the data - add it to the table */ - for ( i=0 ; i<aData.length ; i++ ) + sAttr = ""; + j = 2; + while ( aDom[i+j] != cNext ) { - _fnAddData( oSettings, aData[i] ); + sAttr += aDom[i+j]; + j++; } - - /* Reset the init display for cookie saving. We've already done a filter, and - * therefore cleared it before. So we need to make it appear 'fresh' + + /* Replace jQuery UI constants @todo depreciated */ + if ( sAttr == "H" ) + { + sAttr = classes.sJUIHeader; + } + else if ( sAttr == "F" ) + { + sAttr = classes.sJUIFooter; + } + + /* The attribute can be in the format of "#id.class", "#id" or "class" This logic + * breaks the string into parts and applies them as needed */ - oSettings.iInitDisplayStart = iAjaxStart; - - if ( oSettings.oFeatures.bSort ) + if ( sAttr.indexOf('.') != -1 ) { - _fnSort( oSettings ); + var aSplit = sAttr.split('.'); + nNewNode.id = aSplit[0].substr(1, aSplit[0].length-1); + nNewNode.className = aSplit[1]; + } + else if ( sAttr.charAt(0) == "#" ) + { + nNewNode.id = sAttr.substr(1, sAttr.length-1); } else { - oSettings.aiDisplay = oSettings.aiDisplayMaster.slice(); - _fnCalculateEnd( oSettings ); - _fnDraw( oSettings ); + nNewNode.className = sAttr; } - - _fnProcessingDisplay( oSettings, false ); - _fnInitComplete( oSettings, json ); - }, oSettings ); - return; + + i += j; /* Move along the position array */ + } + + insert.append( nNewNode ); + insert = $(nNewNode); } - - /* Server-side processing initialisation complete is done at the end of _fnDraw */ - if ( !oSettings.oFeatures.bServerSide ) + else if ( cOption == '>' ) { - _fnProcessingDisplay( oSettings, false ); - _fnInitComplete( oSettings ); + /* End container div */ + insert = insert.parent(); } - } - - - /** - * Draw the table for the first time, adding all required features - * @param {object} oSettings dataTables settings object - * @param {object} [json] JSON from the server that completed the table, if using Ajax source - * with client-side processing (optional) - * @memberof DataTable#oApi - */ - function _fnInitComplete ( oSettings, json ) - { - oSettings._bInitComplete = true; - _fnCallbackFire( oSettings, 'aoInitComplete', 'init', [oSettings, json] ); - } - - - /** - * Language compatibility - when certain options are given, and others aren't, we - * need to duplicate the values over, in order to provide backwards compatibility - * with older language files. - * @param {object} oSettings dataTables settings object - * @memberof DataTable#oApi - */ - function _fnLanguageCompat( oLanguage ) - { - var oDefaults = DataTable.defaults.oLanguage; - - /* Backwards compatibility - if there is no sEmptyTable given, then use the same as - * sZeroRecords - assuming that is given. - */ - if ( !oLanguage.sEmptyTable && oLanguage.sZeroRecords && - oDefaults.sEmptyTable === "No data available in table" ) + // @todo Move options into their own plugins? + else if ( cOption == 'l' && features.bPaginate && features.bLengthChange ) { - _fnMap( oLanguage, oLanguage, 'sZeroRecords', 'sEmptyTable' ); + /* Length */ + featureNode = _fnFeatureHtmlLength( oSettings ); } - - /* Likewise with loading records */ - if ( !oLanguage.sLoadingRecords && oLanguage.sZeroRecords && - oDefaults.sLoadingRecords === "Loading..." ) + else if ( cOption == 'f' && features.bFilter ) { - _fnMap( oLanguage, oLanguage, 'sZeroRecords', 'sLoadingRecords' ); + /* Filter */ + featureNode = _fnFeatureHtmlFilter( oSettings ); } - } - - - - /** - * Generate the node required for user display length changing - * @param {object} oSettings dataTables settings object - * @returns {node} Display length feature node - * @memberof DataTable#oApi - */ - function _fnFeatureHtmlLength ( oSettings ) - { - if ( oSettings.oScroll.bInfinite ) + else if ( cOption == 'r' && features.bProcessing ) { - return null; + /* pRocessing */ + featureNode = _fnFeatureHtmlProcessing( oSettings ); } - - /* This can be overruled by not using the _MENU_ var/macro in the language variable */ - var sName = 'name="'+oSettings.sTableId+'_length"'; - var sStdMenu = '<select size="1" '+sName+'>'; - var i, iLen; - var aLengthMenu = oSettings.aLengthMenu; - - if ( aLengthMenu.length == 2 && typeof aLengthMenu[0] === 'object' && - typeof aLengthMenu[1] === 'object' ) + else if ( cOption == 't' ) { - for ( i=0, iLen=aLengthMenu[0].length ; i<iLen ; i++ ) - { - sStdMenu += '<option value="'+aLengthMenu[0][i]+'">'+aLengthMenu[1][i]+'</option>'; - } + /* Table */ + featureNode = _fnFeatureHtmlTable( oSettings ); } - else + else if ( cOption == 'i' && features.bInfo ) { - for ( i=0, iLen=aLengthMenu.length ; i<iLen ; i++ ) - { - sStdMenu += '<option value="'+aLengthMenu[i]+'">'+aLengthMenu[i]+'</option>'; - } + /* Info */ + featureNode = _fnFeatureHtmlInfo( oSettings ); } - sStdMenu += '</select>'; - - var nLength = document.createElement( 'div' ); - if ( !oSettings.aanFeatures.l ) + else if ( cOption == 'p' && features.bPaginate ) { - nLength.id = oSettings.sTableId+'_length'; + /* Pagination */ + featureNode = _fnFeatureHtmlPaginate( oSettings ); } - nLength.className = oSettings.oClasses.sLength; - nLength.innerHTML = '<label>'+oSettings.oLanguage.sLengthMenu.replace( '_MENU_', sStdMenu )+'</label>'; - - /* - * Set the length to the current display length - thanks to Andrea Pavlovic for this fix, - * and Stefan Skopnik for fixing the fix! - */ - $('select option[value="'+oSettings._iDisplayLength+'"]', nLength).attr("selected", true); - - $('select', nLength).bind( 'change.DT', function(e) { - var iVal = $(this).val(); - - /* Update all other length options for the new display */ - var n = oSettings.aanFeatures.l; - for ( i=0, iLen=n.length ; i<iLen ; i++ ) - { - if ( n[i] != this.parentNode ) - { - $('select', n[i]).val( iVal ); - } - } - - /* Redraw the table */ - oSettings._iDisplayLength = parseInt(iVal, 10); - _fnCalculateEnd( oSettings ); - - /* If we have space to show extra rows (backing up from the end point - then do so */ - if ( oSettings.fnDisplayEnd() == oSettings.fnRecordsDisplay() ) + else if ( DataTable.ext.feature.length !== 0 ) + { + /* Plug-in features */ + var aoFeatures = DataTable.ext.feature; + for ( var k=0, kLen=aoFeatures.length ; k<kLen ; k++ ) { - oSettings._iDisplayStart = oSettings.fnDisplayEnd() - oSettings._iDisplayLength; - if ( oSettings._iDisplayStart < 0 ) + if ( cOption == aoFeatures[k].cFeature ) { - oSettings._iDisplayStart = 0; + featureNode = aoFeatures[k].fnInit( oSettings ); + break; } } - - if ( oSettings._iDisplayLength == -1 ) - { - oSettings._iDisplayStart = 0; - } - - _fnDraw( oSettings ); - } ); - - - $('select', nLength).attr('aria-controls', oSettings.sTableId); - - return nLength; - } - - - /** - * Recalculate the end point based on the start point - * @param {object} oSettings dataTables settings object - * @memberof DataTable#oApi - */ - function _fnCalculateEnd( oSettings ) - { - if ( oSettings.oFeatures.bPaginate === false ) - { - oSettings._iDisplayEnd = oSettings.aiDisplay.length; } - else + + /* Add to the 2D features array */ + if ( featureNode ) { - /* Set the end point of the display - based on how many elements there are - * still to display - */ - if ( oSettings._iDisplayStart + oSettings._iDisplayLength > oSettings.aiDisplay.length || - oSettings._iDisplayLength == -1 ) - { - oSettings._iDisplayEnd = oSettings.aiDisplay.length; - } - else + var aanFeatures = oSettings.aanFeatures; + + if ( ! aanFeatures[cOption] ) { - oSettings._iDisplayEnd = oSettings._iDisplayStart + oSettings._iDisplayLength; + aanFeatures[cOption] = []; } + + aanFeatures[cOption].push( featureNode ); + insert.append( featureNode ); } } - - - - /* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * - * Note that most of the paging logic is done in - * DataTable.ext.oPagination - */ - - /** - * Generate the node required for default pagination - * @param {object} oSettings dataTables settings object - * @returns {node} Pagination feature node - * @memberof DataTable#oApi - */ - function _fnFeatureHtmlPaginate ( oSettings ) + + /* Built our DOM structure - replace the holding div with what we want */ + holding.replaceWith( insert ); + } + + + /** + * Use the DOM source to create up an array of header cells. The idea here is to + * create a layout grid (array) of rows x columns, which contains a reference + * to the cell that that point in the grid (regardless of col/rowspan), such that + * any column / row could be removed and the new grid constructed + * @param array {object} aLayout Array to store the calculated layout in + * @param {node} nThead The header/footer element for the table + * @memberof DataTable#oApi + */ + function _fnDetectHeader ( aLayout, nThead ) + { + var nTrs = $(nThead).children('tr'); + var nTr, nCell; + var i, k, l, iLen, jLen, iColShifted, iColumn, iColspan, iRowspan; + var bUnique; + var fnShiftCol = function ( a, i, j ) { + var k = a[i]; + while ( k[j] ) { + j++; + } + return j; + }; + + aLayout.splice( 0, aLayout.length ); + + /* We know how many rows there are in the layout - so prep it */ + for ( i=0, iLen=nTrs.length ; i<iLen ; i++ ) { - if ( oSettings.oScroll.bInfinite ) - { - return null; - } - - var nPaginate = document.createElement( 'div' ); - nPaginate.className = oSettings.oClasses.sPaging+oSettings.sPaginationType; - - DataTable.ext.oPagination[ oSettings.sPaginationType ].fnInit( oSettings, nPaginate, - function( oSettings ) { - _fnCalculateEnd( oSettings ); - _fnDraw( oSettings ); - } - ); - - /* Add a draw callback for the pagination on first instance, to update the paging display */ - if ( !oSettings.aanFeatures.p ) - { - oSettings.aoDrawCallback.push( { - "fn": function( oSettings ) { - DataTable.ext.oPagination[ oSettings.sPaginationType ].fnUpdate( oSettings, function( oSettings ) { - _fnCalculateEnd( oSettings ); - _fnDraw( oSettings ); - } ); - }, - "sName": "pagination" - } ); - } - return nPaginate; + aLayout.push( [] ); } - - - /** - * Alter the display settings to change the page - * @param {object} oSettings dataTables settings object - * @param {string|int} mAction Paging action to take: "first", "previous", "next" or "last" - * or page number to jump to (integer) - * @returns {bool} true page has changed, false - no change (no effect) eg 'first' on page 1 - * @memberof DataTable#oApi - */ - function _fnPageChange ( oSettings, mAction ) + + /* Calculate a layout array */ + for ( i=0, iLen=nTrs.length ; i<iLen ; i++ ) { - var iOldStart = oSettings._iDisplayStart; - - if ( typeof mAction === "number" ) - { - oSettings._iDisplayStart = mAction * oSettings._iDisplayLength; - if ( oSettings._iDisplayStart > oSettings.fnRecordsDisplay() ) + nTr = nTrs[i]; + iColumn = 0; + + /* For every cell in the row... */ + nCell = nTr.firstChild; + while ( nCell ) { + if ( nCell.nodeName.toUpperCase() == "TD" || + nCell.nodeName.toUpperCase() == "TH" ) { - oSettings._iDisplayStart = 0; + /* Get the col and rowspan attributes from the DOM and sanitise them */ + iColspan = nCell.getAttribute('colspan') * 1; + iRowspan = nCell.getAttribute('rowspan') * 1; + iColspan = (!iColspan || iColspan===0 || iColspan===1) ? 1 : iColspan; + iRowspan = (!iRowspan || iRowspan===0 || iRowspan===1) ? 1 : iRowspan; + + /* There might be colspan cells already in this row, so shift our target + * accordingly + */ + iColShifted = fnShiftCol( aLayout, i, iColumn ); + + /* Cache calculation for unique columns */ + bUnique = iColspan === 1 ? true : false; + + /* If there is col / rowspan, copy the information into the layout grid */ + for ( l=0 ; l<iColspan ; l++ ) + { + for ( k=0 ; k<iRowspan ; k++ ) + { + aLayout[i+k][iColShifted+l] = { + "cell": nCell, + "unique": bUnique + }; + aLayout[i+k].nTr = nTr; + } + } } + nCell = nCell.nextSibling; } - else if ( mAction == "first" ) + } + } + + + /** + * Get an array of unique th elements, one for each column + * @param {object} oSettings dataTables settings object + * @param {node} nHeader automatically detect the layout from this node - optional + * @param {array} aLayout thead/tfoot layout from _fnDetectHeader - optional + * @returns array {node} aReturn list of unique th's + * @memberof DataTable#oApi + */ + function _fnGetUniqueThs ( oSettings, nHeader, aLayout ) + { + var aReturn = []; + if ( !aLayout ) + { + aLayout = oSettings.aoHeader; + if ( nHeader ) { - oSettings._iDisplayStart = 0; + aLayout = []; + _fnDetectHeader( aLayout, nHeader ); } - else if ( mAction == "previous" ) + } + + for ( var i=0, iLen=aLayout.length ; i<iLen ; i++ ) + { + for ( var j=0, jLen=aLayout[i].length ; j<jLen ; j++ ) { - oSettings._iDisplayStart = oSettings._iDisplayLength>=0 ? - oSettings._iDisplayStart - oSettings._iDisplayLength : - 0; - - /* Correct for under-run */ - if ( oSettings._iDisplayStart < 0 ) + if ( aLayout[i][j].unique && + (!aReturn[j] || !oSettings.bSortCellsTop) ) { - oSettings._iDisplayStart = 0; + aReturn[j] = aLayout[i][j].cell; } } - else if ( mAction == "next" ) - { - if ( oSettings._iDisplayLength >= 0 ) - { - /* Make sure we are not over running the display array */ - if ( oSettings._iDisplayStart + oSettings._iDisplayLength < oSettings.fnRecordsDisplay() ) - { - oSettings._iDisplayStart += oSettings._iDisplayLength; + } + + return aReturn; + } + + /** + * Create an Ajax call based on the table's settings, taking into account that + * parameters can have multiple forms, and backwards compatibility. + * + * @param {object} oSettings dataTables settings object + * @param {array} data Data to send to the server, required by + * DataTables - may be augmented by developer callbacks + * @param {function} fn Callback function to run when data is obtained + */ + function _fnBuildAjax( oSettings, data, fn ) + { + // Compatibility with 1.9-, allow fnServerData and event to manipulate + _fnCallbackFire( oSettings, 'aoServerParams', 'serverParams', [data] ); + + // Convert to object based for 1.10+ if using the old array scheme which can + // come from server-side processing or serverParams + if ( data && $.isArray(data) ) { + var tmp = {}; + var rbracket = /(.*?)\[\]$/; + + $.each( data, function (key, val) { + var match = val.name.match(rbracket); + + if ( match ) { + // Support for arrays + var name = match[0]; + + if ( ! tmp[ name ] ) { + tmp[ name ] = []; } + tmp[ name ].push( val.value ); } - else - { - oSettings._iDisplayStart = 0; + else { + tmp[val.name] = val.value; } - } - else if ( mAction == "last" ) - { - if ( oSettings._iDisplayLength >= 0 ) - { - var iPages = parseInt( (oSettings.fnRecordsDisplay()-1) / oSettings._iDisplayLength, 10 ) + 1; - oSettings._iDisplayStart = (iPages-1) * oSettings._iDisplayLength; + } ); + data = tmp; + } + + var ajaxData; + var ajax = oSettings.ajax; + var instance = oSettings.oInstance; + var callback = function ( json ) { + _fnCallbackFire( oSettings, null, 'xhr', [oSettings, json, oSettings.jqXHR] ); + fn( json ); + }; + + if ( $.isPlainObject( ajax ) && ajax.data ) + { + ajaxData = ajax.data; + + var newData = $.isFunction( ajaxData ) ? + ajaxData( data, oSettings ) : // fn can manipulate data or return + ajaxData; // an object object or array to merge + + // If the function returned something, use that alone + data = $.isFunction( ajaxData ) && newData ? + newData : + $.extend( true, data, newData ); + + // Remove the data property as we've resolved it already and don't want + // jQuery to do it again (it is restored at the end of the function) + delete ajax.data; + } + + var baseAjax = { + "data": data, + "success": function (json) { + var error = json.error || json.sError; + if ( error ) { + _fnLog( oSettings, 0, error ); } - else - { - oSettings._iDisplayStart = 0; + + oSettings.json = json; + callback( json ); + }, + "dataType": "json", + "cache": false, + "type": oSettings.sServerMethod, + "error": function (xhr, error, thrown) { + var ret = _fnCallbackFire( oSettings, null, 'xhr', [oSettings, null, oSettings.jqXHR] ); + + if ( $.inArray( true, ret ) === -1 ) { + if ( error == "parsererror" ) { + _fnLog( oSettings, 0, 'Invalid JSON response', 1 ); + } + else if ( xhr.readyState === 4 ) { + _fnLog( oSettings, 0, 'Ajax error', 7 ); + } } + + _fnProcessingDisplay( oSettings, false ); } - else - { - _fnLog( oSettings, 0, "Unknown paging action: "+mAction ); - } - $(oSettings.oInstance).trigger('page', oSettings); - - return iOldStart != oSettings._iDisplayStart; + }; + + // Store the data submitted for the API + oSettings.oAjaxData = data; + + // Allow plug-ins and external processes to modify the data + _fnCallbackFire( oSettings, null, 'preXhr', [oSettings, data] ); + + if ( oSettings.fnServerData ) + { + // DataTables 1.9- compatibility + oSettings.fnServerData.call( instance, + oSettings.sAjaxSource, + $.map( data, function (val, key) { // Need to convert back to 1.9 trad format + return { name: key, value: val }; + } ), + callback, + oSettings + ); } - - - - /** - * Generate the node required for the processing node - * @param {object} oSettings dataTables settings object - * @returns {node} Processing element - * @memberof DataTable#oApi - */ - function _fnFeatureHtmlProcessing ( oSettings ) + else if ( oSettings.sAjaxSource || typeof ajax === 'string' ) { - var nProcessing = document.createElement( 'div' ); - - if ( !oSettings.aanFeatures.r ) - { - nProcessing.id = oSettings.sTableId+'_processing'; - } - nProcessing.innerHTML = oSettings.oLanguage.sProcessing; - nProcessing.className = oSettings.oClasses.sProcessing; - oSettings.nTable.parentNode.insertBefore( nProcessing, oSettings.nTable ); - - return nProcessing; + // DataTables 1.9- compatibility + oSettings.jqXHR = $.ajax( $.extend( baseAjax, { + url: ajax || oSettings.sAjaxSource + } ) ); } - - - /** - * Display or hide the processing indicator - * @param {object} oSettings dataTables settings object - * @param {bool} bShow Show the processing indicator (true) or not (false) - * @memberof DataTable#oApi - */ - function _fnProcessingDisplay ( oSettings, bShow ) + else if ( $.isFunction( ajax ) ) { - if ( oSettings.oFeatures.bProcessing ) - { - var an = oSettings.aanFeatures.r; - for ( var i=0, iLen=an.length ; i<iLen ; i++ ) - { - an[i].style.visibility = bShow ? "visible" : "hidden"; - } - } - - $(oSettings.oInstance).trigger('processing', [oSettings, bShow]); + // Is a function - let the caller define what needs to be done + oSettings.jqXHR = ajax.call( instance, data, callback, oSettings ); } - - /** - * Add any control elements for the table - specifically scrolling - * @param {object} oSettings dataTables settings object - * @returns {node} Node to add to the DOM - * @memberof DataTable#oApi - */ - function _fnFeatureHtmlTable ( oSettings ) + else { - /* Check if scrolling is enabled or not - if not then leave the DOM unaltered */ - if ( oSettings.oScroll.sX === "" && oSettings.oScroll.sY === "" ) - { - return oSettings.nTable; - } - - /* - * The HTML structure that we want to generate in this function is: - * div - nScroller - * div - nScrollHead - * div - nScrollHeadInner - * table - nScrollHeadTable - * thead - nThead - * div - nScrollBody - * table - oSettings.nTable - * thead - nTheadSize - * tbody - nTbody - * div - nScrollFoot - * div - nScrollFootInner - * table - nScrollFootTable - * tfoot - nTfoot - */ - var - nScroller = document.createElement('div'), - nScrollHead = document.createElement('div'), - nScrollHeadInner = document.createElement('div'), - nScrollBody = document.createElement('div'), - nScrollFoot = document.createElement('div'), - nScrollFootInner = document.createElement('div'), - nScrollHeadTable = oSettings.nTable.cloneNode(false), - nScrollFootTable = oSettings.nTable.cloneNode(false), - nThead = oSettings.nTable.getElementsByTagName('thead')[0], - nTfoot = oSettings.nTable.getElementsByTagName('tfoot').length === 0 ? null : - oSettings.nTable.getElementsByTagName('tfoot')[0], - oClasses = oSettings.oClasses; - - nScrollHead.appendChild( nScrollHeadInner ); - nScrollFoot.appendChild( nScrollFootInner ); - nScrollBody.appendChild( oSettings.nTable ); - nScroller.appendChild( nScrollHead ); - nScroller.appendChild( nScrollBody ); - nScrollHeadInner.appendChild( nScrollHeadTable ); - nScrollHeadTable.appendChild( nThead ); - if ( nTfoot !== null ) - { - nScroller.appendChild( nScrollFoot ); - nScrollFootInner.appendChild( nScrollFootTable ); - nScrollFootTable.appendChild( nTfoot ); - } - - nScroller.className = oClasses.sScrollWrapper; - nScrollHead.className = oClasses.sScrollHead; - nScrollHeadInner.className = oClasses.sScrollHeadInner; - nScrollBody.className = oClasses.sScrollBody; - nScrollFoot.className = oClasses.sScrollFoot; - nScrollFootInner.className = oClasses.sScrollFootInner; - - if ( oSettings.oScroll.bAutoCss ) - { - nScrollHead.style.overflow = "hidden"; - nScrollHead.style.position = "relative"; - nScrollFoot.style.overflow = "hidden"; - nScrollBody.style.overflow = "auto"; - } - - nScrollHead.style.border = "0"; - nScrollHead.style.width = "100%"; - nScrollFoot.style.border = "0"; - nScrollHeadInner.style.width = oSettings.oScroll.sXInner !== "" ? - oSettings.oScroll.sXInner : "100%"; /* will be overwritten */ - - /* Modify attributes to respect the clones */ - nScrollHeadTable.removeAttribute('id'); - nScrollHeadTable.style.marginLeft = "0"; - oSettings.nTable.style.marginLeft = "0"; - if ( nTfoot !== null ) - { - nScrollFootTable.removeAttribute('id'); - nScrollFootTable.style.marginLeft = "0"; - } - - /* Move caption elements from the body to the header, footer or leave where it is - * depending on the configuration. Note that the DTD says there can be only one caption */ - var nCaption = $(oSettings.nTable).children('caption'); - if ( nCaption.length > 0 ) - { - nCaption = nCaption[0]; - if ( nCaption._captionSide === "top" ) - { - nScrollHeadTable.appendChild( nCaption ); - } - else if ( nCaption._captionSide === "bottom" && nTfoot ) - { - nScrollFootTable.appendChild( nCaption ); + // Object to extend the base settings + oSettings.jqXHR = $.ajax( $.extend( baseAjax, ajax ) ); + + // Restore for next time around + ajax.data = ajaxData; + } + } + + + /** + * Update the table using an Ajax call + * @param {object} settings dataTables settings object + * @returns {boolean} Block the table drawing or not + * @memberof DataTable#oApi + */ + function _fnAjaxUpdate( settings ) + { + if ( settings.bAjaxDataGet ) { + settings.iDraw++; + _fnProcessingDisplay( settings, true ); + + _fnBuildAjax( + settings, + _fnAjaxParameters( settings ), + function(json) { + _fnAjaxUpdateDraw( settings, json ); } + ); + + return false; + } + return true; + } + + + /** + * Build up the parameters in an object needed for a server-side processing + * request. Note that this is basically done twice, is different ways - a modern + * method which is used by default in DataTables 1.10 which uses objects and + * arrays, or the 1.9- method with is name / value pairs. 1.9 method is used if + * the sAjaxSource option is used in the initialisation, or the legacyAjax + * option is set. + * @param {object} oSettings dataTables settings object + * @returns {bool} block the table drawing or not + * @memberof DataTable#oApi + */ + function _fnAjaxParameters( settings ) + { + var + columns = settings.aoColumns, + columnCount = columns.length, + features = settings.oFeatures, + preSearch = settings.oPreviousSearch, + preColSearch = settings.aoPreSearchCols, + i, data = [], dataProp, column, columnSearch, + sort = _fnSortFlatten( settings ), + displayStart = settings._iDisplayStart, + displayLength = features.bPaginate !== false ? + settings._iDisplayLength : + -1; + + var param = function ( name, value ) { + data.push( { 'name': name, 'value': value } ); + }; + + // DataTables 1.9- compatible method + param( 'sEcho', settings.iDraw ); + param( 'iColumns', columnCount ); + param( 'sColumns', _pluck( columns, 'sName' ).join(',') ); + param( 'iDisplayStart', displayStart ); + param( 'iDisplayLength', displayLength ); + + // DataTables 1.10+ method + var d = { + draw: settings.iDraw, + columns: [], + order: [], + start: displayStart, + length: displayLength, + search: { + value: preSearch.sSearch, + regex: preSearch.bRegex } - - /* - * Sizing - */ - /* When x-scrolling add the width and a scroller to move the header with the body */ - if ( oSettings.oScroll.sX !== "" ) - { - nScrollHead.style.width = _fnStringToCss( oSettings.oScroll.sX ); - nScrollBody.style.width = _fnStringToCss( oSettings.oScroll.sX ); - - if ( nTfoot !== null ) - { - nScrollFoot.style.width = _fnStringToCss( oSettings.oScroll.sX ); + }; + + for ( i=0 ; i<columnCount ; i++ ) { + column = columns[i]; + columnSearch = preColSearch[i]; + dataProp = typeof column.mData=="function" ? 'function' : column.mData ; + + d.columns.push( { + data: dataProp, + name: column.sName, + searchable: column.bSearchable, + orderable: column.bSortable, + search: { + value: columnSearch.sSearch, + regex: columnSearch.bRegex } - - /* When the body is scrolled, then we also want to scroll the headers */ - $(nScrollBody).scroll( function (e) { - nScrollHead.scrollLeft = this.scrollLeft; - - if ( nTfoot !== null ) - { - nScrollFoot.scrollLeft = this.scrollLeft; - } - } ); + } ); + + param( "mDataProp_"+i, dataProp ); + + if ( features.bFilter ) { + param( 'sSearch_'+i, columnSearch.sSearch ); + param( 'bRegex_'+i, columnSearch.bRegex ); + param( 'bSearchable_'+i, column.bSearchable ); } - - /* When yscrolling, add the height */ - if ( oSettings.oScroll.sY !== "" ) - { - nScrollBody.style.height = _fnStringToCss( oSettings.oScroll.sY ); + + if ( features.bSort ) { + param( 'bSortable_'+i, column.bSortable ); } - - /* Redraw - align columns across the tables */ - oSettings.aoDrawCallback.push( { - "fn": _fnScrollDraw, - "sName": "scrolling" + } + + if ( features.bFilter ) { + param( 'sSearch', preSearch.sSearch ); + param( 'bRegex', preSearch.bRegex ); + } + + if ( features.bSort ) { + $.each( sort, function ( i, val ) { + d.order.push( { column: val.col, dir: val.dir } ); + + param( 'iSortCol_'+i, val.col ); + param( 'sSortDir_'+i, val.dir ); } ); - - /* Infinite scrolling event handlers */ - if ( oSettings.oScroll.bInfinite ) - { - $(nScrollBody).scroll( function() { - /* Use a blocker to stop scrolling from loading more data while other data is still loading */ - if ( !oSettings.bDrawing && $(this).scrollTop() !== 0 ) - { - /* Check if we should load the next data set */ - if ( $(this).scrollTop() + $(this).height() > - $(oSettings.nTable).height() - oSettings.oScroll.iLoadGap ) - { - /* Only do the redraw if we have to - we might be at the end of the data */ - if ( oSettings.fnDisplayEnd() < oSettings.fnRecordsDisplay() ) - { - _fnPageChange( oSettings, 'next' ); - _fnCalculateEnd( oSettings ); - _fnDraw( oSettings ); - } - } - } - } ); - } - - oSettings.nScrollHead = nScrollHead; - oSettings.nScrollFoot = nScrollFoot; - - return nScroller; + + param( 'iSortingCols', sort.length ); } - - - /** - * Update the various tables for resizing. It's a bit of a pig this function, but - * basically the idea to: - * 1. Re-create the table inside the scrolling div - * 2. Take live measurements from the DOM - * 3. Apply the measurements - * 4. Clean up - * @param {object} o dataTables settings object - * @returns {node} Node to add to the DOM - * @memberof DataTable#oApi - */ - function _fnScrollDraw ( o ) - { - var - nScrollHeadInner = o.nScrollHead.getElementsByTagName('div')[0], - nScrollHeadTable = nScrollHeadInner.getElementsByTagName('table')[0], - nScrollBody = o.nTable.parentNode, - i, iLen, j, jLen, anHeadToSize, anHeadSizers, anFootSizers, anFootToSize, oStyle, iVis, - nTheadSize, nTfootSize, - iWidth, aApplied=[], aAppliedFooter=[], iSanityWidth, - nScrollFootInner = (o.nTFoot !== null) ? o.nScrollFoot.getElementsByTagName('div')[0] : null, - nScrollFootTable = (o.nTFoot !== null) ? nScrollFootInner.getElementsByTagName('table')[0] : null, - ie67 = o.oBrowser.bScrollOversize, - zeroOut = function(nSizer) { - oStyle = nSizer.style; - oStyle.paddingTop = "0"; - oStyle.paddingBottom = "0"; - oStyle.borderTopWidth = "0"; - oStyle.borderBottomWidth = "0"; - oStyle.height = 0; - }; - - /* - * 1. Re-create the table inside the scrolling div - */ - - /* Remove the old minimised thead and tfoot elements in the inner table */ - $(o.nTable).children('thead, tfoot').remove(); - - /* Clone the current header and footer elements and then place it into the inner table */ - nTheadSize = $(o.nTHead).clone()[0]; - o.nTable.insertBefore( nTheadSize, o.nTable.childNodes[0] ); - anHeadToSize = o.nTHead.getElementsByTagName('tr'); - anHeadSizers = nTheadSize.getElementsByTagName('tr'); - - if ( o.nTFoot !== null ) - { - nTfootSize = $(o.nTFoot).clone()[0]; - o.nTable.insertBefore( nTfootSize, o.nTable.childNodes[1] ); - anFootToSize = o.nTFoot.getElementsByTagName('tr'); - anFootSizers = nTfootSize.getElementsByTagName('tr'); - } - - /* - * 2. Take live measurements from the DOM - do not alter the DOM itself! - */ - - /* Remove old sizing and apply the calculated column widths - * Get the unique column headers in the newly created (cloned) header. We want to apply the - * calculated sizes to this header - */ - if ( o.oScroll.sX === "" ) - { - nScrollBody.style.width = '100%'; - nScrollHeadInner.parentNode.style.width = '100%'; - } - - var nThs = _fnGetUniqueThs( o, nTheadSize ); - for ( i=0, iLen=nThs.length ; i<iLen ; i++ ) - { - iVis = _fnVisibleToColumnIndex( o, i ); - nThs[i].style.width = o.aoColumns[iVis].sWidth; - } - - if ( o.nTFoot !== null ) - { - _fnApplyToChildren( function(n) { - n.style.width = ""; - }, anFootSizers ); - } - - // If scroll collapse is enabled, when we put the headers back into the body for sizing, we - // will end up forcing the scrollbar to appear, making our measurements wrong for when we - // then hide it (end of this function), so add the header height to the body scroller. - if ( o.oScroll.bCollapse && o.oScroll.sY !== "" ) - { - nScrollBody.style.height = (nScrollBody.offsetHeight + o.nTHead.offsetHeight)+"px"; + + // If the legacy.ajax parameter is null, then we automatically decide which + // form to use, based on sAjaxSource + var legacy = DataTable.ext.legacy.ajax; + if ( legacy === null ) { + return settings.sAjaxSource ? data : d; + } + + // Otherwise, if legacy has been specified then we use that to decide on the + // form + return legacy ? data : d; + } + + + /** + * Data the data from the server (nuking the old) and redraw the table + * @param {object} oSettings dataTables settings object + * @param {object} json json data return from the server. + * @param {string} json.sEcho Tracking flag for DataTables to match requests + * @param {int} json.iTotalRecords Number of records in the data set, not accounting for filtering + * @param {int} json.iTotalDisplayRecords Number of records in the data set, accounting for filtering + * @param {array} json.aaData The data to display on this page + * @param {string} [json.sColumns] Column ordering (sName, comma separated) + * @memberof DataTable#oApi + */ + function _fnAjaxUpdateDraw ( settings, json ) + { + // v1.10 uses camelCase variables, while 1.9 uses Hungarian notation. + // Support both + var compat = function ( old, modern ) { + return json[old] !== undefined ? json[old] : json[modern]; + }; + + var data = _fnAjaxDataSrc( settings, json ); + var draw = compat( 'sEcho', 'draw' ); + var recordsTotal = compat( 'iTotalRecords', 'recordsTotal' ); + var recordsFiltered = compat( 'iTotalDisplayRecords', 'recordsFiltered' ); + + if ( draw ) { + // Protect against out of sequence returns + if ( draw*1 < settings.iDraw ) { + return; } - - /* Size the table as a whole */ - iSanityWidth = $(o.nTable).outerWidth(); - if ( o.oScroll.sX === "" ) - { - /* No x scrolling */ - o.nTable.style.width = "100%"; - - /* I know this is rubbish - but IE7 will make the width of the table when 100% include - * the scrollbar - which is shouldn't. When there is a scrollbar we need to take this - * into account. - */ - if ( ie67 && ($('tbody', nScrollBody).height() > nScrollBody.offsetHeight || - $(nScrollBody).css('overflow-y') == "scroll") ) - { - o.nTable.style.width = _fnStringToCss( $(o.nTable).outerWidth() - o.oScroll.iBarWidth); - } + settings.iDraw = draw * 1; + } + + _fnClearTable( settings ); + settings._iRecordsTotal = parseInt(recordsTotal, 10); + settings._iRecordsDisplay = parseInt(recordsFiltered, 10); + + for ( var i=0, ien=data.length ; i<ien ; i++ ) { + _fnAddData( settings, data[i] ); + } + settings.aiDisplay = settings.aiDisplayMaster.slice(); + + settings.bAjaxDataGet = false; + _fnDraw( settings ); + + if ( ! settings._bInitComplete ) { + _fnInitComplete( settings, json ); + } + + settings.bAjaxDataGet = true; + _fnProcessingDisplay( settings, false ); + } + + + /** + * Get the data from the JSON data source to use for drawing a table. Using + * `_fnGetObjectDataFn` allows the data to be sourced from a property of the + * source object, or from a processing function. + * @param {object} oSettings dataTables settings object + * @param {object} json Data source object / array from the server + * @return {array} Array of data to use + */ + function _fnAjaxDataSrc ( oSettings, json ) + { + var dataSrc = $.isPlainObject( oSettings.ajax ) && oSettings.ajax.dataSrc !== undefined ? + oSettings.ajax.dataSrc : + oSettings.sAjaxDataProp; // Compatibility with 1.9-. + + // Compatibility with 1.9-. In order to read from aaData, check if the + // default has been changed, if not, check for aaData + if ( dataSrc === 'data' ) { + return json.aaData || json[dataSrc]; + } + + return dataSrc !== "" ? + _fnGetObjectDataFn( dataSrc )( json ) : + json; + } + + /** + * Generate the node required for filtering text + * @returns {node} Filter control element + * @param {object} oSettings dataTables settings object + * @memberof DataTable#oApi + */ + function _fnFeatureHtmlFilter ( settings ) + { + var classes = settings.oClasses; + var tableId = settings.sTableId; + var language = settings.oLanguage; + var previousSearch = settings.oPreviousSearch; + var features = settings.aanFeatures; + var input = '<input type="search" class="'+classes.sFilterInput+'"/>'; + + var str = language.sSearch; + str = str.match(/_INPUT_/) ? + str.replace('_INPUT_', input) : + str+input; + + var filter = $('<div/>', { + 'id': ! features.f ? tableId+'_filter' : null, + 'class': classes.sFilter + } ) + .append( $('<label/>' ).append( str ) ); + + var searchFn = function() { + /* Update all other filter input elements for the new display */ + var n = features.f; + var val = !this.value ? "" : this.value; // mental IE8 fix :-( + + /* Now do the filter */ + if ( val != previousSearch.sSearch ) { + _fnFilterComplete( settings, { + "sSearch": val, + "bRegex": previousSearch.bRegex, + "bSmart": previousSearch.bSmart , + "bCaseInsensitive": previousSearch.bCaseInsensitive + } ); + + // Need to redraw, without resorting + settings._iDisplayStart = 0; + _fnDraw( settings ); } - else - { - if ( o.oScroll.sXInner !== "" ) - { - /* x scroll inner has been given - use it */ - o.nTable.style.width = _fnStringToCss(o.oScroll.sXInner); + }; + + var searchDelay = settings.searchDelay !== null ? + settings.searchDelay : + _fnDataSource( settings ) === 'ssp' ? + 400 : + 0; + + var jqFilter = $('input', filter) + .val( previousSearch.sSearch ) + .attr( 'placeholder', language.sSearchPlaceholder ) + .bind( + 'keyup.DT search.DT input.DT paste.DT cut.DT', + searchDelay ? + _fnThrottle( searchFn, searchDelay ) : + searchFn + ) + .bind( 'keypress.DT', function(e) { + /* Prevent form submission */ + if ( e.keyCode == 13 ) { + return false; } - else if ( iSanityWidth == $(nScrollBody).width() && - $(nScrollBody).height() < $(o.nTable).height() ) - { - /* There is y-scrolling - try to take account of the y scroll bar */ - o.nTable.style.width = _fnStringToCss( iSanityWidth-o.oScroll.iBarWidth ); - if ( $(o.nTable).outerWidth() > iSanityWidth-o.oScroll.iBarWidth ) - { - /* Not possible to take account of it */ - o.nTable.style.width = _fnStringToCss( iSanityWidth ); + } ) + .attr('aria-controls', tableId); + + // Update the input elements whenever the table is filtered + $(settings.nTable).on( 'search.dt.DT', function ( ev, s ) { + if ( settings === s ) { + // IE9 throws an 'unknown error' if document.activeElement is used + // inside an iframe or frame... + try { + if ( jqFilter[0] !== document.activeElement ) { + jqFilter.val( previousSearch.sSearch ); } } - else - { - /* All else fails */ - o.nTable.style.width = _fnStringToCss( iSanityWidth ); - } + catch ( e ) {} } - - /* Recalculate the sanity width - now that we've applied the required width, before it was - * a temporary variable. This is required because the column width calculation is done - * before this table DOM is created. - */ - iSanityWidth = $(o.nTable).outerWidth(); - - /* We want the hidden header to have zero height, so remove padding and borders. Then - * set the width based on the real headers - */ - - // Apply all styles in one pass. Invalidates layout only once because we don't read any - // DOM properties. - _fnApplyToChildren( zeroOut, anHeadSizers ); - - // Read all widths in next pass. Forces layout only once because we do not change - // any DOM properties. - _fnApplyToChildren( function(nSizer) { - aApplied.push( _fnStringToCss( $(nSizer).width() ) ); - }, anHeadSizers ); - - // Apply all widths in final pass. Invalidates layout only once because we do not - // read any DOM properties. - _fnApplyToChildren( function(nToSize, i) { - nToSize.style.width = aApplied[i]; - }, anHeadToSize ); - - $(anHeadSizers).height(0); - - /* Same again with the footer if we have one */ - if ( o.nTFoot !== null ) - { - _fnApplyToChildren( zeroOut, anFootSizers ); - - _fnApplyToChildren( function(nSizer) { - aAppliedFooter.push( _fnStringToCss( $(nSizer).width() ) ); - }, anFootSizers ); - - _fnApplyToChildren( function(nToSize, i) { - nToSize.style.width = aAppliedFooter[i]; - }, anFootToSize ); - - $(anFootSizers).height(0); - } - - /* - * 3. Apply the measurements - */ - - /* "Hide" the header and footer that we used for the sizing. We want to also fix their width - * to what they currently are - */ - _fnApplyToChildren( function(nSizer, i) { - nSizer.innerHTML = ""; - nSizer.style.width = aApplied[i]; - }, anHeadSizers ); - - if ( o.nTFoot !== null ) + } ); + + return filter[0]; + } + + + /** + * Filter the table using both the global filter and column based filtering + * @param {object} oSettings dataTables settings object + * @param {object} oSearch search information + * @param {int} [iForce] force a research of the master array (1) or not (undefined or 0) + * @memberof DataTable#oApi + */ + function _fnFilterComplete ( oSettings, oInput, iForce ) + { + var oPrevSearch = oSettings.oPreviousSearch; + var aoPrevSearch = oSettings.aoPreSearchCols; + var fnSaveFilter = function ( oFilter ) { + /* Save the filtering values */ + oPrevSearch.sSearch = oFilter.sSearch; + oPrevSearch.bRegex = oFilter.bRegex; + oPrevSearch.bSmart = oFilter.bSmart; + oPrevSearch.bCaseInsensitive = oFilter.bCaseInsensitive; + }; + var fnRegex = function ( o ) { + // Backwards compatibility with the bEscapeRegex option + return o.bEscapeRegex !== undefined ? !o.bEscapeRegex : o.bRegex; + }; + + // Resolve any column types that are unknown due to addition or invalidation + // @todo As per sort - can this be moved into an event handler? + _fnColumnTypes( oSettings ); + + /* In server-side processing all filtering is done by the server, so no point hanging around here */ + if ( _fnDataSource( oSettings ) != 'ssp' ) + { + /* Global filter */ + _fnFilter( oSettings, oInput.sSearch, iForce, fnRegex(oInput), oInput.bSmart, oInput.bCaseInsensitive ); + fnSaveFilter( oInput ); + + /* Now do the individual column filter */ + for ( var i=0 ; i<aoPrevSearch.length ; i++ ) { - _fnApplyToChildren( function(nSizer, i) { - nSizer.innerHTML = ""; - nSizer.style.width = aAppliedFooter[i]; - }, anFootSizers ); + _fnFilterColumn( oSettings, aoPrevSearch[i].sSearch, i, fnRegex(aoPrevSearch[i]), + aoPrevSearch[i].bSmart, aoPrevSearch[i].bCaseInsensitive ); } - - /* Sanity check that the table is of a sensible width. If not then we are going to get - * misalignment - try to prevent this by not allowing the table to shrink below its min width - */ - if ( $(o.nTable).outerWidth() < iSanityWidth ) - { - /* The min width depends upon if we have a vertical scrollbar visible or not */ - var iCorrection = ((nScrollBody.scrollHeight > nScrollBody.offsetHeight || - $(nScrollBody).css('overflow-y') == "scroll")) ? - iSanityWidth+o.oScroll.iBarWidth : iSanityWidth; - - /* IE6/7 are a law unto themselves... */ - if ( ie67 && (nScrollBody.scrollHeight > - nScrollBody.offsetHeight || $(nScrollBody).css('overflow-y') == "scroll") ) - { - o.nTable.style.width = _fnStringToCss( iCorrection-o.oScroll.iBarWidth ); - } - - /* Apply the calculated minimum width to the table wrappers */ - nScrollBody.style.width = _fnStringToCss( iCorrection ); - o.nScrollHead.style.width = _fnStringToCss( iCorrection ); - - if ( o.nTFoot !== null ) - { - o.nScrollFoot.style.width = _fnStringToCss( iCorrection ); - } - - /* And give the user a warning that we've stopped the table getting too small */ - if ( o.oScroll.sX === "" ) - { - _fnLog( o, 1, "The table cannot fit into the current element which will cause column"+ - " misalignment. The table has been drawn at its minimum possible width." ); - } - else if ( o.oScroll.sXInner !== "" ) - { - _fnLog( o, 1, "The table cannot fit into the current element which will cause column"+ - " misalignment. Increase the sScrollXInner value or remove it to allow automatic"+ - " calculation" ); + + /* Custom filtering */ + _fnFilterCustom( oSettings ); + } + else + { + fnSaveFilter( oInput ); + } + + /* Tell the draw function we have been filtering */ + oSettings.bFiltered = true; + _fnCallbackFire( oSettings, null, 'search', [oSettings] ); + } + + + /** + * Apply custom filtering functions + * @param {object} oSettings dataTables settings object + * @memberof DataTable#oApi + */ + function _fnFilterCustom( settings ) + { + var filters = DataTable.ext.search; + var displayRows = settings.aiDisplay; + var row, rowIdx; + + for ( var i=0, ien=filters.length ; i<ien ; i++ ) { + var rows = []; + + // Loop over each row and see if it should be included + for ( var j=0, jen=displayRows.length ; j<jen ; j++ ) { + rowIdx = displayRows[ j ]; + row = settings.aoData[ rowIdx ]; + + if ( filters[i]( settings, row._aFilterData, rowIdx, row._aData, j ) ) { + rows.push( rowIdx ); } } - else - { - nScrollBody.style.width = _fnStringToCss( '100%' ); - o.nScrollHead.style.width = _fnStringToCss( '100%' ); - - if ( o.nTFoot !== null ) - { - o.nScrollFoot.style.width = _fnStringToCss( '100%' ); - } + + // So the array reference doesn't break set the results into the + // existing array + displayRows.length = 0; + displayRows.push.apply( displayRows, rows ); + } + } + + + /** + * Filter the table on a per-column basis + * @param {object} oSettings dataTables settings object + * @param {string} sInput string to filter on + * @param {int} iColumn column to filter + * @param {bool} bRegex treat search string as a regular expression or not + * @param {bool} bSmart use smart filtering or not + * @param {bool} bCaseInsensitive Do case insenstive matching or not + * @memberof DataTable#oApi + */ + function _fnFilterColumn ( settings, searchStr, colIdx, regex, smart, caseInsensitive ) + { + if ( searchStr === '' ) { + return; + } + + var data; + var display = settings.aiDisplay; + var rpSearch = _fnFilterCreateSearch( searchStr, regex, smart, caseInsensitive ); + + for ( var i=display.length-1 ; i>=0 ; i-- ) { + data = settings.aoData[ display[i] ]._aFilterData[ colIdx ]; + + if ( ! rpSearch.test( data ) ) { + display.splice( i, 1 ); } - - - /* - * 4. Clean up - */ - if ( o.oScroll.sY === "" ) - { - /* IE7< puts a vertical scrollbar in place (when it shouldn't be) due to subtracting - * the scrollbar height from the visible display, rather than adding it on. We need to - * set the height in order to sort this. Don't want to do it in any other browsers. - */ - if ( ie67 ) - { - nScrollBody.style.height = _fnStringToCss( o.nTable.offsetHeight+o.oScroll.iBarWidth ); - } + } + } + + + /** + * Filter the data table based on user input and draw the table + * @param {object} settings dataTables settings object + * @param {string} input string to filter on + * @param {int} force optional - force a research of the master array (1) or not (undefined or 0) + * @param {bool} regex treat as a regular expression or not + * @param {bool} smart perform smart filtering or not + * @param {bool} caseInsensitive Do case insenstive matching or not + * @memberof DataTable#oApi + */ + function _fnFilter( settings, input, force, regex, smart, caseInsensitive ) + { + var rpSearch = _fnFilterCreateSearch( input, regex, smart, caseInsensitive ); + var prevSearch = settings.oPreviousSearch.sSearch; + var displayMaster = settings.aiDisplayMaster; + var display, invalidated, i; + + // Need to take account of custom filtering functions - always filter + if ( DataTable.ext.search.length !== 0 ) { + force = true; + } + + // Check if any of the rows were invalidated + invalidated = _fnFilterData( settings ); + + // If the input is blank - we just want the full data set + if ( input.length <= 0 ) { + settings.aiDisplay = displayMaster.slice(); + } + else { + // New search - start from the master array + if ( invalidated || + force || + prevSearch.length > input.length || + input.indexOf(prevSearch) !== 0 || + settings.bSorted // On resort, the display master needs to be + // re-filtered since indexes will have changed + ) { + settings.aiDisplay = displayMaster.slice(); } - - if ( o.oScroll.sY !== "" && o.oScroll.bCollapse ) - { - nScrollBody.style.height = _fnStringToCss( o.oScroll.sY ); - - var iExtra = (o.oScroll.sX !== "" && o.nTable.offsetWidth > nScrollBody.offsetWidth) ? - o.oScroll.iBarWidth : 0; - if ( o.nTable.offsetHeight < nScrollBody.offsetHeight ) - { - nScrollBody.style.height = _fnStringToCss( o.nTable.offsetHeight+iExtra ); + + // Search the display array + display = settings.aiDisplay; + + for ( i=display.length-1 ; i>=0 ; i-- ) { + if ( ! rpSearch.test( settings.aoData[ display[i] ]._sFilterRow ) ) { + display.splice( i, 1 ); } } - - /* Finally set the width's of the header and footer tables */ - var iOuterWidth = $(o.nTable).outerWidth(); - nScrollHeadTable.style.width = _fnStringToCss( iOuterWidth ); - nScrollHeadInner.style.width = _fnStringToCss( iOuterWidth ); - - // Figure out if there are scrollbar present - if so then we need a the header and footer to - // provide a bit more space to allow "overflow" scrolling (i.e. past the scrollbar) - var bScrolling = $(o.nTable).height() > nScrollBody.clientHeight || $(nScrollBody).css('overflow-y') == "scroll"; - nScrollHeadInner.style.paddingRight = bScrolling ? o.oScroll.iBarWidth+"px" : "0px"; - - if ( o.nTFoot !== null ) - { - nScrollFootTable.style.width = _fnStringToCss( iOuterWidth ); - nScrollFootInner.style.width = _fnStringToCss( iOuterWidth ); - nScrollFootInner.style.paddingRight = bScrolling ? o.oScroll.iBarWidth+"px" : "0px"; - } - - /* Adjust the position of the header in case we loose the y-scrollbar */ - $(nScrollBody).scroll(); - - /* If sorting or filtering has occurred, jump the scrolling back to the top */ - if ( o.bSorted || o.bFiltered ) - { - nScrollBody.scrollTop = 0; - } } - - - /** - * Apply a given function to the display child nodes of an element array (typically - * TD children of TR rows - * @param {function} fn Method to apply to the objects - * @param array {nodes} an1 List of elements to look through for display children - * @param array {nodes} an2 Another list (identical structure to the first) - optional - * @memberof DataTable#oApi - */ - function _fnApplyToChildren( fn, an1, an2 ) - { - var index=0, i=0, iLen=an1.length; - var nNode1, nNode2; - - while ( i < iLen ) - { - nNode1 = an1[i].firstChild; - nNode2 = an2 ? an2[i].firstChild : null; - while ( nNode1 ) - { - if ( nNode1.nodeType === 1 ) - { - if ( an2 ) - { - fn( nNode1, nNode2, index ); + } + + + /** + * Build a regular expression object suitable for searching a table + * @param {string} sSearch string to search for + * @param {bool} bRegex treat as a regular expression or not + * @param {bool} bSmart perform smart filtering or not + * @param {bool} bCaseInsensitive Do case insensitive matching or not + * @returns {RegExp} constructed object + * @memberof DataTable#oApi + */ + function _fnFilterCreateSearch( search, regex, smart, caseInsensitive ) + { + search = regex ? + search : + _fnEscapeRegex( search ); + + if ( smart ) { + /* For smart filtering we want to allow the search to work regardless of + * word order. We also want double quoted text to be preserved, so word + * order is important - a la google. So this is what we want to + * generate: + * + * ^(?=.*?\bone\b)(?=.*?\btwo three\b)(?=.*?\bfour\b).*$ + */ + var a = $.map( search.match( /"[^"]+"|[^ ]+/g ) || [''], function ( word ) { + if ( word.charAt(0) === '"' ) { + var m = word.match( /^"(.*)"$/ ); + word = m ? m[1] : word; + } + + return word.replace('"', ''); + } ); + + search = '^(?=.*?'+a.join( ')(?=.*?' )+').*$'; + } + + return new RegExp( search, caseInsensitive ? 'i' : '' ); + } + + + /** + * Escape a string such that it can be used in a regular expression + * @param {string} sVal string to escape + * @returns {string} escaped string + * @memberof DataTable#oApi + */ + function _fnEscapeRegex ( sVal ) + { + return sVal.replace( _re_escape_regex, '\\$1' ); + } + + + + var __filter_div = $('<div>')[0]; + var __filter_div_textContent = __filter_div.textContent !== undefined; + + // Update the filtering data for each row if needed (by invalidation or first run) + function _fnFilterData ( settings ) + { + var columns = settings.aoColumns; + var column; + var i, j, ien, jen, filterData, cellData, row; + var fomatters = DataTable.ext.type.search; + var wasInvalidated = false; + + for ( i=0, ien=settings.aoData.length ; i<ien ; i++ ) { + row = settings.aoData[i]; + + if ( ! row._aFilterData ) { + filterData = []; + + for ( j=0, jen=columns.length ; j<jen ; j++ ) { + column = columns[j]; + + if ( column.bSearchable ) { + cellData = _fnGetCellData( settings, i, j, 'filter' ); + + if ( fomatters[ column.sType ] ) { + cellData = fomatters[ column.sType ]( cellData ); } - else - { - fn( nNode1, index ); + + // Search in DataTables 1.10 is string based. In 1.11 this + // should be altered to also allow strict type checking. + if ( cellData === null ) { + cellData = ''; + } + + if ( typeof cellData !== 'string' && cellData.toString ) { + cellData = cellData.toString(); } - index++; } - nNode1 = nNode1.nextSibling; - nNode2 = an2 ? nNode2.nextSibling : null; + else { + cellData = ''; + } + + // If it looks like there is an HTML entity in the string, + // attempt to decode it so sorting works as expected. Note that + // we could use a single line of jQuery to do this, but the DOM + // method used here is much faster http://jsperf.com/html-decode + if ( cellData.indexOf && cellData.indexOf('&') !== -1 ) { + __filter_div.innerHTML = cellData; + cellData = __filter_div_textContent ? + __filter_div.textContent : + __filter_div.innerText; + } + + if ( cellData.replace ) { + cellData = cellData.replace(/[\r\n]/g, ''); + } + + filterData.push( cellData ); } - i++; + + row._aFilterData = filterData; + row._sFilterRow = filterData.join(' '); + wasInvalidated = true; } } - - /** - * Convert a CSS unit width to pixels (e.g. 2em) - * @param {string} sWidth width to be converted - * @param {node} nParent parent to get the with for (required for relative widths) - optional - * @returns {int} iWidth width in pixels - * @memberof DataTable#oApi - */ - function _fnConvertToWidth ( sWidth, nParent ) - { - if ( !sWidth || sWidth === null || sWidth === '' ) - { - return 0; - } - - if ( !nParent ) - { - nParent = document.body; + + return wasInvalidated; + } + + + /** + * Convert from the internal Hungarian notation to camelCase for external + * interaction + * @param {object} obj Object to convert + * @returns {object} Inverted object + * @memberof DataTable#oApi + */ + function _fnSearchToCamel ( obj ) + { + return { + search: obj.sSearch, + smart: obj.bSmart, + regex: obj.bRegex, + caseInsensitive: obj.bCaseInsensitive + }; + } + + + + /** + * Convert from camelCase notation to the internal Hungarian. We could use the + * Hungarian convert function here, but this is cleaner + * @param {object} obj Object to convert + * @returns {object} Inverted object + * @memberof DataTable#oApi + */ + function _fnSearchToHung ( obj ) + { + return { + sSearch: obj.search, + bSmart: obj.smart, + bRegex: obj.regex, + bCaseInsensitive: obj.caseInsensitive + }; + } + + /** + * Generate the node required for the info display + * @param {object} oSettings dataTables settings object + * @returns {node} Information element + * @memberof DataTable#oApi + */ + function _fnFeatureHtmlInfo ( settings ) + { + var + tid = settings.sTableId, + nodes = settings.aanFeatures.i, + n = $('<div/>', { + 'class': settings.oClasses.sInfo, + 'id': ! nodes ? tid+'_info' : null + } ); + + if ( ! nodes ) { + // Update display on each draw + settings.aoDrawCallback.push( { + "fn": _fnUpdateInfo, + "sName": "information" + } ); + + n + .attr( 'role', 'status' ) + .attr( 'aria-live', 'polite' ); + + // Table is described by our info div + $(settings.nTable).attr( 'aria-describedby', tid+'_info' ); + } + + return n[0]; + } + + + /** + * Update the information elements in the display + * @param {object} settings dataTables settings object + * @memberof DataTable#oApi + */ + function _fnUpdateInfo ( settings ) + { + /* Show information about the table */ + var nodes = settings.aanFeatures.i; + if ( nodes.length === 0 ) { + return; + } + + var + lang = settings.oLanguage, + start = settings._iDisplayStart+1, + end = settings.fnDisplayEnd(), + max = settings.fnRecordsTotal(), + total = settings.fnRecordsDisplay(), + out = total ? + lang.sInfo : + lang.sInfoEmpty; + + if ( total !== max ) { + /* Record set after filtering */ + out += ' ' + lang.sInfoFiltered; + } + + // Convert the macros + out += lang.sInfoPostFix; + out = _fnInfoMacros( settings, out ); + + var callback = lang.fnInfoCallback; + if ( callback !== null ) { + out = callback.call( settings.oInstance, + settings, start, end, max, total, out + ); + } + + $(nodes).html( out ); + } + + + function _fnInfoMacros ( settings, str ) + { + // When infinite scrolling, we are always starting at 1. _iDisplayStart is used only + // internally + var + formatter = settings.fnFormatNumber, + start = settings._iDisplayStart+1, + len = settings._iDisplayLength, + vis = settings.fnRecordsDisplay(), + all = len === -1; + + return str. + replace(/_START_/g, formatter.call( settings, start ) ). + replace(/_END_/g, formatter.call( settings, settings.fnDisplayEnd() ) ). + replace(/_MAX_/g, formatter.call( settings, settings.fnRecordsTotal() ) ). + replace(/_TOTAL_/g, formatter.call( settings, vis ) ). + replace(/_PAGE_/g, formatter.call( settings, all ? 1 : Math.ceil( start / len ) ) ). + replace(/_PAGES_/g, formatter.call( settings, all ? 1 : Math.ceil( vis / len ) ) ); + } + + + + /** + * Draw the table for the first time, adding all required features + * @param {object} settings dataTables settings object + * @memberof DataTable#oApi + */ + function _fnInitialise ( settings ) + { + var i, iLen, iAjaxStart=settings.iInitDisplayStart; + var columns = settings.aoColumns, column; + var features = settings.oFeatures; + + /* Ensure that the table data is fully initialised */ + if ( ! settings.bInitialised ) { + setTimeout( function(){ _fnInitialise( settings ); }, 200 ); + return; + } + + /* Show the display HTML options */ + _fnAddOptionsHtml( settings ); + + /* Build and draw the header / footer for the table */ + _fnBuildHead( settings ); + _fnDrawHead( settings, settings.aoHeader ); + _fnDrawHead( settings, settings.aoFooter ); + + /* Okay to show that something is going on now */ + _fnProcessingDisplay( settings, true ); + + /* Calculate sizes for columns */ + if ( features.bAutoWidth ) { + _fnCalculateColumnWidths( settings ); + } + + for ( i=0, iLen=columns.length ; i<iLen ; i++ ) { + column = columns[i]; + + if ( column.sWidth ) { + column.nTh.style.width = _fnStringToCss( column.sWidth ); } - - var iWidth; - var nTmp = document.createElement( "div" ); - nTmp.style.width = _fnStringToCss( sWidth ); - - nParent.appendChild( nTmp ); - iWidth = nTmp.offsetWidth; - nParent.removeChild( nTmp ); - - return ( iWidth ); } - - - /** - * Calculate the width of columns for the table - * @param {object} oSettings dataTables settings object - * @memberof DataTable#oApi - */ - function _fnCalculateColumnWidths ( oSettings ) - { - var iTableWidth = oSettings.nTable.offsetWidth; - var iUserInputs = 0; - var iTmpWidth; - var iVisibleColumns = 0; - var iColums = oSettings.aoColumns.length; - var i, iIndex, iCorrector, iWidth; - var oHeaders = $('th', oSettings.nTHead); - var widthAttr = oSettings.nTable.getAttribute('width'); - var nWrapper = oSettings.nTable.parentNode; - - /* Convert any user input sizes into pixel sizes */ - for ( i=0 ; i<iColums ; i++ ) - { - if ( oSettings.aoColumns[i].bVisible ) - { - iVisibleColumns++; - - if ( oSettings.aoColumns[i].sWidth !== null ) - { - iTmpWidth = _fnConvertToWidth( oSettings.aoColumns[i].sWidthOrig, - nWrapper ); - if ( iTmpWidth !== null ) - { - oSettings.aoColumns[i].sWidth = _fnStringToCss( iTmpWidth ); - } - - iUserInputs++; + + // If there is default sorting required - let's do it. The sort function + // will do the drawing for us. Otherwise we draw the table regardless of the + // Ajax source - this allows the table to look initialised for Ajax sourcing + // data (show 'loading' message possibly) + _fnReDraw( settings ); + + // Server-side processing init complete is done by _fnAjaxUpdateDraw + var dataSrc = _fnDataSource( settings ); + if ( dataSrc != 'ssp' ) { + // if there is an ajax source load the data + if ( dataSrc == 'ajax' ) { + _fnBuildAjax( settings, [], function(json) { + var aData = _fnAjaxDataSrc( settings, json ); + + // Got the data - add it to the table + for ( i=0 ; i<aData.length ; i++ ) { + _fnAddData( settings, aData[i] ); } - } + + // Reset the init display for cookie saving. We've already done + // a filter, and therefore cleared it before. So we need to make + // it appear 'fresh' + settings.iInitDisplayStart = iAjaxStart; + + _fnReDraw( settings ); + + _fnProcessingDisplay( settings, false ); + _fnInitComplete( settings, json ); + }, settings ); } - - /* If the number of columns in the DOM equals the number that we have to process in - * DataTables, then we can use the offsets that are created by the web-browser. No custom - * sizes can be set in order for this to happen, nor scrolling used - */ - if ( iColums == oHeaders.length && iUserInputs === 0 && iVisibleColumns == iColums && - oSettings.oScroll.sX === "" && oSettings.oScroll.sY === "" ) - { - for ( i=0 ; i<oSettings.aoColumns.length ; i++ ) - { - iTmpWidth = $(oHeaders[i]).width(); - if ( iTmpWidth !== null ) - { - oSettings.aoColumns[i].sWidth = _fnStringToCss( iTmpWidth ); - } - } + else { + _fnProcessingDisplay( settings, false ); + _fnInitComplete( settings ); } - else - { - /* Otherwise we are going to have to do some calculations to get the width of each column. - * Construct a 1 row table with the widest node in the data, and any user defined widths, - * then insert it into the DOM and allow the browser to do all the hard work of - * calculating table widths. - */ - var - nCalcTmp = oSettings.nTable.cloneNode( false ), - nTheadClone = oSettings.nTHead.cloneNode(true), - nBody = document.createElement( 'tbody' ), - nTr = document.createElement( 'tr' ), - nDivSizing; - - nCalcTmp.removeAttribute( "id" ); - nCalcTmp.appendChild( nTheadClone ); - if ( oSettings.nTFoot !== null ) - { - nCalcTmp.appendChild( oSettings.nTFoot.cloneNode(true) ); - _fnApplyToChildren( function(n) { - n.style.width = ""; - }, nCalcTmp.getElementsByTagName('tr') ); - } - - nCalcTmp.appendChild( nBody ); - nBody.appendChild( nTr ); - - /* Remove any sizing that was previously applied by the styles */ - var jqColSizing = $('thead th', nCalcTmp); - if ( jqColSizing.length === 0 ) - { - jqColSizing = $('tbody tr:eq(0)>td', nCalcTmp); - } - - /* Apply custom sizing to the cloned header */ - var nThs = _fnGetUniqueThs( oSettings, nTheadClone ); - iCorrector = 0; - for ( i=0 ; i<iColums ; i++ ) - { - var oColumn = oSettings.aoColumns[i]; - if ( oColumn.bVisible && oColumn.sWidthOrig !== null && oColumn.sWidthOrig !== "" ) - { - nThs[i-iCorrector].style.width = _fnStringToCss( oColumn.sWidthOrig ); - } - else if ( oColumn.bVisible ) - { - nThs[i-iCorrector].style.width = ""; - } - else - { - iCorrector++; - } - } - - /* Find the biggest td for each column and put it into the table */ - for ( i=0 ; i<iColums ; i++ ) - { - if ( oSettings.aoColumns[i].bVisible ) - { - var nTd = _fnGetWidestNode( oSettings, i ); - if ( nTd !== null ) - { - nTd = nTd.cloneNode(true); - if ( oSettings.aoColumns[i].sContentPadding !== "" ) - { - nTd.innerHTML += oSettings.aoColumns[i].sContentPadding; - } - nTr.appendChild( nTd ); - } - } - } - - /* Build the table and 'display' it */ - nWrapper.appendChild( nCalcTmp ); - - /* When scrolling (X or Y) we want to set the width of the table as appropriate. However, - * when not scrolling leave the table width as it is. This results in slightly different, - * but I think correct behaviour - */ - if ( oSettings.oScroll.sX !== "" && oSettings.oScroll.sXInner !== "" ) - { - nCalcTmp.style.width = _fnStringToCss(oSettings.oScroll.sXInner); - } - else if ( oSettings.oScroll.sX !== "" ) - { - nCalcTmp.style.width = ""; - if ( $(nCalcTmp).width() < nWrapper.offsetWidth ) - { - nCalcTmp.style.width = _fnStringToCss( nWrapper.offsetWidth ); - } - } - else if ( oSettings.oScroll.sY !== "" ) - { - nCalcTmp.style.width = _fnStringToCss( nWrapper.offsetWidth ); - } - else if ( widthAttr ) - { - nCalcTmp.style.width = _fnStringToCss( widthAttr ); - } - nCalcTmp.style.visibility = "hidden"; - - /* Scrolling considerations */ - _fnScrollingWidthAdjust( oSettings, nCalcTmp ); - - /* Read the width's calculated by the browser and store them for use by the caller. We - * first of all try to use the elements in the body, but it is possible that there are - * no elements there, under which circumstances we use the header elements - */ - var oNodes = $("tbody tr:eq(0)", nCalcTmp).children(); - if ( oNodes.length === 0 ) - { - oNodes = _fnGetUniqueThs( oSettings, $('thead', nCalcTmp)[0] ); - } - - /* Browsers need a bit of a hand when a width is assigned to any columns when - * x-scrolling as they tend to collapse the table to the min-width, even if - * we sent the column widths. So we need to keep track of what the table width - * should be by summing the user given values, and the automatic values - */ - if ( oSettings.oScroll.sX !== "" ) - { - var iTotal = 0; - iCorrector = 0; - for ( i=0 ; i<oSettings.aoColumns.length ; i++ ) - { - if ( oSettings.aoColumns[i].bVisible ) - { - if ( oSettings.aoColumns[i].sWidthOrig === null ) - { - iTotal += $(oNodes[iCorrector]).outerWidth(); - } - else - { - iTotal += parseInt(oSettings.aoColumns[i].sWidth.replace('px',''), 10) + - ($(oNodes[iCorrector]).outerWidth() - $(oNodes[iCorrector]).width()); - } - iCorrector++; + } + } + + + /** + * Draw the table for the first time, adding all required features + * @param {object} oSettings dataTables settings object + * @param {object} [json] JSON from the server that completed the table, if using Ajax source + * with client-side processing (optional) + * @memberof DataTable#oApi + */ + function _fnInitComplete ( settings, json ) + { + settings._bInitComplete = true; + + // On an Ajax load we now have data and therefore want to apply the column + // sizing + if ( json ) { + _fnAdjustColumnSizing( settings ); + } + + _fnCallbackFire( settings, 'aoInitComplete', 'init', [settings, json] ); + } + + + function _fnLengthChange ( settings, val ) + { + var len = parseInt( val, 10 ); + settings._iDisplayLength = len; + + _fnLengthOverflow( settings ); + + // Fire length change event + _fnCallbackFire( settings, null, 'length', [settings, len] ); + } + + + /** + * Generate the node required for user display length changing + * @param {object} settings dataTables settings object + * @returns {node} Display length feature node + * @memberof DataTable#oApi + */ + function _fnFeatureHtmlLength ( settings ) + { + var + classes = settings.oClasses, + tableId = settings.sTableId, + menu = settings.aLengthMenu, + d2 = $.isArray( menu[0] ), + lengths = d2 ? menu[0] : menu, + language = d2 ? menu[1] : menu; + + var select = $('<select/>', { + 'name': tableId+'_length', + 'aria-controls': tableId, + 'class': classes.sLengthSelect + } ); + + for ( var i=0, ien=lengths.length ; i<ien ; i++ ) { + select[0][ i ] = new Option( language[i], lengths[i] ); + } + + var div = $('<div><label/></div>').addClass( classes.sLength ); + if ( ! settings.aanFeatures.l ) { + div[0].id = tableId+'_length'; + } + + div.children().append( + settings.oLanguage.sLengthMenu.replace( '_MENU_', select[0].outerHTML ) + ); + + // Can't use `select` variable as user might provide their own and the + // reference is broken by the use of outerHTML + $('select', div) + .val( settings._iDisplayLength ) + .bind( 'change.DT', function(e) { + _fnLengthChange( settings, $(this).val() ); + _fnDraw( settings ); + } ); + + // Update node value whenever anything changes the table's length + $(settings.nTable).bind( 'length.dt.DT', function (e, s, len) { + if ( settings === s ) { + $('select', div).val( len ); + } + } ); + + return div[0]; + } + + + + /* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * + * Note that most of the paging logic is done in + * DataTable.ext.pager + */ + + /** + * Generate the node required for default pagination + * @param {object} oSettings dataTables settings object + * @returns {node} Pagination feature node + * @memberof DataTable#oApi + */ + function _fnFeatureHtmlPaginate ( settings ) + { + var + type = settings.sPaginationType, + plugin = DataTable.ext.pager[ type ], + modern = typeof plugin === 'function', + redraw = function( settings ) { + _fnDraw( settings ); + }, + node = $('<div/>').addClass( settings.oClasses.sPaging + type )[0], + features = settings.aanFeatures; + + if ( ! modern ) { + plugin.fnInit( settings, node, redraw ); + } + + /* Add a draw callback for the pagination on first instance, to update the paging display */ + if ( ! features.p ) + { + node.id = settings.sTableId+'_paginate'; + + settings.aoDrawCallback.push( { + "fn": function( settings ) { + if ( modern ) { + var + start = settings._iDisplayStart, + len = settings._iDisplayLength, + visRecords = settings.fnRecordsDisplay(), + all = len === -1, + page = all ? 0 : Math.ceil( start / len ), + pages = all ? 1 : Math.ceil( visRecords / len ), + buttons = plugin(page, pages), + i, ien; + + for ( i=0, ien=features.p.length ; i<ien ; i++ ) { + _fnRenderer( settings, 'pageButton' )( + settings, features.p[i], i, buttons, page, pages + ); } } - - nCalcTmp.style.width = _fnStringToCss( iTotal ); - oSettings.nTable.style.width = _fnStringToCss( iTotal ); - } - - iCorrector = 0; - for ( i=0 ; i<oSettings.aoColumns.length ; i++ ) - { - if ( oSettings.aoColumns[i].bVisible ) - { - iWidth = $(oNodes[iCorrector]).width(); - if ( iWidth !== null && iWidth > 0 ) - { - oSettings.aoColumns[i].sWidth = _fnStringToCss( iWidth ); - } - iCorrector++; + else { + plugin.fnUpdate( settings, redraw ); } - } - - var cssWidth = $(nCalcTmp).css('width'); - oSettings.nTable.style.width = (cssWidth.indexOf('%') !== -1) ? - cssWidth : _fnStringToCss( $(nCalcTmp).outerWidth() ); - nCalcTmp.parentNode.removeChild( nCalcTmp ); - } - - if ( widthAttr ) - { - oSettings.nTable.style.width = _fnStringToCss( widthAttr ); - } + }, + "sName": "pagination" + } ); } - - - /** - * Adjust a table's width to take account of scrolling - * @param {object} oSettings dataTables settings object - * @param {node} n table node - * @memberof DataTable#oApi - */ - function _fnScrollingWidthAdjust ( oSettings, n ) + + return node; + } + + + /** + * Alter the display settings to change the page + * @param {object} settings DataTables settings object + * @param {string|int} action Paging action to take: "first", "previous", + * "next" or "last" or page number to jump to (integer) + * @param [bool] redraw Automatically draw the update or not + * @returns {bool} true page has changed, false - no change + * @memberof DataTable#oApi + */ + function _fnPageChange ( settings, action, redraw ) + { + var + start = settings._iDisplayStart, + len = settings._iDisplayLength, + records = settings.fnRecordsDisplay(); + + if ( records === 0 || len === -1 ) { - if ( oSettings.oScroll.sX === "" && oSettings.oScroll.sY !== "" ) - { - /* When y-scrolling only, we want to remove the width of the scroll bar so the table - * + scroll bar will fit into the area avaialble. - */ - var iOrigWidth = $(n).width(); - n.style.width = _fnStringToCss( $(n).outerWidth()-oSettings.oScroll.iBarWidth ); - } - else if ( oSettings.oScroll.sX !== "" ) - { - /* When x-scrolling both ways, fix the table at it's current size, without adjusting */ - n.style.width = _fnStringToCss( $(n).outerWidth() ); - } + start = 0; } - - - /** - * Get the widest node - * @param {object} oSettings dataTables settings object - * @param {int} iCol column of interest - * @returns {node} widest table node - * @memberof DataTable#oApi - */ - function _fnGetWidestNode( oSettings, iCol ) + else if ( typeof action === "number" ) { - var iMaxIndex = _fnGetMaxLenString( oSettings, iCol ); - if ( iMaxIndex < 0 ) + start = action * len; + + if ( start > records ) { - return null; + start = 0; } - - if ( oSettings.aoData[iMaxIndex].nTr === null ) + } + else if ( action == "first" ) + { + start = 0; + } + else if ( action == "previous" ) + { + start = len >= 0 ? + start - len : + 0; + + if ( start < 0 ) { - var n = document.createElement('td'); - n.innerHTML = _fnGetCellData( oSettings, iMaxIndex, iCol, '' ); - return n; + start = 0; } - return _fnGetTdNodes(oSettings, iMaxIndex)[iCol]; } - - - /** - * Get the maximum strlen for each data column - * @param {object} oSettings dataTables settings object - * @param {int} iCol column of interest - * @returns {string} max string length for each column - * @memberof DataTable#oApi - */ - function _fnGetMaxLenString( oSettings, iCol ) + else if ( action == "next" ) { - var iMax = -1; - var iMaxIndex = -1; - - for ( var i=0 ; i<oSettings.aoData.length ; i++ ) + if ( start + len < records ) { - var s = _fnGetCellData( oSettings, i, iCol, 'display' )+""; - s = s.replace( /<.*?>/g, "" ); - if ( s.length > iMax ) - { - iMax = s.length; - iMaxIndex = i; - } + start += len; } - - return iMaxIndex; } - - - /** - * Append a CSS unit (only if required) to a string - * @param {array} aArray1 first array - * @param {array} aArray2 second array - * @returns {int} 0 if match, 1 if length is different, 2 if no match - * @memberof DataTable#oApi - */ - function _fnStringToCss( s ) + else if ( action == "last" ) { - if ( s === null ) - { - return "0px"; + start = Math.floor( (records-1) / len) * len; + } + else + { + _fnLog( settings, 0, "Unknown paging action: "+action, 5 ); + } + + var changed = settings._iDisplayStart !== start; + settings._iDisplayStart = start; + + if ( changed ) { + _fnCallbackFire( settings, null, 'page', [settings] ); + + if ( redraw ) { + _fnDraw( settings ); } - - if ( typeof s == 'number' ) - { - if ( s < 0 ) - { - return "0px"; + } + + return changed; + } + + + + /** + * Generate the node required for the processing node + * @param {object} settings dataTables settings object + * @returns {node} Processing element + * @memberof DataTable#oApi + */ + function _fnFeatureHtmlProcessing ( settings ) + { + return $('<div/>', { + 'id': ! settings.aanFeatures.r ? settings.sTableId+'_processing' : null, + 'class': settings.oClasses.sProcessing + } ) + .html( settings.oLanguage.sProcessing ) + .insertBefore( settings.nTable )[0]; + } + + + /** + * Display or hide the processing indicator + * @param {object} settings dataTables settings object + * @param {bool} show Show the processing indicator (true) or not (false) + * @memberof DataTable#oApi + */ + function _fnProcessingDisplay ( settings, show ) + { + if ( settings.oFeatures.bProcessing ) { + $(settings.aanFeatures.r).css( 'display', show ? 'block' : 'none' ); + } + + _fnCallbackFire( settings, null, 'processing', [settings, show] ); + } + + /** + * Add any control elements for the table - specifically scrolling + * @param {object} settings dataTables settings object + * @returns {node} Node to add to the DOM + * @memberof DataTable#oApi + */ + function _fnFeatureHtmlTable ( settings ) + { + var table = $(settings.nTable); + + // Add the ARIA grid role to the table + table.attr( 'role', 'grid' ); + + // Scrolling from here on in + var scroll = settings.oScroll; + + if ( scroll.sX === '' && scroll.sY === '' ) { + return settings.nTable; + } + + var scrollX = scroll.sX; + var scrollY = scroll.sY; + var classes = settings.oClasses; + var caption = table.children('caption'); + var captionSide = caption.length ? caption[0]._captionSide : null; + var headerClone = $( table[0].cloneNode(false) ); + var footerClone = $( table[0].cloneNode(false) ); + var footer = table.children('tfoot'); + var _div = '<div/>'; + var size = function ( s ) { + return !s ? null : _fnStringToCss( s ); + }; + + // This is fairly messy, but with x scrolling enabled, if the table has a + // width attribute, regardless of any width applied using the column width + // options, the browser will shrink or grow the table as needed to fit into + // that 100%. That would make the width options useless. So we remove it. + // This is okay, under the assumption that width:100% is applied to the + // table in CSS (it is in the default stylesheet) which will set the table + // width as appropriate (the attribute and css behave differently...) + if ( scroll.sX && table.attr('width') === '100%' ) { + table.removeAttr('width'); + } + + if ( ! footer.length ) { + footer = null; + } + + /* + * The HTML structure that we want to generate in this function is: + * div - scroller + * div - scroll head + * div - scroll head inner + * table - scroll head table + * thead - thead + * div - scroll body + * table - table (master table) + * thead - thead clone for sizing + * tbody - tbody + * div - scroll foot + * div - scroll foot inner + * table - scroll foot table + * tfoot - tfoot + */ + var scroller = $( _div, { 'class': classes.sScrollWrapper } ) + .append( + $(_div, { 'class': classes.sScrollHead } ) + .css( { + overflow: 'hidden', + position: 'relative', + border: 0, + width: scrollX ? size(scrollX) : '100%' + } ) + .append( + $(_div, { 'class': classes.sScrollHeadInner } ) + .css( { + 'box-sizing': 'content-box', + width: scroll.sXInner || '100%' + } ) + .append( + headerClone + .removeAttr('id') + .css( 'margin-left', 0 ) + .append( captionSide === 'top' ? caption : null ) + .append( + table.children('thead') + ) + ) + ) + ) + .append( + $(_div, { 'class': classes.sScrollBody } ) + .css( { + overflow: 'auto', + height: size( scrollY ), + width: size( scrollX ) + } ) + .append( table ) + ); + + if ( footer ) { + scroller.append( + $(_div, { 'class': classes.sScrollFoot } ) + .css( { + overflow: 'hidden', + border: 0, + width: scrollX ? size(scrollX) : '100%' + } ) + .append( + $(_div, { 'class': classes.sScrollFootInner } ) + .append( + footerClone + .removeAttr('id') + .css( 'margin-left', 0 ) + .append( captionSide === 'bottom' ? caption : null ) + .append( + table.children('tfoot') + ) + ) + ) + ); + } + + var children = scroller.children(); + var scrollHead = children[0]; + var scrollBody = children[1]; + var scrollFoot = footer ? children[2] : null; + + // When the body is scrolled, then we also want to scroll the headers + if ( scrollX ) { + $(scrollBody).on( 'scroll.DT', function (e) { + var scrollLeft = this.scrollLeft; + + scrollHead.scrollLeft = scrollLeft; + + if ( footer ) { + scrollFoot.scrollLeft = scrollLeft; } - return s+"px"; - } - - /* Check if the last character is not 0-9 */ - var c = s.charCodeAt( s.length-1 ); - if (c < 0x30 || c > 0x39) - { - return s; - } - return s+"px"; + } ); } - - - /** - * Get the width of a scroll bar in this browser being used - * @returns {int} width in pixels - * @memberof DataTable#oApi - */ - function _fnScrollBarWidth () - { - var inner = document.createElement('p'); - var style = inner.style; - style.width = "100%"; - style.height = "200px"; - style.padding = "0px"; - - var outer = document.createElement('div'); - style = outer.style; - style.position = "absolute"; - style.top = "0px"; - style.left = "0px"; - style.visibility = "hidden"; - style.width = "200px"; - style.height = "150px"; - style.padding = "0px"; - style.overflow = "hidden"; - outer.appendChild(inner); - - document.body.appendChild(outer); - var w1 = inner.offsetWidth; - outer.style.overflow = 'scroll'; - var w2 = inner.offsetWidth; - if ( w1 == w2 ) - { - w2 = outer.clientWidth; - } - - document.body.removeChild(outer); - return (w1 - w2); + + settings.nScrollHead = scrollHead; + settings.nScrollBody = scrollBody; + settings.nScrollFoot = scrollFoot; + + // On redraw - align columns + settings.aoDrawCallback.push( { + "fn": _fnScrollDraw, + "sName": "scrolling" + } ); + + return scroller[0]; + } + + + + /** + * Update the header, footer and body tables for resizing - i.e. column + * alignment. + * + * Welcome to the most horrible function DataTables. The process that this + * function follows is basically: + * 1. Re-create the table inside the scrolling div + * 2. Take live measurements from the DOM + * 3. Apply the measurements to align the columns + * 4. Clean up + * + * @param {object} settings dataTables settings object + * @memberof DataTable#oApi + */ + function _fnScrollDraw ( settings ) + { + // Given that this is such a monster function, a lot of variables are use + // to try and keep the minimised size as small as possible + var + scroll = settings.oScroll, + scrollX = scroll.sX, + scrollXInner = scroll.sXInner, + scrollY = scroll.sY, + barWidth = scroll.iBarWidth, + divHeader = $(settings.nScrollHead), + divHeaderStyle = divHeader[0].style, + divHeaderInner = divHeader.children('div'), + divHeaderInnerStyle = divHeaderInner[0].style, + divHeaderTable = divHeaderInner.children('table'), + divBodyEl = settings.nScrollBody, + divBody = $(divBodyEl), + divBodyStyle = divBodyEl.style, + divFooter = $(settings.nScrollFoot), + divFooterInner = divFooter.children('div'), + divFooterTable = divFooterInner.children('table'), + header = $(settings.nTHead), + table = $(settings.nTable), + tableEl = table[0], + tableStyle = tableEl.style, + footer = settings.nTFoot ? $(settings.nTFoot) : null, + browser = settings.oBrowser, + ie67 = browser.bScrollOversize, + headerTrgEls, footerTrgEls, + headerSrcEls, footerSrcEls, + headerCopy, footerCopy, + headerWidths=[], footerWidths=[], + headerContent=[], + idx, correction, sanityWidth, + zeroOut = function(nSizer) { + var style = nSizer.style; + style.paddingTop = "0"; + style.paddingBottom = "0"; + style.borderTopWidth = "0"; + style.borderBottomWidth = "0"; + style.height = 0; + }; + + /* + * 1. Re-create the table inside the scrolling div + */ + + // Remove the old minimised thead and tfoot elements in the inner table + table.children('thead, tfoot').remove(); + + // Clone the current header and footer elements and then place it into the inner table + headerCopy = header.clone().prependTo( table ); + headerTrgEls = header.find('tr'); // original header is in its own table + headerSrcEls = headerCopy.find('tr'); + headerCopy.find('th, td').removeAttr('tabindex'); + + if ( footer ) { + footerCopy = footer.clone().prependTo( table ); + footerTrgEls = footer.find('tr'); // the original tfoot is in its own table and must be sized + footerSrcEls = footerCopy.find('tr'); } - - /** - * Change the order of the table - * @param {object} oSettings dataTables settings object - * @param {bool} bApplyClasses optional - should we apply classes or not - * @memberof DataTable#oApi + + + /* + * 2. Take live measurements from the DOM - do not alter the DOM itself! */ - function _fnSort ( oSettings, bApplyClasses ) + + // Remove old sizing and apply the calculated column widths + // Get the unique column headers in the newly created (cloned) header. We want to apply the + // calculated sizes to this header + if ( ! scrollX ) { - var - i, iLen, j, jLen, k, kLen, - sDataType, nTh, - aaSort = [], - aiOrig = [], - oSort = DataTable.ext.oSort, - aoData = oSettings.aoData, - aoColumns = oSettings.aoColumns, - oAria = oSettings.oLanguage.oAria; - - /* No sorting required if server-side or no sorting array */ - if ( !oSettings.oFeatures.bServerSide && - (oSettings.aaSorting.length !== 0 || oSettings.aaSortingFixed !== null) ) - { - aaSort = ( oSettings.aaSortingFixed !== null ) ? - oSettings.aaSortingFixed.concat( oSettings.aaSorting ) : - oSettings.aaSorting.slice(); - - /* If there is a sorting data type, and a function belonging to it, then we need to - * get the data from the developer's function and apply it for this column - */ - for ( i=0 ; i<aaSort.length ; i++ ) - { - var iColumn = aaSort[i][0]; - var iVisColumn = _fnColumnIndexToVisible( oSettings, iColumn ); - sDataType = oSettings.aoColumns[ iColumn ].sSortDataType; - if ( DataTable.ext.afnSortData[sDataType] ) - { - var aData = DataTable.ext.afnSortData[sDataType].call( - oSettings.oInstance, oSettings, iColumn, iVisColumn - ); - if ( aData.length === aoData.length ) - { - for ( j=0, jLen=aoData.length ; j<jLen ; j++ ) - { - _fnSetCellData( oSettings, j, iColumn, aData[j] ); - } - } - else - { - _fnLog( oSettings, 0, "Returned data sort array (col "+iColumn+") is the wrong length" ); - } - } - } - - /* Create a value - key array of the current row positions such that we can use their - * current position during the sort, if values match, in order to perform stable sorting - */ - for ( i=0, iLen=oSettings.aiDisplayMaster.length ; i<iLen ; i++ ) - { - aiOrig[ oSettings.aiDisplayMaster[i] ] = i; - } - - /* Build an internal data array which is specific to the sort, so we can get and prep - * the data to be sorted only once, rather than needing to do it every time the sorting - * function runs. This make the sorting function a very simple comparison - */ - var iSortLen = aaSort.length; - var fnSortFormat, aDataSort; - for ( i=0, iLen=aoData.length ; i<iLen ; i++ ) - { - for ( j=0 ; j<iSortLen ; j++ ) - { - aDataSort = aoColumns[ aaSort[j][0] ].aDataSort; - - for ( k=0, kLen=aDataSort.length ; k<kLen ; k++ ) - { - sDataType = aoColumns[ aDataSort[k] ].sType; - fnSortFormat = oSort[ (sDataType ? sDataType : 'string')+"-pre" ]; - - aoData[i]._aSortData[ aDataSort[k] ] = fnSortFormat ? - fnSortFormat( _fnGetCellData( oSettings, i, aDataSort[k], 'sort' ) ) : - _fnGetCellData( oSettings, i, aDataSort[k], 'sort' ); - } - } - } - - /* Do the sort - here we want multi-column sorting based on a given data source (column) - * and sorting function (from oSort) in a certain direction. It's reasonably complex to - * follow on it's own, but this is what we want (example two column sorting): - * fnLocalSorting = function(a,b){ - * var iTest; - * iTest = oSort['string-asc']('data11', 'data12'); - * if (iTest !== 0) - * return iTest; - * iTest = oSort['numeric-desc']('data21', 'data22'); - * if (iTest !== 0) - * return iTest; - * return oSort['numeric-asc']( aiOrig[a], aiOrig[b] ); - * } - * Basically we have a test for each sorting column, if the data in that column is equal, - * test the next column. If all columns match, then we use a numeric sort on the row - * positions in the original data array to provide a stable sort. - */ - oSettings.aiDisplayMaster.sort( function ( a, b ) { - var k, l, lLen, iTest, aDataSort, sDataType; - for ( k=0 ; k<iSortLen ; k++ ) - { - aDataSort = aoColumns[ aaSort[k][0] ].aDataSort; - - for ( l=0, lLen=aDataSort.length ; l<lLen ; l++ ) - { - sDataType = aoColumns[ aDataSort[l] ].sType; - - iTest = oSort[ (sDataType ? sDataType : 'string')+"-"+aaSort[k][1] ]( - aoData[a]._aSortData[ aDataSort[l] ], - aoData[b]._aSortData[ aDataSort[l] ] - ); - - if ( iTest !== 0 ) - { - return iTest; - } - } - } - - return oSort['numeric-asc']( aiOrig[a], aiOrig[b] ); - } ); + divBodyStyle.width = '100%'; + divHeader[0].style.width = '100%'; + } + + $.each( _fnGetUniqueThs( settings, headerCopy ), function ( i, el ) { + idx = _fnVisibleToColumnIndex( settings, i ); + el.style.width = settings.aoColumns[idx].sWidth; + } ); + + if ( footer ) { + _fnApplyToChildren( function(n) { + n.style.width = ""; + }, footerSrcEls ); + } + + // If scroll collapse is enabled, when we put the headers back into the body for sizing, we + // will end up forcing the scrollbar to appear, making our measurements wrong for when we + // then hide it (end of this function), so add the header height to the body scroller. + if ( scroll.bCollapse && scrollY !== "" ) { + divBodyStyle.height = (divBody[0].offsetHeight + header[0].offsetHeight)+"px"; + } + + // Size the table as a whole + sanityWidth = table.outerWidth(); + if ( scrollX === "" ) { + // No x scrolling + tableStyle.width = "100%"; + + // IE7 will make the width of the table when 100% include the scrollbar + // - which is shouldn't. When there is a scrollbar we need to take this + // into account. + if ( ie67 && (table.find('tbody').height() > divBodyEl.offsetHeight || + divBody.css('overflow-y') == "scroll") + ) { + tableStyle.width = _fnStringToCss( table.outerWidth() - barWidth); } - - /* Alter the sorting classes to take account of the changes */ - if ( (bApplyClasses === undefined || bApplyClasses) && !oSettings.oFeatures.bDeferRender ) - { - _fnSortingClasses( oSettings ); + } + else + { + // x scrolling + if ( scrollXInner !== "" ) { + // x scroll inner has been given - use it + tableStyle.width = _fnStringToCss(scrollXInner); } - - for ( i=0, iLen=oSettings.aoColumns.length ; i<iLen ; i++ ) - { - var sTitle = aoColumns[i].sTitle.replace( /<.*?>/g, "" ); - nTh = aoColumns[i].nTh; - nTh.removeAttribute('aria-sort'); - nTh.removeAttribute('aria-label'); - - /* In ARIA only the first sorting column can be marked as sorting - no multi-sort option */ - if ( aoColumns[i].bSortable ) - { - if ( aaSort.length > 0 && aaSort[0][0] == i ) - { - nTh.setAttribute('aria-sort', aaSort[0][1]=="asc" ? "ascending" : "descending" ); - - var nextSort = (aoColumns[i].asSorting[ aaSort[0][2]+1 ]) ? - aoColumns[i].asSorting[ aaSort[0][2]+1 ] : aoColumns[i].asSorting[0]; - nTh.setAttribute('aria-label', sTitle+ - (nextSort=="asc" ? oAria.sSortAscending : oAria.sSortDescending) ); - } - else - { - nTh.setAttribute('aria-label', sTitle+ - (aoColumns[i].asSorting[0]=="asc" ? oAria.sSortAscending : oAria.sSortDescending) ); - } - } - else - { - nTh.setAttribute('aria-label', sTitle); + else if ( sanityWidth == divBody.width() && divBody.height() < table.height() ) { + // There is y-scrolling - try to take account of the y scroll bar + tableStyle.width = _fnStringToCss( sanityWidth-barWidth ); + if ( table.outerWidth() > sanityWidth-barWidth ) { + // Not possible to take account of it + tableStyle.width = _fnStringToCss( sanityWidth ); } } - - /* Tell the draw function that we have sorted the data */ - oSettings.bSorted = true; - $(oSettings.oInstance).trigger('sort', oSettings); - - /* Copy the master data into the draw array and re-draw */ - if ( oSettings.oFeatures.bFilter ) - { - /* _fnFilter() will redraw the table for us */ - _fnFilterComplete( oSettings, oSettings.oPreviousSearch, 1 ); - } - else - { - oSettings.aiDisplay = oSettings.aiDisplayMaster.slice(); - oSettings._iDisplayStart = 0; /* reset display back to page 0 */ - _fnCalculateEnd( oSettings ); - _fnDraw( oSettings ); + else { + // When all else fails + tableStyle.width = _fnStringToCss( sanityWidth ); } } - - - /** - * Attach a sort handler (click) to a node - * @param {object} oSettings dataTables settings object - * @param {node} nNode node to attach the handler to - * @param {int} iDataIndex column sorting index - * @param {function} [fnCallback] callback function - * @memberof DataTable#oApi - */ - function _fnSortAttachListener ( oSettings, nNode, iDataIndex, fnCallback ) + + // Recalculate the sanity width - now that we've applied the required width, + // before it was a temporary variable. This is required because the column + // width calculation is done before this table DOM is created. + sanityWidth = table.outerWidth(); + + // Hidden header should have zero height, so remove padding and borders. Then + // set the width based on the real headers + + // Apply all styles in one pass + _fnApplyToChildren( zeroOut, headerSrcEls ); + + // Read all widths in next pass + _fnApplyToChildren( function(nSizer) { + headerContent.push( nSizer.innerHTML ); + headerWidths.push( _fnStringToCss( $(nSizer).css('width') ) ); + }, headerSrcEls ); + + // Apply all widths in final pass + _fnApplyToChildren( function(nToSize, i) { + nToSize.style.width = headerWidths[i]; + }, headerTrgEls ); + + $(headerSrcEls).height(0); + + /* Same again with the footer if we have one */ + if ( footer ) { - _fnBindAction( nNode, {}, function (e) { - /* If the column is not sortable - don't to anything */ - if ( oSettings.aoColumns[iDataIndex].bSortable === false ) - { - return; - } - - /* - * This is a little bit odd I admit... I declare a temporary function inside the scope of - * _fnBuildHead and the click handler in order that the code presented here can be used - * twice - once for when bProcessing is enabled, and another time for when it is - * disabled, as we need to perform slightly different actions. - * Basically the issue here is that the Javascript engine in modern browsers don't - * appear to allow the rendering engine to update the display while it is still executing - * it's thread (well - it does but only after long intervals). This means that the - * 'processing' display doesn't appear for a table sort. To break the js thread up a bit - * I force an execution break by using setTimeout - but this breaks the expected - * thread continuation for the end-developer's point of view (their code would execute - * too early), so we only do it when we absolutely have to. - */ - var fnInnerSorting = function () { - var iColumn, iNextSort; - - /* If the shift key is pressed then we are multiple column sorting */ - if ( e.shiftKey ) - { - /* Are we already doing some kind of sort on this column? */ - var bFound = false; - for ( var i=0 ; i<oSettings.aaSorting.length ; i++ ) - { - if ( oSettings.aaSorting[i][0] == iDataIndex ) - { - bFound = true; - iColumn = oSettings.aaSorting[i][0]; - iNextSort = oSettings.aaSorting[i][2]+1; - - if ( !oSettings.aoColumns[iColumn].asSorting[iNextSort] ) - { - /* Reached the end of the sorting options, remove from multi-col sort */ - oSettings.aaSorting.splice( i, 1 ); - } - else - { - /* Move onto next sorting direction */ - oSettings.aaSorting[i][1] = oSettings.aoColumns[iColumn].asSorting[iNextSort]; - oSettings.aaSorting[i][2] = iNextSort; - } - break; - } - } - - /* No sort yet - add it in */ - if ( bFound === false ) - { - oSettings.aaSorting.push( [ iDataIndex, - oSettings.aoColumns[iDataIndex].asSorting[0], 0 ] ); - } - } - else - { - /* If no shift key then single column sort */ - if ( oSettings.aaSorting.length == 1 && oSettings.aaSorting[0][0] == iDataIndex ) - { - iColumn = oSettings.aaSorting[0][0]; - iNextSort = oSettings.aaSorting[0][2]+1; - if ( !oSettings.aoColumns[iColumn].asSorting[iNextSort] ) - { - iNextSort = 0; - } - oSettings.aaSorting[0][1] = oSettings.aoColumns[iColumn].asSorting[iNextSort]; - oSettings.aaSorting[0][2] = iNextSort; - } - else - { - oSettings.aaSorting.splice( 0, oSettings.aaSorting.length ); - oSettings.aaSorting.push( [ iDataIndex, - oSettings.aoColumns[iDataIndex].asSorting[0], 0 ] ); - } - } - - /* Run the sort */ - _fnSort( oSettings ); - }; /* /fnInnerSorting */ - - if ( !oSettings.oFeatures.bProcessing ) - { - fnInnerSorting(); - } - else - { - _fnProcessingDisplay( oSettings, true ); - setTimeout( function() { - fnInnerSorting(); - if ( !oSettings.oFeatures.bServerSide ) - { - _fnProcessingDisplay( oSettings, false ); - } - }, 0 ); - } - - /* Call the user specified callback function - used for async user interaction */ - if ( typeof fnCallback == 'function' ) - { - fnCallback( oSettings ); - } - } ); + _fnApplyToChildren( zeroOut, footerSrcEls ); + + _fnApplyToChildren( function(nSizer) { + footerWidths.push( _fnStringToCss( $(nSizer).css('width') ) ); + }, footerSrcEls ); + + _fnApplyToChildren( function(nToSize, i) { + nToSize.style.width = footerWidths[i]; + }, footerTrgEls ); + + $(footerSrcEls).height(0); } - - - /** - * Set the sorting classes on the header, Note: it is safe to call this function - * when bSort and bSortClasses are false - * @param {object} oSettings dataTables settings object - * @memberof DataTable#oApi + + + /* + * 3. Apply the measurements */ - function _fnSortingClasses( oSettings ) + + // "Hide" the header and footer that we used for the sizing. We need to keep + // the content of the cell so that the width applied to the header and body + // both match, but we want to hide it completely. We want to also fix their + // width to what they currently are + _fnApplyToChildren( function(nSizer, i) { + nSizer.innerHTML = '<div class="dataTables_sizing" style="height:0;overflow:hidden;">'+headerContent[i]+'</div>'; + nSizer.style.width = headerWidths[i]; + }, headerSrcEls ); + + if ( footer ) { - var i, iLen, j, jLen, iFound; - var aaSort, sClass; - var iColumns = oSettings.aoColumns.length; - var oClasses = oSettings.oClasses; - - for ( i=0 ; i<iColumns ; i++ ) - { - if ( oSettings.aoColumns[i].bSortable ) - { - $(oSettings.aoColumns[i].nTh).removeClass( oClasses.sSortAsc +" "+ oClasses.sSortDesc + - " "+ oSettings.aoColumns[i].sSortingClass ); - } + _fnApplyToChildren( function(nSizer, i) { + nSizer.innerHTML = ""; + nSizer.style.width = footerWidths[i]; + }, footerSrcEls ); + } + + // Sanity check that the table is of a sensible width. If not then we are going to get + // misalignment - try to prevent this by not allowing the table to shrink below its min width + if ( table.outerWidth() < sanityWidth ) + { + // The min width depends upon if we have a vertical scrollbar visible or not */ + correction = ((divBodyEl.scrollHeight > divBodyEl.offsetHeight || + divBody.css('overflow-y') == "scroll")) ? + sanityWidth+barWidth : + sanityWidth; + + // IE6/7 are a law unto themselves... + if ( ie67 && (divBodyEl.scrollHeight > + divBodyEl.offsetHeight || divBody.css('overflow-y') == "scroll") + ) { + tableStyle.width = _fnStringToCss( correction-barWidth ); } - - if ( oSettings.aaSortingFixed !== null ) - { - aaSort = oSettings.aaSortingFixed.concat( oSettings.aaSorting ); + + // And give the user a warning that we've stopped the table getting too small + if ( scrollX === "" || scrollXInner !== "" ) { + _fnLog( settings, 1, 'Possible column misalignment', 6 ); } - else - { - aaSort = oSettings.aaSorting.slice(); + } + else + { + correction = '100%'; + } + + // Apply to the container elements + divBodyStyle.width = _fnStringToCss( correction ); + divHeaderStyle.width = _fnStringToCss( correction ); + + if ( footer ) { + settings.nScrollFoot.style.width = _fnStringToCss( correction ); + } + + + /* + * 4. Clean up + */ + if ( ! scrollY ) { + /* IE7< puts a vertical scrollbar in place (when it shouldn't be) due to subtracting + * the scrollbar height from the visible display, rather than adding it on. We need to + * set the height in order to sort this. Don't want to do it in any other browsers. + */ + if ( ie67 ) { + divBodyStyle.height = _fnStringToCss( tableEl.offsetHeight+barWidth ); } - - /* Apply the required classes to the header */ - for ( i=0 ; i<oSettings.aoColumns.length ; i++ ) - { - if ( oSettings.aoColumns[i].bSortable ) - { - sClass = oSettings.aoColumns[i].sSortingClass; - iFound = -1; - for ( j=0 ; j<aaSort.length ; j++ ) - { - if ( aaSort[j][0] == i ) - { - sClass = ( aaSort[j][1] == "asc" ) ? - oClasses.sSortAsc : oClasses.sSortDesc; - iFound = j; - break; - } - } - $(oSettings.aoColumns[i].nTh).addClass( sClass ); - - if ( oSettings.bJUI ) - { - /* jQuery UI uses extra markup */ - var jqSpan = $("span."+oClasses.sSortIcon, oSettings.aoColumns[i].nTh); - jqSpan.removeClass(oClasses.sSortJUIAsc +" "+ oClasses.sSortJUIDesc +" "+ - oClasses.sSortJUI +" "+ oClasses.sSortJUIAscAllowed +" "+ oClasses.sSortJUIDescAllowed ); - - var sSpanClass; - if ( iFound == -1 ) - { - sSpanClass = oSettings.aoColumns[i].sSortingClassJUI; - } - else if ( aaSort[iFound][1] == "asc" ) - { - sSpanClass = oClasses.sSortJUIAsc; - } - else - { - sSpanClass = oClasses.sSortJUIDesc; - } - - jqSpan.addClass( sSpanClass ); - } - } - else - { - /* No sorting on this column, so add the base class. This will have been assigned by - * _fnAddColumn - */ - $(oSettings.aoColumns[i].nTh).addClass( oSettings.aoColumns[i].sSortingClass ); - } + } + + if ( scrollY && scroll.bCollapse ) { + divBodyStyle.height = _fnStringToCss( scrollY ); + + var iExtra = (scrollX && tableEl.offsetWidth > divBodyEl.offsetWidth) ? + barWidth : + 0; + + if ( tableEl.offsetHeight < divBodyEl.offsetHeight ) { + divBodyStyle.height = _fnStringToCss( tableEl.offsetHeight+iExtra ); } - - /* - * Apply the required classes to the table body - * Note that this is given as a feature switch since it can significantly slow down a sort - * on large data sets (adding and removing of classes is always slow at the best of times..) - * Further to this, note that this code is admittedly fairly ugly. It could be made a lot - * simpler using jQuery selectors and add/removeClass, but that is significantly slower - * (on the order of 5 times slower) - hence the direct DOM manipulation here. - * Note that for deferred drawing we do use jQuery - the reason being that taking the first - * row found to see if the whole column needs processed can miss classes since the first - * column might be new. - */ - sClass = oClasses.sSortColumn; - - if ( oSettings.oFeatures.bSort && oSettings.oFeatures.bSortClasses ) - { - var nTds = _fnGetTdNodes( oSettings ); - - /* Determine what the sorting class for each column should be */ - var iClass, iTargetCol; - var asClasses = []; - for (i = 0; i < iColumns; i++) - { - asClasses.push(""); - } - for (i = 0, iClass = 1; i < aaSort.length; i++) - { - iTargetCol = parseInt( aaSort[i][0], 10 ); - asClasses[iTargetCol] = sClass + iClass; - - if ( iClass < 3 ) - { - iClass++; - } - } - - /* Make changes to the classes for each cell as needed */ - var reClass = new RegExp(sClass + "[123]"); - var sTmpClass, sCurrentClass, sNewClass; - for ( i=0, iLen=nTds.length; i<iLen; i++ ) - { - /* Determine which column we're looking at */ - iTargetCol = i % iColumns; - - /* What is the full list of classes now */ - sCurrentClass = nTds[i].className; - /* What sorting class should be applied? */ - sNewClass = asClasses[iTargetCol]; - /* What would the new full list be if we did a replacement? */ - sTmpClass = sCurrentClass.replace(reClass, sNewClass); - - if ( sTmpClass != sCurrentClass ) - { - /* We changed something */ - nTds[i].className = $.trim( sTmpClass ); + } + + /* Finally set the width's of the header and footer tables */ + var iOuterWidth = table.outerWidth(); + divHeaderTable[0].style.width = _fnStringToCss( iOuterWidth ); + divHeaderInnerStyle.width = _fnStringToCss( iOuterWidth ); + + // Figure out if there are scrollbar present - if so then we need a the header and footer to + // provide a bit more space to allow "overflow" scrolling (i.e. past the scrollbar) + var bScrolling = table.height() > divBodyEl.clientHeight || divBody.css('overflow-y') == "scroll"; + var padding = 'padding' + (browser.bScrollbarLeft ? 'Left' : 'Right' ); + divHeaderInnerStyle[ padding ] = bScrolling ? barWidth+"px" : "0px"; + + if ( footer ) { + divFooterTable[0].style.width = _fnStringToCss( iOuterWidth ); + divFooterInner[0].style.width = _fnStringToCss( iOuterWidth ); + divFooterInner[0].style[padding] = bScrolling ? barWidth+"px" : "0px"; + } + + /* Adjust the position of the header in case we loose the y-scrollbar */ + divBody.scroll(); + + // If sorting or filtering has occurred, jump the scrolling back to the top + // only if we aren't holding the position + if ( (settings.bSorted || settings.bFiltered) && ! settings._drawHold ) { + divBodyEl.scrollTop = 0; + } + } + + + + /** + * Apply a given function to the display child nodes of an element array (typically + * TD children of TR rows + * @param {function} fn Method to apply to the objects + * @param array {nodes} an1 List of elements to look through for display children + * @param array {nodes} an2 Another list (identical structure to the first) - optional + * @memberof DataTable#oApi + */ + function _fnApplyToChildren( fn, an1, an2 ) + { + var index=0, i=0, iLen=an1.length; + var nNode1, nNode2; + + while ( i < iLen ) { + nNode1 = an1[i].firstChild; + nNode2 = an2 ? an2[i].firstChild : null; + + while ( nNode1 ) { + if ( nNode1.nodeType === 1 ) { + if ( an2 ) { + fn( nNode1, nNode2, index ); } - else if ( sNewClass.length > 0 && sCurrentClass.indexOf(sNewClass) == -1 ) - { - /* We need to add a class */ - nTds[i].className = sCurrentClass + " " + sNewClass; + else { + fn( nNode1, index ); } + + index++; } + + nNode1 = nNode1.nextSibling; + nNode2 = an2 ? nNode2.nextSibling : null; } + + i++; } - - - - /** - * Save the state of a table in a cookie such that the page can be reloaded - * @param {object} oSettings dataTables settings object - * @memberof DataTable#oApi - */ - function _fnSaveState ( oSettings ) - { - if ( !oSettings.oFeatures.bStateSave || oSettings.bDestroying ) - { - return; - } - - /* Store the interesting variables */ - var i, iLen, bInfinite=oSettings.oScroll.bInfinite; - var oState = { - "iCreate": new Date().getTime(), - "iStart": (bInfinite ? 0 : oSettings._iDisplayStart), - "iEnd": (bInfinite ? oSettings._iDisplayLength : oSettings._iDisplayEnd), - "iLength": oSettings._iDisplayLength, - "aaSorting": $.extend( true, [], oSettings.aaSorting ), - "oSearch": $.extend( true, {}, oSettings.oPreviousSearch ), - "aoSearchCols": $.extend( true, [], oSettings.aoPreSearchCols ), - "abVisCols": [] - }; - - for ( i=0, iLen=oSettings.aoColumns.length ; i<iLen ; i++ ) - { - oState.abVisCols.push( oSettings.aoColumns[i].bVisible ); + } + + + + var __re_html_remove = /<.*?>/g; + + + /** + * Calculate the width of columns for the table + * @param {object} oSettings dataTables settings object + * @memberof DataTable#oApi + */ + function _fnCalculateColumnWidths ( oSettings ) + { + var + table = oSettings.nTable, + columns = oSettings.aoColumns, + scroll = oSettings.oScroll, + scrollY = scroll.sY, + scrollX = scroll.sX, + scrollXInner = scroll.sXInner, + columnCount = columns.length, + visibleColumns = _fnGetColumns( oSettings, 'bVisible' ), + headerCells = $('th', oSettings.nTHead), + tableWidthAttr = table.getAttribute('width'), // from DOM element + tableContainer = table.parentNode, + userInputs = false, + i, column, columnIdx, width, outerWidth; + + var styleWidth = table.style.width; + if ( styleWidth && styleWidth.indexOf('%') !== -1 ) { + tableWidthAttr = styleWidth; + } + + /* Convert any user input sizes into pixel sizes */ + for ( i=0 ; i<visibleColumns.length ; i++ ) { + column = columns[ visibleColumns[i] ]; + + if ( column.sWidth !== null ) { + column.sWidth = _fnConvertToWidth( column.sWidthOrig, tableContainer ); + + userInputs = true; } - - _fnCallbackFire( oSettings, "aoStateSaveParams", 'stateSaveParams', [oSettings, oState] ); - - oSettings.fnStateSave.call( oSettings.oInstance, oSettings, oState ); } - - - /** - * Attempt to load a saved table state from a cookie - * @param {object} oSettings dataTables settings object - * @param {object} oInit DataTables init object so we can override settings - * @memberof DataTable#oApi + + /* If the number of columns in the DOM equals the number that we have to + * process in DataTables, then we can use the offsets that are created by + * the web- browser. No custom sizes can be set in order for this to happen, + * nor scrolling used */ - function _fnLoadState ( oSettings, oInit ) + if ( ! userInputs && ! scrollX && ! scrollY && + columnCount == _fnVisbleColumns( oSettings ) && + columnCount == headerCells.length + ) { + for ( i=0 ; i<columnCount ; i++ ) { + columns[i].sWidth = _fnStringToCss( headerCells.eq(i).width() ); + } + } + else { - if ( !oSettings.oFeatures.bStateSave ) - { - return; + // Otherwise construct a single row, worst case, table with the widest + // node in the data, assign any user defined widths, then insert it into + // the DOM and allow the browser to do all the hard work of calculating + // table widths + var tmpTable = $(table).clone() // don't use cloneNode - IE8 will remove events on the main table + .css( 'visibility', 'hidden' ) + .removeAttr( 'id' ); + + // Clean up the table body + tmpTable.find('tbody tr').remove(); + var tr = $('<tr/>').appendTo( tmpTable.find('tbody') ); + + // Remove any assigned widths from the footer (from scrolling) + tmpTable.find('tfoot th, tfoot td').css('width', ''); + + // Apply custom sizing to the cloned header + headerCells = _fnGetUniqueThs( oSettings, tmpTable.find('thead')[0] ); + + for ( i=0 ; i<visibleColumns.length ; i++ ) { + column = columns[ visibleColumns[i] ]; + + headerCells[i].style.width = column.sWidthOrig !== null && column.sWidthOrig !== '' ? + _fnStringToCss( column.sWidthOrig ) : + ''; } - - var oData = oSettings.fnStateLoad.call( oSettings.oInstance, oSettings ); - if ( !oData ) - { - return; + + // Find the widest cell for each column and put it into the table + if ( oSettings.aoData.length ) { + for ( i=0 ; i<visibleColumns.length ; i++ ) { + columnIdx = visibleColumns[i]; + column = columns[ columnIdx ]; + + $( _fnGetWidestNode( oSettings, columnIdx ) ) + .clone( false ) + .append( column.sContentPadding ) + .appendTo( tr ); + } } - - /* Allow custom and plug-in manipulation functions to alter the saved data set and - * cancelling of loading by returning false - */ - var abStateLoad = _fnCallbackFire( oSettings, 'aoStateLoadParams', 'stateLoadParams', [oSettings, oData] ); - if ( $.inArray( false, abStateLoad ) !== -1 ) - { - return; + + // Table has been built, attach to the document so we can work with it + tmpTable.appendTo( tableContainer ); + + // When scrolling (X or Y) we want to set the width of the table as + // appropriate. However, when not scrolling leave the table width as it + // is. This results in slightly different, but I think correct behaviour + if ( scrollX && scrollXInner ) { + tmpTable.width( scrollXInner ); } - - /* Store the saved state so it might be accessed at any time */ - oSettings.oLoadedState = $.extend( true, {}, oData ); - - /* Restore key features */ - oSettings._iDisplayStart = oData.iStart; - oSettings.iInitDisplayStart = oData.iStart; - oSettings._iDisplayEnd = oData.iEnd; - oSettings._iDisplayLength = oData.iLength; - oSettings.aaSorting = oData.aaSorting.slice(); - oSettings.saved_aaSorting = oData.aaSorting.slice(); - - /* Search filtering */ - $.extend( oSettings.oPreviousSearch, oData.oSearch ); - $.extend( true, oSettings.aoPreSearchCols, oData.aoSearchCols ); - - /* Column visibility state - * Pass back visibility settings to the init handler, but to do not here override - * the init object that the user might have passed in - */ - oInit.saved_aoColumns = []; - for ( var i=0 ; i<oData.abVisCols.length ; i++ ) - { - oInit.saved_aoColumns[i] = {}; - oInit.saved_aoColumns[i].bVisible = oData.abVisCols[i]; + else if ( scrollX ) { + tmpTable.css( 'width', 'auto' ); + + if ( tmpTable.width() < tableContainer.offsetWidth ) { + tmpTable.width( tableContainer.offsetWidth ); + } } - - _fnCallbackFire( oSettings, 'aoStateLoaded', 'stateLoaded', [oSettings, oData] ); - } - - - /** - * Create a new cookie with a value to store the state of a table - * @param {string} sName name of the cookie to create - * @param {string} sValue the value the cookie should take - * @param {int} iSecs duration of the cookie - * @param {string} sBaseName sName is made up of the base + file name - this is the base - * @param {function} fnCallback User definable function to modify the cookie - * @memberof DataTable#oApi - */ - function _fnCreateCookie ( sName, sValue, iSecs, sBaseName, fnCallback ) - { - var date = new Date(); - date.setTime( date.getTime()+(iSecs*1000) ); - - /* - * Shocking but true - it would appear IE has major issues with having the path not having - * a trailing slash on it. We need the cookie to be available based on the path, so we - * have to append the file name to the cookie name. Appalling. Thanks to vex for adding the - * patch to use at least some of the path - */ - var aParts = window.location.pathname.split('/'); - var sNameFile = sName + '_' + aParts.pop().replace(/[\/:]/g,"").toLowerCase(); - var sFullCookie, oData; - - if ( fnCallback !== null ) - { - oData = (typeof $.parseJSON === 'function') ? - $.parseJSON( sValue ) : eval( '('+sValue+')' ); - sFullCookie = fnCallback( sNameFile, oData, date.toGMTString(), - aParts.join('/')+"/" ); + else if ( scrollY ) { + tmpTable.width( tableContainer.offsetWidth ); } - else - { - sFullCookie = sNameFile + "=" + encodeURIComponent(sValue) + - "; expires=" + date.toGMTString() +"; path=" + aParts.join('/')+"/"; + else if ( tableWidthAttr ) { + tmpTable.width( tableWidthAttr ); } - - /* Are we going to go over the cookie limit of 4KiB? If so, try to delete a cookies - * belonging to DataTables. - */ - var - aCookies =document.cookie.split(';'), - iNewCookieLen = sFullCookie.split(';')[0].length, - aOldCookies = []; - - if ( iNewCookieLen+document.cookie.length+10 > 4096 ) /* Magic 10 for padding */ + + // Take into account the y scrollbar + _fnScrollingWidthAdjust( oSettings, tmpTable[0] ); + + // Browsers need a bit of a hand when a width is assigned to any columns + // when x-scrolling as they tend to collapse the table to the min-width, + // even if we sent the column widths. So we need to keep track of what + // the table width should be by summing the user given values, and the + // automatic values + if ( scrollX ) { - for ( var i=0, iLen=aCookies.length ; i<iLen ; i++ ) - { - if ( aCookies[i].indexOf( sBaseName ) != -1 ) - { - /* It's a DataTables cookie, so eval it and check the time stamp */ - var aSplitCookie = aCookies[i].split('='); - try { - oData = eval( '('+decodeURIComponent(aSplitCookie[1])+')' ); - - if ( oData && oData.iCreate ) - { - aOldCookies.push( { - "name": aSplitCookie[0], - "time": oData.iCreate - } ); - } - } - catch( e ) {} - } + var total = 0; + + for ( i=0 ; i<visibleColumns.length ; i++ ) { + column = columns[ visibleColumns[i] ]; + outerWidth = $(headerCells[i]).outerWidth(); + + total += column.sWidthOrig === null ? + outerWidth : + parseInt( column.sWidth, 10 ) + outerWidth - $(headerCells[i]).width(); } - - // Make sure we delete the oldest ones first - aOldCookies.sort( function (a, b) { - return b.time - a.time; - } ); - - // Eliminate as many old DataTables cookies as we need to - while ( iNewCookieLen + document.cookie.length + 10 > 4096 ) { - if ( aOldCookies.length === 0 ) { - // Deleted all DT cookies and still not enough space. Can't state save - return; - } - - var old = aOldCookies.pop(); - document.cookie = old.name+"=; expires=Thu, 01-Jan-1970 00:00:01 GMT; path="+ - aParts.join('/') + "/"; + + tmpTable.width( _fnStringToCss( total ) ); + table.style.width = _fnStringToCss( total ); + } + + // Get the width of each column in the constructed table + for ( i=0 ; i<visibleColumns.length ; i++ ) { + column = columns[ visibleColumns[i] ]; + width = $(headerCells[i]).width(); + + if ( width ) { + column.sWidth = _fnStringToCss( width ); } } - - document.cookie = sFullCookie; + + table.style.width = _fnStringToCss( tmpTable.css('width') ); + + // Finished with the table - ditch it + tmpTable.remove(); } - - - /** - * Read an old cookie to get a cookie with an old table state - * @param {string} sName name of the cookie to read - * @returns {string} contents of the cookie - or null if no cookie with that name found - * @memberof DataTable#oApi - */ - function _fnReadCookie ( sName ) - { + + // If there is a width attr, we want to attach an event listener which + // allows the table sizing to automatically adjust when the window is + // resized. Use the width attr rather than CSS, since we can't know if the + // CSS is a relative value or absolute - DOM read is always px. + if ( tableWidthAttr ) { + table.style.width = _fnStringToCss( tableWidthAttr ); + } + + if ( (tableWidthAttr || scrollX) && ! oSettings._reszEvt ) { + var bindResize = function () { + $(window).bind('resize.DT-'+oSettings.sInstance, _fnThrottle( function () { + _fnAdjustColumnSizing( oSettings ); + } ) ); + }; + + // IE6/7 will crash if we bind a resize event handler on page load. + // To be removed in 1.11 which drops IE6/7 support + if ( oSettings.oBrowser.bScrollOversize ) { + setTimeout( bindResize, 1000 ); + } + else { + bindResize(); + } + + oSettings._reszEvt = true; + } + } + + + /** + * Throttle the calls to a function. Arguments and context are maintained for + * the throttled function + * @param {function} fn Function to be called + * @param {int} [freq=200] call frequency in mS + * @returns {function} wrapped function + * @memberof DataTable#oApi + */ + function _fnThrottle( fn, freq ) { + var + frequency = freq !== undefined ? freq : 200, + last, + timer; + + return function () { var - aParts = window.location.pathname.split('/'), - sNameEQ = sName + '_' + aParts[aParts.length-1].replace(/[\/:]/g,"").toLowerCase() + '=', - sCookieContents = document.cookie.split(';'); - - for( var i=0 ; i<sCookieContents.length ; i++ ) - { - var c = sCookieContents[i]; - - while (c.charAt(0)==' ') - { - c = c.substring(1,c.length); - } - - if (c.indexOf(sNameEQ) === 0) - { - return decodeURIComponent( c.substring(sNameEQ.length,c.length) ); - } + that = this, + now = +new Date(), + args = arguments; + + if ( last && now < last + frequency ) { + clearTimeout( timer ); + + timer = setTimeout( function () { + last = undefined; + fn.apply( that, args ); + }, frequency ); + } + else { + last = now; + fn.apply( that, args ); } + }; + } + + + /** + * Convert a CSS unit width to pixels (e.g. 2em) + * @param {string} width width to be converted + * @param {node} parent parent to get the with for (required for relative widths) - optional + * @returns {int} width in pixels + * @memberof DataTable#oApi + */ + function _fnConvertToWidth ( width, parent ) + { + if ( ! width ) { + return 0; + } + + var n = $('<div/>') + .css( 'width', _fnStringToCss( width ) ) + .appendTo( parent || document.body ); + + var val = n[0].offsetWidth; + n.remove(); + + return val; + } + + + /** + * Adjust a table's width to take account of vertical scroll bar + * @param {object} oSettings dataTables settings object + * @param {node} n table node + * @memberof DataTable#oApi + */ + + function _fnScrollingWidthAdjust ( settings, n ) + { + var scroll = settings.oScroll; + + if ( scroll.sX || scroll.sY ) { + // When y-scrolling only, we want to remove the width of the scroll bar + // so the table + scroll bar will fit into the area available, otherwise + // we fix the table at its current size with no adjustment + var correction = ! scroll.sX ? scroll.iBarWidth : 0; + n.style.width = _fnStringToCss( $(n).outerWidth() - correction ); + } + } + + + /** + * Get the widest node + * @param {object} settings dataTables settings object + * @param {int} colIdx column of interest + * @returns {node} widest table node + * @memberof DataTable#oApi + */ + function _fnGetWidestNode( settings, colIdx ) + { + var idx = _fnGetMaxLenString( settings, colIdx ); + if ( idx < 0 ) { return null; } - - - /** - * Return the settings object for a particular table - * @param {node} nTable table we are using as a dataTable - * @returns {object} Settings object - or null if not found - * @memberof DataTable#oApi - */ - function _fnSettingsFromNode ( nTable ) - { - for ( var i=0 ; i<DataTable.settings.length ; i++ ) - { - if ( DataTable.settings[i].nTable === nTable ) - { - return DataTable.settings[i]; - } + + var data = settings.aoData[ idx ]; + return ! data.nTr ? // Might not have been created when deferred rendering + $('<td/>').html( _fnGetCellData( settings, idx, colIdx, 'display' ) )[0] : + data.anCells[ colIdx ]; + } + + + /** + * Get the maximum strlen for each data column + * @param {object} settings dataTables settings object + * @param {int} colIdx column of interest + * @returns {string} max string length for each column + * @memberof DataTable#oApi + */ + function _fnGetMaxLenString( settings, colIdx ) + { + var s, max=-1, maxIdx = -1; + + for ( var i=0, ien=settings.aoData.length ; i<ien ; i++ ) { + s = _fnGetCellData( settings, i, colIdx, 'display' )+''; + s = s.replace( __re_html_remove, '' ); + + if ( s.length > max ) { + max = s.length; + maxIdx = i; } - - return null; } - - - /** - * Return an array with the TR nodes for the table - * @param {object} oSettings dataTables settings object - * @returns {array} TR array - * @memberof DataTable#oApi - */ - function _fnGetTrNodes ( oSettings ) - { - var aNodes = []; - var aoData = oSettings.aoData; - for ( var i=0, iLen=aoData.length ; i<iLen ; i++ ) - { - if ( aoData[i].nTr !== null ) - { - aNodes.push( aoData[i].nTr ); + + return maxIdx; + } + + + /** + * Append a CSS unit (only if required) to a string + * @param {string} value to css-ify + * @returns {string} value with css unit + * @memberof DataTable#oApi + */ + function _fnStringToCss( s ) + { + if ( s === null ) { + return '0px'; + } + + if ( typeof s == 'number' ) { + return s < 0 ? + '0px' : + s+'px'; + } + + // Check it has a unit character already + return s.match(/\d$/) ? + s+'px' : + s; + } + + + /** + * Get the width of a scroll bar in this browser being used + * @returns {int} width in pixels + * @memberof DataTable#oApi + */ + function _fnScrollBarWidth () + { + // On first run a static variable is set, since this is only needed once. + // Subsequent runs will just use the previously calculated value + var width = DataTable.__scrollbarWidth; + + if ( width === undefined ) { + var sizer = $('<p/>').css( { + position: 'absolute', + top: 0, + left: 0, + width: '100%', + height: 150, + padding: 0, + overflow: 'scroll', + visibility: 'hidden' + } ) + .appendTo('body'); + + width = sizer[0].offsetWidth - sizer[0].clientWidth; + DataTable.__scrollbarWidth = width; + + sizer.remove(); + } + + return width; + } + + + + function _fnSortFlatten ( settings ) + { + var + i, iLen, k, kLen, + aSort = [], + aiOrig = [], + aoColumns = settings.aoColumns, + aDataSort, iCol, sType, srcCol, + fixed = settings.aaSortingFixed, + fixedObj = $.isPlainObject( fixed ), + nestedSort = [], + add = function ( a ) { + if ( a.length && ! $.isArray( a[0] ) ) { + // 1D array + nestedSort.push( a ); + } + else { + // 2D array + nestedSort.push.apply( nestedSort, a ); } - } - return aNodes; + }; + + // Build the sort array, with pre-fix and post-fix options if they have been + // specified + if ( $.isArray( fixed ) ) { + add( fixed ); } - - - /** - * Return an flat array with all TD nodes for the table, or row - * @param {object} oSettings dataTables settings object - * @param {int} [iIndividualRow] aoData index to get the nodes for - optional - * if not given then the return array will contain all nodes for the table - * @returns {array} TD array - * @memberof DataTable#oApi - */ - function _fnGetTdNodes ( oSettings, iIndividualRow ) + + if ( fixedObj && fixed.pre ) { + add( fixed.pre ); + } + + add( settings.aaSorting ); + + if (fixedObj && fixed.post ) { + add( fixed.post ); + } + + for ( i=0 ; i<nestedSort.length ; i++ ) { - var anReturn = []; - var iCorrector; - var anTds, nTd; - var iRow, iRows=oSettings.aoData.length, - iColumn, iColumns, oData, sNodeName, iStart=0, iEnd=iRows; - - /* Allow the collection to be limited to just one row */ - if ( iIndividualRow !== undefined ) + srcCol = nestedSort[i][0]; + aDataSort = aoColumns[ srcCol ].aDataSort; + + for ( k=0, kLen=aDataSort.length ; k<kLen ; k++ ) { - iStart = iIndividualRow; - iEnd = iIndividualRow+1; + iCol = aDataSort[k]; + sType = aoColumns[ iCol ].sType || 'string'; + + if ( nestedSort[i]._idx === undefined ) { + nestedSort[i]._idx = $.inArray( nestedSort[i][1], aoColumns[iCol].asSorting ); + } + + aSort.push( { + src: srcCol, + col: iCol, + dir: nestedSort[i][1], + index: nestedSort[i]._idx, + type: sType, + formatter: DataTable.ext.type.order[ sType+"-pre" ] + } ); } - - for ( iRow=iStart ; iRow<iEnd ; iRow++ ) - { - oData = oSettings.aoData[iRow]; - if ( oData.nTr !== null ) - { - /* get the TD child nodes - taking into account text etc nodes */ - anTds = []; - nTd = oData.nTr.firstChild; - while ( nTd ) - { - sNodeName = nTd.nodeName.toLowerCase(); - if ( sNodeName == 'td' || sNodeName == 'th' ) - { - anTds.push( nTd ); + } + + return aSort; + } + + /** + * Change the order of the table + * @param {object} oSettings dataTables settings object + * @memberof DataTable#oApi + * @todo This really needs split up! + */ + function _fnSort ( oSettings ) + { + var + i, ien, iLen, j, jLen, k, kLen, + sDataType, nTh, + aiOrig = [], + oExtSort = DataTable.ext.type.order, + aoData = oSettings.aoData, + aoColumns = oSettings.aoColumns, + aDataSort, data, iCol, sType, oSort, + formatters = 0, + sortCol, + displayMaster = oSettings.aiDisplayMaster, + aSort; + + // Resolve any column types that are unknown due to addition or invalidation + // @todo Can this be moved into a 'data-ready' handler which is called when + // data is going to be used in the table? + _fnColumnTypes( oSettings ); + + aSort = _fnSortFlatten( oSettings ); + + for ( i=0, ien=aSort.length ; i<ien ; i++ ) { + sortCol = aSort[i]; + + // Track if we can use the fast sort algorithm + if ( sortCol.formatter ) { + formatters++; + } + + // Load the data needed for the sort, for each cell + _fnSortData( oSettings, sortCol.col ); + } + + /* No sorting required if server-side or no sorting array */ + if ( _fnDataSource( oSettings ) != 'ssp' && aSort.length !== 0 ) + { + // Create a value - key array of the current row positions such that we can use their + // current position during the sort, if values match, in order to perform stable sorting + for ( i=0, iLen=displayMaster.length ; i<iLen ; i++ ) { + aiOrig[ displayMaster[i] ] = i; + } + + /* Do the sort - here we want multi-column sorting based on a given data source (column) + * and sorting function (from oSort) in a certain direction. It's reasonably complex to + * follow on it's own, but this is what we want (example two column sorting): + * fnLocalSorting = function(a,b){ + * var iTest; + * iTest = oSort['string-asc']('data11', 'data12'); + * if (iTest !== 0) + * return iTest; + * iTest = oSort['numeric-desc']('data21', 'data22'); + * if (iTest !== 0) + * return iTest; + * return oSort['numeric-asc']( aiOrig[a], aiOrig[b] ); + * } + * Basically we have a test for each sorting column, if the data in that column is equal, + * test the next column. If all columns match, then we use a numeric sort on the row + * positions in the original data array to provide a stable sort. + * + * Note - I know it seems excessive to have two sorting methods, but the first is around + * 15% faster, so the second is only maintained for backwards compatibility with sorting + * methods which do not have a pre-sort formatting function. + */ + if ( formatters === aSort.length ) { + // All sort types have formatting functions + displayMaster.sort( function ( a, b ) { + var + x, y, k, test, sort, + len=aSort.length, + dataA = aoData[a]._aSortData, + dataB = aoData[b]._aSortData; + + for ( k=0 ; k<len ; k++ ) { + sort = aSort[k]; + + x = dataA[ sort.col ]; + y = dataB[ sort.col ]; + + test = x<y ? -1 : x>y ? 1 : 0; + if ( test !== 0 ) { + return sort.dir === 'asc' ? test : -test; } - nTd = nTd.nextSibling; } - - iCorrector = 0; - for ( iColumn=0, iColumns=oSettings.aoColumns.length ; iColumn<iColumns ; iColumn++ ) - { - if ( oSettings.aoColumns[iColumn].bVisible ) - { - anReturn.push( anTds[iColumn-iCorrector] ); - } - else - { - anReturn.push( oData._anHidden[iColumn] ); - iCorrector++; + + x = aiOrig[a]; + y = aiOrig[b]; + return x<y ? -1 : x>y ? 1 : 0; + } ); + } + else { + // Depreciated - remove in 1.11 (providing a plug-in option) + // Not all sort types have formatting methods, so we have to call their sorting + // methods. + displayMaster.sort( function ( a, b ) { + var + x, y, k, l, test, sort, fn, + len=aSort.length, + dataA = aoData[a]._aSortData, + dataB = aoData[b]._aSortData; + + for ( k=0 ; k<len ; k++ ) { + sort = aSort[k]; + + x = dataA[ sort.col ]; + y = dataB[ sort.col ]; + + fn = oExtSort[ sort.type+"-"+sort.dir ] || oExtSort[ "string-"+sort.dir ]; + test = fn( x, y ); + if ( test !== 0 ) { + return test; } } - } + + x = aiOrig[a]; + y = aiOrig[b]; + return x<y ? -1 : x>y ? 1 : 0; + } ); } - - return anReturn; } - - - /** - * Log an error message - * @param {object} oSettings dataTables settings object - * @param {int} iLevel log error messages, or display them to the user - * @param {string} sMesg error message - * @memberof DataTable#oApi - */ - function _fnLog( oSettings, iLevel, sMesg ) - { - var sAlert = (oSettings===null) ? - "DataTables warning: "+sMesg : - "DataTables warning (table id = '"+oSettings.sTableId+"'): "+sMesg; - - if ( iLevel === 0 ) - { - if ( DataTable.ext.sErrMode == 'alert' ) - { - alert( sAlert ); + + /* Tell the draw function that we have sorted the data */ + oSettings.bSorted = true; + } + + + function _fnSortAria ( settings ) + { + var label; + var nextSort; + var columns = settings.aoColumns; + var aSort = _fnSortFlatten( settings ); + var oAria = settings.oLanguage.oAria; + + // ARIA attributes - need to loop all columns, to update all (removing old + // attributes as needed) + for ( var i=0, iLen=columns.length ; i<iLen ; i++ ) + { + var col = columns[i]; + var asSorting = col.asSorting; + var sTitle = col.sTitle.replace( /<.*?>/g, "" ); + var th = col.nTh; + + // IE7 is throwing an error when setting these properties with jQuery's + // attr() and removeAttr() methods... + th.removeAttribute('aria-sort'); + + /* In ARIA only the first sorting column can be marked as sorting - no multi-sort option */ + if ( col.bSortable ) { + if ( aSort.length > 0 && aSort[0].col == i ) { + th.setAttribute('aria-sort', aSort[0].dir=="asc" ? "ascending" : "descending" ); + nextSort = asSorting[ aSort[0].index+1 ] || asSorting[0]; + } + else { + nextSort = asSorting[0]; + } + + label = sTitle + ( nextSort === "asc" ? + oAria.sSortAscending : + oAria.sSortDescending + ); + } + else { + label = sTitle; + } + + th.setAttribute('aria-label', label); + } + } + + + /** + * Function to run on user sort request + * @param {object} settings dataTables settings object + * @param {node} attachTo node to attach the handler to + * @param {int} colIdx column sorting index + * @param {boolean} [append=false] Append the requested sort to the existing + * sort if true (i.e. multi-column sort) + * @param {function} [callback] callback function + * @memberof DataTable#oApi + */ + function _fnSortListener ( settings, colIdx, append, callback ) + { + var col = settings.aoColumns[ colIdx ]; + var sorting = settings.aaSorting; + var asSorting = col.asSorting; + var nextSortIdx; + var next = function ( a, overflow ) { + var idx = a._idx; + if ( idx === undefined ) { + idx = $.inArray( a[1], asSorting ); + } + + return idx+1 < asSorting.length ? + idx+1 : + overflow ? + null : + 0; + }; + + // Convert to 2D array if needed + if ( typeof sorting[0] === 'number' ) { + sorting = settings.aaSorting = [ sorting ]; + } + + // If appending the sort then we are multi-column sorting + if ( append && settings.oFeatures.bSortMulti ) { + // Are we already doing some kind of sort on this column? + var sortIdx = $.inArray( colIdx, _pluck(sorting, '0') ); + + if ( sortIdx !== -1 ) { + // Yes, modify the sort + nextSortIdx = next( sorting[sortIdx], true ); + + if ( nextSortIdx === null && sorting.length === 1 ) { + nextSortIdx = 0; // can't remove sorting completely } - else - { - throw new Error(sAlert); + + if ( nextSortIdx === null ) { + sorting.splice( sortIdx, 1 ); + } + else { + sorting[sortIdx][1] = asSorting[ nextSortIdx ]; + sorting[sortIdx]._idx = nextSortIdx; } - return; } - else if ( window.console && console.log ) - { - console.log( sAlert ); + else { + // No sort on this column yet + sorting.push( [ colIdx, asSorting[0], 0 ] ); + sorting[sorting.length-1]._idx = 0; } } - - - /** - * See if a property is defined on one object, if so assign it to the other object - * @param {object} oRet target object - * @param {object} oSrc source object - * @param {string} sName property - * @param {string} [sMappedName] name to map too - optional, sName used if not given - * @memberof DataTable#oApi - */ - function _fnMap( oRet, oSrc, sName, sMappedName ) - { - if ( sMappedName === undefined ) - { - sMappedName = sName; + else if ( sorting.length && sorting[0][0] == colIdx ) { + // Single column - already sorting on this column, modify the sort + nextSortIdx = next( sorting[0] ); + + sorting.length = 1; + sorting[0][1] = asSorting[ nextSortIdx ]; + sorting[0]._idx = nextSortIdx; + } + else { + // Single column - sort only on this column + sorting.length = 0; + sorting.push( [ colIdx, asSorting[0] ] ); + sorting[0]._idx = 0; + } + + // Run the sort by calling a full redraw + _fnReDraw( settings ); + + // callback used for async user interaction + if ( typeof callback == 'function' ) { + callback( settings ); + } + } + + + /** + * Attach a sort handler (click) to a node + * @param {object} settings dataTables settings object + * @param {node} attachTo node to attach the handler to + * @param {int} colIdx column sorting index + * @param {function} [callback] callback function + * @memberof DataTable#oApi + */ + function _fnSortAttachListener ( settings, attachTo, colIdx, callback ) + { + var col = settings.aoColumns[ colIdx ]; + + _fnBindAction( attachTo, {}, function (e) { + /* If the column is not sortable - don't to anything */ + if ( col.bSortable === false ) { + return; } - if ( oSrc[sName] !== undefined ) - { - oRet[sMappedName] = oSrc[sName]; + + // If processing is enabled use a timeout to allow the processing + // display to be shown - otherwise to it synchronously + if ( settings.oFeatures.bProcessing ) { + _fnProcessingDisplay( settings, true ); + + setTimeout( function() { + _fnSortListener( settings, colIdx, e.shiftKey, callback ); + + // In server-side processing, the draw callback will remove the + // processing display + if ( _fnDataSource( settings ) !== 'ssp' ) { + _fnProcessingDisplay( settings, false ); + } + }, 0 ); + } + else { + _fnSortListener( settings, colIdx, e.shiftKey, callback ); + } + } ); + } + + + /** + * Set the sorting classes on table's body, Note: it is safe to call this function + * when bSort and bSortClasses are false + * @param {object} oSettings dataTables settings object + * @memberof DataTable#oApi + */ + function _fnSortingClasses( settings ) + { + var oldSort = settings.aLastSort; + var sortClass = settings.oClasses.sSortColumn; + var sort = _fnSortFlatten( settings ); + var features = settings.oFeatures; + var i, ien, colIdx; + + if ( features.bSort && features.bSortClasses ) { + // Remove old sorting classes + for ( i=0, ien=oldSort.length ; i<ien ; i++ ) { + colIdx = oldSort[i].src; + + // Remove column sorting + $( _pluck( settings.aoData, 'anCells', colIdx ) ) + .removeClass( sortClass + (i<2 ? i+1 : 3) ); + } + + // Add new column sorting + for ( i=0, ien=sort.length ; i<ien ; i++ ) { + colIdx = sort[i].src; + + $( _pluck( settings.aoData, 'anCells', colIdx ) ) + .addClass( sortClass + (i<2 ? i+1 : 3) ); } } - - - /** - * Extend objects - very similar to jQuery.extend, but deep copy objects, and shallow - * copy arrays. The reason we need to do this, is that we don't want to deep copy array - * init values (such as aaSorting) since the dev wouldn't be able to override them, but - * we do want to deep copy arrays. - * @param {object} oOut Object to extend - * @param {object} oExtender Object from which the properties will be applied to oOut - * @returns {object} oOut Reference, just for convenience - oOut === the return. - * @memberof DataTable#oApi - * @todo This doesn't take account of arrays inside the deep copied objects. - */ - function _fnExtend( oOut, oExtender ) - { - var val; - - for ( var prop in oExtender ) - { - if ( oExtender.hasOwnProperty(prop) ) - { - val = oExtender[prop]; - - if ( typeof oInit[prop] === 'object' && val !== null && $.isArray(val) === false ) - { - $.extend( true, oOut[prop], val ); - } - else - { - oOut[prop] = val; - } - } + + settings.aLastSort = sort; + } + + + // Get the data to sort a column, be it from cache, fresh (populating the + // cache), or from a sort formatter + function _fnSortData( settings, idx ) + { + // Custom sorting function - provided by the sort data type + var column = settings.aoColumns[ idx ]; + var customSort = DataTable.ext.order[ column.sSortDataType ]; + var customData; + + if ( customSort ) { + customData = customSort.call( settings.oInstance, settings, idx, + _fnColumnIndexToVisible( settings, idx ) + ); + } + + // Use / populate cache + var row, cellData; + var formatter = DataTable.ext.type.order[ column.sType+"-pre" ]; + + for ( var i=0, ien=settings.aoData.length ; i<ien ; i++ ) { + row = settings.aoData[i]; + + if ( ! row._aSortData ) { + row._aSortData = []; + } + + if ( ! row._aSortData[idx] || customSort ) { + cellData = customSort ? + customData[i] : // If there was a custom sort function, use data from there + _fnGetCellData( settings, i, idx, 'sort' ); + + row._aSortData[ idx ] = formatter ? + formatter( cellData ) : + cellData; } - - return oOut; } - - - /** - * Bind an event handers to allow a click or return key to activate the callback. - * This is good for accessibility since a return on the keyboard will have the - * same effect as a click, if the element has focus. - * @param {element} n Element to bind the action to - * @param {object} oData Data object to pass to the triggered function - * @param {function} fn Callback function for when the event is triggered - * @memberof DataTable#oApi - */ - function _fnBindAction( n, oData, fn ) + } + + + + /** + * Save the state of a table + * @param {object} oSettings dataTables settings object + * @memberof DataTable#oApi + */ + function _fnSaveState ( settings ) + { + if ( !settings.oFeatures.bStateSave || settings.bDestroying ) { - $(n) - .bind( 'click.DT', oData, function (e) { - n.blur(); // Remove focus outline for mouse users - fn(e); - } ) - .bind( 'keypress.DT', oData, function (e){ - if ( e.which === 13 ) { - fn(e); - } } ) - .bind( 'selectstart.DT', function () { - /* Take the brutal approach to cancelling text selection */ - return false; - } ); + return; } - - - /** - * Register a callback function. Easily allows a callback function to be added to - * an array store of callback functions that can then all be called together. - * @param {object} oSettings dataTables settings object - * @param {string} sStore Name of the array storage for the callbacks in oSettings - * @param {function} fn Function to be called back - * @param {string} sName Identifying name for the callback (i.e. a label) - * @memberof DataTable#oApi + + /* Store the interesting variables */ + var state = { + time: +new Date(), + start: settings._iDisplayStart, + length: settings._iDisplayLength, + order: $.extend( true, [], settings.aaSorting ), + search: _fnSearchToCamel( settings.oPreviousSearch ), + columns: $.map( settings.aoColumns, function ( col, i ) { + return { + visible: col.bVisible, + search: _fnSearchToCamel( settings.aoPreSearchCols[i] ) + }; + } ) + }; + + _fnCallbackFire( settings, "aoStateSaveParams", 'stateSaveParams', [settings, state] ); + + settings.oSavedState = state; + settings.fnStateSaveCallback.call( settings.oInstance, settings, state ); + } + + + /** + * Attempt to load a saved table state + * @param {object} oSettings dataTables settings object + * @param {object} oInit DataTables init object so we can override settings + * @memberof DataTable#oApi + */ + function _fnLoadState ( settings, oInit ) + { + var i, ien; + var columns = settings.aoColumns; + + if ( ! settings.oFeatures.bStateSave ) { + return; + } + + var state = settings.fnStateLoadCallback.call( settings.oInstance, settings ); + if ( ! state || ! state.time ) { + return; + } + + /* Allow custom and plug-in manipulation functions to alter the saved data set and + * cancelling of loading by returning false */ - function _fnCallbackReg( oSettings, sStore, fn, sName ) - { - if ( fn ) - { - oSettings[sStore].push( { - "fn": fn, - "sName": sName - } ); + var abStateLoad = _fnCallbackFire( settings, 'aoStateLoadParams', 'stateLoadParams', [settings, state] ); + if ( $.inArray( false, abStateLoad ) !== -1 ) { + return; + } + + /* Reject old data */ + var duration = settings.iStateDuration; + if ( duration > 0 && state.time < +new Date() - (duration*1000) ) { + return; + } + + // Number of columns have changed - all bets are off, no restore of settings + if ( columns.length !== state.columns.length ) { + return; + } + + // Store the saved state so it might be accessed at any time + settings.oLoadedState = $.extend( true, {}, state ); + + // Restore key features - todo - for 1.11 this needs to be done by + // subscribed events + if ( state.start !== undefined ) { + settings._iDisplayStart = state.start; + settings.iInitDisplayStart = state.start; + } + if ( state.length !== undefined ) { + settings._iDisplayLength = state.length; + } + + // Order + if ( state.order !== undefined ) { + settings.aaSorting = []; + $.each( state.order, function ( i, col ) { + settings.aaSorting.push( col[0] >= columns.length ? + [ 0, col[1] ] : + col + ); + } ); + } + + // Search + if ( state.search !== undefined ) { + $.extend( settings.oPreviousSearch, _fnSearchToHung( state.search ) ); + } + + // Columns + for ( i=0, ien=state.columns.length ; i<ien ; i++ ) { + var col = state.columns[i]; + + // Visibility + if ( col.visible !== undefined ) { + columns[i].bVisible = col.visible; + } + + // Search + if ( col.search !== undefined ) { + $.extend( settings.aoPreSearchCols[i], _fnSearchToHung( col.search ) ); } } - - - /** - * Fire callback functions and trigger events. Note that the loop over the callback - * array store is done backwards! Further note that you do not want to fire off triggers - * in time sensitive applications (for example cell creation) as its slow. - * @param {object} oSettings dataTables settings object - * @param {string} sStore Name of the array storage for the callbacks in oSettings - * @param {string} sTrigger Name of the jQuery custom event to trigger. If null no trigger - * is fired - * @param {array} aArgs Array of arguments to pass to the callback function / trigger - * @memberof DataTable#oApi - */ - function _fnCallbackFire( oSettings, sStore, sTrigger, aArgs ) - { - var aoStore = oSettings[sStore]; - var aRet =[]; - - for ( var i=aoStore.length-1 ; i>=0 ; i-- ) - { - aRet.push( aoStore[i].fn.apply( oSettings.oInstance, aArgs ) ); + + _fnCallbackFire( settings, 'aoStateLoaded', 'stateLoaded', [settings, state] ); + } + + + /** + * Return the settings object for a particular table + * @param {node} table table we are using as a dataTable + * @returns {object} Settings object - or null if not found + * @memberof DataTable#oApi + */ + function _fnSettingsFromNode ( table ) + { + var settings = DataTable.settings; + var idx = $.inArray( table, _pluck( settings, 'nTable' ) ); + + return idx !== -1 ? + settings[ idx ] : + null; + } + + + /** + * Log an error message + * @param {object} settings dataTables settings object + * @param {int} level log error messages, or display them to the user + * @param {string} msg error message + * @param {int} tn Technical note id to get more information about the error. + * @memberof DataTable#oApi + */ + function _fnLog( settings, level, msg, tn ) + { + msg = 'DataTables warning: '+ + (settings!==null ? 'table id='+settings.sTableId+' - ' : '')+msg; + + if ( tn ) { + msg += '. For more information about this error, please see '+ + 'http://datatables.net/tn/'+tn; + } + + if ( ! level ) { + // Backwards compatibility pre 1.10 + var ext = DataTable.ext; + var type = ext.sErrMode || ext.errMode; + + _fnCallbackFire( settings, null, 'error', [ settings, tn, msg ] ); + + if ( type == 'alert' ) { + alert( msg ); } - - if ( sTrigger !== null ) - { - $(oSettings.oInstance).trigger(sTrigger, aArgs); + else if ( type == 'throw' ) { + throw new Error(msg); + } + else if ( typeof type == 'function' ) { + type( settings, tn, msg ); } - - return aRet; } - - - /** - * JSON stringify. If JSON.stringify it provided by the browser, json2.js or any other - * library, then we use that as it is fast, safe and accurate. If the function isn't - * available then we need to built it ourselves - the inspiration for this function comes - * from Craig Buckler ( http://www.sitepoint.com/javascript-json-serialization/ ). It is - * not perfect and absolutely should not be used as a replacement to json2.js - but it does - * do what we need, without requiring a dependency for DataTables. - * @param {object} o JSON object to be converted - * @returns {string} JSON string - * @memberof DataTable#oApi - */ - var _fnJsonString = (window.JSON) ? JSON.stringify : function( o ) - { - /* Not an object or array */ - var sType = typeof o; - if (sType !== "object" || o === null) - { - // simple data type - if (sType === "string") - { - o = '"'+o+'"'; + else if ( window.console && console.log ) { + console.log( msg ); + } + } + + + /** + * See if a property is defined on one object, if so assign it to the other object + * @param {object} ret target object + * @param {object} src source object + * @param {string} name property + * @param {string} [mappedName] name to map too - optional, name used if not given + * @memberof DataTable#oApi + */ + function _fnMap( ret, src, name, mappedName ) + { + if ( $.isArray( name ) ) { + $.each( name, function (i, val) { + if ( $.isArray( val ) ) { + _fnMap( ret, src, val[0], val[1] ); } - return o+""; - } - - /* If object or array, need to recurse over it */ - var - sProp, mValue, - json = [], - bArr = $.isArray(o); - - for (sProp in o) - { - mValue = o[sProp]; - sType = typeof mValue; - - if (sType === "string") - { - mValue = '"'+mValue+'"'; + else { + _fnMap( ret, src, val ); } - else if (sType === "object" && mValue !== null) - { - mValue = _fnJsonString(mValue); + } ); + + return; + } + + if ( mappedName === undefined ) { + mappedName = name; + } + + if ( src[name] !== undefined ) { + ret[mappedName] = src[name]; + } + } + + + /** + * Extend objects - very similar to jQuery.extend, but deep copy objects, and + * shallow copy arrays. The reason we need to do this, is that we don't want to + * deep copy array init values (such as aaSorting) since the dev wouldn't be + * able to override them, but we do want to deep copy arrays. + * @param {object} out Object to extend + * @param {object} extender Object from which the properties will be applied to + * out + * @param {boolean} breakRefs If true, then arrays will be sliced to take an + * independent copy with the exception of the `data` or `aaData` parameters + * if they are present. This is so you can pass in a collection to + * DataTables and have that used as your data source without breaking the + * references + * @returns {object} out Reference, just for convenience - out === the return. + * @memberof DataTable#oApi + * @todo This doesn't take account of arrays inside the deep copied objects. + */ + function _fnExtend( out, extender, breakRefs ) + { + var val; + + for ( var prop in extender ) { + if ( extender.hasOwnProperty(prop) ) { + val = extender[prop]; + + if ( $.isPlainObject( val ) ) { + if ( ! $.isPlainObject( out[prop] ) ) { + out[prop] = {}; + } + $.extend( true, out[prop], val ); + } + else if ( breakRefs && prop !== 'data' && prop !== 'aaData' && $.isArray(val) ) { + out[prop] = val.slice(); + } + else { + out[prop] = val; } - - json.push((bArr ? "" : '"'+sProp+'":') + mValue); } - - return (bArr ? "[" : "{") + json + (bArr ? "]" : "}"); - }; - - - /** - * From some browsers (specifically IE6/7) we need special handling to work around browser - * bugs - this function is used to detect when these workarounds are needed. - * @param {object} oSettings dataTables settings object - * @memberof DataTable#oApi - */ - function _fnBrowserDetect( oSettings ) + } + + return out; + } + + + /** + * Bind an event handers to allow a click or return key to activate the callback. + * This is good for accessibility since a return on the keyboard will have the + * same effect as a click, if the element has focus. + * @param {element} n Element to bind the action to + * @param {object} oData Data object to pass to the triggered function + * @param {function} fn Callback function for when the event is triggered + * @memberof DataTable#oApi + */ + function _fnBindAction( n, oData, fn ) + { + $(n) + .bind( 'click.DT', oData, function (e) { + n.blur(); // Remove focus outline for mouse users + fn(e); + } ) + .bind( 'keypress.DT', oData, function (e){ + if ( e.which === 13 ) { + e.preventDefault(); + fn(e); + } + } ) + .bind( 'selectstart.DT', function () { + /* Take the brutal approach to cancelling text selection */ + return false; + } ); + } + + + /** + * Register a callback function. Easily allows a callback function to be added to + * an array store of callback functions that can then all be called together. + * @param {object} oSettings dataTables settings object + * @param {string} sStore Name of the array storage for the callbacks in oSettings + * @param {function} fn Function to be called back + * @param {string} sName Identifying name for the callback (i.e. a label) + * @memberof DataTable#oApi + */ + function _fnCallbackReg( oSettings, sStore, fn, sName ) + { + if ( fn ) { - /* IE6/7 will oversize a width 100% element inside a scrolling element, to include the - * width of the scrollbar, while other browsers ensure the inner element is contained - * without forcing scrolling - */ - var n = $( - '<div style="position:absolute; top:0; left:0; height:1px; width:1px; overflow:hidden">'+ - '<div style="position:absolute; top:1px; left:1px; width:100px; overflow:scroll;">'+ - '<div id="DT_BrowserTest" style="width:100%; height:10px;"></div>'+ - '</div>'+ - '</div>')[0]; - - document.body.appendChild( n ); - oSettings.oBrowser.bScrollOversize = $('#DT_BrowserTest', n)[0].offsetWidth === 100 ? true : false; - document.body.removeChild( n ); + oSettings[sStore].push( { + "fn": fn, + "sName": sName + } ); } - + } + + + /** + * Fire callback functions and trigger events. Note that the loop over the + * callback array store is done backwards! Further note that you do not want to + * fire off triggers in time sensitive applications (for example cell creation) + * as its slow. + * @param {object} settings dataTables settings object + * @param {string} callbackArr Name of the array storage for the callbacks in + * oSettings + * @param {string} eventName Name of the jQuery custom event to trigger. If + * null no trigger is fired + * @param {array} args Array of arguments to pass to the callback function / + * trigger + * @memberof DataTable#oApi + */ + function _fnCallbackFire( settings, callbackArr, eventName, args ) + { + var ret = []; + + if ( callbackArr ) { + ret = $.map( settings[callbackArr].slice().reverse(), function (val, i) { + return val.fn.apply( settings.oInstance, args ); + } ); + } + + if ( eventName !== null ) { + var e = $.Event( eventName+'.dt' ); + + $(settings.nTable).trigger( e, args ); + + ret.push( e.result ); + } + + return ret; + } + + + function _fnLengthOverflow ( settings ) + { + var + start = settings._iDisplayStart, + end = settings.fnDisplayEnd(), + len = settings._iDisplayLength; + + /* If we have space to show extra rows (backing up from the end point - then do so */ + if ( start >= end ) + { + start = end - len; + } + + // Keep the start record on the current page + start -= (start % len); + + if ( len === -1 || start < 0 ) + { + start = 0; + } + + settings._iDisplayStart = start; + } + + + function _fnRenderer( settings, type ) + { + var renderer = settings.renderer; + var host = DataTable.ext.renderer[type]; + + if ( $.isPlainObject( renderer ) && renderer[type] ) { + // Specific renderer for this type. If available use it, otherwise use + // the default. + return host[renderer[type]] || host._; + } + else if ( typeof renderer === 'string' ) { + // Common renderer - if there is one available for this type use it, + // otherwise use the default + return host[renderer] || host._; + } + + // Use the default + return host._; + } + + + /** + * Detect the data source being used for the table. Used to simplify the code + * a little (ajax) and to make it compress a little smaller. + * + * @param {object} settings dataTables settings object + * @returns {string} Data source + * @memberof DataTable#oApi + */ + function _fnDataSource ( settings ) + { + if ( settings.oFeatures.bServerSide ) { + return 'ssp'; + } + else if ( settings.ajax || settings.sAjaxSource ) { + return 'ajax'; + } + return 'dom'; + } + + DataTable = function( options ) + { /** * Perform a jQuery selector action on the table's TR elements (from the tbody) and * return the resulting jQuery object. @@ -4948,10 +5327,11 @@ * Can be either 'current', whereby the current sorting of the table is used, or * 'original' whereby the original order the data was read into the table is used. * @param {string} [oOpts.page=all] Limit the selection to the currently displayed page - * ("current") or not ("all"). If 'current' is given, then order is assumed to be + * ("current") or not ("all"). If 'current' is given, then order is assumed to be * 'current' and filter is 'applied', regardless of what they might be given as. * @returns {object} jQuery object, filtered by the given selector. * @dtopt API + * @deprecated Since v1.10 * * @example * $(document).ready(function() { @@ -4968,100 +5348,13 @@ * // Filter to rows with 'Webkit' in them, add a background colour and then * // remove the filter, thus highlighting the 'Webkit' rows only. * oTable.fnFilter('Webkit'); - * oTable.$('tr', {"filter": "applied"}).css('backgroundColor', 'blue'); + * oTable.$('tr', {"search": "applied"}).css('backgroundColor', 'blue'); * oTable.fnFilter(''); * } ); */ this.$ = function ( sSelector, oOpts ) { - var i, iLen, a = [], tr; - var oSettings = _fnSettingsFromNode( this[DataTable.ext.iApiIndex] ); - var aoData = oSettings.aoData; - var aiDisplay = oSettings.aiDisplay; - var aiDisplayMaster = oSettings.aiDisplayMaster; - - if ( !oOpts ) - { - oOpts = {}; - } - - oOpts = $.extend( {}, { - "filter": "none", // applied - "order": "current", // "original" - "page": "all" // current - }, oOpts ); - - // Current page implies that order=current and fitler=applied, since it is fairly - // senseless otherwise - if ( oOpts.page == 'current' ) - { - for ( i=oSettings._iDisplayStart, iLen=oSettings.fnDisplayEnd() ; i<iLen ; i++ ) - { - tr = aoData[ aiDisplay[i] ].nTr; - if ( tr ) - { - a.push( tr ); - } - } - } - else if ( oOpts.order == "current" && oOpts.filter == "none" ) - { - for ( i=0, iLen=aiDisplayMaster.length ; i<iLen ; i++ ) - { - tr = aoData[ aiDisplayMaster[i] ].nTr; - if ( tr ) - { - a.push( tr ); - } - } - } - else if ( oOpts.order == "current" && oOpts.filter == "applied" ) - { - for ( i=0, iLen=aiDisplay.length ; i<iLen ; i++ ) - { - tr = aoData[ aiDisplay[i] ].nTr; - if ( tr ) - { - a.push( tr ); - } - } - } - else if ( oOpts.order == "original" && oOpts.filter == "none" ) - { - for ( i=0, iLen=aoData.length ; i<iLen ; i++ ) - { - tr = aoData[ i ].nTr ; - if ( tr ) - { - a.push( tr ); - } - } - } - else if ( oOpts.order == "original" && oOpts.filter == "applied" ) - { - for ( i=0, iLen=aoData.length ; i<iLen ; i++ ) - { - tr = aoData[ i ].nTr; - if ( $.inArray( i, aiDisplay ) !== -1 && tr ) - { - a.push( tr ); - } - } - } - else - { - _fnLog( oSettings, 1, "Unknown selection options" ); - } - - /* We need to filter on the TR elements and also 'find' in their descendants - * to make the selector act like it would in a full table - so we need - * to build both results and then combine them together - */ - var jqA = $(a); - var jqTRs = jqA.filter( sSelector ); - var jqDescendants = jqA.find( sSelector ); - - return $( [].concat($.makeArray(jqTRs), $.makeArray(jqDescendants)) ); + return this.api(true).$( sSelector, oOpts ); }; @@ -5069,7 +5362,7 @@ * Almost identical to $ in operation, but in this case returns the data for the matched * rows - as such, the jQuery selector used should match TR row nodes or TD/TH cell nodes * rather than any descendants, so the data can be obtained for the row/cell. If matching - * rows are found, the data returned is the original data array/object that was used to + * rows are found, the data returned is the original data array/object that was used to * create the row (or a generated array if from a DOM source). * * This method is often useful in-combination with $ where both functions are given the @@ -5082,12 +5375,13 @@ * Can be either 'current', whereby the current sorting of the table is used, or * 'original' whereby the original order the data was read into the table is used. * @param {string} [oOpts.page=all] Limit the selection to the currently displayed page - * ("current") or not ("all"). If 'current' is given, then order is assumed to be + * ("current") or not ("all"). If 'current' is given, then order is assumed to be * 'current' and filter is 'applied', regardless of what they might be given as. * @returns {array} Data for the matched elements. If any elements, as a result of the - * selector, were not TR, TD or TH elements in the DataTable, they will have a null + * selector, were not TR, TD or TH elements in the DataTable, they will have a null * entry in the array. * @dtopt API + * @deprecated Since v1.10 * * @example * $(document).ready(function() { @@ -5104,55 +5398,66 @@ * $(document).ready(function() { * var oTable = $('#example').dataTable(); * - * // Filter to 'Webkit' and get all data for + * // Filter to 'Webkit' and get all data for * oTable.fnFilter('Webkit'); - * var data = oTable._('tr', {"filter": "applied"}); - * + * var data = oTable._('tr', {"search": "applied"}); + * * // Do something with the data - * alert( data.length+" rows matched the filter" ); + * alert( data.length+" rows matched the search" ); * } ); */ this._ = function ( sSelector, oOpts ) { - var aOut = []; - var i, iLen, iIndex; - var aTrs = this.$( sSelector, oOpts ); + return this.api(true).rows( sSelector, oOpts ).data(); + }; - for ( i=0, iLen=aTrs.length ; i<iLen ; i++ ) - { - aOut.push( this.fnGetData(aTrs[i]) ); - } - return aOut; + /** + * Create a DataTables Api instance, with the currently selected tables for + * the Api's context. + * @param {boolean} [traditional=false] Set the API instance's context to be + * only the table referred to by the `DataTable.ext.iApiIndex` option, as was + * used in the API presented by DataTables 1.9- (i.e. the traditional mode), + * or if all tables captured in the jQuery object should be used. + * @return {DataTables.Api} + */ + this.api = function ( traditional ) + { + return traditional ? + new _Api( + _fnSettingsFromNode( this[ _ext.iApiIndex ] ) + ) : + new _Api( this ); }; /** * Add a single new row or multiple rows of data to the table. Please note - * that this is suitable for client-side processing only - if you are using + * that this is suitable for client-side processing only - if you are using * server-side processing (i.e. "bServerSide": true), then to add data, you * must add it to the data source, i.e. the server-side, through an Ajax call. - * @param {array|object} mData The data to be added to the table. This can be: + * @param {array|object} data The data to be added to the table. This can be: * <ul> * <li>1D array of data - add a single row with the data provided</li> * <li>2D array of arrays - add multiple rows in a single call</li> * <li>object - data object when using <i>mData</i></li> * <li>array of objects - multiple data objects when using <i>mData</i></li> * </ul> - * @param {bool} [bRedraw=true] redraw the table or not - * @returns {array} An array of integers, representing the list of indexes in - * <i>aoData</i> ({@link DataTable.models.oSettings}) that have been added to + * @param {bool} [redraw=true] redraw the table or not + * @returns {array} An array of integers, representing the list of indexes in + * <i>aoData</i> ({@link DataTable.models.oSettings}) that have been added to * the table. * @dtopt API + * @deprecated Since v1.10 * * @example * // Global var for counter * var giCount = 2; - * + * * $(document).ready(function() { * $('#example').dataTable(); * } ); - * + * * function fnClickAddRow() { * $('#example').dataTable().fnAddData( [ * giCount+".1", @@ -5160,63 +5465,35 @@ * giCount+".3", * giCount+".4" ] * ); - * + * * giCount++; * } */ - this.fnAddData = function( mData, bRedraw ) + this.fnAddData = function( data, redraw ) { - if ( mData.length === 0 ) - { - return []; - } - - var aiReturn = []; - var iTest; - - /* Find settings from table node */ - var oSettings = _fnSettingsFromNode( this[DataTable.ext.iApiIndex] ); - + var api = this.api( true ); + /* Check if we want to add multiple rows or not */ - if ( typeof mData[0] === "object" && mData[0] !== null ) - { - for ( var i=0 ; i<mData.length ; i++ ) - { - iTest = _fnAddData( oSettings, mData[i] ); - if ( iTest == -1 ) - { - return aiReturn; - } - aiReturn.push( iTest ); - } - } - else - { - iTest = _fnAddData( oSettings, mData ); - if ( iTest == -1 ) - { - return aiReturn; - } - aiReturn.push( iTest ); - } - - oSettings.aiDisplay = oSettings.aiDisplayMaster.slice(); - - if ( bRedraw === undefined || bRedraw ) - { - _fnReDraw( oSettings ); + var rows = $.isArray(data) && ( $.isArray(data[0]) || $.isPlainObject(data[0]) ) ? + api.rows.add( data ) : + api.row.add( data ); + + if ( redraw === undefined || redraw ) { + api.draw(); } - return aiReturn; + + return rows.flatten().toArray(); }; /** - * This function will make DataTables recalculate the column sizes, based on the data - * contained in the table and the sizes applied to the columns (in the DOM, CSS or - * through the sWidth parameter). This can be useful when the width of the table's + * This function will make DataTables recalculate the column sizes, based on the data + * contained in the table and the sizes applied to the columns (in the DOM, CSS or + * through the sWidth parameter). This can be useful when the width of the table's * parent element changes (for example a window resize). * @param {boolean} [bRedraw=true] Redraw the table or not, you will typically want to * @dtopt API + * @deprecated Since v1.10 * * @example * $(document).ready(function() { @@ -5224,7 +5501,7 @@ * "sScrollY": "200px", * "bPaginate": false * } ); - * + * * $(window).bind('resize', function () { * oTable.fnAdjustColumnSizing(); * } ); @@ -5232,17 +5509,16 @@ */ this.fnAdjustColumnSizing = function ( bRedraw ) { - var oSettings = _fnSettingsFromNode(this[DataTable.ext.iApiIndex]); - _fnAdjustColumnSizing( oSettings ); - - if ( bRedraw === undefined || bRedraw ) - { - this.fnDraw( false ); + var api = this.api( true ).columns.adjust(); + var settings = api.settings()[0]; + var scroll = settings.oScroll; + + if ( bRedraw === undefined || bRedraw ) { + api.draw( false ); } - else if ( oSettings.oScroll.sX !== "" || oSettings.oScroll.sY !== "" ) - { + else if ( scroll.sX !== "" || scroll.sY !== "" ) { /* If not redrawing, but scrolling, we want to apply the new column sizes anyway */ - this.oApi._fnScrollDraw(oSettings); + _fnScrollDraw( settings ); } }; @@ -5251,39 +5527,38 @@ * Quickly and simply clear a table * @param {bool} [bRedraw=true] redraw the table or not * @dtopt API + * @deprecated Since v1.10 * * @example * $(document).ready(function() { * var oTable = $('#example').dataTable(); - * + * * // Immediately 'nuke' the current rows (perhaps waiting for an Ajax callback...) * oTable.fnClearTable(); * } ); */ this.fnClearTable = function( bRedraw ) { - /* Find settings from table node */ - var oSettings = _fnSettingsFromNode( this[DataTable.ext.iApiIndex] ); - _fnClearTable( oSettings ); - - if ( bRedraw === undefined || bRedraw ) - { - _fnDraw( oSettings ); + var api = this.api( true ).clear(); + + if ( bRedraw === undefined || bRedraw ) { + api.draw(); } }; /** - * The exact opposite of 'opening' a row, this function will close any rows which + * The exact opposite of 'opening' a row, this function will close any rows which * are currently 'open'. * @param {node} nTr the table row to 'close' * @returns {int} 0 on success, or 1 if failed (can't find the row) * @dtopt API + * @deprecated Since v1.10 * * @example * $(document).ready(function() { * var oTable; - * + * * // 'open' an information row when a row is clicked on * $('#example tbody tr').click( function () { * if ( oTable.fnIsOpen(this) ) { @@ -5292,110 +5567,61 @@ * oTable.fnOpen( this, "Temporary row opened", "info_row" ); * } * } ); - * + * * oTable = $('#example').dataTable(); * } ); */ this.fnClose = function( nTr ) { - /* Find settings from table node */ - var oSettings = _fnSettingsFromNode( this[DataTable.ext.iApiIndex] ); - - for ( var i=0 ; i<oSettings.aoOpenRows.length ; i++ ) - { - if ( oSettings.aoOpenRows[i].nParent == nTr ) - { - var nTrParent = oSettings.aoOpenRows[i].nTr.parentNode; - if ( nTrParent ) - { - /* Remove it if it is currently on display */ - nTrParent.removeChild( oSettings.aoOpenRows[i].nTr ); - } - oSettings.aoOpenRows.splice( i, 1 ); - return 0; - } - } - return 1; + this.api( true ).row( nTr ).child.hide(); }; /** * Remove a row for the table - * @param {mixed} mTarget The index of the row from aoData to be deleted, or + * @param {mixed} target The index of the row from aoData to be deleted, or * the TR element you want to delete - * @param {function|null} [fnCallBack] Callback function - * @param {bool} [bRedraw=true] Redraw the table or not + * @param {function|null} [callBack] Callback function + * @param {bool} [redraw=true] Redraw the table or not * @returns {array} The row that was deleted * @dtopt API + * @deprecated Since v1.10 * * @example * $(document).ready(function() { * var oTable = $('#example').dataTable(); - * + * * // Immediately remove the first row * oTable.fnDeleteRow( 0 ); * } ); */ - this.fnDeleteRow = function( mTarget, fnCallBack, bRedraw ) + this.fnDeleteRow = function( target, callback, redraw ) { - /* Find settings from table node */ - var oSettings = _fnSettingsFromNode( this[DataTable.ext.iApiIndex] ); - var i, iLen, iAODataIndex; - - iAODataIndex = (typeof mTarget === 'object') ? - _fnNodeToDataIndex(oSettings, mTarget) : mTarget; - - /* Return the data array from this row */ - var oData = oSettings.aoData.splice( iAODataIndex, 1 ); + var api = this.api( true ); + var rows = api.rows( target ); + var settings = rows.settings()[0]; + var data = settings.aoData[ rows[0][0] ]; - /* Update the _DT_RowIndex parameter */ - for ( i=0, iLen=oSettings.aoData.length ; i<iLen ; i++ ) - { - if ( oSettings.aoData[i].nTr !== null ) - { - oSettings.aoData[i].nTr._DT_RowIndex = i; - } - } - - /* Remove the target row from the search array */ - var iDisplayIndex = $.inArray( iAODataIndex, oSettings.aiDisplay ); - oSettings.asDataSearch.splice( iDisplayIndex, 1 ); - - /* Delete from the display arrays */ - _fnDeleteIndex( oSettings.aiDisplayMaster, iAODataIndex ); - _fnDeleteIndex( oSettings.aiDisplay, iAODataIndex ); - - /* If there is a user callback function - call it */ - if ( typeof fnCallBack === "function" ) - { - fnCallBack.call( this, oSettings, oData ); - } - - /* Check for an 'overflow' they case for displaying the table */ - if ( oSettings._iDisplayStart >= oSettings.fnRecordsDisplay() ) - { - oSettings._iDisplayStart -= oSettings._iDisplayLength; - if ( oSettings._iDisplayStart < 0 ) - { - oSettings._iDisplayStart = 0; - } + rows.remove(); + + if ( callback ) { + callback.call( this, settings, data ); } - - if ( bRedraw === undefined || bRedraw ) - { - _fnCalculateEnd( oSettings ); - _fnDraw( oSettings ); + + if ( redraw === undefined || redraw ) { + api.draw(); } - - return oData; + + return data; }; /** - * Restore the table to it's original state in the DOM by removing all of DataTables + * Restore the table to it's original state in the DOM by removing all of DataTables * enhancements, alterations to the DOM structure of the table and event listeners. - * @param {boolean} [bRemove=false] Completely remove the table from the DOM + * @param {boolean} [remove=false] Completely remove the table from the DOM * @dtopt API + * @deprecated Since v1.10 * * @example * $(document).ready(function() { @@ -5404,159 +5630,31 @@ * oTable.fnDestroy(); * } ); */ - this.fnDestroy = function ( bRemove ) + this.fnDestroy = function ( remove ) { - var oSettings = _fnSettingsFromNode( this[DataTable.ext.iApiIndex] ); - var nOrig = oSettings.nTableWrapper.parentNode; - var nBody = oSettings.nTBody; - var i, iLen; - - bRemove = (bRemove===undefined) ? false : bRemove; - - /* Flag to note that the table is currently being destroyed - no action should be taken */ - oSettings.bDestroying = true; - - /* Fire off the destroy callbacks for plug-ins etc */ - _fnCallbackFire( oSettings, "aoDestroyCallback", "destroy", [oSettings] ); - - /* If the table is not being removed, restore the hidden columns */ - if ( !bRemove ) - { - for ( i=0, iLen=oSettings.aoColumns.length ; i<iLen ; i++ ) - { - if ( oSettings.aoColumns[i].bVisible === false ) - { - this.fnSetColumnVis( i, true ); - } - } - } - - /* Blitz all DT events */ - $(oSettings.nTableWrapper).find('*').andSelf().unbind('.DT'); - - /* If there is an 'empty' indicator row, remove it */ - $('tbody>tr>td.'+oSettings.oClasses.sRowEmpty, oSettings.nTable).parent().remove(); - - /* When scrolling we had to break the table up - restore it */ - if ( oSettings.nTable != oSettings.nTHead.parentNode ) - { - $(oSettings.nTable).children('thead').remove(); - oSettings.nTable.appendChild( oSettings.nTHead ); - } - - if ( oSettings.nTFoot && oSettings.nTable != oSettings.nTFoot.parentNode ) - { - $(oSettings.nTable).children('tfoot').remove(); - oSettings.nTable.appendChild( oSettings.nTFoot ); - } - - /* Remove the DataTables generated nodes, events and classes */ - oSettings.nTable.parentNode.removeChild( oSettings.nTable ); - $(oSettings.nTableWrapper).remove(); - - oSettings.aaSorting = []; - oSettings.aaSortingFixed = []; - _fnSortingClasses( oSettings ); - - $(_fnGetTrNodes( oSettings )).removeClass( oSettings.asStripeClasses.join(' ') ); - - $('th, td', oSettings.nTHead).removeClass( [ - oSettings.oClasses.sSortable, - oSettings.oClasses.sSortableAsc, - oSettings.oClasses.sSortableDesc, - oSettings.oClasses.sSortableNone ].join(' ') - ); - if ( oSettings.bJUI ) - { - $('th span.'+oSettings.oClasses.sSortIcon - + ', td span.'+oSettings.oClasses.sSortIcon, oSettings.nTHead).remove(); - - $('th, td', oSettings.nTHead).each( function () { - var jqWrapper = $('div.'+oSettings.oClasses.sSortJUIWrapper, this); - var kids = jqWrapper.contents(); - $(this).append( kids ); - jqWrapper.remove(); - } ); - } - - /* Add the TR elements back into the table in their original order */ - if ( !bRemove && oSettings.nTableReinsertBefore ) - { - nOrig.insertBefore( oSettings.nTable, oSettings.nTableReinsertBefore ); - } - else if ( !bRemove ) - { - nOrig.appendChild( oSettings.nTable ); - } - - for ( i=0, iLen=oSettings.aoData.length ; i<iLen ; i++ ) - { - if ( oSettings.aoData[i].nTr !== null ) - { - nBody.appendChild( oSettings.aoData[i].nTr ); - } - } - - /* Restore the width of the original table */ - if ( oSettings.oFeatures.bAutoWidth === true ) - { - oSettings.nTable.style.width = _fnStringToCss(oSettings.sDestroyWidth); - } - - /* If the were originally stripe classes - then we add them back here. Note - * this is not fool proof (for example if not all rows had stripe classes - but - * it's a good effort without getting carried away - */ - iLen = oSettings.asDestroyStripes.length; - if (iLen) - { - var anRows = $(nBody).children('tr'); - for ( i=0 ; i<iLen ; i++ ) - { - anRows.filter(':nth-child(' + iLen + 'n + ' + i + ')').addClass( oSettings.asDestroyStripes[i] ); - } - } - - /* Remove the settings object from the settings array */ - for ( i=0, iLen=DataTable.settings.length ; i<iLen ; i++ ) - { - if ( DataTable.settings[i] == oSettings ) - { - DataTable.settings.splice( i, 1 ); - } - } - - /* End it all */ - oSettings = null; - oInit = null; + this.api( true ).destroy( remove ); }; /** * Redraw the table - * @param {bool} [bComplete=true] Re-filter and resort (if enabled) the table before the draw. + * @param {bool} [complete=true] Re-filter and resort (if enabled) the table before the draw. * @dtopt API + * @deprecated Since v1.10 * * @example * $(document).ready(function() { * var oTable = $('#example').dataTable(); - * + * * // Re-draw the table - you wouldn't want to do it here, but it's an example :-) * oTable.fnDraw(); * } ); */ - this.fnDraw = function( bComplete ) + this.fnDraw = function( complete ) { - var oSettings = _fnSettingsFromNode( this[DataTable.ext.iApiIndex] ); - if ( bComplete === false ) - { - _fnCalculateEnd( oSettings ); - _fnDraw( oSettings ); - } - else - { - _fnReDraw( oSettings ); - } + // Note that this isn't an exact match to the old call to _fnDraw - it takes + // into account the new data, but can hold position. + this.api( true ).draw( complete ); }; @@ -5569,100 +5667,45 @@ * @param {bool} [bShowGlobal=true] Show the input global filter in it's input box(es) * @param {bool} [bCaseInsensitive=true] Do case-insensitive matching (true) or not (false) * @dtopt API + * @deprecated Since v1.10 * * @example * $(document).ready(function() { * var oTable = $('#example').dataTable(); - * + * * // Sometime later - filter... * oTable.fnFilter( 'test string' ); * } ); */ this.fnFilter = function( sInput, iColumn, bRegex, bSmart, bShowGlobal, bCaseInsensitive ) { - var oSettings = _fnSettingsFromNode( this[DataTable.ext.iApiIndex] ); - - if ( !oSettings.oFeatures.bFilter ) - { - return; - } - - if ( bRegex === undefined || bRegex === null ) - { - bRegex = false; - } - - if ( bSmart === undefined || bSmart === null ) - { - bSmart = true; - } - - if ( bShowGlobal === undefined || bShowGlobal === null ) - { - bShowGlobal = true; - } - - if ( bCaseInsensitive === undefined || bCaseInsensitive === null ) - { - bCaseInsensitive = true; - } - - if ( iColumn === undefined || iColumn === null ) - { - /* Global filter */ - _fnFilterComplete( oSettings, { - "sSearch":sInput+"", - "bRegex": bRegex, - "bSmart": bSmart, - "bCaseInsensitive": bCaseInsensitive - }, 1 ); - - if ( bShowGlobal && oSettings.aanFeatures.f ) - { - var n = oSettings.aanFeatures.f; - for ( var i=0, iLen=n.length ; i<iLen ; i++ ) - { - // IE9 throws an 'unknown error' if document.activeElement is used - // inside an iframe or frame... - try { - if ( n[i]._DT_Input != document.activeElement ) - { - $(n[i]._DT_Input).val( sInput ); - } - } - catch ( e ) { - $(n[i]._DT_Input).val( sInput ); - } - } - } + var api = this.api( true ); + + if ( iColumn === null || iColumn === undefined ) { + api.search( sInput, bRegex, bSmart, bCaseInsensitive ); } - else - { - /* Single column filter */ - $.extend( oSettings.aoPreSearchCols[ iColumn ], { - "sSearch": sInput+"", - "bRegex": bRegex, - "bSmart": bSmart, - "bCaseInsensitive": bCaseInsensitive - } ); - _fnFilterComplete( oSettings, oSettings.oPreviousSearch, 1 ); + else { + api.column( iColumn ).search( sInput, bRegex, bSmart, bCaseInsensitive ); } + + api.draw(); }; /** - * Get the data for the whole table, an individual row or an individual cell based on the + * Get the data for the whole table, an individual row or an individual cell based on the * provided parameters. - * @param {int|node} [mRow] A TR row node, TD/TH cell node or an integer. If given as + * @param {int|node} [src] A TR row node, TD/TH cell node or an integer. If given as * a TR node then the data source for the whole row will be returned. If given as a * TD/TH cell node then iCol will be automatically calculated and the data for the * cell returned. If given as an integer, then this is treated as the aoData internal * data index for the row (see fnGetPosition) and the data for that row used. - * @param {int} [iCol] Optional column index that you want the data of. + * @param {int} [col] Optional column index that you want the data of. * @returns {array|object|string} If mRow is undefined, then the data for all rows is * returned. If mRow is defined, just data for that row, and is iCol is * defined, only data for the designated cell is returned. * @dtopt API + * @deprecated Since v1.10 * * @example * // Row data @@ -5686,108 +5729,94 @@ * } ); * } ); */ - this.fnGetData = function( mRow, iCol ) + this.fnGetData = function( src, col ) { - var oSettings = _fnSettingsFromNode( this[DataTable.ext.iApiIndex] ); - - if ( mRow !== undefined ) - { - var iRow = mRow; - if ( typeof mRow === 'object' ) - { - var sNode = mRow.nodeName.toLowerCase(); - if (sNode === "tr" ) - { - iRow = _fnNodeToDataIndex(oSettings, mRow); - } - else if ( sNode === "td" ) - { - iRow = _fnNodeToDataIndex(oSettings, mRow.parentNode); - iCol = _fnNodeToColumnIndex( oSettings, iRow, mRow ); - } - } + var api = this.api( true ); - if ( iCol !== undefined ) - { - return _fnGetCellData( oSettings, iRow, iCol, '' ); - } - return (oSettings.aoData[iRow]!==undefined) ? - oSettings.aoData[iRow]._aData : null; + if ( src !== undefined ) { + var type = src.nodeName ? src.nodeName.toLowerCase() : ''; + + return col !== undefined || type == 'td' || type == 'th' ? + api.cell( src, col ).data() : + api.row( src ).data() || null; } - return _fnGetDataMaster( oSettings ); + + return api.data().toArray(); }; /** - * Get an array of the TR nodes that are used in the table's body. Note that you will - * typically want to use the '$' API method in preference to this as it is more + * Get an array of the TR nodes that are used in the table's body. Note that you will + * typically want to use the '$' API method in preference to this as it is more * flexible. * @param {int} [iRow] Optional row index for the TR element you want * @returns {array|node} If iRow is undefined, returns an array of all TR elements * in the table's body, or iRow is defined, just the TR element requested. * @dtopt API + * @deprecated Since v1.10 * * @example * $(document).ready(function() { * var oTable = $('#example').dataTable(); - * + * * // Get the nodes from the table * var nNodes = oTable.fnGetNodes( ); * } ); */ this.fnGetNodes = function( iRow ) { - var oSettings = _fnSettingsFromNode( this[DataTable.ext.iApiIndex] ); - - if ( iRow !== undefined ) { - return (oSettings.aoData[iRow]!==undefined) ? - oSettings.aoData[iRow].nTr : null; - } - return _fnGetTrNodes( oSettings ); + var api = this.api( true ); + + return iRow !== undefined ? + api.row( iRow ).node() : + api.rows().nodes().flatten().toArray(); }; /** * Get the array indexes of a particular cell from it's DOM element * and column index including hidden columns - * @param {node} nNode this can either be a TR, TD or TH in the table's body + * @param {node} node this can either be a TR, TD or TH in the table's body * @returns {int} If nNode is given as a TR, then a single index is returned, or - * if given as a cell, an array of [row index, column index (visible), + * if given as a cell, an array of [row index, column index (visible), * column index (all)] is given. * @dtopt API + * @deprecated Since v1.10 * * @example * $(document).ready(function() { * $('#example tbody td').click( function () { * // Get the position of the current data from the node * var aPos = oTable.fnGetPosition( this ); - * + * * // Get the data array for this row * var aData = oTable.fnGetData( aPos[0] ); - * + * * // Update the data array and return the value * aData[ aPos[1] ] = 'clicked'; * this.innerHTML = 'clicked'; * } ); - * + * * // Init DataTables * oTable = $('#example').dataTable(); * } ); */ - this.fnGetPosition = function( nNode ) + this.fnGetPosition = function( node ) { - var oSettings = _fnSettingsFromNode( this[DataTable.ext.iApiIndex] ); - var sNodeName = nNode.nodeName.toUpperCase(); - - if ( sNodeName == "TR" ) - { - return _fnNodeToDataIndex(oSettings, nNode); + var api = this.api( true ); + var nodeName = node.nodeName.toUpperCase(); + + if ( nodeName == 'TR' ) { + return api.row( node ).index(); } - else if ( sNodeName == "TD" || sNodeName == "TH" ) - { - var iDataIndex = _fnNodeToDataIndex( oSettings, nNode.parentNode ); - var iColumnIndex = _fnNodeToColumnIndex( oSettings, iDataIndex, nNode ); - return [ iDataIndex, _fnColumnIndexToVisible(oSettings, iColumnIndex ), iColumnIndex ]; + else if ( nodeName == 'TD' || nodeName == 'TH' ) { + var cell = api.cell( node ).index(); + + return [ + cell.row, + cell.columnVisible, + cell.column + ]; } return null; }; @@ -5798,11 +5827,12 @@ * @param {node} nTr the table row to check * @returns {boolean} true if the row is currently open, false otherwise * @dtopt API + * @deprecated Since v1.10 * * @example * $(document).ready(function() { * var oTable; - * + * * // 'open' an information row when a row is clicked on * $('#example tbody tr').click( function () { * if ( oTable.fnIsOpen(this) ) { @@ -5811,30 +5841,20 @@ * oTable.fnOpen( this, "Temporary row opened", "info_row" ); * } * } ); - * + * * oTable = $('#example').dataTable(); * } ); */ this.fnIsOpen = function( nTr ) { - var oSettings = _fnSettingsFromNode( this[DataTable.ext.iApiIndex] ); - var aoOpenRows = oSettings.aoOpenRows; - - for ( var i=0 ; i<oSettings.aoOpenRows.length ; i++ ) - { - if ( oSettings.aoOpenRows[i].nParent == nTr ) - { - return true; - } - } - return false; + return this.api( true ).row( nTr ).child.isShown(); }; /** - * This function will place a new row directly after a row which is currently - * on display on the page, with the HTML contents that is passed into the - * function. This can be used, for example, to ask for confirmation that a + * This function will place a new row directly after a row which is currently + * on display on the page, with the HTML contents that is passed into the + * function. This can be used, for example, to ask for confirmation that a * particular record should be deleted. * @param {node} nTr The table row to 'open' * @param {string|node|jQuery} mHtml The HTML to put into the row @@ -5843,11 +5863,12 @@ * first parameter, is not found in the table, this method will silently * return. * @dtopt API + * @deprecated Since v1.10 * * @example * $(document).ready(function() { * var oTable; - * + * * // 'open' an information row when a row is clicked on * $('#example tbody tr').click( function () { * if ( oTable.fnIsOpen(this) ) { @@ -5856,64 +5877,29 @@ * oTable.fnOpen( this, "Temporary row opened", "info_row" ); * } * } ); - * + * * oTable = $('#example').dataTable(); * } ); */ this.fnOpen = function( nTr, mHtml, sClass ) { - /* Find settings from table node */ - var oSettings = _fnSettingsFromNode( this[DataTable.ext.iApiIndex] ); - - /* Check that the row given is in the table */ - var nTableRows = _fnGetTrNodes( oSettings ); - if ( $.inArray(nTr, nTableRows) === -1 ) - { - return; - } - - /* the old open one if there is one */ - this.fnClose( nTr ); - - var nNewRow = document.createElement("tr"); - var nNewCell = document.createElement("td"); - nNewRow.appendChild( nNewCell ); - nNewCell.className = sClass; - nNewCell.colSpan = _fnVisbleColumns( oSettings ); - - if (typeof mHtml === "string") - { - nNewCell.innerHTML = mHtml; - } - else - { - $(nNewCell).html( mHtml ); - } - - /* If the nTr isn't on the page at the moment - then we don't insert at the moment */ - var nTrs = $('tr', oSettings.nTBody); - if ( $.inArray(nTr, nTrs) != -1 ) - { - $(nNewRow).insertAfter(nTr); - } - - oSettings.aoOpenRows.push( { - "nTr": nNewRow, - "nParent": nTr - } ); - - return nNewRow; + return this.api( true ) + .row( nTr ) + .child( mHtml, sClass ) + .show() + .child()[0]; }; /** - * Change the pagination - provides the internal logic for pagination in a simple API - * function. With this function you can have a DataTables table go to the next, + * Change the pagination - provides the internal logic for pagination in a simple API + * function. With this function you can have a DataTables table go to the next, * previous, first or last pages. * @param {string|int} mAction Paging action to take: "first", "previous", "next" or "last" * or page number to jump to (integer), note that page 0 is the first page. * @param {bool} [bRedraw=true] Redraw the table or not * @dtopt API + * @deprecated Since v1.10 * * @example * $(document).ready(function() { @@ -5923,13 +5909,10 @@ */ this.fnPageChange = function ( mAction, bRedraw ) { - var oSettings = _fnSettingsFromNode( this[DataTable.ext.iApiIndex] ); - _fnPageChange( oSettings, mAction ); - _fnCalculateEnd( oSettings ); - - if ( bRedraw === undefined || bRedraw ) - { - _fnDraw( oSettings ); + var api = this.api( true ).page( mAction ); + + if ( bRedraw === undefined || bRedraw ) { + api.draw(false); } }; @@ -5940,159 +5923,66 @@ * @param {bool} bShow Show (true) or hide (false) the column * @param {bool} [bRedraw=true] Redraw the table or not * @dtopt API + * @deprecated Since v1.10 * * @example * $(document).ready(function() { * var oTable = $('#example').dataTable(); - * + * * // Hide the second column after initialisation * oTable.fnSetColumnVis( 1, false ); * } ); */ this.fnSetColumnVis = function ( iCol, bShow, bRedraw ) { - var oSettings = _fnSettingsFromNode( this[DataTable.ext.iApiIndex] ); - var i, iLen; - var aoColumns = oSettings.aoColumns; - var aoData = oSettings.aoData; - var nTd, bAppend, iBefore; - - /* No point in doing anything if we are requesting what is already true */ - if ( aoColumns[iCol].bVisible == bShow ) - { - return; - } - - /* Show the column */ - if ( bShow ) - { - var iInsert = 0; - for ( i=0 ; i<iCol ; i++ ) - { - if ( aoColumns[i].bVisible ) - { - iInsert++; - } - } - - /* Need to decide if we should use appendChild or insertBefore */ - bAppend = (iInsert >= _fnVisbleColumns( oSettings )); - - /* Which coloumn should we be inserting before? */ - if ( !bAppend ) - { - for ( i=iCol ; i<aoColumns.length ; i++ ) - { - if ( aoColumns[i].bVisible ) - { - iBefore = i; - break; - } - } - } + var api = this.api( true ).column( iCol ).visible( bShow ); - for ( i=0, iLen=aoData.length ; i<iLen ; i++ ) - { - if ( aoData[i].nTr !== null ) - { - if ( bAppend ) - { - aoData[i].nTr.appendChild( - aoData[i]._anHidden[iCol] - ); - } - else - { - aoData[i].nTr.insertBefore( - aoData[i]._anHidden[iCol], - _fnGetTdNodes( oSettings, i )[iBefore] ); - } - } - } + if ( bRedraw === undefined || bRedraw ) { + api.columns.adjust().draw(); } - else - { - /* Remove a column from display */ - for ( i=0, iLen=aoData.length ; i<iLen ; i++ ) - { - if ( aoData[i].nTr !== null ) - { - nTd = _fnGetTdNodes( oSettings, i )[iCol]; - aoData[i]._anHidden[iCol] = nTd; - nTd.parentNode.removeChild( nTd ); - } - } - } - - /* Clear to set the visible flag */ - aoColumns[iCol].bVisible = bShow; - - /* Redraw the header and footer based on the new column visibility */ - _fnDrawHead( oSettings, oSettings.aoHeader ); - if ( oSettings.nTFoot ) - { - _fnDrawHead( oSettings, oSettings.aoFooter ); - } - - /* If there are any 'open' rows, then we need to alter the colspan for this col change */ - for ( i=0, iLen=oSettings.aoOpenRows.length ; i<iLen ; i++ ) - { - oSettings.aoOpenRows[i].nTr.colSpan = _fnVisbleColumns( oSettings ); - } - - /* Do a redraw incase anything depending on the table columns needs it - * (built-in: scrolling) - */ - if ( bRedraw === undefined || bRedraw ) - { - _fnAdjustColumnSizing( oSettings ); - _fnDraw( oSettings ); - } - - _fnSaveState( oSettings ); }; /** * Get the settings for a particular table for external manipulation - * @returns {object} DataTables settings object. See + * @returns {object} DataTables settings object. See * {@link DataTable.models.oSettings} * @dtopt API + * @deprecated Since v1.10 * * @example * $(document).ready(function() { * var oTable = $('#example').dataTable(); * var oSettings = oTable.fnSettings(); - * + * * // Show an example parameter from the settings * alert( oSettings._iDisplayStart ); * } ); */ this.fnSettings = function() { - return _fnSettingsFromNode( this[DataTable.ext.iApiIndex] ); + return _fnSettingsFromNode( this[_ext.iApiIndex] ); }; /** * Sort the table by a particular column - * @param {int} iCol the data index to sort on. Note that this will not match the + * @param {int} iCol the data index to sort on. Note that this will not match the * 'display index' if you have hidden data entries * @dtopt API + * @deprecated Since v1.10 * * @example * $(document).ready(function() { * var oTable = $('#example').dataTable(); - * + * * // Sort immediately with columns 0 and 1 * oTable.fnSort( [ [0,'asc'], [1,'asc'] ] ); * } ); */ this.fnSort = function( aaSort ) { - var oSettings = _fnSettingsFromNode( this[DataTable.ext.iApiIndex] ); - oSettings.aaSorting = aaSort; - _fnSort( oSettings ); + this.api( true ).order( aaSort ).draw(); }; @@ -6102,19 +5992,19 @@ * @param {int} iColumn the column that a click on this node will sort on * @param {function} [fnCallback] callback function when sort is run * @dtopt API + * @deprecated Since v1.10 * * @example * $(document).ready(function() { * var oTable = $('#example').dataTable(); - * + * * // Sort on column 1, when 'sorter' is clicked on * oTable.fnSortListener( document.getElementById('sorter'), 1 ); * } ); */ this.fnSortListener = function( nNode, iColumn, fnCallback ) { - _fnSortAttachListener( _fnSettingsFromNode( this[DataTable.ext.iApiIndex] ), nNode, iColumn, - fnCallback ); + this.api( true ).order.listener( nNode, iColumn, fnCallback ); }; @@ -6125,89 +6015,38 @@ * self-referencing in order to make the multi column updates easier. * @param {object|array|string} mData Data to update the cell/row with * @param {node|int} mRow TR element you want to update or the aoData index - * @param {int} [iColumn] The column to update (not used of mData is an array or object) + * @param {int} [iColumn] The column to update, give as null or undefined to + * update a whole row. * @param {bool} [bRedraw=true] Redraw the table or not * @param {bool} [bAction=true] Perform pre-draw actions or not * @returns {int} 0 on success, 1 on error * @dtopt API + * @deprecated Since v1.10 * * @example * $(document).ready(function() { * var oTable = $('#example').dataTable(); * oTable.fnUpdate( 'Example update', 0, 0 ); // Single cell - * oTable.fnUpdate( ['a', 'b', 'c', 'd', 'e'], 1, 0 ); // Row + * oTable.fnUpdate( ['a', 'b', 'c', 'd', 'e'], $('tbody tr')[0] ); // Row * } ); */ this.fnUpdate = function( mData, mRow, iColumn, bRedraw, bAction ) { - var oSettings = _fnSettingsFromNode( this[DataTable.ext.iApiIndex] ); - var i, iLen, sDisplay; - var iRow = (typeof mRow === 'object') ? - _fnNodeToDataIndex(oSettings, mRow) : mRow; - - if ( $.isArray(mData) && iColumn === undefined ) - { - /* Array update - update the whole row */ - oSettings.aoData[iRow]._aData = mData.slice(); - - /* Flag to the function that we are recursing */ - for ( i=0 ; i<oSettings.aoColumns.length ; i++ ) - { - this.fnUpdate( _fnGetCellData( oSettings, iRow, i ), iRow, i, false, false ); - } - } - else if ( $.isPlainObject(mData) && iColumn === undefined ) - { - /* Object update - update the whole row - assume the developer gets the object right */ - oSettings.aoData[iRow]._aData = $.extend( true, {}, mData ); + var api = this.api( true ); - for ( i=0 ; i<oSettings.aoColumns.length ; i++ ) - { - this.fnUpdate( _fnGetCellData( oSettings, iRow, i ), iRow, i, false, false ); - } + if ( iColumn === undefined || iColumn === null ) { + api.row( mRow ).data( mData ); } - else - { - /* Individual cell update */ - _fnSetCellData( oSettings, iRow, iColumn, mData ); - sDisplay = _fnGetCellData( oSettings, iRow, iColumn, 'display' ); - - var oCol = oSettings.aoColumns[iColumn]; - if ( oCol.fnRender !== null ) - { - sDisplay = _fnRender( oSettings, iRow, iColumn ); - if ( oCol.bUseRendered ) - { - _fnSetCellData( oSettings, iRow, iColumn, sDisplay ); - } - } - - if ( oSettings.aoData[iRow].nTr !== null ) - { - /* Do the actual HTML update */ - _fnGetTdNodes( oSettings, iRow )[iColumn].innerHTML = sDisplay; - } + else { + api.cell( mRow, iColumn ).data( mData ); } - - /* Modify the search index for this row (strictly this is likely not needed, since fnReDraw - * will rebuild the search array - however, the redraw might be disabled by the user) - */ - var iDisplayIndex = $.inArray( iRow, oSettings.aiDisplay ); - oSettings.asDataSearch[iDisplayIndex] = _fnBuildSearchRow( - oSettings, - _fnGetRowData( oSettings, iRow, 'filter', _fnGetColumns( oSettings, 'bSearchable' ) ) - ); - - /* Perform pre-draw actions */ - if ( bAction === undefined || bAction ) - { - _fnAdjustColumnSizing( oSettings ); + + if ( bAction === undefined || bAction ) { + api.columns.adjust(); } - - /* Redraw the table */ - if ( bRedraw === undefined || bRedraw ) - { - _fnReDraw( oSettings ); + + if ( bRedraw === undefined || bRedraw ) { + api.draw(); } return 0; }; @@ -6222,6 +6061,7 @@ * version, or false if this version of DataTales is not suitable * @method * @dtopt API + * @deprecated Since v1.10 * * @example * $(document).ready(function() { @@ -6229,187 +6069,98 @@ * alert( oTable.fnVersionCheck( '1.9.0' ) ); * } ); */ - this.fnVersionCheck = DataTable.ext.fnVersionCheck; - + this.fnVersionCheck = _ext.fnVersionCheck; - /* - * This is really a good bit rubbish this method of exposing the internal methods - * publicly... - To be fixed in 2.0 using methods on the prototype - */ - - - /** - * Create a wrapper function for exporting an internal functions to an external API. - * @param {string} sFunc API function name - * @returns {function} wrapped function - * @memberof DataTable#oApi - */ - function _fnExternApiFunc (sFunc) - { - return function() { - var aArgs = [_fnSettingsFromNode(this[DataTable.ext.iApiIndex])].concat( - Array.prototype.slice.call(arguments) ); - return DataTable.ext.oApi[sFunc].apply( this, aArgs ); - }; + + var _that = this; + var emptyInit = options === undefined; + var len = this.length; + + if ( emptyInit ) { + options = {}; } - - - /** - * Reference to internal functions for use by plug-in developers. Note that these - * methods are references to internal functions and are considered to be private. - * If you use these methods, be aware that they are liable to change between versions - * (check the upgrade notes). - * @namespace - */ - this.oApi = { - "_fnExternApiFunc": _fnExternApiFunc, - "_fnInitialise": _fnInitialise, - "_fnInitComplete": _fnInitComplete, - "_fnLanguageCompat": _fnLanguageCompat, - "_fnAddColumn": _fnAddColumn, - "_fnColumnOptions": _fnColumnOptions, - "_fnAddData": _fnAddData, - "_fnCreateTr": _fnCreateTr, - "_fnGatherData": _fnGatherData, - "_fnBuildHead": _fnBuildHead, - "_fnDrawHead": _fnDrawHead, - "_fnDraw": _fnDraw, - "_fnReDraw": _fnReDraw, - "_fnAjaxUpdate": _fnAjaxUpdate, - "_fnAjaxParameters": _fnAjaxParameters, - "_fnAjaxUpdateDraw": _fnAjaxUpdateDraw, - "_fnServerParams": _fnServerParams, - "_fnAddOptionsHtml": _fnAddOptionsHtml, - "_fnFeatureHtmlTable": _fnFeatureHtmlTable, - "_fnScrollDraw": _fnScrollDraw, - "_fnAdjustColumnSizing": _fnAdjustColumnSizing, - "_fnFeatureHtmlFilter": _fnFeatureHtmlFilter, - "_fnFilterComplete": _fnFilterComplete, - "_fnFilterCustom": _fnFilterCustom, - "_fnFilterColumn": _fnFilterColumn, - "_fnFilter": _fnFilter, - "_fnBuildSearchArray": _fnBuildSearchArray, - "_fnBuildSearchRow": _fnBuildSearchRow, - "_fnFilterCreateSearch": _fnFilterCreateSearch, - "_fnDataToSearch": _fnDataToSearch, - "_fnSort": _fnSort, - "_fnSortAttachListener": _fnSortAttachListener, - "_fnSortingClasses": _fnSortingClasses, - "_fnFeatureHtmlPaginate": _fnFeatureHtmlPaginate, - "_fnPageChange": _fnPageChange, - "_fnFeatureHtmlInfo": _fnFeatureHtmlInfo, - "_fnUpdateInfo": _fnUpdateInfo, - "_fnFeatureHtmlLength": _fnFeatureHtmlLength, - "_fnFeatureHtmlProcessing": _fnFeatureHtmlProcessing, - "_fnProcessingDisplay": _fnProcessingDisplay, - "_fnVisibleToColumnIndex": _fnVisibleToColumnIndex, - "_fnColumnIndexToVisible": _fnColumnIndexToVisible, - "_fnNodeToDataIndex": _fnNodeToDataIndex, - "_fnVisbleColumns": _fnVisbleColumns, - "_fnCalculateEnd": _fnCalculateEnd, - "_fnConvertToWidth": _fnConvertToWidth, - "_fnCalculateColumnWidths": _fnCalculateColumnWidths, - "_fnScrollingWidthAdjust": _fnScrollingWidthAdjust, - "_fnGetWidestNode": _fnGetWidestNode, - "_fnGetMaxLenString": _fnGetMaxLenString, - "_fnStringToCss": _fnStringToCss, - "_fnDetectType": _fnDetectType, - "_fnSettingsFromNode": _fnSettingsFromNode, - "_fnGetDataMaster": _fnGetDataMaster, - "_fnGetTrNodes": _fnGetTrNodes, - "_fnGetTdNodes": _fnGetTdNodes, - "_fnEscapeRegex": _fnEscapeRegex, - "_fnDeleteIndex": _fnDeleteIndex, - "_fnReOrderIndex": _fnReOrderIndex, - "_fnColumnOrdering": _fnColumnOrdering, - "_fnLog": _fnLog, - "_fnClearTable": _fnClearTable, - "_fnSaveState": _fnSaveState, - "_fnLoadState": _fnLoadState, - "_fnCreateCookie": _fnCreateCookie, - "_fnReadCookie": _fnReadCookie, - "_fnDetectHeader": _fnDetectHeader, - "_fnGetUniqueThs": _fnGetUniqueThs, - "_fnScrollBarWidth": _fnScrollBarWidth, - "_fnApplyToChildren": _fnApplyToChildren, - "_fnMap": _fnMap, - "_fnGetRowData": _fnGetRowData, - "_fnGetCellData": _fnGetCellData, - "_fnSetCellData": _fnSetCellData, - "_fnGetObjectDataFn": _fnGetObjectDataFn, - "_fnSetObjectDataFn": _fnSetObjectDataFn, - "_fnApplyColumnDefs": _fnApplyColumnDefs, - "_fnBindAction": _fnBindAction, - "_fnExtend": _fnExtend, - "_fnCallbackReg": _fnCallbackReg, - "_fnCallbackFire": _fnCallbackFire, - "_fnJsonString": _fnJsonString, - "_fnRender": _fnRender, - "_fnNodeToColumnIndex": _fnNodeToColumnIndex, - "_fnInfoMacros": _fnInfoMacros, - "_fnBrowserDetect": _fnBrowserDetect, - "_fnGetColumns": _fnGetColumns - }; - - $.extend( DataTable.ext.oApi, this.oApi ); - - for ( var sFunc in DataTable.ext.oApi ) - { - if ( sFunc ) - { - this[sFunc] = _fnExternApiFunc(sFunc); + + this.oApi = this.internal = _ext.internal; + + // Extend with old style plug-in API methods + for ( var fn in DataTable.ext.internal ) { + if ( fn ) { + this[fn] = _fnExternApiFunc(fn); } } - - - var _that = this; + this.each(function() { + // For each initialisation we want to give it a clean initialisation + // object that can be bashed around + var o = {}; + var oInit = len > 1 ? // optimisation for single table case + _fnExtend( o, options, true ) : + options; + + /*global oInit,_that,emptyInit*/ var i=0, iLen, j, jLen, k, kLen; var sId = this.getAttribute( 'id' ); var bInitHandedOff = false; - var bUsePassedData = false; + var defaults = DataTable.defaults; + var $this = $(this); /* Sanity check */ if ( this.nodeName.toLowerCase() != 'table' ) { - _fnLog( null, 0, "Attempted to initialise DataTables on a node which is not a "+ - "table: "+this.nodeName ); + _fnLog( null, 0, 'Non-table node initialisation ('+this.nodeName+')', 2 ); return; } + /* Backwards compatibility for the defaults */ + _fnCompatOpts( defaults ); + _fnCompatCols( defaults.column ); + + /* Convert the camel-case defaults to Hungarian */ + _fnCamelToHungarian( defaults, defaults, true ); + _fnCamelToHungarian( defaults.column, defaults.column, true ); + + /* Setting up the initialisation object */ + _fnCamelToHungarian( defaults, $.extend( oInit, $this.data() ) ); + + + /* Check to see if we are re-initialising a table */ - for ( i=0, iLen=DataTable.settings.length ; i<iLen ; i++ ) + var allSettings = DataTable.settings; + for ( i=0, iLen=allSettings.length ; i<iLen ; i++ ) { + var s = allSettings[i]; + /* Base check on table node */ - if ( DataTable.settings[i].nTable == this ) + if ( s.nTable == this || s.nTHead.parentNode == this || (s.nTFoot && s.nTFoot.parentNode == this) ) { - if ( oInit === undefined || oInit.bRetrieve ) + var bRetrieve = oInit.bRetrieve !== undefined ? oInit.bRetrieve : defaults.bRetrieve; + var bDestroy = oInit.bDestroy !== undefined ? oInit.bDestroy : defaults.bDestroy; + + if ( emptyInit || bRetrieve ) { - return DataTable.settings[i].oInstance; + return s.oInstance; } - else if ( oInit.bDestroy ) + else if ( bDestroy ) { - DataTable.settings[i].oInstance.fnDestroy(); + s.oInstance.fnDestroy(); break; } else { - _fnLog( DataTable.settings[i], 0, "Cannot reinitialise DataTable.\n\n"+ - "To retrieve the DataTables object for this table, pass no arguments or see "+ - "the docs for bRetrieve and bDestroy" ); + _fnLog( s, 0, 'Cannot reinitialise DataTable', 3 ); return; } } - + /* If the element we are initialising has the same ID as a table which was previously * initialised, but the table nodes don't match (from before) then we destroy the old * instance by simply deleting it. This is under the assumption that the table has been * destroyed by other methods. Anyone using non-id selectors will need to do this manually */ - if ( DataTable.settings[i].sTableId == this.id ) + if ( s.sTableId == this.id ) { - DataTable.settings.splice( i, 1 ); + allSettings.splice( i, 1 ); break; } } @@ -6417,80 +6168,92 @@ /* Ensure the table has an ID - required for accessibility */ if ( sId === null || sId === "" ) { - sId = "DataTables_Table_"+(DataTable.ext._oExternConfig.iNextUnique++); + sId = "DataTables_Table_"+(DataTable.ext._unique++); this.id = sId; } /* Create the settings object for this table and set some of the default parameters */ var oSettings = $.extend( true, {}, DataTable.models.oSettings, { - "nTable": this, - "oApi": _that.oApi, - "oInit": oInit, - "sDestroyWidth": $(this).width(), + "sDestroyWidth": $this[0].style.width, "sInstance": sId, "sTableId": sId } ); - DataTable.settings.push( oSettings ); + oSettings.nTable = this; + oSettings.oApi = _that.internal; + oSettings.oInit = oInit; + + allSettings.push( oSettings ); // Need to add the instance after the instance after the settings object has been added // to the settings array, so we can self reference the table instance if more than one - oSettings.oInstance = (_that.length===1) ? _that : $(this).dataTable(); - - /* Setting up the initialisation object */ - if ( !oInit ) - { - oInit = {}; - } + oSettings.oInstance = (_that.length===1) ? _that : $this.dataTable(); // Backwards compatibility, before we apply all the defaults + _fnCompatOpts( oInit ); + if ( oInit.oLanguage ) { _fnLanguageCompat( oInit.oLanguage ); } - oInit = _fnExtend( $.extend(true, {}, DataTable.defaults), oInit ); + // If the length menu is given, but the init display length is not, use the length menu + if ( oInit.aLengthMenu && ! oInit.iDisplayLength ) + { + oInit.iDisplayLength = $.isArray( oInit.aLengthMenu[0] ) ? + oInit.aLengthMenu[0][0] : oInit.aLengthMenu[0]; + } + + // Apply the defaults and init options to make a single init object will all + // options defined from defaults and instance options. + oInit = _fnExtend( $.extend( true, {}, defaults ), oInit ); + // Map the initialisation options onto the settings object - _fnMap( oSettings.oFeatures, oInit, "bPaginate" ); - _fnMap( oSettings.oFeatures, oInit, "bLengthChange" ); - _fnMap( oSettings.oFeatures, oInit, "bFilter" ); - _fnMap( oSettings.oFeatures, oInit, "bSort" ); - _fnMap( oSettings.oFeatures, oInit, "bInfo" ); - _fnMap( oSettings.oFeatures, oInit, "bProcessing" ); - _fnMap( oSettings.oFeatures, oInit, "bAutoWidth" ); - _fnMap( oSettings.oFeatures, oInit, "bSortClasses" ); - _fnMap( oSettings.oFeatures, oInit, "bServerSide" ); - _fnMap( oSettings.oFeatures, oInit, "bDeferRender" ); - _fnMap( oSettings.oScroll, oInit, "sScrollX", "sX" ); - _fnMap( oSettings.oScroll, oInit, "sScrollXInner", "sXInner" ); - _fnMap( oSettings.oScroll, oInit, "sScrollY", "sY" ); - _fnMap( oSettings.oScroll, oInit, "bScrollCollapse", "bCollapse" ); - _fnMap( oSettings.oScroll, oInit, "bScrollInfinite", "bInfinite" ); - _fnMap( oSettings.oScroll, oInit, "iScrollLoadGap", "iLoadGap" ); - _fnMap( oSettings.oScroll, oInit, "bScrollAutoCss", "bAutoCss" ); - _fnMap( oSettings, oInit, "asStripeClasses" ); - _fnMap( oSettings, oInit, "asStripClasses", "asStripeClasses" ); // legacy - _fnMap( oSettings, oInit, "fnServerData" ); - _fnMap( oSettings, oInit, "fnFormatNumber" ); - _fnMap( oSettings, oInit, "sServerMethod" ); - _fnMap( oSettings, oInit, "aaSorting" ); - _fnMap( oSettings, oInit, "aaSortingFixed" ); - _fnMap( oSettings, oInit, "aLengthMenu" ); - _fnMap( oSettings, oInit, "sPaginationType" ); - _fnMap( oSettings, oInit, "sAjaxSource" ); - _fnMap( oSettings, oInit, "sAjaxDataProp" ); - _fnMap( oSettings, oInit, "iCookieDuration" ); - _fnMap( oSettings, oInit, "sCookiePrefix" ); - _fnMap( oSettings, oInit, "sDom" ); - _fnMap( oSettings, oInit, "bSortCellsTop" ); - _fnMap( oSettings, oInit, "iTabIndex" ); - _fnMap( oSettings, oInit, "oSearch", "oPreviousSearch" ); - _fnMap( oSettings, oInit, "aoSearchCols", "aoPreSearchCols" ); - _fnMap( oSettings, oInit, "iDisplayLength", "_iDisplayLength" ); - _fnMap( oSettings, oInit, "bJQueryUI", "bJUI" ); - _fnMap( oSettings, oInit, "fnCookieCallback" ); - _fnMap( oSettings, oInit, "fnStateLoad" ); - _fnMap( oSettings, oInit, "fnStateSave" ); + _fnMap( oSettings.oFeatures, oInit, [ + "bPaginate", + "bLengthChange", + "bFilter", + "bSort", + "bSortMulti", + "bInfo", + "bProcessing", + "bAutoWidth", + "bSortClasses", + "bServerSide", + "bDeferRender" + ] ); + _fnMap( oSettings, oInit, [ + "asStripeClasses", + "ajax", + "fnServerData", + "fnFormatNumber", + "sServerMethod", + "aaSorting", + "aaSortingFixed", + "aLengthMenu", + "sPaginationType", + "sAjaxSource", + "sAjaxDataProp", + "iStateDuration", + "sDom", + "bSortCellsTop", + "iTabIndex", + "fnStateLoadCallback", + "fnStateSaveCallback", + "renderer", + "searchDelay", + [ "iCookieDuration", "iStateDuration" ], // backwards compat + [ "oSearch", "oPreviousSearch" ], + [ "aoSearchCols", "aoPreSearchCols" ], + [ "iDisplayLength", "_iDisplayLength" ], + [ "bJQueryUI", "bJUI" ] + ] ); + _fnMap( oSettings.oScroll, oInit, [ + [ "sScrollX", "sX" ], + [ "sScrollXInner", "sXInner" ], + [ "sScrollY", "sY" ], + [ "bScrollCollapse", "bCollapse" ] + ] ); _fnMap( oSettings.oLanguage, oInit, "fnInfoCallback" ); /* Callback functions which are array driven */ @@ -6506,43 +6269,43 @@ _fnCallbackReg( oSettings, 'aoInitComplete', oInit.fnInitComplete, 'user' ); _fnCallbackReg( oSettings, 'aoPreDrawCallback', oInit.fnPreDrawCallback, 'user' ); - if ( oSettings.oFeatures.bServerSide && oSettings.oFeatures.bSort && - oSettings.oFeatures.bSortClasses ) - { - /* Enable sort classes for server-side processing. Safe to do it here, since server-side - * processing must be enabled by the developer - */ - _fnCallbackReg( oSettings, 'aoDrawCallback', _fnSortingClasses, 'server_side_sort_classes' ); - } - else if ( oSettings.oFeatures.bDeferRender ) - { - _fnCallbackReg( oSettings, 'aoDrawCallback', _fnSortingClasses, 'defer_sort_classes' ); - } + var oClasses = oSettings.oClasses; + // @todo Remove in 1.11 if ( oInit.bJQueryUI ) { - /* Use the JUI classes object for display. You could clone the oStdClasses object if - * you want to have multiple tables with multiple independent classes + /* Use the JUI classes object for display. You could clone the oStdClasses object if + * you want to have multiple tables with multiple independent classes */ - $.extend( oSettings.oClasses, DataTable.ext.oJUIClasses ); - - if ( oInit.sDom === DataTable.defaults.sDom && DataTable.defaults.sDom === "lfrtip" ) + $.extend( oClasses, DataTable.ext.oJUIClasses, oInit.oClasses ); + + if ( oInit.sDom === defaults.sDom && defaults.sDom === "lfrtip" ) { /* Set the DOM to use a layout suitable for jQuery UI's theming */ oSettings.sDom = '<"H"lfr>t<"F"ip>'; } + + if ( ! oSettings.renderer ) { + oSettings.renderer = 'jqueryui'; + } + else if ( $.isPlainObject( oSettings.renderer ) && ! oSettings.renderer.header ) { + oSettings.renderer.header = 'jqueryui'; + } } else { - $.extend( oSettings.oClasses, DataTable.ext.oStdClasses ); + $.extend( oClasses, DataTable.ext.classes, oInit.oClasses ); } - $(this).addClass( oSettings.oClasses.sTable ); + $this.addClass( oClasses.sTable ); /* Calculate the scroll bar width and cache it for use later on */ if ( oSettings.oScroll.sX !== "" || oSettings.oScroll.sY !== "" ) { oSettings.oScroll.iBarWidth = _fnScrollBarWidth(); } + if ( oSettings.oScroll.sX === true ) { // Easy initialisation of x-scrolling + oSettings.oScroll.sX = '100%'; + } if ( oSettings.iInitDisplayStart === undefined ) { @@ -6551,14 +6314,6 @@ oSettings._iDisplayStart = oInit.iDisplayStart; } - /* Must be done after everything which can be overridden by a cookie! */ - if ( oInit.bStateSave ) - { - oSettings.oFeatures.bStateSave = true; - _fnLoadState( oSettings, oInit ); - _fnCallbackReg( oSettings, 'aoDrawCallback', _fnSaveState, 'state_save' ); - } - if ( oInit.iDeferLoading !== null ) { oSettings.bDeferLoading = true; @@ -6567,31 +6322,32 @@ oSettings._iRecordsTotal = tmp ? oInit.iDeferLoading[1] : oInit.iDeferLoading; } - if ( oInit.aaData !== null ) - { - bUsePassedData = true; - } - /* Language definitions */ - if ( oInit.oLanguage.sUrl !== "" ) + var oLanguage = oSettings.oLanguage; + $.extend( true, oLanguage, oInit.oLanguage ); + + if ( oLanguage.sUrl !== "" ) { /* Get the language definitions from a file - because this Ajax call makes the language - * get async to the remainder of this function we use bInitHandedOff to indicate that + * get async to the remainder of this function we use bInitHandedOff to indicate that * _fnInitialise will be fired by the returned Ajax handler, rather than the constructor */ - oSettings.oLanguage.sUrl = oInit.oLanguage.sUrl; - $.getJSON( oSettings.oLanguage.sUrl, null, function( json ) { - _fnLanguageCompat( json ); - $.extend( true, oSettings.oLanguage, oInit.oLanguage, json ); - _fnInitialise( oSettings ); + $.ajax( { + dataType: 'json', + url: oLanguage.sUrl, + success: function ( json ) { + _fnLanguageCompat( json ); + _fnCamelToHungarian( defaults.oLanguage, json ); + $.extend( true, oLanguage, json ); + _fnInitialise( oSettings ); + }, + error: function () { + // Error occurred loading language file, continue on as best we can + _fnInitialise( oSettings ); + } } ); bInitHandedOff = true; } - else - { - $.extend( true, oSettings.oLanguage, oInit.oLanguage ); - } - /* * Stripes @@ -6599,33 +6355,19 @@ if ( oInit.asStripeClasses === null ) { oSettings.asStripeClasses =[ - oSettings.oClasses.sStripeOdd, - oSettings.oClasses.sStripeEven + oClasses.sStripeOdd, + oClasses.sStripeEven ]; } /* Remove row stripe classes if they are already on the table row */ - iLen=oSettings.asStripeClasses.length; - oSettings.asDestroyStripes = []; - if (iLen) - { - var bStripeRemove = false; - var anRows = $(this).children('tbody').children('tr:lt(' + iLen + ')'); - for ( i=0 ; i<iLen ; i++ ) - { - if ( anRows.hasClass( oSettings.asStripeClasses[i] ) ) - { - bStripeRemove = true; - - /* Store the classes which we are about to remove so they can be re-added on destroy */ - oSettings.asDestroyStripes.push( oSettings.asStripeClasses[i] ); - } - } - - if ( bStripeRemove ) - { - anRows.removeClass( oSettings.asStripeClasses.join(' ') ); - } + var stripeClasses = oSettings.asStripeClasses; + var rowOne = $this.children('tbody').find('tr').eq(0); + if ( $.inArray( true, $.map( stripeClasses, function(el, i) { + return rowOne.hasClass(el); + } ) ) !== -1 ) { + $('tbody tr', this).removeClass( stripeClasses.join(' ') ); + oSettings.asDestroyStripes = stripeClasses.slice(); } /* @@ -6658,16 +6400,6 @@ /* Add the columns */ for ( i=0, iLen=aoColumnsInit.length ; i<iLen ; i++ ) { - /* Short cut - use the loop to check if we have column visibility state to restore */ - if ( oInit.saved_aoColumns !== undefined && oInit.saved_aoColumns.length == iLen ) - { - if ( aoColumnsInit[i] === null ) - { - aoColumnsInit[i] = {}; - } - aoColumnsInit[i].bVisible = oInit.saved_aoColumns[i].bVisible; - } - _fnAddColumn( oSettings, anThs ? anThs[i] : null ); } @@ -6676,47 +6408,90 @@ _fnColumnOptions( oSettings, iCol, oDef ); } ); + /* HTML5 attribute detection - build an mData object automatically if the + * attributes are found + */ + if ( rowOne.length ) { + var a = function ( cell, name ) { + return cell.getAttribute( 'data-'+name ) !== null ? name : null; + }; + + $.each( _fnGetRowElements( oSettings, rowOne[0] ).cells, function (i, cell) { + var col = oSettings.aoColumns[i]; + + if ( col.mData === i ) { + var sort = a( cell, 'sort' ) || a( cell, 'order' ); + var filter = a( cell, 'filter' ) || a( cell, 'search' ); + + if ( sort !== null || filter !== null ) { + col.mData = { + _: i+'.display', + sort: sort !== null ? i+'.@data-'+sort : undefined, + type: sort !== null ? i+'.@data-'+sort : undefined, + filter: filter !== null ? i+'.@data-'+filter : undefined + }; + + _fnColumnOptions( oSettings, i ); + } + } + } ); + } + + var features = oSettings.oFeatures; + + /* Must be done after everything which can be overridden by the state saving! */ + if ( oInit.bStateSave ) + { + features.bStateSave = true; + _fnLoadState( oSettings, oInit ); + _fnCallbackReg( oSettings, 'aoDrawCallback', _fnSaveState, 'state_save' ); + } + /* * Sorting - * Check the aaSorting array + * @todo For modularisation (1.11) this needs to do into a sort start up handler */ - for ( i=0, iLen=oSettings.aaSorting.length ; i<iLen ; i++ ) + + // If aaSorting is not defined, then we use the first indicator in asSorting + // in case that has been altered, so the default sort reflects that option + if ( oInit.aaSorting === undefined ) { - if ( oSettings.aaSorting[i][0] >= oSettings.aoColumns.length ) + var sorting = oSettings.aaSorting; + for ( i=0, iLen=sorting.length ; i<iLen ; i++ ) { - oSettings.aaSorting[i][0] = 0; - } - var oColumn = oSettings.aoColumns[ oSettings.aaSorting[i][0] ]; - - /* Add a default sorting index */ - if ( oSettings.aaSorting[i][2] === undefined ) - { - oSettings.aaSorting[i][2] = 0; - } - - /* If aaSorting is not defined, then we use the first indicator in asSorting */ - if ( oInit.aaSorting === undefined && oSettings.saved_aaSorting === undefined ) - { - oSettings.aaSorting[i][1] = oColumn.asSorting[0]; - } - - /* Set the current sorting index based on aoColumns.asSorting */ - for ( j=0, jLen=oColumn.asSorting.length ; j<jLen ; j++ ) - { - if ( oSettings.aaSorting[i][1] == oColumn.asSorting[j] ) - { - oSettings.aaSorting[i][2] = j; - break; - } + sorting[i][1] = oSettings.aoColumns[ i ].asSorting[0]; } } - + /* Do a first pass on the sorting classes (allows any size changes to be taken into * account, and also will apply sorting disabled classes if disabled */ _fnSortingClasses( oSettings ); + if ( features.bSort ) + { + _fnCallbackReg( oSettings, 'aoDrawCallback', function () { + if ( oSettings.bSorted ) { + var aSort = _fnSortFlatten( oSettings ); + var sortedColumns = {}; + + $.each( aSort, function (i, val) { + sortedColumns[ val.src ] = val.dir; + } ); + + _fnCallbackFire( oSettings, null, 'order', [oSettings, aSort, sortedColumns] ); + _fnSortAria( oSettings ); + } + } ); + } + + _fnCallbackReg( oSettings, 'aoDrawCallback', function () { + if ( oSettings.bSorted || _fnDataSource( oSettings ) === 'ssp' || features.bDeferRender ) { + _fnSortingClasses( oSettings ); + } + }, 'sc' ); + /* * Final init @@ -6727,56 +6502,55 @@ _fnBrowserDetect( oSettings ); // Work around for Webkit bug 83867 - store the caption-side before removing from doc - var captions = $(this).children('caption').each( function () { - this._captionSide = $(this).css('caption-side'); + var captions = $this.children('caption').each( function () { + this._captionSide = $this.css('caption-side'); } ); - var thead = $(this).children('thead'); + var thead = $this.children('thead'); if ( thead.length === 0 ) { - thead = [ document.createElement( 'thead' ) ]; - this.appendChild( thead[0] ); + thead = $('<thead/>').appendTo(this); } oSettings.nTHead = thead[0]; - var tbody = $(this).children('tbody'); + var tbody = $this.children('tbody'); if ( tbody.length === 0 ) { - tbody = [ document.createElement( 'tbody' ) ]; - this.appendChild( tbody[0] ); + tbody = $('<tbody/>').appendTo(this); } oSettings.nTBody = tbody[0]; - oSettings.nTBody.setAttribute( "role", "alert" ); - oSettings.nTBody.setAttribute( "aria-live", "polite" ); - oSettings.nTBody.setAttribute( "aria-relevant", "all" ); - var tfoot = $(this).children('tfoot'); + var tfoot = $this.children('tfoot'); if ( tfoot.length === 0 && captions.length > 0 && (oSettings.oScroll.sX !== "" || oSettings.oScroll.sY !== "") ) { // If we are a scrolling table, and no footer has been given, then we need to create // a tfoot element for the caption element to be appended to - tfoot = [ document.createElement( 'tfoot' ) ]; - this.appendChild( tfoot[0] ); + tfoot = $('<tfoot/>').appendTo(this); } - if ( tfoot.length > 0 ) - { + if ( tfoot.length === 0 || tfoot.children().length === 0 ) { + $this.addClass( oClasses.sNoFooter ); + } + else if ( tfoot.length > 0 ) { oSettings.nTFoot = tfoot[0]; _fnDetectHeader( oSettings.aoFooter, oSettings.nTFoot ); } /* Check if there is data passing into the constructor */ - if ( bUsePassedData ) + if ( oInit.aaData ) { for ( i=0 ; i<oInit.aaData.length ; i++ ) { _fnAddData( oSettings, oInit.aaData[ i ] ); } } - else + else if ( oSettings.bDeferLoading || _fnDataSource( oSettings ) == 'dom' ) { - /* Grab the data from the page */ - _fnGatherData( oSettings ); + /* Grab the data from the page - only do this when deferred loading or no Ajax + * source since there is no point in reading the DOM data if we are then going + * to replace it with Ajax data + */ + _fnAddTr( oSettings, $(oSettings.nTBody).children('tr') ); } /* Copy the data index array */ @@ -6800,660 +6574,2588 @@ /** - * Provide a common method for plug-ins to check the version of DataTables being used, in order - * to ensure compatibility. - * @param {string} sVersion Version string to check for, in the format "X.Y.Z". Note that the - * formats "X" and "X.Y" are also acceptable. - * @returns {boolean} true if this version of DataTables is greater or equal to the required - * version, or false if this version of DataTales is not suitable - * @static - * @dtopt API-Static + * Computed structure of the DataTables API, defined by the options passed to + * `DataTable.Api.register()` when building the API. * - * @example - * alert( $.fn.dataTable.fnVersionCheck( '1.9.0' ) ); + * The structure is built in order to speed creation and extension of the Api + * objects since the extensions are effectively pre-parsed. + * + * The array is an array of objects with the following structure, where this + * base array represents the Api prototype base: + * + * [ + * { + * name: 'data' -- string - Property name + * val: function () {}, -- function - Api method (or undefined if just an object + * methodExt: [ ... ], -- array - Array of Api object definitions to extend the method result + * propExt: [ ... ] -- array - Array of Api object definitions to extend the property + * }, + * { + * name: 'row' + * val: {}, + * methodExt: [ ... ], + * propExt: [ + * { + * name: 'data' + * val: function () {}, + * methodExt: [ ... ], + * propExt: [ ... ] + * }, + * ... + * ] + * } + * ] + * + * @type {Array} + * @ignore */ - DataTable.fnVersionCheck = function( sVersion ) + var __apiStruct = []; + + + /** + * `Array.prototype` reference. + * + * @type object + * @ignore + */ + var __arrayProto = Array.prototype; + + + /** + * Abstraction for `context` parameter of the `Api` constructor to allow it to + * take several different forms for ease of use. + * + * Each of the input parameter types will be converted to a DataTables settings + * object where possible. + * + * @param {string|node|jQuery|object} mixed DataTable identifier. Can be one + * of: + * + * * `string` - jQuery selector. Any DataTables' matching the given selector + * with be found and used. + * * `node` - `TABLE` node which has already been formed into a DataTable. + * * `jQuery` - A jQuery object of `TABLE` nodes. + * * `object` - DataTables settings object + * * `DataTables.Api` - API instance + * @return {array|null} Matching DataTables settings objects. `null` or + * `undefined` is returned if no matching DataTable is found. + * @ignore + */ + var _toSettings = function ( mixed ) { - /* This is cheap, but effective */ - var fnZPad = function (Zpad, count) - { - while(Zpad.length < count) { - Zpad += '0'; + var idx, jq; + var settings = DataTable.settings; + var tables = $.map( settings, function (el, i) { + return el.nTable; + } ); + + if ( ! mixed ) { + return []; + } + else if ( mixed.nTable && mixed.oApi ) { + // DataTables settings object + return [ mixed ]; + } + else if ( mixed.nodeName && mixed.nodeName.toLowerCase() === 'table' ) { + // Table node + idx = $.inArray( mixed, tables ); + return idx !== -1 ? [ settings[idx] ] : null; + } + else if ( mixed && typeof mixed.settings === 'function' ) { + return mixed.settings().toArray(); + } + else if ( typeof mixed === 'string' ) { + // jQuery selector + jq = $(mixed); + } + else if ( mixed instanceof $ ) { + // jQuery object (also DataTables instance) + jq = mixed; + } + + if ( jq ) { + return jq.map( function(i) { + idx = $.inArray( this, tables ); + return idx !== -1 ? settings[idx] : null; + } ).toArray(); + } + }; + + + /** + * DataTables API class - used to control and interface with one or more + * DataTables enhanced tables. + * + * The API class is heavily based on jQuery, presenting a chainable interface + * that you can use to interact with tables. Each instance of the API class has + * a "context" - i.e. the tables that it will operate on. This could be a single + * table, all tables on a page or a sub-set thereof. + * + * Additionally the API is designed to allow you to easily work with the data in + * the tables, retrieving and manipulating it as required. This is done by + * presenting the API class as an array like interface. The contents of the + * array depend upon the actions requested by each method (for example + * `rows().nodes()` will return an array of nodes, while `rows().data()` will + * return an array of objects or arrays depending upon your table's + * configuration). The API object has a number of array like methods (`push`, + * `pop`, `reverse` etc) as well as additional helper methods (`each`, `pluck`, + * `unique` etc) to assist your working with the data held in a table. + * + * Most methods (those which return an Api instance) are chainable, which means + * the return from a method call also has all of the methods available that the + * top level object had. For example, these two calls are equivalent: + * + * // Not chained + * api.row.add( {...} ); + * api.draw(); + * + * // Chained + * api.row.add( {...} ).draw(); + * + * @class DataTable.Api + * @param {array|object|string|jQuery} context DataTable identifier. This is + * used to define which DataTables enhanced tables this API will operate on. + * Can be one of: + * + * * `string` - jQuery selector. Any DataTables' matching the given selector + * with be found and used. + * * `node` - `TABLE` node which has already been formed into a DataTable. + * * `jQuery` - A jQuery object of `TABLE` nodes. + * * `object` - DataTables settings object + * @param {array} [data] Data to initialise the Api instance with. + * + * @example + * // Direct initialisation during DataTables construction + * var api = $('#example').DataTable(); + * + * @example + * // Initialisation using a DataTables jQuery object + * var api = $('#example').dataTable().api(); + * + * @example + * // Initialisation as a constructor + * var api = new $.fn.DataTable.Api( 'table.dataTable' ); + */ + _Api = function ( context, data ) + { + if ( ! (this instanceof _Api) ) { + return new _Api( context, data ); + } + + var settings = []; + var ctxSettings = function ( o ) { + var a = _toSettings( o ); + if ( a ) { + settings.push.apply( settings, a ); } - return Zpad; }; - var aThis = DataTable.ext.sVersion.split('.'); - var aThat = sVersion.split('.'); - var sThis = '', sThat = ''; - - for ( var i=0, iLen=aThat.length ; i<iLen ; i++ ) + + if ( $.isArray( context ) ) { + for ( var i=0, ien=context.length ; i<ien ; i++ ) { + ctxSettings( context[i] ); + } + } + else { + ctxSettings( context ); + } + + // Remove duplicates + this.context = _unique( settings ); + + // Initial data + if ( data ) { + this.push.apply( this, data.toArray ? data.toArray() : data ); + } + + // selector + this.selector = { + rows: null, + cols: null, + opts: null + }; + + _Api.extend( this, this, __apiStruct ); + }; + + DataTable.Api = _Api; + + _Api.prototype = /** @lends DataTables.Api */{ + any: function () + { + return this.flatten().length !== 0; + }, + + + concat: __arrayProto.concat, + + + context: [], // array of table settings objects + + + each: function ( fn ) + { + for ( var i=0, ien=this.length ; i<ien; i++ ) { + fn.call( this, this[i], i, this ); + } + + return this; + }, + + + eq: function ( idx ) + { + var ctx = this.context; + + return ctx.length > idx ? + new _Api( ctx[idx], this[idx] ) : + null; + }, + + + filter: function ( fn ) + { + var a = []; + + if ( __arrayProto.filter ) { + a = __arrayProto.filter.call( this, fn, this ); + } + else { + // Compatibility for browsers without EMCA-252-5 (JS 1.6) + for ( var i=0, ien=this.length ; i<ien ; i++ ) { + if ( fn.call( this, this[i], i, this ) ) { + a.push( this[i] ); + } + } + } + + return new _Api( this.context, a ); + }, + + + flatten: function () + { + var a = []; + return new _Api( this.context, a.concat.apply( a, this.toArray() ) ); + }, + + + join: __arrayProto.join, + + + indexOf: __arrayProto.indexOf || function (obj, start) + { + for ( var i=(start || 0), ien=this.length ; i<ien ; i++ ) { + if ( this[i] === obj ) { + return i; + } + } + return -1; + }, + + iterator: function ( flatten, type, fn, alwaysNew ) { + var + a = [], ret, + i, ien, j, jen, + context = this.context, + rows, items, item, + selector = this.selector; + + // Argument shifting + if ( typeof flatten === 'string' ) { + alwaysNew = fn; + fn = type; + type = flatten; + flatten = false; + } + + for ( i=0, ien=context.length ; i<ien ; i++ ) { + var apiInst = new _Api( context[i] ); + + if ( type === 'table' ) { + ret = fn.call( apiInst, context[i], i ); + + if ( ret !== undefined ) { + a.push( ret ); + } + } + else if ( type === 'columns' || type === 'rows' ) { + // this has same length as context - one entry for each table + ret = fn.call( apiInst, context[i], this[i], i ); + + if ( ret !== undefined ) { + a.push( ret ); + } + } + else if ( type === 'column' || type === 'column-rows' || type === 'row' || type === 'cell' ) { + // columns and rows share the same structure. + // 'this' is an array of column indexes for each context + items = this[i]; + + if ( type === 'column-rows' ) { + rows = _selector_row_indexes( context[i], selector.opts ); + } + + for ( j=0, jen=items.length ; j<jen ; j++ ) { + item = items[j]; + + if ( type === 'cell' ) { + ret = fn.call( apiInst, context[i], item.row, item.column, i, j ); + } + else { + ret = fn.call( apiInst, context[i], item, i, j, rows ); + } + + if ( ret !== undefined ) { + a.push( ret ); + } + } + } + } + + if ( a.length || alwaysNew ) { + var api = new _Api( context, flatten ? a.concat.apply( [], a ) : a ); + var apiSelector = api.selector; + apiSelector.rows = selector.rows; + apiSelector.cols = selector.cols; + apiSelector.opts = selector.opts; + return api; + } + return this; + }, + + + lastIndexOf: __arrayProto.lastIndexOf || function (obj, start) + { + // Bit cheeky... + return this.indexOf.apply( this.toArray.reverse(), arguments ); + }, + + + length: 0, + + + map: function ( fn ) + { + var a = []; + + if ( __arrayProto.map ) { + a = __arrayProto.map.call( this, fn, this ); + } + else { + // Compatibility for browsers without EMCA-252-5 (JS 1.6) + for ( var i=0, ien=this.length ; i<ien ; i++ ) { + a.push( fn.call( this, this[i], i ) ); + } + } + + return new _Api( this.context, a ); + }, + + + pluck: function ( prop ) { - sThis += fnZPad( aThis[i], 3 ); - sThat += fnZPad( aThat[i], 3 ); + return this.map( function ( el ) { + return el[ prop ]; + } ); + }, + + pop: __arrayProto.pop, + + + push: __arrayProto.push, + + + // Does not return an API instance + reduce: __arrayProto.reduce || function ( fn, init ) + { + return _fnReduce( this, fn, init, 0, this.length, 1 ); + }, + + + reduceRight: __arrayProto.reduceRight || function ( fn, init ) + { + return _fnReduce( this, fn, init, this.length-1, -1, -1 ); + }, + + + reverse: __arrayProto.reverse, + + + // Object with rows, columns and opts + selector: null, + + + shift: __arrayProto.shift, + + + sort: __arrayProto.sort, // ? name - order? + + + splice: __arrayProto.splice, + + + toArray: function () + { + return __arrayProto.slice.call( this ); + }, + + + to$: function () + { + return $( this ); + }, + + + toJQuery: function () + { + return $( this ); + }, + + + unique: function () + { + return new _Api( this.context, _unique(this) ); + }, + + + unshift: __arrayProto.unshift + }; + + + _Api.extend = function ( scope, obj, ext ) + { + // Only extend API instances and static properties of the API + if ( ! ext.length || ! obj || ( ! (obj instanceof _Api) && ! obj.__dt_wrapper ) ) { + return; + } + + var + i, ien, + j, jen, + struct, inner, + methodScoping = function ( scope, fn, struc ) { + return function () { + var ret = fn.apply( scope, arguments ); + + // Method extension + _Api.extend( ret, ret, struc.methodExt ); + return ret; + }; + }; + + for ( i=0, ien=ext.length ; i<ien ; i++ ) { + struct = ext[i]; + + // Value + obj[ struct.name ] = typeof struct.val === 'function' ? + methodScoping( scope, struct.val, struct ) : + $.isPlainObject( struct.val ) ? + {} : + struct.val; + + obj[ struct.name ].__dt_wrapper = true; + + // Property extension + _Api.extend( scope, obj[ struct.name ], struct.propExt ); } - - return parseInt(sThis, 10) >= parseInt(sThat, 10); + }; + + + // @todo - Is there need for an augment function? + // _Api.augment = function ( inst, name ) + // { + // // Find src object in the structure from the name + // var parts = name.split('.'); + + // _Api.extend( inst, obj ); + // }; + + + // [ + // { + // name: 'data' -- string - Property name + // val: function () {}, -- function - Api method (or undefined if just an object + // methodExt: [ ... ], -- array - Array of Api object definitions to extend the method result + // propExt: [ ... ] -- array - Array of Api object definitions to extend the property + // }, + // { + // name: 'row' + // val: {}, + // methodExt: [ ... ], + // propExt: [ + // { + // name: 'data' + // val: function () {}, + // methodExt: [ ... ], + // propExt: [ ... ] + // }, + // ... + // ] + // } + // ] + + _Api.register = _api_register = function ( name, val ) + { + if ( $.isArray( name ) ) { + for ( var j=0, jen=name.length ; j<jen ; j++ ) { + _Api.register( name[j], val ); + } + return; + } + + var + i, ien, + heir = name.split('.'), + struct = __apiStruct, + key, method; + + var find = function ( src, name ) { + for ( var i=0, ien=src.length ; i<ien ; i++ ) { + if ( src[i].name === name ) { + return src[i]; + } + } + return null; + }; + + for ( i=0, ien=heir.length ; i<ien ; i++ ) { + method = heir[i].indexOf('()') !== -1; + key = method ? + heir[i].replace('()', '') : + heir[i]; + + var src = find( struct, key ); + if ( ! src ) { + src = { + name: key, + val: {}, + methodExt: [], + propExt: [] + }; + struct.push( src ); + } + + if ( i === ien-1 ) { + src.val = val; + } + else { + struct = method ? + src.methodExt : + src.propExt; + } + } + }; + + + _Api.registerPlural = _api_registerPlural = function ( pluralName, singularName, val ) { + _Api.register( pluralName, val ); + + _Api.register( singularName, function () { + var ret = val.apply( this, arguments ); + + if ( ret === this ) { + // Returned item is the API instance that was passed in, return it + return this; + } + else if ( ret instanceof _Api ) { + // New API instance returned, want the value from the first item + // in the returned array for the singular result. + return ret.length ? + $.isArray( ret[0] ) ? + new _Api( ret.context, ret[0] ) : // Array results are 'enhanced' + ret[0] : + undefined; + } + + // Non-API return - just fire it back + return ret; + } ); }; /** - * Check if a TABLE node is a DataTable table already or not. - * @param {node} nTable The TABLE node to check if it is a DataTable or not (note that other - * node types can be passed in, but will always return false). - * @returns {boolean} true the table given is a DataTable, or false otherwise + * Selector for HTML tables. Apply the given selector to the give array of + * DataTables settings objects. + * + * @param {string|integer} [selector] jQuery selector string or integer + * @param {array} Array of DataTables settings objects to be filtered + * @return {array} + * @ignore + */ + var __table_selector = function ( selector, a ) + { + // Integer is used to pick out a table by index + if ( typeof selector === 'number' ) { + return [ a[ selector ] ]; + } + + // Perform a jQuery selector on the table nodes + var nodes = $.map( a, function (el, i) { + return el.nTable; + } ); + + return $(nodes) + .filter( selector ) + .map( function (i) { + // Need to translate back from the table node to the settings + var idx = $.inArray( this, nodes ); + return a[ idx ]; + } ) + .toArray(); + }; + + + + /** + * Context selector for the API's context (i.e. the tables the API instance + * refers to. + * + * @name DataTable.Api#tables + * @param {string|integer} [selector] Selector to pick which tables the iterator + * should operate on. If not given, all tables in the current context are + * used. This can be given as a jQuery selector (for example `':gt(0)'`) to + * select multiple tables or as an integer to select a single table. + * @returns {DataTable.Api} Returns a new API instance if a selector is given. + */ + _api_register( 'tables()', function ( selector ) { + // A new instance is created if there was a selector specified + return selector ? + new _Api( __table_selector( selector, this.context ) ) : + this; + } ); + + + _api_register( 'table()', function ( selector ) { + var tables = this.tables( selector ); + var ctx = tables.context; + + // Truncate to the first matched table + return ctx.length ? + new _Api( ctx[0] ) : + tables; + } ); + + + _api_registerPlural( 'tables().nodes()', 'table().node()' , function () { + return this.iterator( 'table', function ( ctx ) { + return ctx.nTable; + }, 1 ); + } ); + + + _api_registerPlural( 'tables().body()', 'table().body()' , function () { + return this.iterator( 'table', function ( ctx ) { + return ctx.nTBody; + }, 1 ); + } ); + + + _api_registerPlural( 'tables().header()', 'table().header()' , function () { + return this.iterator( 'table', function ( ctx ) { + return ctx.nTHead; + }, 1 ); + } ); + + + _api_registerPlural( 'tables().footer()', 'table().footer()' , function () { + return this.iterator( 'table', function ( ctx ) { + return ctx.nTFoot; + }, 1 ); + } ); + + + _api_registerPlural( 'tables().containers()', 'table().container()' , function () { + return this.iterator( 'table', function ( ctx ) { + return ctx.nTableWrapper; + }, 1 ); + } ); + + + + /** + * Redraw the tables in the current context. + * + * @param {boolean} [reset=true] Reset (default) or hold the current paging + * position. A full re-sort and re-filter is performed when this method is + * called, which is why the pagination reset is the default action. + * @returns {DataTables.Api} this + */ + _api_register( 'draw()', function ( resetPaging ) { + return this.iterator( 'table', function ( settings ) { + _fnReDraw( settings, resetPaging===false ); + } ); + } ); + + + + /** + * Get the current page index. + * + * @return {integer} Current page index (zero based) + *//** + * Set the current page. + * + * Note that if you attempt to show a page which does not exist, DataTables will + * not throw an error, but rather reset the paging. + * + * @param {integer|string} action The paging action to take. This can be one of: + * * `integer` - The page index to jump to + * * `string` - An action to take: + * * `first` - Jump to first page. + * * `next` - Jump to the next page + * * `previous` - Jump to previous page + * * `last` - Jump to the last page. + * @returns {DataTables.Api} this + */ + _api_register( 'page()', function ( action ) { + if ( action === undefined ) { + return this.page.info().page; // not an expensive call + } + + // else, have an action to take on all tables + return this.iterator( 'table', function ( settings ) { + _fnPageChange( settings, action ); + } ); + } ); + + + /** + * Paging information for the first table in the current context. + * + * If you require paging information for another table, use the `table()` method + * with a suitable selector. + * + * @return {object} Object with the following properties set: + * * `page` - Current page index (zero based - i.e. the first page is `0`) + * * `pages` - Total number of pages + * * `start` - Display index for the first record shown on the current page + * * `end` - Display index for the last record shown on the current page + * * `length` - Display length (number of records). Note that generally `start + * + length = end`, but this is not always true, for example if there are + * only 2 records to show on the final page, with a length of 10. + * * `recordsTotal` - Full data set length + * * `recordsDisplay` - Data set length once the current filtering criterion + * are applied. + */ + _api_register( 'page.info()', function ( action ) { + if ( this.context.length === 0 ) { + return undefined; + } + + var + settings = this.context[0], + start = settings._iDisplayStart, + len = settings._iDisplayLength, + visRecords = settings.fnRecordsDisplay(), + all = len === -1; + + return { + "page": all ? 0 : Math.floor( start / len ), + "pages": all ? 1 : Math.ceil( visRecords / len ), + "start": start, + "end": settings.fnDisplayEnd(), + "length": len, + "recordsTotal": settings.fnRecordsTotal(), + "recordsDisplay": visRecords + }; + } ); + + + /** + * Get the current page length. + * + * @return {integer} Current page length. Note `-1` indicates that all records + * are to be shown. + *//** + * Set the current page length. + * + * @param {integer} Page length to set. Use `-1` to show all records. + * @returns {DataTables.Api} this + */ + _api_register( 'page.len()', function ( len ) { + // Note that we can't call this function 'length()' because `length` + // is a Javascript property of functions which defines how many arguments + // the function expects. + if ( len === undefined ) { + return this.context.length !== 0 ? + this.context[0]._iDisplayLength : + undefined; + } + + // else, set the page length + return this.iterator( 'table', function ( settings ) { + _fnLengthChange( settings, len ); + } ); + } ); + + + + var __reload = function ( settings, holdPosition, callback ) { + // Use the draw event to trigger a callback + if ( callback ) { + var api = new _Api( settings ); + + api.one( 'draw', function () { + callback( api.ajax.json() ); + } ); + } + + if ( _fnDataSource( settings ) == 'ssp' ) { + _fnReDraw( settings, holdPosition ); + } + else { + // Trigger xhr + _fnProcessingDisplay( settings, true ); + + _fnBuildAjax( settings, [], function( json ) { + _fnClearTable( settings ); + + var data = _fnAjaxDataSrc( settings, json ); + for ( var i=0, ien=data.length ; i<ien ; i++ ) { + _fnAddData( settings, data[i] ); + } + + _fnReDraw( settings, holdPosition ); + _fnProcessingDisplay( settings, false ); + } ); + } + }; + + + /** + * Get the JSON response from the last Ajax request that DataTables made to the + * server. Note that this returns the JSON from the first table in the current + * context. + * + * @return {object} JSON received from the server. + */ + _api_register( 'ajax.json()', function () { + var ctx = this.context; + + if ( ctx.length > 0 ) { + return ctx[0].json; + } + + // else return undefined; + } ); + + + /** + * Get the data submitted in the last Ajax request + */ + _api_register( 'ajax.params()', function () { + var ctx = this.context; + + if ( ctx.length > 0 ) { + return ctx[0].oAjaxData; + } + + // else return undefined; + } ); + + + /** + * Reload tables from the Ajax data source. Note that this function will + * automatically re-draw the table when the remote data has been loaded. + * + * @param {boolean} [reset=true] Reset (default) or hold the current paging + * position. A full re-sort and re-filter is performed when this method is + * called, which is why the pagination reset is the default action. + * @returns {DataTables.Api} this + */ + _api_register( 'ajax.reload()', function ( callback, resetPaging ) { + return this.iterator( 'table', function (settings) { + __reload( settings, resetPaging===false, callback ); + } ); + } ); + + + /** + * Get the current Ajax URL. Note that this returns the URL from the first + * table in the current context. + * + * @return {string} Current Ajax source URL + *//** + * Set the Ajax URL. Note that this will set the URL for all tables in the + * current context. + * + * @param {string} url URL to set. + * @returns {DataTables.Api} this + */ + _api_register( 'ajax.url()', function ( url ) { + var ctx = this.context; + + if ( url === undefined ) { + // get + if ( ctx.length === 0 ) { + return undefined; + } + ctx = ctx[0]; + + return ctx.ajax ? + $.isPlainObject( ctx.ajax ) ? + ctx.ajax.url : + ctx.ajax : + ctx.sAjaxSource; + } + + // set + return this.iterator( 'table', function ( settings ) { + if ( $.isPlainObject( settings.ajax ) ) { + settings.ajax.url = url; + } + else { + settings.ajax = url; + } + // No need to consider sAjaxSource here since DataTables gives priority + // to `ajax` over `sAjaxSource`. So setting `ajax` here, renders any + // value of `sAjaxSource` redundant. + } ); + } ); + + + /** + * Load data from the newly set Ajax URL. Note that this method is only + * available when `ajax.url()` is used to set a URL. Additionally, this method + * has the same effect as calling `ajax.reload()` but is provided for + * convenience when setting a new URL. Like `ajax.reload()` it will + * automatically redraw the table once the remote data has been loaded. + * + * @returns {DataTables.Api} this + */ + _api_register( 'ajax.url().load()', function ( callback, resetPaging ) { + // Same as a reload, but makes sense to present it for easy access after a + // url change + return this.iterator( 'table', function ( ctx ) { + __reload( ctx, resetPaging===false, callback ); + } ); + } ); + + + + + var _selector_run = function ( type, selector, selectFn, settings, opts ) + { + var + out = [], res, + a, i, ien, j, jen, + selectorType = typeof selector; + + // Can't just check for isArray here, as an API or jQuery instance might be + // given with their array like look + if ( ! selector || selectorType === 'string' || selectorType === 'function' || selector.length === undefined ) { + selector = [ selector ]; + } + + for ( i=0, ien=selector.length ; i<ien ; i++ ) { + a = selector[i] && selector[i].split ? + selector[i].split(',') : + [ selector[i] ]; + + for ( j=0, jen=a.length ; j<jen ; j++ ) { + res = selectFn( typeof a[j] === 'string' ? $.trim(a[j]) : a[j] ); + + if ( res && res.length ) { + out.push.apply( out, res ); + } + } + } + + // selector extensions + var ext = _ext.selector[ type ]; + if ( ext.length ) { + for ( i=0, ien=ext.length ; i<ien ; i++ ) { + out = ext[i]( settings, opts, out ); + } + } + + return out; + }; + + + var _selector_opts = function ( opts ) + { + if ( ! opts ) { + opts = {}; + } + + // Backwards compatibility for 1.9- which used the terminology filter rather + // than search + if ( opts.filter && opts.search === undefined ) { + opts.search = opts.filter; + } + + return $.extend( { + search: 'none', + order: 'current', + page: 'all' + }, opts ); + }; + + + var _selector_first = function ( inst ) + { + // Reduce the API instance to the first item found + for ( var i=0, ien=inst.length ; i<ien ; i++ ) { + if ( inst[i].length > 0 ) { + // Assign the first element to the first item in the instance + // and truncate the instance and context + inst[0] = inst[i]; + inst[0].length = 1; + inst.length = 1; + inst.context = [ inst.context[i] ]; + + return inst; + } + } + + // Not found - return an empty instance + inst.length = 0; + return inst; + }; + + + var _selector_row_indexes = function ( settings, opts ) + { + var + i, ien, tmp, a=[], + displayFiltered = settings.aiDisplay, + displayMaster = settings.aiDisplayMaster; + + var + search = opts.search, // none, applied, removed + order = opts.order, // applied, current, index (original - compatibility with 1.9) + page = opts.page; // all, current + + if ( _fnDataSource( settings ) == 'ssp' ) { + // In server-side processing mode, most options are irrelevant since + // rows not shown don't exist and the index order is the applied order + // Removed is a special case - for consistency just return an empty + // array + return search === 'removed' ? + [] : + _range( 0, displayMaster.length ); + } + else if ( page == 'current' ) { + // Current page implies that order=current and fitler=applied, since it is + // fairly senseless otherwise, regardless of what order and search actually + // are + for ( i=settings._iDisplayStart, ien=settings.fnDisplayEnd() ; i<ien ; i++ ) { + a.push( displayFiltered[i] ); + } + } + else if ( order == 'current' || order == 'applied' ) { + a = search == 'none' ? + displayMaster.slice() : // no search + search == 'applied' ? + displayFiltered.slice() : // applied search + $.map( displayMaster, function (el, i) { // removed search + return $.inArray( el, displayFiltered ) === -1 ? el : null; + } ); + } + else if ( order == 'index' || order == 'original' ) { + for ( i=0, ien=settings.aoData.length ; i<ien ; i++ ) { + if ( search == 'none' ) { + a.push( i ); + } + else { // applied | removed + tmp = $.inArray( i, displayFiltered ); + + if ((tmp === -1 && search == 'removed') || + (tmp >= 0 && search == 'applied') ) + { + a.push( i ); + } + } + } + } + + return a; + }; + + + /* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * + * Rows + * + * {} - no selector - use all available rows + * {integer} - row aoData index + * {node} - TR node + * {string} - jQuery selector to apply to the TR elements + * {array} - jQuery array of nodes, or simply an array of TR nodes + * + */ + + + var __row_selector = function ( settings, selector, opts ) + { + var run = function ( sel ) { + var selInt = _intVal( sel ); + var i, ien; + + // Short cut - selector is a number and no options provided (default is + // all records, so no need to check if the index is in there, since it + // must be - dev error if the index doesn't exist). + if ( selInt !== null && ! opts ) { + return [ selInt ]; + } + + var rows = _selector_row_indexes( settings, opts ); + + if ( selInt !== null && $.inArray( selInt, rows ) !== -1 ) { + // Selector - integer + return [ selInt ]; + } + else if ( ! sel ) { + // Selector - none + return rows; + } + + // Selector - function + if ( typeof sel === 'function' ) { + return $.map( rows, function (idx) { + var row = settings.aoData[ idx ]; + return sel( idx, row._aData, row.nTr ) ? idx : null; + } ); + } + + // Get nodes in the order from the `rows` array with null values removed + var nodes = _removeEmpty( + _pluck_order( settings.aoData, rows, 'nTr' ) + ); + + // Selector - node + if ( sel.nodeName ) { + if ( $.inArray( sel, nodes ) !== -1 ) { + return [ sel._DT_RowIndex ]; // sel is a TR node that is in the table + // and DataTables adds a prop for fast lookup + } + } + + // Selector - jQuery selector string, array of nodes or jQuery object/ + // As jQuery's .filter() allows jQuery objects to be passed in filter, + // it also allows arrays, so this will cope with all three options + return $(nodes) + .filter( sel ) + .map( function () { + return this._DT_RowIndex; + } ) + .toArray(); + }; + + return _selector_run( 'row', selector, run, settings, opts ); + }; + + + _api_register( 'rows()', function ( selector, opts ) { + // argument shifting + if ( selector === undefined ) { + selector = ''; + } + else if ( $.isPlainObject( selector ) ) { + opts = selector; + selector = ''; + } + + opts = _selector_opts( opts ); + + var inst = this.iterator( 'table', function ( settings ) { + return __row_selector( settings, selector, opts ); + }, 1 ); + + // Want argument shifting here and in __row_selector? + inst.selector.rows = selector; + inst.selector.opts = opts; + + return inst; + } ); + + _api_register( 'rows().nodes()', function () { + return this.iterator( 'row', function ( settings, row ) { + return settings.aoData[ row ].nTr || undefined; + }, 1 ); + } ); + + _api_register( 'rows().data()', function () { + return this.iterator( true, 'rows', function ( settings, rows ) { + return _pluck_order( settings.aoData, rows, '_aData' ); + }, 1 ); + } ); + + _api_registerPlural( 'rows().cache()', 'row().cache()', function ( type ) { + return this.iterator( 'row', function ( settings, row ) { + var r = settings.aoData[ row ]; + return type === 'search' ? r._aFilterData : r._aSortData; + }, 1 ); + } ); + + _api_registerPlural( 'rows().invalidate()', 'row().invalidate()', function ( src ) { + return this.iterator( 'row', function ( settings, row ) { + _fnInvalidate( settings, row, src ); + } ); + } ); + + _api_registerPlural( 'rows().indexes()', 'row().index()', function () { + return this.iterator( 'row', function ( settings, row ) { + return row; + }, 1 ); + } ); + + _api_registerPlural( 'rows().remove()', 'row().remove()', function () { + var that = this; + + return this.iterator( 'row', function ( settings, row, thatIdx ) { + var data = settings.aoData; + + data.splice( row, 1 ); + + // Update the _DT_RowIndex parameter on all rows in the table + for ( var i=0, ien=data.length ; i<ien ; i++ ) { + if ( data[i].nTr !== null ) { + data[i].nTr._DT_RowIndex = i; + } + } + + // Remove the target row from the search array + var displayIndex = $.inArray( row, settings.aiDisplay ); + + // Delete from the display arrays + _fnDeleteIndex( settings.aiDisplayMaster, row ); + _fnDeleteIndex( settings.aiDisplay, row ); + _fnDeleteIndex( that[ thatIdx ], row, false ); // maintain local indexes + + // Check for an 'overflow' they case for displaying the table + _fnLengthOverflow( settings ); + } ); + } ); + + + _api_register( 'rows.add()', function ( rows ) { + var newRows = this.iterator( 'table', function ( settings ) { + var row, i, ien; + var out = []; + + for ( i=0, ien=rows.length ; i<ien ; i++ ) { + row = rows[i]; + + if ( row.nodeName && row.nodeName.toUpperCase() === 'TR' ) { + out.push( _fnAddTr( settings, row )[0] ); + } + else { + out.push( _fnAddData( settings, row ) ); + } + } + + return out; + }, 1 ); + + // Return an Api.rows() extended instance, so rows().nodes() etc can be used + var modRows = this.rows( -1 ); + modRows.pop(); + modRows.push.apply( modRows, newRows.toArray() ); + + return modRows; + } ); + + + + + + /** + * + */ + _api_register( 'row()', function ( selector, opts ) { + return _selector_first( this.rows( selector, opts ) ); + } ); + + + _api_register( 'row().data()', function ( data ) { + var ctx = this.context; + + if ( data === undefined ) { + // Get + return ctx.length && this.length ? + ctx[0].aoData[ this[0] ]._aData : + undefined; + } + + // Set + ctx[0].aoData[ this[0] ]._aData = data; + + // Automatically invalidate + _fnInvalidate( ctx[0], this[0], 'data' ); + + return this; + } ); + + + _api_register( 'row().node()', function () { + var ctx = this.context; + + return ctx.length && this.length ? + ctx[0].aoData[ this[0] ].nTr || null : + null; + } ); + + + _api_register( 'row.add()', function ( row ) { + // Allow a jQuery object to be passed in - only a single row is added from + // it though - the first element in the set + if ( row instanceof $ && row.length ) { + row = row[0]; + } + + var rows = this.iterator( 'table', function ( settings ) { + if ( row.nodeName && row.nodeName.toUpperCase() === 'TR' ) { + return _fnAddTr( settings, row )[0]; + } + return _fnAddData( settings, row ); + } ); + + // Return an Api.rows() extended instance, with the newly added row selected + return this.row( rows[0] ); + } ); + + + + var __details_add = function ( ctx, row, data, klass ) + { + // Convert to array of TR elements + var rows = []; + var addRow = function ( r, k ) { + // Recursion to allow for arrays of jQuery objects + if ( $.isArray( r ) || r instanceof $ ) { + for ( var i=0, ien=r.length ; i<ien ; i++ ) { + addRow( r[i], k ); + } + return; + } + + // If we get a TR element, then just add it directly - up to the dev + // to add the correct number of columns etc + if ( r.nodeName && r.nodeName.toLowerCase() === 'tr' ) { + rows.push( r ); + } + else { + // Otherwise create a row with a wrapper + var created = $('<tr><td/></tr>').addClass( k ); + $('td', created) + .addClass( k ) + .html( r ) + [0].colSpan = _fnVisbleColumns( ctx ); + + rows.push( created[0] ); + } + }; + + addRow( data, klass ); + + if ( row._details ) { + row._details.remove(); + } + + row._details = $(rows); + + // If the children were already shown, that state should be retained + if ( row._detailsShow ) { + row._details.insertAfter( row.nTr ); + } + }; + + + var __details_remove = function ( api, idx ) + { + var ctx = api.context; + + if ( ctx.length ) { + var row = ctx[0].aoData[ idx !== undefined ? idx : api[0] ]; + + if ( row._details ) { + row._details.remove(); + + row._detailsShow = undefined; + row._details = undefined; + } + } + }; + + + var __details_display = function ( api, show ) { + var ctx = api.context; + + if ( ctx.length && api.length ) { + var row = ctx[0].aoData[ api[0] ]; + + if ( row._details ) { + row._detailsShow = show; + + if ( show ) { + row._details.insertAfter( row.nTr ); + } + else { + row._details.detach(); + } + + __details_events( ctx[0] ); + } + } + }; + + + var __details_events = function ( settings ) + { + var api = new _Api( settings ); + var namespace = '.dt.DT_details'; + var drawEvent = 'draw'+namespace; + var colvisEvent = 'column-visibility'+namespace; + var destroyEvent = 'destroy'+namespace; + var data = settings.aoData; + + api.off( drawEvent +' '+ colvisEvent +' '+ destroyEvent ); + + if ( _pluck( data, '_details' ).length > 0 ) { + // On each draw, insert the required elements into the document + api.on( drawEvent, function ( e, ctx ) { + if ( settings !== ctx ) { + return; + } + + api.rows( {page:'current'} ).eq(0).each( function (idx) { + // Internal data grab + var row = data[ idx ]; + + if ( row._detailsShow ) { + row._details.insertAfter( row.nTr ); + } + } ); + } ); + + // Column visibility change - update the colspan + api.on( colvisEvent, function ( e, ctx, idx, vis ) { + if ( settings !== ctx ) { + return; + } + + // Update the colspan for the details rows (note, only if it already has + // a colspan) + var row, visible = _fnVisbleColumns( ctx ); + + for ( var i=0, ien=data.length ; i<ien ; i++ ) { + row = data[i]; + + if ( row._details ) { + row._details.children('td[colspan]').attr('colspan', visible ); + } + } + } ); + + // Table destroyed - nuke any child rows + api.on( destroyEvent, function ( e, ctx ) { + if ( settings !== ctx ) { + return; + } + + for ( var i=0, ien=data.length ; i<ien ; i++ ) { + if ( data[i]._details ) { + __details_remove( api, i ); + } + } + } ); + } + }; + + // Strings for the method names to help minification + var _emp = ''; + var _child_obj = _emp+'row().child'; + var _child_mth = _child_obj+'()'; + + // data can be: + // tr + // string + // jQuery or array of any of the above + _api_register( _child_mth, function ( data, klass ) { + var ctx = this.context; + + if ( data === undefined ) { + // get + return ctx.length && this.length ? + ctx[0].aoData[ this[0] ]._details : + undefined; + } + else if ( data === true ) { + // show + this.child.show(); + } + else if ( data === false ) { + // remove + __details_remove( this ); + } + else if ( ctx.length && this.length ) { + // set + __details_add( ctx[0], ctx[0].aoData[ this[0] ], data, klass ); + } + + return this; + } ); + + + _api_register( [ + _child_obj+'.show()', + _child_mth+'.show()' // only when `child()` was called with parameters (without + ], function ( show ) { // it returns an object and this method is not executed) + __details_display( this, true ); + return this; + } ); + + + _api_register( [ + _child_obj+'.hide()', + _child_mth+'.hide()' // only when `child()` was called with parameters (without + ], function () { // it returns an object and this method is not executed) + __details_display( this, false ); + return this; + } ); + + + _api_register( [ + _child_obj+'.remove()', + _child_mth+'.remove()' // only when `child()` was called with parameters (without + ], function () { // it returns an object and this method is not executed) + __details_remove( this ); + return this; + } ); + + + _api_register( _child_obj+'.isShown()', function () { + var ctx = this.context; + + if ( ctx.length && this.length ) { + // _detailsShown as false or undefined will fall through to return false + return ctx[0].aoData[ this[0] ]._detailsShow || false; + } + return false; + } ); + + + + /* * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * + * Columns + * + * {integer} - column index (>=0 count from left, <0 count from right) + * "{integer}:visIdx" - visible column index (i.e. translate to column index) (>=0 count from left, <0 count from right) + * "{integer}:visible" - alias for {integer}:visIdx (>=0 count from left, <0 count from right) + * "{string}:name" - column name + * "{string}" - jQuery selector on column header nodes + * + */ + + // can be an array of these items, comma separated list, or an array of comma + // separated lists + + var __re_column_selector = /^(.+):(name|visIdx|visible)$/; + + + // r1 and r2 are redundant - but it means that the parameters match for the + // iterator callback in columns().data() + var __columnData = function ( settings, column, r1, r2, rows ) { + var a = []; + for ( var row=0, ien=rows.length ; row<ien ; row++ ) { + a.push( _fnGetCellData( settings, rows[row], column ) ); + } + return a; + }; + + + var __column_selector = function ( settings, selector, opts ) + { + var + columns = settings.aoColumns, + names = _pluck( columns, 'sName' ), + nodes = _pluck( columns, 'nTh' ); + + var run = function ( s ) { + var selInt = _intVal( s ); + + // Selector - all + if ( s === '' ) { + return _range( columns.length ); + } + + // Selector - index + if ( selInt !== null ) { + return [ selInt >= 0 ? + selInt : // Count from left + columns.length + selInt // Count from right (+ because its a negative value) + ]; + } + + // Selector = function + if ( typeof s === 'function' ) { + var rows = _selector_row_indexes( settings, opts ); + + return $.map( columns, function (col, idx) { + return s( + idx, + __columnData( settings, idx, 0, 0, rows ), + nodes[ idx ] + ) ? idx : null; + } ); + } + + // jQuery or string selector + var match = typeof s === 'string' ? + s.match( __re_column_selector ) : + ''; + + if ( match ) { + switch( match[2] ) { + case 'visIdx': + case 'visible': + var idx = parseInt( match[1], 10 ); + // Visible index given, convert to column index + if ( idx < 0 ) { + // Counting from the right + var visColumns = $.map( columns, function (col,i) { + return col.bVisible ? i : null; + } ); + return [ visColumns[ visColumns.length + idx ] ]; + } + // Counting from the left + return [ _fnVisibleToColumnIndex( settings, idx ) ]; + + case 'name': + // match by name. `names` is column index complete and in order + return $.map( names, function (name, i) { + return name === match[1] ? i : null; + } ); + } + } + else { + // jQuery selector on the TH elements for the columns + return $( nodes ) + .filter( s ) + .map( function () { + return $.inArray( this, nodes ); // `nodes` is column index complete and in order + } ) + .toArray(); + } + }; + + return _selector_run( 'column', selector, run, settings, opts ); + }; + + + var __setColumnVis = function ( settings, column, vis, recalc ) { + var + cols = settings.aoColumns, + col = cols[ column ], + data = settings.aoData, + row, cells, i, ien, tr; + + // Get + if ( vis === undefined ) { + return col.bVisible; + } + + // Set + // No change + if ( col.bVisible === vis ) { + return; + } + + if ( vis ) { + // Insert column + // Need to decide if we should use appendChild or insertBefore + var insertBefore = $.inArray( true, _pluck(cols, 'bVisible'), column+1 ); + + for ( i=0, ien=data.length ; i<ien ; i++ ) { + tr = data[i].nTr; + cells = data[i].anCells; + + if ( tr ) { + // insertBefore can act like appendChild if 2nd arg is null + tr.insertBefore( cells[ column ], cells[ insertBefore ] || null ); + } + } + } + else { + // Remove column + $( _pluck( settings.aoData, 'anCells', column ) ).detach(); + } + + // Common actions + col.bVisible = vis; + _fnDrawHead( settings, settings.aoHeader ); + _fnDrawHead( settings, settings.aoFooter ); + + if ( recalc === undefined || recalc ) { + // Automatically adjust column sizing + _fnAdjustColumnSizing( settings ); + + // Realign columns for scrolling + if ( settings.oScroll.sX || settings.oScroll.sY ) { + _fnScrollDraw( settings ); + } + } + + _fnCallbackFire( settings, null, 'column-visibility', [settings, column, vis] ); + + _fnSaveState( settings ); + }; + + + _api_register( 'columns()', function ( selector, opts ) { + // argument shifting + if ( selector === undefined ) { + selector = ''; + } + else if ( $.isPlainObject( selector ) ) { + opts = selector; + selector = ''; + } + + opts = _selector_opts( opts ); + + var inst = this.iterator( 'table', function ( settings ) { + return __column_selector( settings, selector, opts ); + }, 1 ); + + // Want argument shifting here and in _row_selector? + inst.selector.cols = selector; + inst.selector.opts = opts; + + return inst; + } ); + + _api_registerPlural( 'columns().header()', 'column().header()', function ( selector, opts ) { + return this.iterator( 'column', function ( settings, column ) { + return settings.aoColumns[column].nTh; + }, 1 ); + } ); + + _api_registerPlural( 'columns().footer()', 'column().footer()', function ( selector, opts ) { + return this.iterator( 'column', function ( settings, column ) { + return settings.aoColumns[column].nTf; + }, 1 ); + } ); + + _api_registerPlural( 'columns().data()', 'column().data()', function () { + return this.iterator( 'column-rows', __columnData, 1 ); + } ); + + _api_registerPlural( 'columns().dataSrc()', 'column().dataSrc()', function () { + return this.iterator( 'column', function ( settings, column ) { + return settings.aoColumns[column].mData; + }, 1 ); + } ); + + _api_registerPlural( 'columns().cache()', 'column().cache()', function ( type ) { + return this.iterator( 'column-rows', function ( settings, column, i, j, rows ) { + return _pluck_order( settings.aoData, rows, + type === 'search' ? '_aFilterData' : '_aSortData', column + ); + }, 1 ); + } ); + + _api_registerPlural( 'columns().nodes()', 'column().nodes()', function () { + return this.iterator( 'column-rows', function ( settings, column, i, j, rows ) { + return _pluck_order( settings.aoData, rows, 'anCells', column ) ; + }, 1 ); + } ); + + _api_registerPlural( 'columns().visible()', 'column().visible()', function ( vis, calc ) { + return this.iterator( 'column', function ( settings, column ) { + if ( vis === undefined ) { + return settings.aoColumns[ column ].bVisible; + } // else + __setColumnVis( settings, column, vis, calc ); + } ); + } ); + + _api_registerPlural( 'columns().indexes()', 'column().index()', function ( type ) { + return this.iterator( 'column', function ( settings, column ) { + return type === 'visible' ? + _fnColumnIndexToVisible( settings, column ) : + column; + }, 1 ); + } ); + + _api_register( 'columns.adjust()', function () { + return this.iterator( 'table', function ( settings ) { + _fnAdjustColumnSizing( settings ); + }, 1 ); + } ); + + _api_register( 'column.index()', function ( type, idx ) { + if ( this.context.length !== 0 ) { + var ctx = this.context[0]; + + if ( type === 'fromVisible' || type === 'toData' ) { + return _fnVisibleToColumnIndex( ctx, idx ); + } + else if ( type === 'fromData' || type === 'toVisible' ) { + return _fnColumnIndexToVisible( ctx, idx ); + } + } + } ); + + _api_register( 'column()', function ( selector, opts ) { + return _selector_first( this.columns( selector, opts ) ); + } ); + + + + + var __cell_selector = function ( settings, selector, opts ) + { + var data = settings.aoData; + var rows = _selector_row_indexes( settings, opts ); + var cells = _removeEmpty( _pluck_order( data, rows, 'anCells' ) ); + var allCells = $( [].concat.apply([], cells) ); + var row; + var columns = settings.aoColumns.length; + var a, i, ien, j, o, host; + + var run = function ( s ) { + var fnSelector = typeof s === 'function'; + + if ( s === null || s === undefined || fnSelector ) { + // All cells and function selectors + a = []; + + for ( i=0, ien=rows.length ; i<ien ; i++ ) { + row = rows[i]; + + for ( j=0 ; j<columns ; j++ ) { + o = { + row: row, + column: j + }; + + if ( fnSelector ) { + // Selector - function + host = settings.aoData[ row ]; + + if ( s( o, _fnGetCellData(settings, row, j), host.anCells ? host.anCells[j] : null ) ) { + a.push( o ); + } + } + else { + // Selector - all + a.push( o ); + } + } + } + + return a; + } + + // Selector - index + if ( $.isPlainObject( s ) ) { + return [s]; + } + + // Selector - jQuery filtered cells + return allCells + .filter( s ) + .map( function (i, el) { + row = el.parentNode._DT_RowIndex; + + return { + row: row, + column: $.inArray( el, data[ row ].anCells ) + }; + } ) + .toArray(); + }; + + return _selector_run( 'cell', selector, run, settings, opts ); + }; + + + + + _api_register( 'cells()', function ( rowSelector, columnSelector, opts ) { + // Argument shifting + if ( $.isPlainObject( rowSelector ) ) { + // Indexes + if ( rowSelector.row === undefined ) { + // Selector options in first parameter + opts = rowSelector; + rowSelector = null; + } + else { + // Cell index objects in first parameter + opts = columnSelector; + columnSelector = null; + } + } + if ( $.isPlainObject( columnSelector ) ) { + opts = columnSelector; + columnSelector = null; + } + + // Cell selector + if ( columnSelector === null || columnSelector === undefined ) { + return this.iterator( 'table', function ( settings ) { + return __cell_selector( settings, rowSelector, _selector_opts( opts ) ); + } ); + } + + // Row + column selector + var columns = this.columns( columnSelector, opts ); + var rows = this.rows( rowSelector, opts ); + var a, i, ien, j, jen; + + var cells = this.iterator( 'table', function ( settings, idx ) { + a = []; + + for ( i=0, ien=rows[idx].length ; i<ien ; i++ ) { + for ( j=0, jen=columns[idx].length ; j<jen ; j++ ) { + a.push( { + row: rows[idx][i], + column: columns[idx][j] + } ); + } + } + + return a; + }, 1 ); + + $.extend( cells.selector, { + cols: columnSelector, + rows: rowSelector, + opts: opts + } ); + + return cells; + } ); + + + _api_registerPlural( 'cells().nodes()', 'cell().node()', function () { + return this.iterator( 'cell', function ( settings, row, column ) { + var cells = settings.aoData[ row ].anCells; + return cells ? + cells[ column ] : + undefined; + }, 1 ); + } ); + + + _api_register( 'cells().data()', function () { + return this.iterator( 'cell', function ( settings, row, column ) { + return _fnGetCellData( settings, row, column ); + }, 1 ); + } ); + + + _api_registerPlural( 'cells().cache()', 'cell().cache()', function ( type ) { + type = type === 'search' ? '_aFilterData' : '_aSortData'; + + return this.iterator( 'cell', function ( settings, row, column ) { + return settings.aoData[ row ][ type ][ column ]; + }, 1 ); + } ); + + + _api_registerPlural( 'cells().render()', 'cell().render()', function ( type ) { + return this.iterator( 'cell', function ( settings, row, column ) { + return _fnGetCellData( settings, row, column, type ); + }, 1 ); + } ); + + + _api_registerPlural( 'cells().indexes()', 'cell().index()', function () { + return this.iterator( 'cell', function ( settings, row, column ) { + return { + row: row, + column: column, + columnVisible: _fnColumnIndexToVisible( settings, column ) + }; + }, 1 ); + } ); + + + _api_registerPlural( 'cells().invalidate()', 'cell().invalidate()', function ( src ) { + return this.iterator( 'cell', function ( settings, row, column ) { + _fnInvalidate( settings, row, src, column ); + } ); + } ); + + + + _api_register( 'cell()', function ( rowSelector, columnSelector, opts ) { + return _selector_first( this.cells( rowSelector, columnSelector, opts ) ); + } ); + + + _api_register( 'cell().data()', function ( data ) { + var ctx = this.context; + var cell = this[0]; + + if ( data === undefined ) { + // Get + return ctx.length && cell.length ? + _fnGetCellData( ctx[0], cell[0].row, cell[0].column ) : + undefined; + } + + // Set + _fnSetCellData( ctx[0], cell[0].row, cell[0].column, data ); + _fnInvalidate( ctx[0], cell[0].row, 'data', cell[0].column ); + + return this; + } ); + + + + /** + * Get current ordering (sorting) that has been applied to the table. + * + * @returns {array} 2D array containing the sorting information for the first + * table in the current context. Each element in the parent array represents + * a column being sorted upon (i.e. multi-sorting with two columns would have + * 2 inner arrays). The inner arrays may have 2 or 3 elements. The first is + * the column index that the sorting condition applies to, the second is the + * direction of the sort (`desc` or `asc`) and, optionally, the third is the + * index of the sorting order from the `column.sorting` initialisation array. + *//** + * Set the ordering for the table. + * + * @param {integer} order Column index to sort upon. + * @param {string} direction Direction of the sort to be applied (`asc` or `desc`) + * @returns {DataTables.Api} this + *//** + * Set the ordering for the table. + * + * @param {array} order 1D array of sorting information to be applied. + * @param {array} [...] Optional additional sorting conditions + * @returns {DataTables.Api} this + *//** + * Set the ordering for the table. + * + * @param {array} order 2D array of sorting information to be applied. + * @returns {DataTables.Api} this + */ + _api_register( 'order()', function ( order, dir ) { + var ctx = this.context; + + if ( order === undefined ) { + // get + return ctx.length !== 0 ? + ctx[0].aaSorting : + undefined; + } + + // set + if ( typeof order === 'number' ) { + // Simple column / direction passed in + order = [ [ order, dir ] ]; + } + else if ( ! $.isArray( order[0] ) ) { + // Arguments passed in (list of 1D arrays) + order = Array.prototype.slice.call( arguments ); + } + // otherwise a 2D array was passed in + + return this.iterator( 'table', function ( settings ) { + settings.aaSorting = order.slice(); + } ); + } ); + + + /** + * Attach a sort listener to an element for a given column + * + * @param {node|jQuery|string} node Identifier for the element(s) to attach the + * listener to. This can take the form of a single DOM node, a jQuery + * collection of nodes or a jQuery selector which will identify the node(s). + * @param {integer} column the column that a click on this node will sort on + * @param {function} [callback] callback function when sort is run + * @returns {DataTables.Api} this + */ + _api_register( 'order.listener()', function ( node, column, callback ) { + return this.iterator( 'table', function ( settings ) { + _fnSortAttachListener( settings, node, column, callback ); + } ); + } ); + + + // Order by the selected column(s) + _api_register( [ + 'columns().order()', + 'column().order()' + ], function ( dir ) { + var that = this; + + return this.iterator( 'table', function ( settings, i ) { + var sort = []; + + $.each( that[i], function (j, col) { + sort.push( [ col, dir ] ); + } ); + + settings.aaSorting = sort; + } ); + } ); + + + + _api_register( 'search()', function ( input, regex, smart, caseInsen ) { + var ctx = this.context; + + if ( input === undefined ) { + // get + return ctx.length !== 0 ? + ctx[0].oPreviousSearch.sSearch : + undefined; + } + + // set + return this.iterator( 'table', function ( settings ) { + if ( ! settings.oFeatures.bFilter ) { + return; + } + + _fnFilterComplete( settings, $.extend( {}, settings.oPreviousSearch, { + "sSearch": input+"", + "bRegex": regex === null ? false : regex, + "bSmart": smart === null ? true : smart, + "bCaseInsensitive": caseInsen === null ? true : caseInsen + } ), 1 ); + } ); + } ); + + + _api_registerPlural( + 'columns().search()', + 'column().search()', + function ( input, regex, smart, caseInsen ) { + return this.iterator( 'column', function ( settings, column ) { + var preSearch = settings.aoPreSearchCols; + + if ( input === undefined ) { + // get + return preSearch[ column ].sSearch; + } + + // set + if ( ! settings.oFeatures.bFilter ) { + return; + } + + $.extend( preSearch[ column ], { + "sSearch": input+"", + "bRegex": regex === null ? false : regex, + "bSmart": smart === null ? true : smart, + "bCaseInsensitive": caseInsen === null ? true : caseInsen + } ); + + _fnFilterComplete( settings, settings.oPreviousSearch, 1 ); + } ); + } + ); + + /* + * State API methods + */ + + _api_register( 'state()', function () { + return this.context.length ? + this.context[0].oSavedState : + null; + } ); + + + _api_register( 'state.clear()', function () { + return this.iterator( 'table', function ( settings ) { + // Save an empty object + settings.fnStateSaveCallback.call( settings.oInstance, settings, {} ); + } ); + } ); + + + _api_register( 'state.loaded()', function () { + return this.context.length ? + this.context[0].oLoadedState : + null; + } ); + + + _api_register( 'state.save()', function () { + return this.iterator( 'table', function ( settings ) { + _fnSaveState( settings ); + } ); + } ); + + + + /** + * Provide a common method for plug-ins to check the version of DataTables being + * used, in order to ensure compatibility. + * + * @param {string} version Version string to check for, in the format "X.Y.Z". + * Note that the formats "X" and "X.Y" are also acceptable. + * @returns {boolean} true if this version of DataTables is greater or equal to + * the required version, or false if this version of DataTales is not + * suitable * @static * @dtopt API-Static * * @example - * var ex = document.getElementById('example'); - * if ( ! $.fn.DataTable.fnIsDataTable( ex ) ) { - * $(ex).dataTable(); - * } + * alert( $.fn.dataTable.versionCheck( '1.9.0' ) ); */ - DataTable.fnIsDataTable = function ( nTable ) + DataTable.versionCheck = DataTable.fnVersionCheck = function( version ) { - var o = DataTable.settings; + var aThis = DataTable.version.split('.'); + var aThat = version.split('.'); + var iThis, iThat; - for ( var i=0 ; i<o.length ; i++ ) - { - if ( o[i].nTable === nTable || o[i].nScrollHead === nTable || o[i].nScrollFoot === nTable ) - { - return true; + for ( var i=0, iLen=aThat.length ; i<iLen ; i++ ) { + iThis = parseInt( aThis[i], 10 ) || 0; + iThat = parseInt( aThat[i], 10 ) || 0; + + // Parts are the same, keep comparing + if (iThis === iThat) { + continue; } + + // Parts are different, return immediately + return iThis > iThat; } - return false; + return true; }; /** - * Get all DataTable tables that have been initialised - optionally you can select to - * get only currently visible tables. - * @param {boolean} [bVisible=false] Flag to indicate if you want all (default) or - * visible tables only. - * @returns {array} Array of TABLE nodes (not DataTable instances) which are DataTables + * Check if a `<table>` node is a DataTable table already or not. + * + * @param {node|jquery|string} table Table node, jQuery object or jQuery + * selector for the table to test. Note that if more than more than one + * table is passed on, only the first will be checked + * @returns {boolean} true the table given is a DataTable, or false otherwise * @static * @dtopt API-Static * * @example - * var table = $.fn.dataTable.fnTables(true); - * if ( table.length > 0 ) { - * $(table).dataTable().fnAdjustColumnSizing(); + * if ( ! $.fn.DataTable.isDataTable( '#example' ) ) { + * $('#example').dataTable(); * } */ - DataTable.fnTables = function ( bVisible ) + DataTable.isDataTable = DataTable.fnIsDataTable = function ( table ) { - var out = []; + var t = $(table).get(0); + var is = false; - jQuery.each( DataTable.settings, function (i, o) { - if ( !bVisible || (bVisible === true && $(o.nTable).is(':visible')) ) - { - out.push( o.nTable ); + $.each( DataTable.settings, function (i, o) { + var head = o.nScrollHead ? $('table', o.nScrollHead)[0] : null; + var foot = o.nScrollFoot ? $('table', o.nScrollFoot)[0] : null; + + if ( o.nTable === t || head === t || foot === t ) { + is = true; } } ); - return out; + return is; }; - - /** - * Version string for plug-ins to check compatibility. Allowed format is - * a.b.c.d.e where: a:int, b:int, c:int, d:string(dev|beta), e:int. d and - * e are optional - * @member - * @type string - * @default Version number - */ - DataTable.version = "1.9.4"; - - /** - * Private data store, containing all of the settings objects that are created for the - * tables on a given page. - * - * Note that the <i>DataTable.settings</i> object is aliased to <i>jQuery.fn.dataTableExt</i> - * through which it may be accessed and manipulated, or <i>jQuery.fn.dataTable.settings</i>. - * @member - * @type array - * @default [] - * @private - */ - DataTable.settings = []; - + /** - * Object models container, for the various models that DataTables has available - * to it. These models define the objects that are used to hold the active state - * and configuration of the table. - * @namespace + * Get all DataTable tables that have been initialised - optionally you can + * select to get only currently visible tables. + * + * @param {boolean} [visible=false] Flag to indicate if you want all (default) + * or visible tables only. + * @returns {array} Array of `table` nodes (not DataTable instances) which are + * DataTables + * @static + * @dtopt API-Static + * + * @example + * $.each( $.fn.dataTable.tables(true), function () { + * $(table).DataTable().columns.adjust(); + * } ); */ - DataTable.models = {}; + DataTable.tables = DataTable.fnTables = function ( visible ) + { + return $.map( DataTable.settings, function (o) { + if ( !visible || (visible && $(o.nTable).is(':visible')) ) { + return o.nTable; + } + } ); + }; /** - * DataTables extension options and plug-ins. This namespace acts as a collection "area" - * for plug-ins that can be used to extend the default DataTables behaviour - indeed many - * of the build in methods use this method to provide their own capabilities (sorting methods - * for example). + * DataTables utility methods * - * Note that this namespace is aliased to jQuery.fn.dataTableExt so it can be readily accessed - * and modified by plug-ins. + * This namespace provides helper methods that DataTables uses internally to + * create a DataTable, but which are not exclusively used only for DataTables. + * These methods can be used by extension authors to save the duplication of + * code. + * * @namespace */ - DataTable.models.ext = { + DataTable.util = { /** - * Plug-in filtering functions - this method of filtering is complimentary to the default - * type based filtering, and a lot more comprehensive as it allows you complete control - * over the filtering logic. Each element in this array is a function (parameters - * described below) that is called for every row in the table, and your logic decides if - * it should be included in the filtered data set or not. - * <ul> - * <li> - * Function input parameters: - * <ul> - * <li>{object} DataTables settings object: see {@link DataTable.models.oSettings}.</li> - * <li>{array|object} Data for the row to be processed (same as the original format - * that was passed in as the data source, or an array from a DOM data source</li> - * <li>{int} Row index in aoData ({@link DataTable.models.oSettings.aoData}), which can - * be useful to retrieve the TR element if you need DOM interaction.</li> - * </ul> - * </li> - * <li> - * Function return: - * <ul> - * <li>{boolean} Include the row in the filtered result set (true) or not (false)</li> - * </ul> - * </il> - * </ul> - * @type array - * @default [] + * Throttle the calls to a function. Arguments and context are maintained + * for the throttled function. * - * @example - * // The following example shows custom filtering being applied to the fourth column (i.e. - * // the aData[3] index) based on two input values from the end-user, matching the data in - * // a certain range. - * $.fn.dataTableExt.afnFiltering.push( - * function( oSettings, aData, iDataIndex ) { - * var iMin = document.getElementById('min').value * 1; - * var iMax = document.getElementById('max').value * 1; - * var iVersion = aData[3] == "-" ? 0 : aData[3]*1; - * if ( iMin == "" && iMax == "" ) { - * return true; - * } - * else if ( iMin == "" && iVersion < iMax ) { - * return true; - * } - * else if ( iMin < iVersion && "" == iMax ) { - * return true; - * } - * else if ( iMin < iVersion && iVersion < iMax ) { - * return true; - * } - * return false; - * } - * ); + * @param {function} fn Function to be called + * @param {integer} freq Call frequency in mS + * @return {function} Wrapped function */ - "afnFiltering": [], + throttle: _fnThrottle, /** - * Plug-in sorting functions - this method of sorting is complimentary to the default type - * based sorting that DataTables does automatically, allowing much greater control over the - * the data that is being used to sort a column. This is useful if you want to do sorting - * based on live data (for example the contents of an 'input' element) rather than just the - * static string that DataTables knows of. The way these plug-ins work is that you create - * an array of the values you wish to be sorted for the column in question and then return - * that array. Which pre-sorting function is run here depends on the sSortDataType parameter - * that is used for the column (if any). This is the corollary of <i>ofnSearch</i> for sort - * data. - * <ul> - * <li> - * Function input parameters: - * <ul> - * <li>{object} DataTables settings object: see {@link DataTable.models.oSettings}.</li> - * <li>{int} Target column index</li> - * </ul> - * </li> - * <li> - * Function return: - * <ul> - * <li>{array} Data for the column to be sorted upon</li> - * </ul> - * </il> - * </ul> - * - * Note that as of v1.9, it is typically preferable to use <i>mData</i> to prepare data for - * the different uses that DataTables can put the data to. Specifically <i>mData</i> when - * used as a function will give you a 'type' (sorting, filtering etc) that you can use to - * prepare the data as required for the different types. As such, this method is deprecated. - * @type array - * @default [] - * @deprecated + * Escape a string such that it can be used in a regular expression * - * @example - * // Updating the cached sorting information with user entered values in HTML input elements - * jQuery.fn.dataTableExt.afnSortData['dom-text'] = function ( oSettings, iColumn ) - * { - * var aData = []; - * $( 'td:eq('+iColumn+') input', oSettings.oApi._fnGetTrNodes(oSettings) ).each( function () { - * aData.push( this.value ); - * } ); - * return aData; - * } + * @param {string} sVal string to escape + * @returns {string} escaped string */ - "afnSortData": [], + escapeRegex: _fnEscapeRegex + }; - /** - * Feature plug-ins - This is an array of objects which describe the feature plug-ins that are - * available to DataTables. These feature plug-ins are accessible through the sDom initialisation - * option. As such, each feature plug-in must describe a function that is used to initialise - * itself (fnInit), a character so the feature can be enabled by sDom (cFeature) and the name - * of the feature (sFeature). Thus the objects attached to this method must provide: - * <ul> - * <li>{function} fnInit Initialisation of the plug-in - * <ul> - * <li> - * Function input parameters: - * <ul> - * <li>{object} DataTables settings object: see {@link DataTable.models.oSettings}.</li> - * </ul> - * </li> - * <li> - * Function return: - * <ul> - * <li>{node|null} The element which contains your feature. Note that the return - * may also be void if your plug-in does not require to inject any DOM elements - * into DataTables control (sDom) - for example this might be useful when - * developing a plug-in which allows table control via keyboard entry.</li> - * </ul> - * </il> - * </ul> - * </li> - * <li>{character} cFeature Character that will be matched in sDom - case sensitive</li> - * <li>{string} sFeature Feature name</li> - * </ul> - * @type array - * @default [] - * - * @example - * // How TableTools initialises itself. - * $.fn.dataTableExt.aoFeatures.push( { - * "fnInit": function( oSettings ) { - * return new TableTools( { "oDTSettings": oSettings } ); - * }, - * "cFeature": "T", - * "sFeature": "TableTools" - * } ); - */ - "aoFeatures": [], + /** + * Convert from camel case parameters to Hungarian notation. This is made public + * for the extensions to provide the same ability as DataTables core to accept + * either the 1.9 style Hungarian notation, or the 1.10+ style camelCase + * parameters. + * + * @param {object} src The model object which holds all parameters that can be + * mapped. + * @param {object} user The object to convert from camel case to Hungarian. + * @param {boolean} force When set to `true`, properties which already have a + * Hungarian value in the `user` object will be overwritten. Otherwise they + * won't be. + */ + DataTable.camelToHungarian = _fnCamelToHungarian; - /** - * Type detection plug-in functions - DataTables utilises types to define how sorting and - * filtering behave, and types can be either be defined by the developer (sType for the - * column) or they can be automatically detected by the methods in this array. The functions - * defined in the array are quite simple, taking a single parameter (the data to analyse) - * and returning the type if it is a known type, or null otherwise. - * <ul> - * <li> - * Function input parameters: - * <ul> - * <li>{*} Data from the column cell to be analysed</li> - * </ul> - * </li> - * <li> - * Function return: - * <ul> - * <li>{string|null} Data type detected, or null if unknown (and thus pass it - * on to the other type detection functions.</li> - * </ul> - * </il> - * </ul> - * @type array - * @default [] - * - * @example - * // Currency type detection plug-in: - * jQuery.fn.dataTableExt.aTypes.push( - * function ( sData ) { - * var sValidChars = "0123456789.-"; - * var Char; - * - * // Check the numeric part - * for ( i=1 ; i<sData.length ; i++ ) { - * Char = sData.charAt(i); - * if (sValidChars.indexOf(Char) == -1) { - * return null; - * } - * } - * - * // Check prefixed by currency - * if ( sData.charAt(0) == '$' || sData.charAt(0) == '£' ) { - * return 'currency'; - * } - * return null; - * } - * ); - */ - "aTypes": [], + /** + * + */ + _api_register( '$()', function ( selector, opts ) { + var + rows = this.rows( opts ).nodes(), // Get all rows + jqRows = $(rows); + + return $( [].concat( + jqRows.filter( selector ).toArray(), + jqRows.find( selector ).toArray() + ) ); + } ); - /** - * Provide a common method for plug-ins to check the version of DataTables being used, - * in order to ensure compatibility. - * @type function - * @param {string} sVersion Version string to check for, in the format "X.Y.Z". Note - * that the formats "X" and "X.Y" are also acceptable. - * @returns {boolean} true if this version of DataTables is greater or equal to the - * required version, or false if this version of DataTales is not suitable - * - * @example - * $(document).ready(function() { - * var oTable = $('#example').dataTable(); - * alert( oTable.fnVersionCheck( '1.9.0' ) ); - * } ); - */ - "fnVersionCheck": DataTable.fnVersionCheck, + // jQuery functions to operate on the tables + $.each( [ 'on', 'one', 'off' ], function (i, key) { + _api_register( key+'()', function ( /* event, handler */ ) { + var args = Array.prototype.slice.call(arguments); - /** - * Index for what 'this' index API functions should use - * @type int - * @default 0 - */ - "iApiIndex": 0, + // Add the `dt` namespace automatically if it isn't already present + if ( ! args[0].match(/\.dt\b/) ) { + args[0] += '.dt'; + } + var inst = $( this.tables().nodes() ); + inst[key].apply( inst, args ); + return this; + } ); + } ); - /** - * Pre-processing of filtering data plug-ins - When you assign the sType for a column - * (or have it automatically detected for you by DataTables or a type detection plug-in), - * you will typically be using this for custom sorting, but it can also be used to provide - * custom filtering by allowing you to pre-processing the data and returning the data in - * the format that should be filtered upon. This is done by adding functions this object - * with a parameter name which matches the sType for that target column. This is the - * corollary of <i>afnSortData</i> for filtering data. - * <ul> - * <li> - * Function input parameters: - * <ul> - * <li>{*} Data from the column cell to be prepared for filtering</li> - * </ul> - * </li> - * <li> - * Function return: - * <ul> - * <li>{string|null} Formatted string that will be used for the filtering.</li> - * </ul> - * </il> - * </ul> - * - * Note that as of v1.9, it is typically preferable to use <i>mData</i> to prepare data for - * the different uses that DataTables can put the data to. Specifically <i>mData</i> when - * used as a function will give you a 'type' (sorting, filtering etc) that you can use to - * prepare the data as required for the different types. As such, this method is deprecated. - * @type object - * @default {} - * @deprecated - * - * @example - * $.fn.dataTableExt.ofnSearch['title-numeric'] = function ( sData ) { - * return sData.replace(/\n/g," ").replace( /<.*?>/g, "" ); - * } - */ - "ofnSearch": {}, + _api_register( 'clear()', function () { + return this.iterator( 'table', function ( settings ) { + _fnClearTable( settings ); + } ); + } ); - /** - * Container for all private functions in DataTables so they can be exposed externally - * @type object - * @default {} - */ - "oApi": {}, + _api_register( 'settings()', function () { + return new _Api( this.context, this.context ); + } ); - /** - * Storage for the various classes that DataTables uses - * @type object - * @default {} - */ - "oStdClasses": {}, - - /** - * Storage for the various classes that DataTables uses - jQuery UI suitable - * @type object - * @default {} - */ - "oJUIClasses": {}, + _api_register( 'init()', function () { + var ctx = this.context; + return ctx.length ? ctx[0].oInit : null; + } ); - /** - * Pagination plug-in methods - The style and controls of the pagination can significantly - * impact on how the end user interacts with the data in your table, and DataTables allows - * the addition of pagination controls by extending this object, which can then be enabled - * through the <i>sPaginationType</i> initialisation parameter. Each pagination type that - * is added is an object (the property name of which is what <i>sPaginationType</i> refers - * to) that has two properties, both methods that are used by DataTables to update the - * control's state. - * <ul> - * <li> - * fnInit - Initialisation of the paging controls. Called only during initialisation - * of the table. It is expected that this function will add the required DOM elements - * to the page for the paging controls to work. The element pointer - * 'oSettings.aanFeatures.p' array is provided by DataTables to contain the paging - * controls (note that this is a 2D array to allow for multiple instances of each - * DataTables DOM element). It is suggested that you add the controls to this element - * as children - * <ul> - * <li> - * Function input parameters: - * <ul> - * <li>{object} DataTables settings object: see {@link DataTable.models.oSettings}.</li> - * <li>{node} Container into which the pagination controls must be inserted</li> - * <li>{function} Draw callback function - whenever the controls cause a page - * change, this method must be called to redraw the table.</li> - * </ul> - * </li> - * <li> - * Function return: - * <ul> - * <li>No return required</li> - * </ul> - * </il> - * </ul> - * </il> - * <li> - * fnInit - This function is called whenever the paging status of the table changes and is - * typically used to update classes and/or text of the paging controls to reflex the new - * status. - * <ul> - * <li> - * Function input parameters: - * <ul> - * <li>{object} DataTables settings object: see {@link DataTable.models.oSettings}.</li> - * <li>{function} Draw callback function - in case you need to redraw the table again - * or attach new event listeners</li> - * </ul> - * </li> - * <li> - * Function return: - * <ul> - * <li>No return required</li> - * </ul> - * </il> - * </ul> - * </il> - * </ul> - * @type object - * @default {} - * - * @example - * $.fn.dataTableExt.oPagination.four_button = { - * "fnInit": function ( oSettings, nPaging, fnCallbackDraw ) { - * nFirst = document.createElement( 'span' ); - * nPrevious = document.createElement( 'span' ); - * nNext = document.createElement( 'span' ); - * nLast = document.createElement( 'span' ); - * - * nFirst.appendChild( document.createTextNode( oSettings.oLanguage.oPaginate.sFirst ) ); - * nPrevious.appendChild( document.createTextNode( oSettings.oLanguage.oPaginate.sPrevious ) ); - * nNext.appendChild( document.createTextNode( oSettings.oLanguage.oPaginate.sNext ) ); - * nLast.appendChild( document.createTextNode( oSettings.oLanguage.oPaginate.sLast ) ); - * - * nFirst.className = "paginate_button first"; - * nPrevious.className = "paginate_button previous"; - * nNext.className="paginate_button next"; - * nLast.className = "paginate_button last"; - * - * nPaging.appendChild( nFirst ); - * nPaging.appendChild( nPrevious ); - * nPaging.appendChild( nNext ); - * nPaging.appendChild( nLast ); - * - * $(nFirst).click( function () { - * oSettings.oApi._fnPageChange( oSettings, "first" ); - * fnCallbackDraw( oSettings ); - * } ); - * - * $(nPrevious).click( function() { - * oSettings.oApi._fnPageChange( oSettings, "previous" ); - * fnCallbackDraw( oSettings ); - * } ); - * - * $(nNext).click( function() { - * oSettings.oApi._fnPageChange( oSettings, "next" ); - * fnCallbackDraw( oSettings ); - * } ); - * - * $(nLast).click( function() { - * oSettings.oApi._fnPageChange( oSettings, "last" ); - * fnCallbackDraw( oSettings ); - * } ); - * - * $(nFirst).bind( 'selectstart', function () { return false; } ); - * $(nPrevious).bind( 'selectstart', function () { return false; } ); - * $(nNext).bind( 'selectstart', function () { return false; } ); - * $(nLast).bind( 'selectstart', function () { return false; } ); - * }, - * - * "fnUpdate": function ( oSettings, fnCallbackDraw ) { - * if ( !oSettings.aanFeatures.p ) { - * return; - * } - * - * // Loop over each instance of the pager - * var an = oSettings.aanFeatures.p; - * for ( var i=0, iLen=an.length ; i<iLen ; i++ ) { - * var buttons = an[i].getElementsByTagName('span'); - * if ( oSettings._iDisplayStart === 0 ) { - * buttons[0].className = "paginate_disabled_previous"; - * buttons[1].className = "paginate_disabled_previous"; - * } - * else { - * buttons[0].className = "paginate_enabled_previous"; - * buttons[1].className = "paginate_enabled_previous"; - * } - * - * if ( oSettings.fnDisplayEnd() == oSettings.fnRecordsDisplay() ) { - * buttons[2].className = "paginate_disabled_next"; - * buttons[3].className = "paginate_disabled_next"; - * } - * else { - * buttons[2].className = "paginate_enabled_next"; - * buttons[3].className = "paginate_enabled_next"; - * } - * } - * } - * }; - */ - "oPagination": {}, + _api_register( 'data()', function () { + return this.iterator( 'table', function ( settings ) { + return _pluck( settings.aoData, '_aData' ); + } ).flatten(); + } ); - /** - * Sorting plug-in methods - Sorting in DataTables is based on the detected type of the - * data column (you can add your own type detection functions, or override automatic - * detection using sType). With this specific type given to the column, DataTables will - * apply the required sort from the functions in the object. Each sort type must provide - * two mandatory methods, one each for ascending and descending sorting, and can optionally - * provide a pre-formatting method that will help speed up sorting by allowing DataTables - * to pre-format the sort data only once (rather than every time the actual sort functions - * are run). The two sorting functions are typical Javascript sort methods: - * <ul> - * <li> - * Function input parameters: - * <ul> - * <li>{*} Data to compare to the second parameter</li> - * <li>{*} Data to compare to the first parameter</li> - * </ul> - * </li> - * <li> - * Function return: - * <ul> - * <li>{int} Sorting match: <0 if first parameter should be sorted lower than - * the second parameter, ===0 if the two parameters are equal and >0 if - * the first parameter should be sorted height than the second parameter.</li> - * </ul> - * </il> - * </ul> - * @type object - * @default {} - * - * @example - * // Case-sensitive string sorting, with no pre-formatting method - * $.extend( $.fn.dataTableExt.oSort, { - * "string-case-asc": function(x,y) { - * return ((x < y) ? -1 : ((x > y) ? 1 : 0)); - * }, - * "string-case-desc": function(x,y) { - * return ((x < y) ? 1 : ((x > y) ? -1 : 0)); - * } - * } ); - * - * @example - * // Case-insensitive string sorting, with pre-formatting - * $.extend( $.fn.dataTableExt.oSort, { - * "string-pre": function(x) { - * return x.toLowerCase(); - * }, - * "string-asc": function(x,y) { - * return ((x < y) ? -1 : ((x > y) ? 1 : 0)); - * }, - * "string-desc": function(x,y) { - * return ((x < y) ? 1 : ((x > y) ? -1 : 0)); - * } - * } ); - */ - "oSort": {}, + _api_register( 'destroy()', function ( remove ) { + remove = remove || false; + return this.iterator( 'table', function ( settings ) { + var orig = settings.nTableWrapper.parentNode; + var classes = settings.oClasses; + var table = settings.nTable; + var tbody = settings.nTBody; + var thead = settings.nTHead; + var tfoot = settings.nTFoot; + var jqTable = $(table); + var jqTbody = $(tbody); + var jqWrapper = $(settings.nTableWrapper); + var rows = $.map( settings.aoData, function (r) { return r.nTr; } ); + var i, ien; - /** - * Version string for plug-ins to check compatibility. Allowed format is - * a.b.c.d.e where: a:int, b:int, c:int, d:string(dev|beta), e:int. d and - * e are optional - * @type string - * @default Version number - */ - "sVersion": DataTable.version, + // Flag to note that the table is currently being destroyed - no action + // should be taken + settings.bDestroying = true; + // Fire off the destroy callbacks for plug-ins etc + _fnCallbackFire( settings, "aoDestroyCallback", "destroy", [settings] ); - /** - * How should DataTables report an error. Can take the value 'alert' or 'throw' - * @type string - * @default alert - */ - "sErrMode": "alert", + // If not being removed from the document, make all columns visible + if ( ! remove ) { + new _Api( settings ).columns().visible( true ); + } + // Blitz all `DT` namespaced events (these are internal events, the + // lowercase, `dt` events are user subscribed and they are responsible + // for removing them + jqWrapper.unbind('.DT').find(':not(tbody *)').unbind('.DT'); + $(window).unbind('.DT-'+settings.sInstance); - /** - * Store information for DataTables to access globally about other instances - * @namespace - * @private - */ - "_oExternConfig": { - /* int:iNextUnique - next unique number for an instance */ - "iNextUnique": 0 + // When scrolling we had to break the table up - restore it + if ( table != thead.parentNode ) { + jqTable.children('thead').detach(); + jqTable.append( thead ); + } + + if ( tfoot && table != tfoot.parentNode ) { + jqTable.children('tfoot').detach(); + jqTable.append( tfoot ); + } + + // Remove the DataTables generated nodes, events and classes + jqTable.detach(); + jqWrapper.detach(); + + settings.aaSorting = []; + settings.aaSortingFixed = []; + _fnSortingClasses( settings ); + + $( rows ).removeClass( settings.asStripeClasses.join(' ') ); + + $('th, td', thead).removeClass( classes.sSortable+' '+ + classes.sSortableAsc+' '+classes.sSortableDesc+' '+classes.sSortableNone + ); + + if ( settings.bJUI ) { + $('th span.'+classes.sSortIcon+ ', td span.'+classes.sSortIcon, thead).detach(); + $('th, td', thead).each( function () { + var wrapper = $('div.'+classes.sSortJUIWrapper, this); + $(this).append( wrapper.contents() ); + wrapper.detach(); + } ); + } + + if ( ! remove && orig ) { + // insertBefore acts like appendChild if !arg[1] + orig.insertBefore( table, settings.nTableReinsertBefore ); + } + + // Add the TR elements back into the table in their original order + jqTbody.children().detach(); + jqTbody.append( rows ); + + // Restore the width of the original table - was read from the style property, + // so we can restore directly to that + jqTable + .css( 'width', settings.sDestroyWidth ) + .removeClass( classes.sTable ); + + // If the were originally stripe classes - then we add them back here. + // Note this is not fool proof (for example if not all rows had stripe + // classes - but it's a good effort without getting carried away + ien = settings.asDestroyStripes.length; + + if ( ien ) { + jqTbody.children().each( function (i) { + $(this).addClass( settings.asDestroyStripes[i % ien] ); + } ); + } + + /* Remove the settings object from the settings array */ + var idx = $.inArray( settings, DataTable.settings ); + if ( idx !== -1 ) { + DataTable.settings.splice( idx, 1 ); + } + } ); + } ); + + + // Add the `every()` method for rows, columns and cells in a compact form + $.each( [ 'column', 'row', 'cell' ], function ( i, type ) { + _api_register( type+'s().every()', function ( fn ) { + return this.iterator( type, function ( settings, idx, idx2 ) { + // idx2 is undefined for rows and columns. + fn.call( new _Api( settings )[ type ]( idx, idx2 ) ); + } ); + } ); + } ); + + + // i18n method for extensions to be able to use the language object from the + // DataTable + _api_register( 'i18n()', function ( token, def, plural ) { + var ctx = this.context[0]; + var resolved = _fnGetObjectDataFn( token )( ctx.oLanguage ); + + if ( resolved === undefined ) { + resolved = def; + } + + if ( plural !== undefined && $.isPlainObject( resolved ) ) { + resolved = resolved[ plural ] !== undefined ? + resolved[ plural ] : + resolved._; } - }; + return resolved.replace( '%d', plural ); // nb: plural might be undefined, + } ); + + /** + * Version string for plug-ins to check compatibility. Allowed format is + * `a.b.c-d` where: a:int, b:int, c:int, d:string(dev|beta|alpha). `d` is used + * only for non-release builds. See http://semver.org/ for more information. + * @member + * @type string + * @default Version number + */ + DataTable.version = "1.10.7"; + + /** + * Private data store, containing all of the settings objects that are + * created for the tables on a given page. + * + * Note that the `DataTable.settings` object is aliased to + * `jQuery.fn.dataTableExt` through which it may be accessed and + * manipulated, or `jQuery.fn.dataTable.settings`. + * @member + * @type array + * @default [] + * @private + */ + DataTable.settings = []; + + /** + * Object models container, for the various models that DataTables has + * available to it. These models define the objects that are used to hold + * the active state and configuration of the table. + * @namespace + */ + DataTable.models = {}; @@ -7499,7 +9201,7 @@ /** * Template object for the way in which DataTables holds information about - * each individual row. This is the object format used for the settings + * each individual row. This is the object format used for the settings * aoData array. * @namespace */ @@ -7512,10 +9214,18 @@ "nTr": null, /** + * Array of TD elements for each row. This is null until the row has been + * created. + * @type array nodes + * @default [] + */ + "anCells": null, + + /** * Data object from the original data source for the row. This is either * an array if using the traditional form of DataTables, or an object if * using mData options. The exact type will depend on the passed in - * data from the data source, or will be an array if using DOM a data + * data from the data source, or will be an array if using DOM a data * source. * @type array|object * @default [] @@ -7524,29 +9234,37 @@ /** * Sorting data cache - this array is ostensibly the same length as the - * number of columns (although each index is generated only as it is + * number of columns (although each index is generated only as it is * needed), and holds the data that is used for sorting each column in the * row. We do this cache generation at the start of the sort in order that * the formatting of the sort data need be done only once for each cell * per sort. This array should not be read from or written to by anything * other than the master sorting methods. * @type array - * @default [] + * @default null * @private */ - "_aSortData": [], + "_aSortData": null, /** - * Array of TD elements that are cached for hidden rows, so they can be - * reinserted into the table if a column is made visible again (or to act - * as a store if a column is made hidden). Only hidden columns have a - * reference in the array. For non-hidden columns the value is either - * undefined or null. - * @type array nodes - * @default [] + * Per cell filtering data cache. As per the sort data cache, used to + * increase the performance of the filtering in DataTables + * @type array + * @default null + * @private + */ + "_aFilterData": null, + + /** + * Filtering data cache. This is the same as the cell filtering cache, but + * in this case a string rather than an array. This is easily computed with + * a join on `_aFilterData`, but is provided as a cache so the join isn't + * needed on every search (memory traded for performance) + * @type array + * @default null * @private */ - "_anHidden": [], + "_sFilterRow": null, /** * Cache of the class name that DataTables has applied to the row, so we @@ -7556,17 +9274,27 @@ * @default <i>Empty string</i> * @private */ - "_sRowStripe": "" - }; + "_sRowStripe": "", + /** + * Denote if the original data source was from the DOM, or the data source + * object. This is used for invalidating data, so DataTables can + * automatically read data from the original source, unless uninstructed + * otherwise. + * @type string + * @default null + * @private + */ + "src": null + }; /** * Template object for the column information object in DataTables. This object * is held in the settings aoColumns array and contains all the information that * DataTables needs about each individual column. - * - * Note that this object is related to {@link DataTable.defaults.columns} + * + * Note that this object is related to {@link DataTable.defaults.column} * but this one is the internal data store for DataTables's cache of columns. * It should NOT be manipulated outside of DataTables. Any configuration should * be done through the initialisation options. @@ -7574,6 +9302,14 @@ */ DataTable.models.oColumn = { /** + * Column index. This could be worked out on-the-fly with $.inArray, but it + * is faster to just hold it as a variable + * @type integer + * @default null + */ + "idx": null, + + /** * A list of the columns that sorting should occur on when this column * is sorted. That this property is an array allows multi-column sorting * to be defined for a column (for example first name / last name columns @@ -7593,49 +9329,44 @@ * @type array */ "asSorting": null, - + /** * Flag to indicate if the column is searchable, and thus should be included * in the filtering or not. * @type boolean */ "bSearchable": null, - + /** * Flag to indicate if the column is sortable or not. * @type boolean */ "bSortable": null, - - /** - * <code>Deprecated</code> When using fnRender, you have two options for what - * to do with the data, and this property serves as the switch. Firstly, you - * can have the sorting and filtering use the rendered value (true - default), - * or you can have the sorting and filtering us the original value (false). - * - * Please note that this option has now been deprecated and will be removed - * in the next version of DataTables. Please use mRender / mData rather than - * fnRender. - * @type boolean - * @deprecated - */ - "bUseRendered": null, - + /** * Flag to indicate if the column is currently visible in the table or not * @type boolean */ "bVisible": null, - + + /** + * Store for manual type assignment using the `column.type` option. This + * is held in store so we can manipulate the column's `sType` property. + * @type string + * @default null + * @private + */ + "_sManualType": null, + /** - * Flag to indicate to the type detection method if the automatic type - * detection should be used, or if a column type (sType) has been specified + * Flag to indicate if HTML5 data attributes should be used as the data + * source for filtering or sorting. True is either are. * @type boolean - * @default true + * @default false * @private */ - "_bAutoType": true, - + "_bAttrSrc": false, + /** * Developer definable function that is called whenever a cell is created (Ajax source, * etc) or processed for input (DOM source). This can be used as a compliment to mRender @@ -7649,64 +9380,45 @@ * @default null */ "fnCreatedCell": null, - + /** * Function to get data from a cell in a column. You should <b>never</b> * access data directly through _aData internally in DataTables - always use * the method attached to this property. It allows mData to function as - * required. This function is automatically assigned by the column + * required. This function is automatically assigned by the column * initialisation method * @type function - * @param {array|object} oData The data array/object for the array + * @param {array|object} oData The data array/object for the array * (i.e. aoData[]._aData) - * @param {string} sSpecific The specific data type you want to get - + * @param {string} sSpecific The specific data type you want to get - * 'display', 'type' 'filter' 'sort' * @returns {*} The data for the cell from the given row's data * @default null */ "fnGetData": null, - - /** - * <code>Deprecated</code> Custom display function that will be called for the - * display of each cell in this column. - * - * Please note that this option has now been deprecated and will be removed - * in the next version of DataTables. Please use mRender / mData rather than - * fnRender. - * @type function - * @param {object} o Object with the following parameters: - * @param {int} o.iDataRow The row in aoData - * @param {int} o.iDataColumn The column in question - * @param {array} o.aData The data for the row in question - * @param {object} o.oSettings The settings object for this DataTables instance - * @returns {string} The string you which to use in the display - * @default null - * @deprecated - */ - "fnRender": null, - + /** - * Function to set data for a cell in the column. You should <b>never</b> + * Function to set data for a cell in the column. You should <b>never</b> * set the data directly to _aData internally in DataTables - always use * this method. It allows mData to function as required. This function * is automatically assigned by the column initialisation method * @type function - * @param {array|object} oData The data array/object for the array + * @param {array|object} oData The data array/object for the array * (i.e. aoData[]._aData) * @param {*} sValue Value to set * @default null */ "fnSetData": null, - + /** - * Property to read the value for the cells in the column from the data + * Property to read the value for the cells in the column from the data * source array / object. If null, then the default content is used, if a * function is given then the return from the function is used. * @type function|int|string|null * @default null */ "mData": null, - + /** * Partner property to mData which is used (only when defined) to get * the data - i.e. it is basically the same as mData, but without the @@ -7716,7 +9428,7 @@ * @default null */ "mRender": null, - + /** * Unique header TH/TD element for this column - this is what the sorting * listener is attached to (if sorting is enabled.) @@ -7724,28 +9436,28 @@ * @default null */ "nTh": null, - + /** - * Unique footer TH/TD element for this column (if there is one). Not used - * in DataTables as such, but can be used for plug-ins to reference the + * Unique footer TH/TD element for this column (if there is one). Not used + * in DataTables as such, but can be used for plug-ins to reference the * footer for each column. * @type node * @default null */ "nTf": null, - + /** * The class to apply to all TD elements in the table's TBODY for the column * @type string * @default null */ "sClass": null, - + /** * When DataTables calculates the column widths to assign to each column, * it finds the longest string in each column and then constructs a * temporary table and reads the widths from that. The problem with this - * is that "mmm" is much wider then "iiii", but the latter is a longer + * is that "mmm" is much wider then "iiii", but the latter is a longer * string - thus the calculation can go wrong (doing it properly and putting * it into an DOM object and measuring that is horribly(!) slow). Thus as * a "work around" we provide this option. It will append its value to the @@ -7753,7 +9465,7 @@ * @type string */ "sContentPadding": null, - + /** * Allows a default value to be given for a column's data, and will be used * whenever a null data source is encountered (this can be because mData @@ -7762,14 +9474,14 @@ * @default null */ "sDefaultContent": null, - + /** * Name for the column, allowing reference to the column by name as well as * by index (needs a lookup to work by name). * @type string */ "sName": null, - + /** * Custom sorting data type - defines which of the available plug-ins in * afnSortData the custom sorting will use - if any is defined. @@ -7777,14 +9489,14 @@ * @default std */ "sSortDataType": 'std', - + /** * Class to be applied to the header element when sorting on this column * @type string * @default null */ "sSortingClass": null, - + /** * Class to be applied to the header element when sorting on this column - * when jQuery UI theming is used. @@ -7792,27 +9504,27 @@ * @default null */ "sSortingClassJUI": null, - + /** * Title of the column - what is seen in the TH element (nTh). * @type string */ "sTitle": null, - + /** * Column sorting and filtering type * @type string * @default null */ "sType": null, - + /** * Width of the column * @type string * @default null */ "sWidth": null, - + /** * Width of the column when it was first "encountered" * @type string @@ -7822,45 +9534,62 @@ }; + /* + * Developer note: The properties of the object below are given in Hungarian + * notation, that was used as the interface for DataTables prior to v1.10, however + * from v1.10 onwards the primary interface is camel case. In order to avoid + * breaking backwards compatibility utterly with this change, the Hungarian + * version is still, internally the primary interface, but is is not documented + * - hence the @name tags in each doc comment. This allows a Javascript function + * to create a map from Hungarian notation to camel case (going the other direction + * would require each property to be listed, which would at around 3K to the size + * of DataTables, while this method is about a 0.5K hit. + * + * Ultimately this does pave the way for Hungarian notation to be dropped + * completely, but that is a massive amount of work and will break current + * installs (therefore is on-hold until v2). + */ /** - * Initialisation options that can be given to DataTables at initialisation + * Initialisation options that can be given to DataTables at initialisation * time. * @namespace */ DataTable.defaults = { /** - * An array of data to use for the table, passed in at initialisation which + * An array of data to use for the table, passed in at initialisation which * will be used in preference to any data which is already in the DOM. This is * particularly useful for constructing tables purely in Javascript, for * example with a custom Ajax call. * @type array * @default null + * * @dtopt Option - * + * @name DataTable.defaults.data + * * @example * // Using a 2D array data source * $(document).ready( function () { * $('#example').dataTable( { - * "aaData": [ + * "data": [ * ['Trident', 'Internet Explorer 4.0', 'Win 95+', 4, 'X'], * ['Trident', 'Internet Explorer 5.0', 'Win 95+', 5, 'C'], * ], - * "aoColumns": [ - * { "sTitle": "Engine" }, - * { "sTitle": "Browser" }, - * { "sTitle": "Platform" }, - * { "sTitle": "Version" }, - * { "sTitle": "Grade" } + * "columns": [ + * { "title": "Engine" }, + * { "title": "Browser" }, + * { "title": "Platform" }, + * { "title": "Version" }, + * { "title": "Grade" } * ] * } ); * } ); - * + * * @example - * // Using an array of objects as a data source (mData) + * // Using an array of objects as a data source (`data`) * $(document).ready( function () { * $('#example').dataTable( { - * "aaData": [ + * "data": [ * { * "engine": "Trident", * "browser": "Internet Explorer 4.0", @@ -7876,12 +9605,12 @@ * "grade": "C" * } * ], - * "aoColumns": [ - * { "sTitle": "Engine", "mData": "engine" }, - * { "sTitle": "Browser", "mData": "browser" }, - * { "sTitle": "Platform", "mData": "platform" }, - * { "sTitle": "Version", "mData": "version" }, - * { "sTitle": "Grade", "mData": "grade" } + * "columns": [ + * { "title": "Engine", "data": "engine" }, + * { "title": "Browser", "data": "browser" }, + * { "title": "Platform", "data": "platform" }, + * { "title": "Version", "data": "version" }, + * { "title": "Grade", "data": "grade" } * ] * } ); * } ); @@ -7890,27 +9619,29 @@ /** - * If sorting is enabled, then DataTables will perform a first pass sort on - * initialisation. You can define which column(s) the sort is performed upon, - * and the sorting direction, with this variable. The aaSorting array should - * contain an array for each column to be sorted initially containing the - * column's index and a direction string ('asc' or 'desc'). + * If ordering is enabled, then DataTables will perform a first pass sort on + * initialisation. You can define which column(s) the sort is performed + * upon, and the sorting direction, with this variable. The `sorting` array + * should contain an array for each column to be sorted initially containing + * the column's index and a direction string ('asc' or 'desc'). * @type array * @default [[0,'asc']] + * * @dtopt Option - * + * @name DataTable.defaults.order + * * @example * // Sort by 3rd column first, and then 4th column * $(document).ready( function() { * $('#example').dataTable( { - * "aaSorting": [[2,'asc'], [3,'desc']] + * "order": [[2,'asc'], [3,'desc']] * } ); * } ); - * + * * // No initial sorting * $(document).ready( function() { * $('#example').dataTable( { - * "aaSorting": [] + * "order": [] * } ); * } ); */ @@ -7918,52 +9649,205 @@ /** - * This parameter is basically identical to the aaSorting parameter, but - * cannot be overridden by user interaction with the table. What this means - * is that you could have a column (visible or hidden) which the sorting will - * always be forced on first - any sorting after that (from the user) will - * then be performed as required. This can be useful for grouping rows + * This parameter is basically identical to the `sorting` parameter, but + * cannot be overridden by user interaction with the table. What this means + * is that you could have a column (visible or hidden) which the sorting + * will always be forced on first - any sorting after that (from the user) + * will then be performed as required. This can be useful for grouping rows * together. * @type array * @default null + * * @dtopt Option - * + * @name DataTable.defaults.orderFixed + * * @example * $(document).ready( function() { * $('#example').dataTable( { - * "aaSortingFixed": [[0,'asc']] + * "orderFixed": [[0,'asc']] * } ); * } ) */ - "aaSortingFixed": null, + "aaSortingFixed": [], + + + /** + * DataTables can be instructed to load data to display in the table from a + * Ajax source. This option defines how that Ajax call is made and where to. + * + * The `ajax` property has three different modes of operation, depending on + * how it is defined. These are: + * + * * `string` - Set the URL from where the data should be loaded from. + * * `object` - Define properties for `jQuery.ajax`. + * * `function` - Custom data get function + * + * `string` + * -------- + * + * As a string, the `ajax` property simply defines the URL from which + * DataTables will load data. + * + * `object` + * -------- + * + * As an object, the parameters in the object are passed to + * [jQuery.ajax](http://api.jquery.com/jQuery.ajax/) allowing fine control + * of the Ajax request. DataTables has a number of default parameters which + * you can override using this option. Please refer to the jQuery + * documentation for a full description of the options available, although + * the following parameters provide additional options in DataTables or + * require special consideration: + * + * * `data` - As with jQuery, `data` can be provided as an object, but it + * can also be used as a function to manipulate the data DataTables sends + * to the server. The function takes a single parameter, an object of + * parameters with the values that DataTables has readied for sending. An + * object may be returned which will be merged into the DataTables + * defaults, or you can add the items to the object that was passed in and + * not return anything from the function. This supersedes `fnServerParams` + * from DataTables 1.9-. + * + * * `dataSrc` - By default DataTables will look for the property `data` (or + * `aaData` for compatibility with DataTables 1.9-) when obtaining data + * from an Ajax source or for server-side processing - this parameter + * allows that property to be changed. You can use Javascript dotted + * object notation to get a data source for multiple levels of nesting, or + * it my be used as a function. As a function it takes a single parameter, + * the JSON returned from the server, which can be manipulated as + * required, with the returned value being that used by DataTables as the + * data source for the table. This supersedes `sAjaxDataProp` from + * DataTables 1.9-. + * + * * `success` - Should not be overridden it is used internally in + * DataTables. To manipulate / transform the data returned by the server + * use `ajax.dataSrc`, or use `ajax` as a function (see below). + * + * `function` + * ---------- + * + * As a function, making the Ajax call is left up to yourself allowing + * complete control of the Ajax request. Indeed, if desired, a method other + * than Ajax could be used to obtain the required data, such as Web storage + * or an AIR database. + * + * The function is given four parameters and no return is required. The + * parameters are: + * + * 1. _object_ - Data to send to the server + * 2. _function_ - Callback function that must be executed when the required + * data has been obtained. That data should be passed into the callback + * as the only parameter + * 3. _object_ - DataTables settings object for the table + * + * Note that this supersedes `fnServerData` from DataTables 1.9-. + * + * @type string|object|function + * @default null + * + * @dtopt Option + * @name DataTable.defaults.ajax + * @since 1.10.0 + * + * @example + * // Get JSON data from a file via Ajax. + * // Note DataTables expects data in the form `{ data: [ ...data... ] }` by default). + * $('#example').dataTable( { + * "ajax": "data.json" + * } ); + * + * @example + * // Get JSON data from a file via Ajax, using `dataSrc` to change + * // `data` to `tableData` (i.e. `{ tableData: [ ...data... ] }`) + * $('#example').dataTable( { + * "ajax": { + * "url": "data.json", + * "dataSrc": "tableData" + * } + * } ); + * + * @example + * // Get JSON data from a file via Ajax, using `dataSrc` to read data + * // from a plain array rather than an array in an object + * $('#example').dataTable( { + * "ajax": { + * "url": "data.json", + * "dataSrc": "" + * } + * } ); + * + * @example + * // Manipulate the data returned from the server - add a link to data + * // (note this can, should, be done using `render` for the column - this + * // is just a simple example of how the data can be manipulated). + * $('#example').dataTable( { + * "ajax": { + * "url": "data.json", + * "dataSrc": function ( json ) { + * for ( var i=0, ien=json.length ; i<ien ; i++ ) { + * json[i][0] = '<a href="/message/'+json[i][0]+'>View message</a>'; + * } + * return json; + * } + * } + * } ); + * + * @example + * // Add data to the request + * $('#example').dataTable( { + * "ajax": { + * "url": "data.json", + * "data": function ( d ) { + * return { + * "extra_search": $('#extra').val() + * }; + * } + * } + * } ); + * + * @example + * // Send request as POST + * $('#example').dataTable( { + * "ajax": { + * "url": "data.json", + * "type": "POST" + * } + * } ); + * + * @example + * // Get the data from localStorage (could interface with a form for + * // adding, editing and removing rows). + * $('#example').dataTable( { + * "ajax": function (data, callback, settings) { + * callback( + * JSON.parse( localStorage.getItem('dataTablesData') ) + * ); + * } + * } ); + */ + "ajax": null, /** * This parameter allows you to readily specify the entries in the length drop - * down menu that DataTables shows when pagination is enabled. It can be - * either a 1D array of options which will be used for both the displayed - * option and the value, or a 2D array which will use the array in the first - * position as the value, and the array in the second position as the + * down menu that DataTables shows when pagination is enabled. It can be + * either a 1D array of options which will be used for both the displayed + * option and the value, or a 2D array which will use the array in the first + * position as the value, and the array in the second position as the * displayed options (useful for language strings such as 'All'). + * + * Note that the `pageLength` property will be automatically set to the + * first value given in this array, unless `pageLength` is also provided. * @type array * @default [ 10, 25, 50, 100 ] + * * @dtopt Option - * - * @example - * $(document).ready( function() { - * $('#example').dataTable( { - * "aLengthMenu": [[10, 25, 50, -1], [10, 25, 50, "All"]] - * } ); - * } ); - * + * @name DataTable.defaults.lengthMenu + * * @example - * // Setting the default display length as well as length menu - * // This is likely to be wanted if you remove the '10' option which - * // is the iDisplayLength default. * $(document).ready( function() { * $('#example').dataTable( { - * "iDisplayLength": 25, - * "aLengthMenu": [[25, 50, 100, -1], [25, 50, 100, "All"]] + * "lengthMenu": [[10, 25, 50, -1], [10, 25, 50, "All"]] * } ); * } ); */ @@ -7971,25 +9855,27 @@ /** - * The aoColumns option in the initialisation parameter allows you to define + * The `columns` option in the initialisation parameter allows you to define * details about the way individual columns behave. For a full list of - * column options that can be set, please see - * {@link DataTable.defaults.columns}. Note that if you use aoColumns to + * column options that can be set, please see + * {@link DataTable.defaults.column}. Note that if you use `columns` to * define your columns, you must have an entry in the array for every single * column that you have in your table (these can be null if you don't which * to specify any options). * @member + * + * @name DataTable.defaults.column */ "aoColumns": null, /** - * Very similar to aoColumns, aoColumnDefs allows you to target a specific - * column, multiple columns, or all columns, using the aTargets property of - * each object in the array. This allows great flexibility when creating - * tables, as the aoColumnDefs arrays can be of any length, targeting the - * columns you specifically want. aoColumnDefs may use any of the column - * options available: {@link DataTable.defaults.columns}, but it _must_ - * have aTargets defined in each object in the array. Values in the aTargets + * Very similar to `columns`, `columnDefs` allows you to target a specific + * column, multiple columns, or all columns, using the `targets` property of + * each object in the array. This allows great flexibility when creating + * tables, as the `columnDefs` arrays can be of any length, targeting the + * columns you specifically want. `columnDefs` may use any of the column + * options available: {@link DataTable.defaults.column}, but it _must_ + * have `targets` defined in each object in the array. Values in the `targets` * array may be: * <ul> * <li>a string - class name will be matched on the TH for the column</li> @@ -7998,28 +9884,32 @@ * <li>the string "_all" - all columns (i.e. assign a default)</li> * </ul> * @member + * + * @name DataTable.defaults.columnDefs */ "aoColumnDefs": null, /** - * Basically the same as oSearch, this parameter defines the individual column - * filtering state at initialisation time. The array must be of the same size + * Basically the same as `search`, this parameter defines the individual column + * filtering state at initialisation time. The array must be of the same size * as the number of columns, and each element be an object with the parameters - * "sSearch" and "bEscapeRegex" (the latter is optional). 'null' is also + * `search` and `escapeRegex` (the latter is optional). 'null' is also * accepted and the default will be used. * @type array * @default [] + * * @dtopt Option - * + * @name DataTable.defaults.searchCols + * * @example * $(document).ready( function() { * $('#example').dataTable( { - * "aoSearchCols": [ + * "searchCols": [ * null, - * { "sSearch": "My filter" }, + * { "search": "My filter" }, * null, - * { "sSearch": "^[0-9]", "bEscapeRegex": false } + * { "search": "^[0-9]", "escapeRegex": false } * ] * } ); * } ) @@ -8028,18 +9918,20 @@ /** - * An array of CSS classes that should be applied to displayed rows. This - * array may be of any length, and DataTables will apply each class + * An array of CSS classes that should be applied to displayed rows. This + * array may be of any length, and DataTables will apply each class * sequentially, looping when required. * @type array - * @default null <i>Will take the values determined by the oClasses.sStripe* + * @default null <i>Will take the values determined by the `oClasses.stripe*` * options</i> + * * @dtopt Option - * + * @name DataTable.defaults.stripeClasses + * * @example * $(document).ready( function() { * $('#example').dataTable( { - * "asStripeClasses": [ 'strip1', 'strip2', 'strip3' ] + * "stripeClasses": [ 'strip1', 'strip2', 'strip3' ] * } ); * } ) */ @@ -8049,15 +9941,17 @@ /** * Enable or disable automatic column width calculation. This can be disabled * as an optimisation (it takes some time to calculate the widths) if the - * tables widths are passed in using aoColumns. + * tables widths are passed in using `columns`. * @type boolean * @default true + * * @dtopt Features - * + * @name DataTable.defaults.autoWidth + * * @example * $(document).ready( function () { * $('#example').dataTable( { - * "bAutoWidth": false + * "autoWidth": false * } ); * } ); */ @@ -8072,13 +9966,15 @@ * time. * @type boolean * @default false + * * @dtopt Features - * + * @name DataTable.defaults.deferRender + * * @example * $(document).ready( function() { - * var oTable = $('#example').dataTable( { - * "sAjaxSource": "sources/arrays.txt", - * "bDeferRender": true + * $('#example').dataTable( { + * "ajax": "sources/arrays.txt", + * "deferRender": true * } ); * } ); */ @@ -8086,25 +9982,27 @@ /** - * Replace a DataTable which matches the given selector and replace it with + * Replace a DataTable which matches the given selector and replace it with * one which has the properties of the new initialisation object passed. If no * table matches the selector, then the new DataTable will be constructed as * per normal. * @type boolean * @default false + * * @dtopt Options - * + * @name DataTable.defaults.destroy + * * @example * $(document).ready( function() { * $('#example').dataTable( { - * "sScrollY": "200px", - * "bPaginate": false + * "srollY": "200px", + * "paginate": false * } ); - * + * * // Some time later.... * $('#example').dataTable( { - * "bFilter": false, - * "bDestroy": true + * "filter": false, + * "destroy": true * } ); * } ); */ @@ -8118,15 +10016,17 @@ * specified (this allow matching across multiple columns). Note that if you * wish to use filtering in DataTables this must remain 'true' - to remove the * default filtering input box and retain filtering abilities, please use - * {@link DataTable.defaults.sDom}. + * {@link DataTable.defaults.dom}. * @type boolean * @default true + * * @dtopt Features - * + * @name DataTable.defaults.searching + * * @example * $(document).ready( function () { * $('#example').dataTable( { - * "bFilter": false + * "searching": false * } ); * } ); */ @@ -8134,17 +10034,19 @@ /** - * Enable or disable the table information display. This shows information + * Enable or disable the table information display. This shows information * about the data that is currently visible on the page, including information * about filtered data if that action is being performed. * @type boolean * @default true + * * @dtopt Features - * + * @name DataTable.defaults.info + * * @example * $(document).ready( function () { * $('#example').dataTable( { - * "bInfo": false + * "info": false * } ); * } ); */ @@ -8157,12 +10059,14 @@ * traditionally used). * @type boolean * @default false + * * @dtopt Features - * + * @name DataTable.defaults.jQueryUI + * * @example * $(document).ready( function() { * $('#example').dataTable( { - * "bJQueryUI": true + * "jQueryUI": true * } ); * } ); */ @@ -8171,15 +10075,17 @@ /** * Allows the end user to select the size of a formatted page from a select - * menu (sizes are 10, 25, 50 and 100). Requires pagination (bPaginate). + * menu (sizes are 10, 25, 50 and 100). Requires pagination (`paginate`). * @type boolean * @default true + * * @dtopt Features - * + * @name DataTable.defaults.lengthChange + * * @example * $(document).ready( function () { * $('#example').dataTable( { - * "bLengthChange": false + * "lengthChange": false * } ); * } ); */ @@ -8190,12 +10096,14 @@ * Enable or disable pagination. * @type boolean * @default true + * * @dtopt Features - * + * @name DataTable.defaults.paging + * * @example * $(document).ready( function () { * $('#example').dataTable( { - * "bPaginate": false + * "paging": false * } ); * } ); */ @@ -8209,12 +10117,14 @@ * the entries. * @type boolean * @default false + * * @dtopt Features - * + * @name DataTable.defaults.processing + * * @example * $(document).ready( function () { * $('#example').dataTable( { - * "bProcessing": true + * "processing": true * } ); * } ); */ @@ -8227,56 +10137,39 @@ * to simply return the object that has already been set up - it will not take * account of any changes you might have made to the initialisation object * passed to DataTables (setting this parameter to true is an acknowledgement - * that you understand this). bDestroy can be used to reinitialise a table if + * that you understand this). `destroy` can be used to reinitialise a table if * you need. * @type boolean * @default false + * * @dtopt Options - * + * @name DataTable.defaults.retrieve + * * @example * $(document).ready( function() { * initTable(); * tableActions(); * } ); - * + * * function initTable () * { * return $('#example').dataTable( { - * "sScrollY": "200px", - * "bPaginate": false, - * "bRetrieve": true + * "scrollY": "200px", + * "paginate": false, + * "retrieve": true * } ); * } - * + * * function tableActions () * { - * var oTable = initTable(); - * // perform API operations with oTable + * var table = initTable(); + * // perform API operations with oTable * } */ "bRetrieve": false, /** - * Indicate if DataTables should be allowed to set the padding / margin - * etc for the scrolling header elements or not. Typically you will want - * this. - * @type boolean - * @default true - * @dtopt Options - * - * @example - * $(document).ready( function() { - * $('#example').dataTable( { - * "bScrollAutoCss": false, - * "sScrollY": "200px" - * } ); - * } ); - */ - "bScrollAutoCss": true, - - - /** * When vertical (y) scrolling is enabled, DataTables will force the height of * the table's viewport to the given height at all times (useful for layout). * However, this can look odd when filtering data down to a small data set, @@ -8285,13 +10178,15 @@ * the result set will fit within the given Y height. * @type boolean * @default false + * * @dtopt Options - * + * @name DataTable.defaults.scrollCollapse + * * @example * $(document).ready( function() { * $('#example').dataTable( { - * "sScrollY": "200", - * "bScrollCollapse": true + * "scrollY": "200", + * "scrollCollapse": true * } ); * } ); */ @@ -8299,63 +10194,64 @@ /** - * Enable infinite scrolling for DataTables (to be used in combination with - * sScrollY). Infinite scrolling means that DataTables will continually load - * data as a user scrolls through a table, which is very useful for large - * dataset. This cannot be used with pagination, which is automatically - * disabled. Note - the Scroller extra for DataTables is recommended in - * in preference to this option. + * Configure DataTables to use server-side processing. Note that the + * `ajax` parameter must also be given in order to give DataTables a + * source to obtain the required data for each draw. * @type boolean * @default false + * * @dtopt Features - * + * @dtopt Server-side + * @name DataTable.defaults.serverSide + * * @example - * $(document).ready( function() { + * $(document).ready( function () { * $('#example').dataTable( { - * "bScrollInfinite": true, - * "bScrollCollapse": true, - * "sScrollY": "200px" + * "serverSide": true, + * "ajax": "xhr.php" * } ); * } ); */ - "bScrollInfinite": false, + "bServerSide": false, /** - * Configure DataTables to use server-side processing. Note that the - * sAjaxSource parameter must also be given in order to give DataTables a - * source to obtain the required data for each draw. + * Enable or disable sorting of columns. Sorting of individual columns can be + * disabled by the `sortable` option for each column. * @type boolean - * @default false + * @default true + * * @dtopt Features - * @dtopt Server-side - * + * @name DataTable.defaults.ordering + * * @example * $(document).ready( function () { * $('#example').dataTable( { - * "bServerSide": true, - * "sAjaxSource": "xhr.php" + * "ordering": false * } ); * } ); */ - "bServerSide": false, + "bSort": true, /** - * Enable or disable sorting of columns. Sorting of individual columns can be - * disabled by the "bSortable" option for each column. + * Enable or display DataTables' ability to sort multiple columns at the + * same time (activated by shift-click by the user). * @type boolean * @default true - * @dtopt Features - * + * + * @dtopt Options + * @name DataTable.defaults.orderMulti + * * @example + * // Disable multiple column sorting ability * $(document).ready( function () { * $('#example').dataTable( { - * "bSort": false + * "orderMulti": false * } ); * } ); */ - "bSort": true, + "bSortMulti": true, /** @@ -8364,12 +10260,14 @@ * This is useful when using complex headers. * @type boolean * @default false + * * @dtopt Options - * + * @name DataTable.defaults.orderCellsTop + * * @example * $(document).ready( function() { * $('#example').dataTable( { - * "bSortCellsTop": true + * "orderCellsTop": true * } ); * } ); */ @@ -8377,19 +10275,21 @@ /** - * Enable or disable the addition of the classes 'sorting_1', 'sorting_2' and - * 'sorting_3' to the columns which are currently being sorted on. This is + * Enable or disable the addition of the classes `sorting\_1`, `sorting\_2` and + * `sorting\_3` to the columns which are currently being sorted on. This is * presented as a feature switch as it can increase processing time (while * classes are removed and added) so for large data sets you might want to * turn this off. * @type boolean * @default true + * * @dtopt Features - * + * @name DataTable.defaults.orderClasses + * * @example * $(document).ready( function () { * $('#example').dataTable( { - * "bSortClasses": false + * "orderClasses": false * } ); * } ); */ @@ -8397,18 +10297,24 @@ /** - * Enable or disable state saving. When enabled a cookie will be used to save - * table display information such as pagination information, display length, - * filtering and sorting. As such when the end user reloads the page the - * display display will match what thy had previously set up. + * Enable or disable state saving. When enabled HTML5 `localStorage` will be + * used to save table display information such as pagination information, + * display length, filtering and sorting. As such when the end user reloads + * the page the display display will match what thy had previously set up. + * + * Due to the use of `localStorage` the default state saving is not supported + * in IE6 or 7. If state saving is required in those browsers, use + * `stateSaveCallback` to provide a storage solution such as cookies. * @type boolean * @default false + * * @dtopt Features - * + * @name DataTable.defaults.stateSave + * * @example * $(document).ready( function () { * $('#example').dataTable( { - * "bStateSave": true + * "stateSave": true * } ); * } ); */ @@ -8416,51 +10322,25 @@ /** - * Customise the cookie and / or the parameters being stored when using - * DataTables with state saving enabled. This function is called whenever - * the cookie is modified, and it expects a fully formed cookie string to be - * returned. Note that the data object passed in is a Javascript object which - * must be converted to a string (JSON.stringify for example). - * @type function - * @param {string} sName Name of the cookie defined by DataTables - * @param {object} oData Data to be stored in the cookie - * @param {string} sExpires Cookie expires string - * @param {string} sPath Path of the cookie to set - * @returns {string} Cookie formatted string (which should be encoded by - * using encodeURIComponent()) - * @dtopt Callbacks - * - * @example - * $(document).ready( function () { - * $('#example').dataTable( { - * "fnCookieCallback": function (sName, oData, sExpires, sPath) { - * // Customise oData or sName or whatever else here - * return sName + "="+JSON.stringify(oData)+"; expires=" + sExpires +"; path=" + sPath; - * } - * } ); - * } ); - */ - "fnCookieCallback": null, - - - /** * This function is called when a TR element is created (and all TD child * elements have been inserted), or registered if using a DOM source, allowing * manipulation of the TR element (adding classes etc). * @type function - * @param {node} nRow "TR" element for the current row - * @param {array} aData Raw data array for this row - * @param {int} iDataIndex The index of this row in aoData + * @param {node} row "TR" element for the current row + * @param {array} data Raw data array for this row + * @param {int} dataIndex The index of this row in the internal aoData array + * * @dtopt Callbacks - * + * @name DataTable.defaults.createdRow + * * @example * $(document).ready( function() { * $('#example').dataTable( { - * "fnCreatedRow": function( nRow, aData, iDataIndex ) { + * "createdRow": function( row, data, dataIndex ) { * // Bold the grade for all 'A' grade browsers - * if ( aData[4] == "A" ) + * if ( data[4] == "A" ) * { - * $('td:eq(4)', nRow).html( '<b>A</b>' ); + * $('td:eq(4)', row).html( '<b>A</b>' ); * } * } * } ); @@ -8473,13 +10353,15 @@ * This function is called on every 'draw' event, and allows you to * dynamically modify any aspect you want about the created DOM. * @type function - * @param {object} oSettings DataTables settings object + * @param {object} settings DataTables settings object + * * @dtopt Callbacks - * + * @name DataTable.defaults.drawCallback + * * @example * $(document).ready( function() { * $('#example').dataTable( { - * "fnDrawCallback": function( oSettings ) { + * "drawCallback": function( settings ) { * alert( 'DataTables has redrawn the table' ); * } * } ); @@ -8490,23 +10372,25 @@ /** * Identical to fnHeaderCallback() but for the table footer this function - * allows you to modify the table footer on every 'draw' even. + * allows you to modify the table footer on every 'draw' event. * @type function - * @param {node} nFoot "TR" element for the footer - * @param {array} aData Full table data (as derived from the original HTML) - * @param {int} iStart Index for the current display starting point in the + * @param {node} foot "TR" element for the footer + * @param {array} data Full table data (as derived from the original HTML) + * @param {int} start Index for the current display starting point in the * display array - * @param {int} iEnd Index for the current display ending point in the + * @param {int} end Index for the current display ending point in the * display array - * @param {array int} aiDisplay Index array to translate the visual position + * @param {array int} display Index array to translate the visual position * to the full data array + * * @dtopt Callbacks - * + * @name DataTable.defaults.footerCallback + * * @example * $(document).ready( function() { * $('#example').dataTable( { - * "fnFooterCallback": function( nFoot, aData, iStart, iEnd, aiDisplay ) { - * nFoot.getElementsByTagName('th')[0].innerHTML = "Starting index is "+iStart; + * "footerCallback": function( tfoot, data, start, end, display ) { + * tfoot.getElementsByTagName('th')[0].innerHTML = "Starting index is "+start; * } * } ); * } ) @@ -8522,52 +10406,30 @@ * function will override the default method DataTables uses. * @type function * @member - * @param {int} iIn number to be formatted + * @param {int} toFormat number to be formatted * @returns {string} formatted string for DataTables to show the number + * * @dtopt Callbacks - * + * @name DataTable.defaults.formatNumber + * * @example + * // Format a number using a single quote for the separator (note that + * // this can also be done with the language.thousands option) * $(document).ready( function() { * $('#example').dataTable( { - * "fnFormatNumber": function ( iIn ) { - * if ( iIn < 1000 ) { - * return iIn; - * } else { - * var - * s=(iIn+""), - * a=s.split(""), out="", - * iLen=s.length; - * - * for ( var i=0 ; i<iLen ; i++ ) { - * if ( i%3 === 0 && i !== 0 ) { - * out = "'"+out; - * } - * out = a[iLen-i-1]+out; - * } - * } - * return out; + * "formatNumber": function ( toFormat ) { + * return toFormat.toString().replace( + * /\B(?=(\d{3})+(?!\d))/g, "'" + * ); * }; * } ); * } ); */ - "fnFormatNumber": function ( iIn ) { - if ( iIn < 1000 ) - { - // A small optimisation for what is likely to be the majority of use cases - return iIn; - } - - var s=(iIn+""), a=s.split(""), out="", iLen=s.length; - - for ( var i=0 ; i<iLen ; i++ ) - { - if ( i%3 === 0 && i !== 0 ) - { - out = this.oLanguage.sInfoThousands+out; - } - out = a[iLen-i-1]+out; - } - return out; + "fnFormatNumber": function ( toFormat ) { + return toFormat.toString().replace( + /\B(?=(\d{3})+(?!\d))/g, + this.oLanguage.sThousands + ); }, @@ -8576,21 +10438,23 @@ * dynamically modify the header row. This can be used to calculate and * display useful information about the table. * @type function - * @param {node} nHead "TR" element for the header - * @param {array} aData Full table data (as derived from the original HTML) - * @param {int} iStart Index for the current display starting point in the + * @param {node} head "TR" element for the header + * @param {array} data Full table data (as derived from the original HTML) + * @param {int} start Index for the current display starting point in the * display array - * @param {int} iEnd Index for the current display ending point in the + * @param {int} end Index for the current display ending point in the * display array - * @param {array int} aiDisplay Index array to translate the visual position + * @param {array int} display Index array to translate the visual position * to the full data array + * * @dtopt Callbacks - * + * @name DataTable.defaults.headerCallback + * * @example * $(document).ready( function() { * $('#example').dataTable( { - * "fnHeaderCallback": function( nHead, aData, iStart, iEnd, aiDisplay ) { - * nHead.getElementsByTagName('th')[0].innerHTML = "Displaying "+(iEnd-iStart)+" records"; + * "fheaderCallback": function( head, data, start, end, display ) { + * head.getElementsByTagName('th')[0].innerHTML = "Displaying "+(end-start)+" records"; * } * } ); * } ) @@ -8606,20 +10470,22 @@ * allows you to do exactly that. * @type function * @param {object} oSettings DataTables settings object - * @param {int} iStart Starting position in data for the draw - * @param {int} iEnd End position in data for the draw - * @param {int} iMax Total number of rows in the table (regardless of + * @param {int} start Starting position in data for the draw + * @param {int} end End position in data for the draw + * @param {int} max Total number of rows in the table (regardless of * filtering) - * @param {int} iTotal Total number of rows in the data set, after filtering - * @param {string} sPre The string that DataTables has formatted using it's + * @param {int} total Total number of rows in the data set, after filtering + * @param {string} pre The string that DataTables has formatted using it's * own rules * @returns {string} The string to be displayed in the information element. + * * @dtopt Callbacks - * + * @name DataTable.defaults.infoCallback + * * @example * $('#example').dataTable( { - * "fnInfoCallback": function( oSettings, iStart, iEnd, iMax, iTotal, sPre ) { - * return iStart +" to "+ iEnd; + * "infoCallback": function( settings, start, end, max, total, pre ) { + * return start +" to "+ end; * } * } ); */ @@ -8632,15 +10498,17 @@ * however, this does not hold true when using external language information * since that is obtained using an async XHR call. * @type function - * @param {object} oSettings DataTables settings object + * @param {object} settings DataTables settings object * @param {object} json The JSON object request from the server - only * present if client-side Ajax sourced data is used + * * @dtopt Callbacks - * + * @name DataTable.defaults.initComplete + * * @example * $(document).ready( function() { * $('#example').dataTable( { - * "fnInitComplete": function(oSettings, json) { + * "initComplete": function(settings, json) { * alert( 'DataTables has finished its initialisation.' ); * } * } ); @@ -8654,15 +10522,17 @@ * draw by returning false, any other return (including undefined) results in * the full draw occurring). * @type function - * @param {object} oSettings DataTables settings object + * @param {object} settings DataTables settings object * @returns {boolean} False will cancel the draw, anything else (including no * return) will allow it to complete. + * * @dtopt Callbacks - * + * @name DataTable.defaults.preDrawCallback + * * @example * $(document).ready( function() { * $('#example').dataTable( { - * "fnPreDrawCallback": function( oSettings ) { + * "preDrawCallback": function( settings ) { * if ( $('#test').val() == 1 ) { * return false; * } @@ -8678,21 +10548,22 @@ * generated for each table draw, but before it is rendered on screen. This * function might be used for setting the row class name etc. * @type function - * @param {node} nRow "TR" element for the current row - * @param {array} aData Raw data array for this row - * @param {int} iDisplayIndex The display index for the current table draw - * @param {int} iDisplayIndexFull The index of the data in the full list of + * @param {node} row "TR" element for the current row + * @param {array} data Raw data array for this row + * @param {int} displayIndex The display index for the current table draw + * @param {int} displayIndexFull The index of the data in the full list of * rows (after filtering) + * * @dtopt Callbacks - * + * @name DataTable.defaults.rowCallback + * * @example * $(document).ready( function() { * $('#example').dataTable( { - * "fnRowCallback": function( nRow, aData, iDisplayIndex, iDisplayIndexFull ) { + * "rowCallback": function( row, data, displayIndex, displayIndexFull ) { * // Bold the grade for all 'A' grade browsers - * if ( aData[4] == "A" ) - * { - * $('td:eq(4)', nRow).html( '<b>A</b>' ); + * if ( data[4] == "A" ) { + * $('td:eq(4)', row).html( '<b>A</b>' ); * } * } * } ); @@ -8702,114 +10573,77 @@ /** + * __Deprecated__ The functionality provided by this parameter has now been + * superseded by that provided through `ajax`, which should be used instead. + * * This parameter allows you to override the default function which obtains - * the data from the server ($.getJSON) so something more suitable for your - * application. For example you could use POST data, or pull information from - * a Gears or AIR database. + * the data from the server so something more suitable for your application. + * For example you could use POST data, or pull information from a Gears or + * AIR database. * @type function * @member - * @param {string} sSource HTTP source to obtain the data from (sAjaxSource) - * @param {array} aoData A key/value pair object containing the data to send + * @param {string} source HTTP source to obtain the data from (`ajax`) + * @param {array} data A key/value pair object containing the data to send * to the server - * @param {function} fnCallback to be called on completion of the data get + * @param {function} callback to be called on completion of the data get * process that will draw the data on the page. - * @param {object} oSettings DataTables settings object + * @param {object} settings DataTables settings object + * * @dtopt Callbacks * @dtopt Server-side - * - * @example - * // POST data to server - * $(document).ready( function() { - * $('#example').dataTable( { - * "bProcessing": true, - * "bServerSide": true, - * "sAjaxSource": "xhr.php", - * "fnServerData": function ( sSource, aoData, fnCallback, oSettings ) { - * oSettings.jqXHR = $.ajax( { - * "dataType": 'json', - * "type": "POST", - * "url": sSource, - * "data": aoData, - * "success": fnCallback - * } ); - * } - * } ); - * } ); + * @name DataTable.defaults.serverData + * + * @deprecated 1.10. Please use `ajax` for this functionality now. */ - "fnServerData": function ( sUrl, aoData, fnCallback, oSettings ) { - oSettings.jqXHR = $.ajax( { - "url": sUrl, - "data": aoData, - "success": function (json) { - if ( json.sError ) { - oSettings.oApi._fnLog( oSettings, 0, json.sError ); - } - - $(oSettings.oInstance).trigger('xhr', [oSettings, json]); - fnCallback( json ); - }, - "dataType": "json", - "cache": false, - "type": oSettings.sServerMethod, - "error": function (xhr, error, thrown) { - if ( error == "parsererror" ) { - oSettings.oApi._fnLog( oSettings, 0, "DataTables warning: JSON data from "+ - "server could not be parsed. This is caused by a JSON formatting error." ); - } - } - } ); - }, + "fnServerData": null, /** - * It is often useful to send extra data to the server when making an Ajax + * __Deprecated__ The functionality provided by this parameter has now been + * superseded by that provided through `ajax`, which should be used instead. + * + * It is often useful to send extra data to the server when making an Ajax * request - for example custom filtering information, and this callback * function makes it trivial to send extra information to the server. The * passed in parameter is the data set that has been constructed by * DataTables, and you can add to this or modify it as you require. * @type function - * @param {array} aoData Data array (array of objects which are name/value + * @param {array} data Data array (array of objects which are name/value * pairs) that has been constructed by DataTables and will be sent to the * server. In the case of Ajax sourced data with server-side processing * this will be an empty array, for server-side processing there will be a * significant number of parameters! - * @returns {undefined} Ensure that you modify the aoData array passed in, + * @returns {undefined} Ensure that you modify the data array passed in, * as this is passed by reference. + * * @dtopt Callbacks * @dtopt Server-side - * - * @example - * $(document).ready( function() { - * $('#example').dataTable( { - * "bProcessing": true, - * "bServerSide": true, - * "sAjaxSource": "scripts/server_processing.php", - * "fnServerParams": function ( aoData ) { - * aoData.push( { "name": "more_data", "value": "my_value" } ); - * } - * } ); - * } ); + * @name DataTable.defaults.serverParams + * + * @deprecated 1.10. Please use `ajax` for this functionality now. */ "fnServerParams": null, /** * Load the table state. With this function you can define from where, and how, the - * state of a table is loaded. By default DataTables will load from its state saving - * cookie, but you might wish to use local storage (HTML5) or a server-side database. + * state of a table is loaded. By default DataTables will load from `localStorage` + * but you might wish to use a server-side database or cookies. * @type function * @member - * @param {object} oSettings DataTables settings object + * @param {object} settings DataTables settings object * @return {object} The DataTables state object to be loaded + * * @dtopt Callbacks - * + * @name DataTable.defaults.stateLoadCallback + * * @example * $(document).ready( function() { * $('#example').dataTable( { - * "bStateSave": true, - * "fnStateLoad": function (oSettings) { + * "stateSave": true, + * "stateLoadCallback": function (settings) { * var o; - * + * * // Send an Ajax request to the server to get the data. Note that * // this is a synchronous request. * $.ajax( { @@ -8820,55 +10654,53 @@ * o = json; * } * } ); - * + * * return o; * } * } ); * } ); */ - "fnStateLoad": function ( oSettings ) { - var sData = this.oApi._fnReadCookie( oSettings.sCookiePrefix+oSettings.sInstance ); - var oData; - + "fnStateLoadCallback": function ( settings ) { try { - oData = (typeof $.parseJSON === 'function') ? - $.parseJSON(sData) : eval( '('+sData+')' ); - } catch (e) { - oData = null; - } - - return oData; + return JSON.parse( + (settings.iStateDuration === -1 ? sessionStorage : localStorage).getItem( + 'DataTables_'+settings.sInstance+'_'+location.pathname + ) + ); + } catch (e) {} }, /** * Callback which allows modification of the saved state prior to loading that state. * This callback is called when the table is loading state from the stored data, but - * prior to the settings object being modified by the saved state. Note that for - * plug-in authors, you should use the 'stateLoadParams' event to load parameters for + * prior to the settings object being modified by the saved state. Note that for + * plug-in authors, you should use the `stateLoadParams` event to load parameters for * a plug-in. * @type function - * @param {object} oSettings DataTables settings object - * @param {object} oData The state object that is to be loaded + * @param {object} settings DataTables settings object + * @param {object} data The state object that is to be loaded + * * @dtopt Callbacks - * + * @name DataTable.defaults.stateLoadParams + * * @example * // Remove a saved filter, so filtering is never loaded * $(document).ready( function() { * $('#example').dataTable( { - * "bStateSave": true, - * "fnStateLoadParams": function (oSettings, oData) { - * oData.oSearch.sSearch = ""; + * "stateSave": true, + * "stateLoadParams": function (settings, data) { + * data.oSearch.sSearch = ""; * } * } ); * } ); - * + * * @example * // Disallow state loading by returning false * $(document).ready( function() { * $('#example').dataTable( { - * "bStateSave": true, - * "fnStateLoadParams": function (oSettings, oData) { + * "stateSave": true, + * "stateLoadParams": function (settings, data) { * return false; * } * } ); @@ -8881,17 +10713,19 @@ * Callback that is called when the state has been loaded from the state saving method * and the DataTables settings object has been modified as a result of the loaded state. * @type function - * @param {object} oSettings DataTables settings object - * @param {object} oData The state object that was loaded + * @param {object} settings DataTables settings object + * @param {object} data The state object that was loaded + * * @dtopt Callbacks - * + * @name DataTable.defaults.stateLoaded + * * @example * // Show an alert with the filtering value that was saved * $(document).ready( function() { * $('#example').dataTable( { - * "bStateSave": true, - * "fnStateLoaded": function (oSettings, oData) { - * alert( 'Saved filter was: '+oData.oSearch.sSearch ); + * "stateSave": true, + * "stateLoaded": function (settings, data) { + * alert( 'Saved filter was: '+data.oSearch.sSearch ); * } * } ); * } ); @@ -8901,23 +10735,25 @@ /** * Save the table state. This function allows you to define where and how the state - * information for the table is stored - by default it will use a cookie, but you - * might want to use local storage (HTML5) or a server-side database. + * information for the table is stored By default DataTables will use `localStorage` + * but you might wish to use a server-side database or cookies. * @type function * @member - * @param {object} oSettings DataTables settings object - * @param {object} oData The state object to be saved + * @param {object} settings DataTables settings object + * @param {object} data The state object to be saved + * * @dtopt Callbacks - * + * @name DataTable.defaults.stateSaveCallback + * * @example * $(document).ready( function() { * $('#example').dataTable( { - * "bStateSave": true, - * "fnStateSave": function (oSettings, oData) { + * "stateSave": true, + * "stateSaveCallback": function (settings, data) { * // Send an Ajax request to the server with the state object * $.ajax( { * "url": "/state_save", - * "data": oData, + * "data": data, * "dataType": "json", * "method": "POST" * "success": function () {} @@ -8926,35 +10762,36 @@ * } ); * } ); */ - "fnStateSave": function ( oSettings, oData ) { - this.oApi._fnCreateCookie( - oSettings.sCookiePrefix+oSettings.sInstance, - this.oApi._fnJsonString(oData), - oSettings.iCookieDuration, - oSettings.sCookiePrefix, - oSettings.fnCookieCallback - ); + "fnStateSaveCallback": function ( settings, data ) { + try { + (settings.iStateDuration === -1 ? sessionStorage : localStorage).setItem( + 'DataTables_'+settings.sInstance+'_'+location.pathname, + JSON.stringify( data ) + ); + } catch (e) {} }, /** - * Callback which allows modification of the state to be saved. Called when the table + * Callback which allows modification of the state to be saved. Called when the table * has changed state a new state save is required. This method allows modification of - * the state saving object prior to actually doing the save, including addition or - * other state properties or modification. Note that for plug-in authors, you should - * use the 'stateSaveParams' event to save parameters for a plug-in. + * the state saving object prior to actually doing the save, including addition or + * other state properties or modification. Note that for plug-in authors, you should + * use the `stateSaveParams` event to save parameters for a plug-in. * @type function - * @param {object} oSettings DataTables settings object - * @param {object} oData The state object to be saved + * @param {object} settings DataTables settings object + * @param {object} data The state object to be saved + * * @dtopt Callbacks - * + * @name DataTable.defaults.stateSaveParams + * * @example * // Remove a saved filter, so filtering is never saved * $(document).ready( function() { * $('#example').dataTable( { - * "bStateSave": true, - * "fnStateSaveParams": function (oSettings, oData) { - * oData.oSearch.sSearch = ""; + * "stateSave": true, + * "stateSaveParams": function (settings, data) { + * data.oSearch.sSearch = ""; * } * } ); * } ); @@ -8963,26 +10800,29 @@ /** - * Duration of the cookie which is used for storing session information. This - * value is given in seconds. + * Duration for which the saved state information is considered valid. After this period + * has elapsed the state will be returned to the default. + * Value is given in seconds. * @type int * @default 7200 <i>(2 hours)</i> + * * @dtopt Options - * + * @name DataTable.defaults.stateDuration + * * @example * $(document).ready( function() { * $('#example').dataTable( { - * "iCookieDuration": 60*60*24; // 1 day + * "stateDuration": 60*60*24; // 1 day * } ); * } ) */ - "iCookieDuration": 7200, + "iStateDuration": 7200, /** * When enabled DataTables will not make a request to the server for the first * page draw - rather it will use the data already on the page (no sorting etc - * will be applied to it), thus saving on an XHR at load time. iDeferLoading + * will be applied to it), thus saving on an XHR at load time. `deferLoading` * is used to indicate that deferred loading is required, but it is also used * to tell DataTables how many records there are in the full table (allowing * the information element and pagination to be displayed correctly). In the case @@ -8993,27 +10833,29 @@ * to be shown correctly). * @type int | array * @default null + * * @dtopt Options - * + * @name DataTable.defaults.deferLoading + * * @example * // 57 records available in the table, no filtering applied * $(document).ready( function() { * $('#example').dataTable( { - * "bServerSide": true, - * "sAjaxSource": "scripts/server_processing.php", - * "iDeferLoading": 57 + * "serverSide": true, + * "ajax": "scripts/server_processing.php", + * "deferLoading": 57 * } ); * } ); - * + * * @example * // 57 records after filtering, 100 without filtering (an initial filter applied) * $(document).ready( function() { * $('#example').dataTable( { - * "bServerSide": true, - * "sAjaxSource": "scripts/server_processing.php", - * "iDeferLoading": [ 57, 100 ], - * "oSearch": { - * "sSearch": "my_filter" + * "serverSide": true, + * "ajax": "scripts/server_processing.php", + * "deferLoading": [ 57, 100 ], + * "search": { + * "search": "my_filter" * } * } ); * } ); @@ -9023,16 +10865,18 @@ /** * Number of rows to display on a single page when using pagination. If - * feature enabled (bLengthChange) then the end user will be able to override + * feature enabled (`lengthChange`) then the end user will be able to override * this to a custom setting using a pop-up menu. * @type int * @default 10 + * * @dtopt Options - * + * @name DataTable.defaults.pageLength + * * @example * $(document).ready( function() { * $('#example').dataTable( { - * "iDisplayLength": 50 + * "pageLength": 50 * } ); * } ) */ @@ -9046,12 +10890,14 @@ * the third page, it should be "20". * @type int * @default 0 + * * @dtopt Options - * + * @name DataTable.defaults.displayStart + * * @example * $(document).ready( function() { * $('#example').dataTable( { - * "iDisplayStart": 20 + * "displayStart": 20 * } ); * } ) */ @@ -9059,42 +10905,22 @@ /** - * The scroll gap is the amount of scrolling that is left to go before - * DataTables will load the next 'page' of data automatically. You typically - * want a gap which is big enough that the scrolling will be smooth for the - * user, while not so large that it will load more data than need. - * @type int - * @default 100 - * @dtopt Options - * - * @example - * $(document).ready( function() { - * $('#example').dataTable( { - * "bScrollInfinite": true, - * "bScrollCollapse": true, - * "sScrollY": "200px", - * "iScrollLoadGap": 50 - * } ); - * } ); - */ - "iScrollLoadGap": 100, - - - /** * By default DataTables allows keyboard navigation of the table (sorting, paging, - * and filtering) by adding a tabindex attribute to the required elements. This + * and filtering) by adding a `tabindex` attribute to the required elements. This * allows you to tab through the controls and press the enter key to activate them. * The tabindex is default 0, meaning that the tab follows the flow of the document. * You can overrule this using this parameter if you wish. Use a value of -1 to * disable built-in keyboard navigation. * @type int * @default 0 + * * @dtopt Options - * + * @name DataTable.defaults.tabIndex + * * @example * $(document).ready( function() { * $('#example').dataTable( { - * "iTabIndex": 1 + * "tabIndex": 1 * } ); * } ); */ @@ -9102,10 +10928,22 @@ /** + * Classes that DataTables assigns to the various components and features + * that it adds to the HTML table. This allows classes to be configured + * during initialisation in addition to through the static + * {@link DataTable.ext.oStdClasses} object). + * @namespace + * @name DataTable.defaults.classes + */ + "oClasses": {}, + + + /** * All strings that DataTables uses in the user interface that it creates * are defined in this object, allowing you to modified them individually or * completely replace them all as required. * @namespace + * @name DataTable.defaults.language */ "oLanguage": { /** @@ -9113,6 +10951,7 @@ * actually visible on the page, but will be read by screenreaders, and thus * must be internationalised as well). * @namespace + * @name DataTable.defaults.language.aria */ "oAria": { /** @@ -9121,14 +10960,16 @@ * Note that the column header is prefixed to this string. * @type string * @default : activate to sort column ascending + * * @dtopt Language - * + * @name DataTable.defaults.language.aria.sortAscending + * * @example * $(document).ready( function() { * $('#example').dataTable( { - * "oLanguage": { - * "oAria": { - * "sSortAscending": " - click/return to sort ascending" + * "language": { + * "aria": { + * "sortAscending": " - click/return to sort ascending" * } * } * } ); @@ -9142,14 +10983,16 @@ * Note that the column header is prefixed to this string. * @type string * @default : activate to sort column ascending + * * @dtopt Language - * + * @name DataTable.defaults.language.aria.sortDescending + * * @example * $(document).ready( function() { * $('#example').dataTable( { - * "oLanguage": { - * "oAria": { - * "sSortDescending": " - click/return to sort descending" + * "language": { + * "aria": { + * "sortDescending": " - click/return to sort descending" * } * } * } ); @@ -9159,9 +11002,10 @@ }, /** - * Pagination string used by DataTables for the two built-in pagination - * control types ("two_button" and "full_numbers") + * Pagination string used by DataTables for the built-in pagination + * control types. * @namespace + * @name DataTable.defaults.language.paginate */ "oPaginate": { /** @@ -9169,77 +11013,85 @@ * button to take the user to the first page. * @type string * @default First + * * @dtopt Language - * + * @name DataTable.defaults.language.paginate.first + * * @example * $(document).ready( function() { * $('#example').dataTable( { - * "oLanguage": { - * "oPaginate": { - * "sFirst": "First page" + * "language": { + * "paginate": { + * "first": "First page" * } * } * } ); * } ); */ "sFirst": "First", - - + + /** * Text to use when using the 'full_numbers' type of pagination for the * button to take the user to the last page. * @type string * @default Last + * * @dtopt Language - * + * @name DataTable.defaults.language.paginate.last + * * @example * $(document).ready( function() { * $('#example').dataTable( { - * "oLanguage": { - * "oPaginate": { - * "sLast": "Last page" + * "language": { + * "paginate": { + * "last": "Last page" * } * } * } ); * } ); */ "sLast": "Last", - - + + /** - * Text to use for the 'next' pagination button (to take the user to the + * Text to use for the 'next' pagination button (to take the user to the * next page). * @type string * @default Next + * * @dtopt Language - * + * @name DataTable.defaults.language.paginate.next + * * @example * $(document).ready( function() { * $('#example').dataTable( { - * "oLanguage": { - * "oPaginate": { - * "sNext": "Next page" + * "language": { + * "paginate": { + * "next": "Next page" * } * } * } ); * } ); */ "sNext": "Next", - - + + /** - * Text to use for the 'previous' pagination button (to take the user to + * Text to use for the 'previous' pagination button (to take the user to * the previous page). * @type string * @default Previous + * * @dtopt Language - * + * @name DataTable.defaults.language.paginate.previous + * * @example * $(document).ready( function() { * $('#example').dataTable( { - * "oLanguage": { - * "oPaginate": { - * "sPrevious": "Previous page" + * "language": { + * "paginate": { + * "previous": "Previous page" * } * } * } ); @@ -9247,130 +11099,182 @@ */ "sPrevious": "Previous" }, - + /** - * This string is shown in preference to sZeroRecords when the table is + * This string is shown in preference to `zeroRecords` when the table is * empty of data (regardless of filtering). Note that this is an optional - * parameter - if it is not given, the value of sZeroRecords will be used + * parameter - if it is not given, the value of `zeroRecords` will be used * instead (either the default or given value). * @type string * @default No data available in table + * * @dtopt Language - * + * @name DataTable.defaults.language.emptyTable + * * @example * $(document).ready( function() { * $('#example').dataTable( { - * "oLanguage": { - * "sEmptyTable": "No data available in table" + * "language": { + * "emptyTable": "No data available in table" * } * } ); * } ); */ "sEmptyTable": "No data available in table", - - + + /** - * This string gives information to the end user about the information that - * is current on display on the page. The _START_, _END_ and _TOTAL_ - * variables are all dynamically replaced as the table display updates, and - * can be freely moved or removed as the language requirements change. + * This string gives information to the end user about the information + * that is current on display on the page. The following tokens can be + * used in the string and will be dynamically replaced as the table + * display updates. This tokens can be placed anywhere in the string, or + * removed as needed by the language requires: + * + * * `\_START\_` - Display index of the first record on the current page + * * `\_END\_` - Display index of the last record on the current page + * * `\_TOTAL\_` - Number of records in the table after filtering + * * `\_MAX\_` - Number of records in the table without filtering + * * `\_PAGE\_` - Current page number + * * `\_PAGES\_` - Total number of pages of data in the table + * * @type string * @default Showing _START_ to _END_ of _TOTAL_ entries + * * @dtopt Language - * + * @name DataTable.defaults.language.info + * * @example * $(document).ready( function() { * $('#example').dataTable( { - * "oLanguage": { - * "sInfo": "Got a total of _TOTAL_ entries to show (_START_ to _END_)" + * "language": { + * "info": "Showing page _PAGE_ of _PAGES_" * } * } ); * } ); */ "sInfo": "Showing _START_ to _END_ of _TOTAL_ entries", - - + + /** - * Display information string for when the table is empty. Typically the - * format of this string should match sInfo. + * Display information string for when the table is empty. Typically the + * format of this string should match `info`. * @type string * @default Showing 0 to 0 of 0 entries + * * @dtopt Language - * + * @name DataTable.defaults.language.infoEmpty + * * @example * $(document).ready( function() { * $('#example').dataTable( { - * "oLanguage": { - * "sInfoEmpty": "No entries to show" + * "language": { + * "infoEmpty": "No entries to show" * } * } ); * } ); */ "sInfoEmpty": "Showing 0 to 0 of 0 entries", - - + + /** - * When a user filters the information in a table, this string is appended - * to the information (sInfo) to give an idea of how strong the filtering + * When a user filters the information in a table, this string is appended + * to the information (`info`) to give an idea of how strong the filtering * is. The variable _MAX_ is dynamically updated. * @type string * @default (filtered from _MAX_ total entries) + * * @dtopt Language - * + * @name DataTable.defaults.language.infoFiltered + * * @example * $(document).ready( function() { * $('#example').dataTable( { - * "oLanguage": { - * "sInfoFiltered": " - filtering from _MAX_ records" + * "language": { + * "infoFiltered": " - filtering from _MAX_ records" * } * } ); * } ); */ "sInfoFiltered": "(filtered from _MAX_ total entries)", - - + + /** * If can be useful to append extra information to the info string at times, * and this variable does exactly that. This information will be appended to - * the sInfo (sInfoEmpty and sInfoFiltered in whatever combination they are + * the `info` (`infoEmpty` and `infoFiltered` in whatever combination they are * being used) at all times. * @type string * @default <i>Empty string</i> + * * @dtopt Language - * + * @name DataTable.defaults.language.infoPostFix + * * @example * $(document).ready( function() { * $('#example').dataTable( { - * "oLanguage": { - * "sInfoPostFix": "All records shown are derived from real information." + * "language": { + * "infoPostFix": "All records shown are derived from real information." * } * } ); * } ); */ "sInfoPostFix": "", - - + + /** - * DataTables has a build in number formatter (fnFormatNumber) which is used - * to format large numbers that are used in the table information. By - * default a comma is used, but this can be trivially changed to any + * This decimal place operator is a little different from the other + * language options since DataTables doesn't output floating point + * numbers, so it won't ever use this for display of a number. Rather, + * what this parameter does is modify the sort methods of the table so + * that numbers which are in a format which has a character other than + * a period (`.`) as a decimal place will be sorted numerically. + * + * Note that numbers with different decimal places cannot be shown in + * the same table and still be sortable, the table must be consistent. + * However, multiple different tables on the page can use different + * decimal place characters. + * @type string + * @default + * + * @dtopt Language + * @name DataTable.defaults.language.decimal + * + * @example + * $(document).ready( function() { + * $('#example').dataTable( { + * "language": { + * "decimal": "," + * "thousands": "." + * } + * } ); + * } ); + */ + "sDecimal": "", + + + /** + * DataTables has a build in number formatter (`formatNumber`) which is + * used to format large numbers that are used in the table information. + * By default a comma is used, but this can be trivially changed to any * character you wish with this parameter. * @type string * @default , + * * @dtopt Language - * + * @name DataTable.defaults.language.thousands + * * @example * $(document).ready( function() { * $('#example').dataTable( { - * "oLanguage": { - * "sInfoThousands": "'" + * "language": { + * "thousands": "'" * } * } ); * } ); */ - "sInfoThousands": ",", - - + "sThousands": ",", + + /** * Detail the action that will be taken when the drop down menu for the * pagination length option is changed. The '_MENU_' variable is replaced @@ -9378,24 +11282,26 @@ * with a custom select box if required. * @type string * @default Show _MENU_ entries + * * @dtopt Language - * + * @name DataTable.defaults.language.lengthMenu + * * @example * // Language change only * $(document).ready( function() { * $('#example').dataTable( { - * "oLanguage": { - * "sLengthMenu": "Display _MENU_ records" + * "language": { + * "lengthMenu": "Display _MENU_ records" * } * } ); * } ); - * + * * @example * // Language and options change * $(document).ready( function() { * $('#example').dataTable( { - * "oLanguage": { - * "sLengthMenu": 'Display <select>'+ + * "language": { + * "lengthMenu": 'Display <select>'+ * '<option value="10">10</option>'+ * '<option value="20">20</option>'+ * '<option value="30">30</option>'+ @@ -9408,8 +11314,8 @@ * } ); */ "sLengthMenu": "Show _MENU_ entries", - - + + /** * When using Ajax sourced data and during the first draw when DataTables is * gathering the data, this message is shown in an empty row in the table to @@ -9418,39 +11324,43 @@ * Ajax sourced data with client-side processing. * @type string * @default Loading... + * * @dtopt Language - * + * @name DataTable.defaults.language.loadingRecords + * * @example * $(document).ready( function() { * $('#example').dataTable( { - * "oLanguage": { - * "sLoadingRecords": "Please wait - loading..." + * "language": { + * "loadingRecords": "Please wait - loading..." * } * } ); * } ); */ "sLoadingRecords": "Loading...", - - + + /** * Text which is displayed when the table is processing a user action * (usually a sort command or similar). * @type string * @default Processing... + * * @dtopt Language - * + * @name DataTable.defaults.language.processing + * * @example * $(document).ready( function() { * $('#example').dataTable( { - * "oLanguage": { - * "sProcessing": "DataTables is currently busy" + * "language": { + * "processing": "DataTables is currently busy" * } * } ); * } ); */ "sProcessing": "Processing...", - - + + /** * Details the actions that will be taken when the user types into the * filtering input text box. The variable "_INPUT_", if used in the string, @@ -9459,31 +11369,44 @@ * then the input box is appended to the string automatically. * @type string * @default Search: + * * @dtopt Language - * + * @name DataTable.defaults.language.search + * * @example * // Input text box will be appended at the end automatically * $(document).ready( function() { * $('#example').dataTable( { - * "oLanguage": { - * "sSearch": "Filter records:" + * "language": { + * "search": "Filter records:" * } * } ); * } ); - * + * * @example * // Specify where the filter should appear * $(document).ready( function() { * $('#example').dataTable( { - * "oLanguage": { - * "sSearch": "Apply filter _INPUT_ to table" + * "language": { + * "search": "Apply filter _INPUT_ to table" * } * } ); * } ); */ "sSearch": "Search:", - - + + + /** + * Assign a `placeholder` attribute to the search `input` element + * @type string + * @default + * + * @dtopt Language + * @name DataTable.defaults.language.searchPlaceholder + */ + "sSearchPlaceholder": "", + + /** * All of the language information can be stored in a file on the * server-side, which DataTables will look up if this parameter is passed. @@ -9493,33 +11416,37 @@ * the example language files to see how this works in action. * @type string * @default <i>Empty string - i.e. disabled</i> + * * @dtopt Language - * + * @name DataTable.defaults.language.url + * * @example * $(document).ready( function() { * $('#example').dataTable( { - * "oLanguage": { - * "sUrl": "http://www.sprymedia.co.uk/dataTables/lang.txt" + * "language": { + * "url": "http://www.sprymedia.co.uk/dataTables/lang.txt" * } * } ); * } ); */ "sUrl": "", - - + + /** * Text shown inside the table records when the is no information to be - * displayed after filtering. sEmptyTable is shown when there is simply no + * displayed after filtering. `emptyTable` is shown when there is simply no * information in the table at all (regardless of filtering). * @type string * @default No matching records found + * * @dtopt Language - * + * @name DataTable.defaults.language.zeroRecords + * * @example * $(document).ready( function() { * $('#example').dataTable( { - * "oLanguage": { - * "sZeroRecords": "No records to display" + * "language": { + * "zeroRecords": "No records to display" * } * } ); * } ); @@ -9530,20 +11457,22 @@ /** * This parameter allows you to have define the global filtering state at - * initialisation time. As an object the "sSearch" parameter must be - * defined, but all other parameters are optional. When "bRegex" is true, + * initialisation time. As an object the `search` parameter must be + * defined, but all other parameters are optional. When `regex` is true, * the search string will be treated as a regular expression, when false - * (default) it will be treated as a straight string. When "bSmart" + * (default) it will be treated as a straight string. When `smart` * DataTables will use it's smart filtering methods (to word match at * any point in the data), when false this will not be done. * @namespace * @extends DataTable.models.oSearch + * * @dtopt Options - * + * @name DataTable.defaults.search + * * @example * $(document).ready( function() { * $('#example').dataTable( { - * "oSearch": {"sSearch": "Initial search"} + * "search": {"search": "Initial search"} * } ); * } ) */ @@ -9551,83 +11480,55 @@ /** - * By default DataTables will look for the property 'aaData' when obtaining - * data from an Ajax source or for server-side processing - this parameter - * allows that property to be changed. You can use Javascript dotted object - * notation to get a data source for multiple levels of nesting. + * __Deprecated__ The functionality provided by this parameter has now been + * superseded by that provided through `ajax`, which should be used instead. + * + * By default DataTables will look for the property `data` (or `aaData` for + * compatibility with DataTables 1.9-) when obtaining data from an Ajax + * source or for server-side processing - this parameter allows that + * property to be changed. You can use Javascript dotted object notation to + * get a data source for multiple levels of nesting. * @type string - * @default aaData + * @default data + * * @dtopt Options * @dtopt Server-side - * - * @example - * // Get data from { "data": [...] } - * $(document).ready( function() { - * var oTable = $('#example').dataTable( { - * "sAjaxSource": "sources/data.txt", - * "sAjaxDataProp": "data" - * } ); - * } ); - * - * @example - * // Get data from { "data": { "inner": [...] } } - * $(document).ready( function() { - * var oTable = $('#example').dataTable( { - * "sAjaxSource": "sources/data.txt", - * "sAjaxDataProp": "data.inner" - * } ); - * } ); + * @name DataTable.defaults.ajaxDataProp + * + * @deprecated 1.10. Please use `ajax` for this functionality now. */ - "sAjaxDataProp": "aaData", + "sAjaxDataProp": "data", /** - * You can instruct DataTables to load data from an external source using this - * parameter (use aData if you want to pass data in you already have). Simply - * provide a url a JSON object can be obtained from. This object must include - * the parameter 'aaData' which is the data source for the table. + * __Deprecated__ The functionality provided by this parameter has now been + * superseded by that provided through `ajax`, which should be used instead. + * + * You can instruct DataTables to load data from an external + * source using this parameter (use aData if you want to pass data in you + * already have). Simply provide a url a JSON object can be obtained from. * @type string * @default null + * * @dtopt Options * @dtopt Server-side - * - * @example - * $(document).ready( function() { - * $('#example').dataTable( { - * "sAjaxSource": "http://www.sprymedia.co.uk/dataTables/json.php" - * } ); - * } ) + * @name DataTable.defaults.ajaxSource + * + * @deprecated 1.10. Please use `ajax` for this functionality now. */ "sAjaxSource": null, /** - * This parameter can be used to override the default prefix that DataTables - * assigns to a cookie when state saving is enabled. - * @type string - * @default SpryMedia_DataTables_ - * @dtopt Options - * - * @example - * $(document).ready( function() { - * $('#example').dataTable( { - * "sCookiePrefix": "my_datatable_", - * } ); - * } ); - */ - "sCookiePrefix": "SpryMedia_DataTables_", - - - /** * This initialisation variable allows you to specify exactly where in the * DOM you want DataTables to inject the various controls it adds to the page * (for example you might want the pagination controls at the top of the * table). DIV elements (with or without a custom class) can also be added to * aid styling. The follow syntax is used: * <ul> - * <li>The following options are allowed: + * <li>The following options are allowed: * <ul> - * <li>'l' - Length changing</li + * <li>'l' - Length changing</li> * <li>'f' - Filtering input</li> * <li>'t' - The table!</li> * <li>'i' - Information</li> @@ -9656,14 +11557,16 @@ * </li> * </ul> * @type string - * @default lfrtip <i>(when bJQueryUI is false)</i> <b>or</b> - * <"H"lfr>t<"F"ip> <i>(when bJQueryUI is true)</i> + * @default lfrtip <i>(when `jQueryUI` is false)</i> <b>or</b> + * <"H"lfr>t<"F"ip> <i>(when `jQueryUI` is true)</i> + * * @dtopt Options - * + * @name DataTable.defaults.dom + * * @example * $(document).ready( function() { * $('#example').dataTable( { - * "sDom": '<"top"i>rt<"bottom"flp><"clear">' + * "dom": '<"top"i>rt<"bottom"flp><"clear">' * } ); * } ); */ @@ -9671,38 +11574,71 @@ /** - * DataTables features two different built-in pagination interaction methods - * ('two_button' or 'full_numbers') which present different page controls to - * the end user. Further methods can be added using the API (see below). - * @type string - * @default two_button + * Search delay option. This will throttle full table searches that use the + * DataTables provided search input element (it does not effect calls to + * `dt-api search()`, providing a delay before the search is made. + * @type integer + * @default 0 + * * @dtopt Options - * + * @name DataTable.defaults.searchDelay + * * @example * $(document).ready( function() { * $('#example').dataTable( { - * "sPaginationType": "full_numbers" + * "searchDelay": 200 * } ); * } ) */ - "sPaginationType": "two_button", + "searchDelay": null, /** - * Enable horizontal scrolling. When a table is too wide to fit into a certain - * layout, or you have a large number of columns in the table, you can enable - * x-scrolling to show the table in a viewport, which can be scrolled. This - * property can be any CSS unit, or a number (in which case it will be treated - * as a pixel measurement). + * DataTables features four different built-in options for the buttons to + * display for pagination control: + * + * * `simple` - 'Previous' and 'Next' buttons only + * * 'simple_numbers` - 'Previous' and 'Next' buttons, plus page numbers + * * `full` - 'First', 'Previous', 'Next' and 'Last' buttons + * * `full_numbers` - 'First', 'Previous', 'Next' and 'Last' buttons, plus + * page numbers + * + * Further methods can be added using {@link DataTable.ext.oPagination}. * @type string + * @default simple_numbers + * + * @dtopt Options + * @name DataTable.defaults.pagingType + * + * @example + * $(document).ready( function() { + * $('#example').dataTable( { + * "pagingType": "full_numbers" + * } ); + * } ) + */ + "sPaginationType": "simple_numbers", + + + /** + * Enable horizontal scrolling. When a table is too wide to fit into a + * certain layout, or you have a large number of columns in the table, you + * can enable x-scrolling to show the table in a viewport, which can be + * scrolled. This property can be `true` which will allow the table to + * scroll horizontally when needed, or any CSS unit, or a number (in which + * case it will be treated as a pixel measurement). Setting as simply `true` + * is recommended. + * @type boolean|string * @default <i>blank string - i.e. disabled</i> + * * @dtopt Features - * + * @name DataTable.defaults.scrollX + * * @example * $(document).ready( function() { * $('#example').dataTable( { - * "sScrollX": "100%", - * "bScrollCollapse": true + * "scrollX": true, + * "scrollCollapse": true * } ); * } ); */ @@ -9718,13 +11654,15 @@ * measurement). * @type string * @default <i>blank string - i.e. disabled</i> + * * @dtopt Options - * + * @name DataTable.defaults.scrollXInner + * * @example * $(document).ready( function() { * $('#example').dataTable( { - * "sScrollX": "100%", - * "sScrollXInner": "110%" + * "scrollX": "100%", + * "scrollXInner": "110%" * } ); * } ); */ @@ -9740,13 +11678,15 @@ * (in which case it will be treated as a pixel measurement). * @type string * @default <i>blank string - i.e. disabled</i> + * * @dtopt Features - * + * @name DataTable.defaults.scrollY + * * @example * $(document).ready( function() { * $('#example').dataTable( { - * "sScrollY": "200px", - * "bPaginate": false + * "scrollY": "200px", + * "paginate": false * } ); * } ); */ @@ -9754,60 +11694,87 @@ /** + * __Deprecated__ The functionality provided by this parameter has now been + * superseded by that provided through `ajax`, which should be used instead. + * * Set the HTTP method that is used to make the Ajax call for server-side * processing or Ajax sourced data. * @type string * @default GET + * * @dtopt Options * @dtopt Server-side - * - * @example - * $(document).ready( function() { - * $('#example').dataTable( { - * "bServerSide": true, - * "sAjaxSource": "scripts/post.php", - * "sServerMethod": "POST" - * } ); - * } ); + * @name DataTable.defaults.serverMethod + * + * @deprecated 1.10. Please use `ajax` for this functionality now. + */ + "sServerMethod": "GET", + + + /** + * DataTables makes use of renderers when displaying HTML elements for + * a table. These renderers can be added or modified by plug-ins to + * generate suitable mark-up for a site. For example the Bootstrap + * integration plug-in for DataTables uses a paging button renderer to + * display pagination buttons in the mark-up required by Bootstrap. + * + * For further information about the renderers available see + * DataTable.ext.renderer + * @type string|object + * @default null + * + * @name DataTable.defaults.renderer + * */ - "sServerMethod": "GET" + "renderer": null }; + _fnHungarianMap( DataTable.defaults ); + + + /* + * Developer note - See note in model.defaults.js about the use of Hungarian + * notation and camel case. + */ /** * Column options that can be given to DataTables at initialisation time. * @namespace */ - DataTable.defaults.columns = { - /** - * Allows a column's sorting to take multiple columns into account when - * doing a sort. For example first name / last name columns make sense to - * do a multi-column sort over the two columns. - * @type array + DataTable.defaults.column = { + /** + * Define which column(s) an order will occur on for this column. This + * allows a column's ordering to take multiple columns into account when + * doing a sort or use the data from a different column. For example first + * name / last name columns make sense to do a multi-column sort over the + * two columns. + * @type array|int * @default null <i>Takes the value of the column index automatically</i> + * + * @name DataTable.defaults.column.orderData * @dtopt Columns - * + * * @example - * // Using aoColumnDefs + * // Using `columnDefs` * $(document).ready( function() { * $('#example').dataTable( { - * "aoColumnDefs": [ - * { "aDataSort": [ 0, 1 ], "aTargets": [ 0 ] }, - * { "aDataSort": [ 1, 0 ], "aTargets": [ 1 ] }, - * { "aDataSort": [ 2, 3, 4 ], "aTargets": [ 2 ] } + * "columnDefs": [ + * { "orderData": [ 0, 1 ], "targets": [ 0 ] }, + * { "orderData": [ 1, 0 ], "targets": [ 1 ] }, + * { "orderData": 2, "targets": [ 2 ] } * ] * } ); * } ); - * + * * @example - * // Using aoColumns + * // Using `columns` * $(document).ready( function() { * $('#example').dataTable( { - * "aoColumns": [ - * { "aDataSort": [ 0, 1 ] }, - * { "aDataSort": [ 1, 0 ] }, - * { "aDataSort": [ 2, 3, 4 ] }, + * "columns": [ + * { "orderData": [ 0, 1 ] }, + * { "orderData": [ 1, 0 ] }, + * { "orderData": 2 }, * null, * null * ] @@ -9815,37 +11782,40 @@ * } ); */ "aDataSort": null, + "iDataSort": -1, /** - * You can control the default sorting direction, and even alter the behaviour - * of the sort handler (i.e. only allow ascending sorting etc) using this - * parameter. + * You can control the default ordering direction, and even alter the + * behaviour of the sort handler (i.e. only allow ascending ordering etc) + * using this parameter. * @type array * @default [ 'asc', 'desc' ] + * + * @name DataTable.defaults.column.orderSequence * @dtopt Columns - * + * * @example - * // Using aoColumnDefs + * // Using `columnDefs` * $(document).ready( function() { * $('#example').dataTable( { - * "aoColumnDefs": [ - * { "asSorting": [ "asc" ], "aTargets": [ 1 ] }, - * { "asSorting": [ "desc", "asc", "asc" ], "aTargets": [ 2 ] }, - * { "asSorting": [ "desc" ], "aTargets": [ 3 ] } + * "columnDefs": [ + * { "orderSequence": [ "asc" ], "targets": [ 1 ] }, + * { "orderSequence": [ "desc", "asc", "asc" ], "targets": [ 2 ] }, + * { "orderSequence": [ "desc" ], "targets": [ 3 ] } * ] * } ); * } ); - * + * * @example - * // Using aoColumns + * // Using `columns` * $(document).ready( function() { * $('#example').dataTable( { - * "aoColumns": [ + * "columns": [ * null, - * { "asSorting": [ "asc" ] }, - * { "asSorting": [ "desc", "asc", "asc" ] }, - * { "asSorting": [ "desc" ] }, + * { "orderSequence": [ "asc" ] }, + * { "orderSequence": [ "desc", "asc", "asc" ] }, + * { "orderSequence": [ "desc" ] }, * null * ] * } ); @@ -9858,23 +11828,25 @@ * Enable or disable filtering on the data in this column. * @type boolean * @default true + * + * @name DataTable.defaults.column.searchable * @dtopt Columns - * + * * @example - * // Using aoColumnDefs + * // Using `columnDefs` * $(document).ready( function() { * $('#example').dataTable( { - * "aoColumnDefs": [ - * { "bSearchable": false, "aTargets": [ 0 ] } + * "columnDefs": [ + * { "searchable": false, "targets": [ 0 ] } * ] } ); * } ); - * + * * @example - * // Using aoColumns + * // Using `columns` * $(document).ready( function() { * $('#example').dataTable( { - * "aoColumns": [ - * { "bSearchable": false }, + * "columns": [ + * { "searchable": false }, * null, * null, * null, @@ -9886,26 +11858,28 @@ /** - * Enable or disable sorting on this column. + * Enable or disable ordering on this column. * @type boolean * @default true + * + * @name DataTable.defaults.column.orderable * @dtopt Columns - * + * * @example - * // Using aoColumnDefs + * // Using `columnDefs` * $(document).ready( function() { * $('#example').dataTable( { - * "aoColumnDefs": [ - * { "bSortable": false, "aTargets": [ 0 ] } + * "columnDefs": [ + * { "orderable": false, "targets": [ 0 ] } * ] } ); * } ); - * + * * @example - * // Using aoColumns + * // Using `columns` * $(document).ready( function() { * $('#example').dataTable( { - * "aoColumns": [ - * { "bSortable": false }, + * "columns": [ + * { "orderable": false }, * null, * null, * null, @@ -9917,43 +11891,28 @@ /** - * <code>Deprecated</code> When using fnRender() for a column, you may wish - * to use the original data (before rendering) for sorting and filtering - * (the default is to used the rendered data that the user can see). This - * may be useful for dates etc. - * - * Please note that this option has now been deprecated and will be removed - * in the next version of DataTables. Please use mRender / mData rather than - * fnRender. - * @type boolean - * @default true - * @dtopt Columns - * @deprecated - */ - "bUseRendered": true, - - - /** * Enable or disable the display of this column. * @type boolean * @default true + * + * @name DataTable.defaults.column.visible * @dtopt Columns - * + * * @example - * // Using aoColumnDefs + * // Using `columnDefs` * $(document).ready( function() { * $('#example').dataTable( { - * "aoColumnDefs": [ - * { "bVisible": false, "aTargets": [ 0 ] } + * "columnDefs": [ + * { "visible": false, "targets": [ 0 ] } * ] } ); * } ); - * + * * @example - * // Using aoColumns + * // Using `columns` * $(document).ready( function() { * $('#example').dataTable( { - * "aoColumns": [ - * { "bVisible": false }, + * "columns": [ + * { "visible": false }, * null, * null, * null, @@ -9962,29 +11921,31 @@ * } ); */ "bVisible": true, - - + + /** * Developer definable function that is called whenever a cell is created (Ajax source, * etc) or processed for input (DOM source). This can be used as a compliment to mRender * allowing you to modify the DOM element (add background colour for example) when the * element is available. * @type function - * @param {element} nTd The TD node that has been created - * @param {*} sData The Data for the cell - * @param {array|object} oData The data for the whole row - * @param {int} iRow The row index for the aoData data store - * @param {int} iCol The column index for aoColumns + * @param {element} td The TD node that has been created + * @param {*} cellData The Data for the cell + * @param {array|object} rowData The data for the whole row + * @param {int} row The row index for the aoData data store + * @param {int} col The column index for aoColumns + * + * @name DataTable.defaults.column.createdCell * @dtopt Columns - * + * * @example * $(document).ready( function() { * $('#example').dataTable( { - * "aoColumnDefs": [ { - * "aTargets": [3], - * "fnCreatedCell": function (nTd, sData, oData, iRow, iCol) { - * if ( sData == "1.7" ) { - * $(nTd).css('color', 'blue') + * "columnDefs": [ { + * "targets": [3], + * "createdCell": function (td, cellData, rowData, row, col) { + * if ( cellData == "1.7" ) { + * $(td).css('color', 'blue') * } * } * } ] @@ -9995,132 +11956,139 @@ /** - * <code>Deprecated</code> Custom display function that will be called for the - * display of each cell in this column. - * - * Please note that this option has now been deprecated and will be removed - * in the next version of DataTables. Please use mRender / mData rather than - * fnRender. - * @type function - * @param {object} o Object with the following parameters: - * @param {int} o.iDataRow The row in aoData - * @param {int} o.iDataColumn The column in question - * @param {array} o.aData The data for the row in question - * @param {object} o.oSettings The settings object for this DataTables instance - * @param {object} o.mDataProp The data property used for this column - * @param {*} val The current cell value - * @returns {string} The string you which to use in the display - * @dtopt Columns - * @deprecated + * This parameter has been replaced by `data` in DataTables to ensure naming + * consistency. `dataProp` can still be used, as there is backwards + * compatibility in DataTables for this option, but it is strongly + * recommended that you use `data` in preference to `dataProp`. + * @name DataTable.defaults.column.dataProp */ - "fnRender": null, /** - * The column index (starting from 0!) that you wish a sort to be performed - * upon when this column is selected for sorting. This can be used for sorting - * on hidden columns for example. - * @type int - * @default -1 <i>Use automatically calculated column index</i> + * This property can be used to read data from any data source property, + * including deeply nested objects / properties. `data` can be given in a + * number of different ways which effect its behaviour: + * + * * `integer` - treated as an array index for the data source. This is the + * default that DataTables uses (incrementally increased for each column). + * * `string` - read an object property from the data source. There are + * three 'special' options that can be used in the string to alter how + * DataTables reads the data from the source object: + * * `.` - Dotted Javascript notation. Just as you use a `.` in + * Javascript to read from nested objects, so to can the options + * specified in `data`. For example: `browser.version` or + * `browser.name`. If your object parameter name contains a period, use + * `\\` to escape it - i.e. `first\\.name`. + * * `[]` - Array notation. DataTables can automatically combine data + * from and array source, joining the data with the characters provided + * between the two brackets. For example: `name[, ]` would provide a + * comma-space separated list from the source array. If no characters + * are provided between the brackets, the original array source is + * returned. + * * `()` - Function notation. Adding `()` to the end of a parameter will + * execute a function of the name given. For example: `browser()` for a + * simple function on the data source, `browser.version()` for a + * function in a nested property or even `browser().version` to get an + * object property if the function called returns an object. Note that + * function notation is recommended for use in `render` rather than + * `data` as it is much simpler to use as a renderer. + * * `null` - use the original data source for the row rather than plucking + * data directly from it. This action has effects on two other + * initialisation options: + * * `defaultContent` - When null is given as the `data` option and + * `defaultContent` is specified for the column, the value defined by + * `defaultContent` will be used for the cell. + * * `render` - When null is used for the `data` option and the `render` + * option is specified for the column, the whole data source for the + * row is used for the renderer. + * * `function` - the function given will be executed whenever DataTables + * needs to set or get the data for a cell in the column. The function + * takes three parameters: + * * Parameters: + * * `{array|object}` The data source for the row + * * `{string}` The type call data requested - this will be 'set' when + * setting data or 'filter', 'display', 'type', 'sort' or undefined + * when gathering data. Note that when `undefined` is given for the + * type DataTables expects to get the raw data for the object back< + * * `{*}` Data to set when the second parameter is 'set'. + * * Return: + * * The return value from the function is not required when 'set' is + * the type of call, but otherwise the return is what will be used + * for the data requested. + * + * Note that `data` is a getter and setter option. If you just require + * formatting of data for output, you will likely want to use `render` which + * is simply a getter and thus simpler to use. + * + * Note that prior to DataTables 1.9.2 `data` was called `mDataProp`. The + * name change reflects the flexibility of this property and is consistent + * with the naming of mRender. If 'mDataProp' is given, then it will still + * be used by DataTables, as it automatically maps the old name to the new + * if required. + * + * @type string|int|function|null + * @default null <i>Use automatically calculated column index</i> + * + * @name DataTable.defaults.column.data * @dtopt Columns - * + * * @example - * // Using aoColumnDefs + * // Read table data from objects + * // JSON structure for each row: + * // { + * // "engine": {value}, + * // "browser": {value}, + * // "platform": {value}, + * // "version": {value}, + * // "grade": {value} + * // } * $(document).ready( function() { * $('#example').dataTable( { - * "aoColumnDefs": [ - * { "iDataSort": 1, "aTargets": [ 0 ] } + * "ajaxSource": "sources/objects.txt", + * "columns": [ + * { "data": "engine" }, + * { "data": "browser" }, + * { "data": "platform" }, + * { "data": "version" }, + * { "data": "grade" } * ] * } ); * } ); - * + * * @example - * // Using aoColumns + * // Read information from deeply nested objects + * // JSON structure for each row: + * // { + * // "engine": {value}, + * // "browser": {value}, + * // "platform": { + * // "inner": {value} + * // }, + * // "details": [ + * // {value}, {value} + * // ] + * // } * $(document).ready( function() { * $('#example').dataTable( { - * "aoColumns": [ - * { "iDataSort": 1 }, - * null, - * null, - * null, - * null + * "ajaxSource": "sources/deep.txt", + * "columns": [ + * { "data": "engine" }, + * { "data": "browser" }, + * { "data": "platform.inner" }, + * { "data": "platform.details.0" }, + * { "data": "platform.details.1" } * ] * } ); * } ); - */ - "iDataSort": -1, - - - /** - * This parameter has been replaced by mData in DataTables to ensure naming - * consistency. mDataProp can still be used, as there is backwards compatibility - * in DataTables for this option, but it is strongly recommended that you use - * mData in preference to mDataProp. - * @name DataTable.defaults.columns.mDataProp - */ - - - /** - * This property can be used to read data from any JSON data source property, - * including deeply nested objects / properties. mData can be given in a - * number of different ways which effect its behaviour: - * <ul> - * <li>integer - treated as an array index for the data source. This is the - * default that DataTables uses (incrementally increased for each column).</li> - * <li>string - read an object property from the data source. Note that you can - * use Javascript dotted notation to read deep properties / arrays from the - * data source.</li> - * <li>null - the sDefaultContent option will be used for the cell (null - * by default, so you will need to specify the default content you want - - * typically an empty string). This can be useful on generated columns such - * as edit / delete action columns.</li> - * <li>function - the function given will be executed whenever DataTables - * needs to set or get the data for a cell in the column. The function - * takes three parameters: - * <ul> - * <li>{array|object} The data source for the row</li> - * <li>{string} The type call data requested - this will be 'set' when - * setting data or 'filter', 'display', 'type', 'sort' or undefined when - * gathering data. Note that when <i>undefined</i> is given for the type - * DataTables expects to get the raw data for the object back</li> - * <li>{*} Data to set when the second parameter is 'set'.</li> - * </ul> - * The return value from the function is not required when 'set' is the type - * of call, but otherwise the return is what will be used for the data - * requested.</li> - * </ul> * - * Note that prior to DataTables 1.9.2 mData was called mDataProp. The name change - * reflects the flexibility of this property and is consistent with the naming of - * mRender. If 'mDataProp' is given, then it will still be used by DataTables, as - * it automatically maps the old name to the new if required. - * @type string|int|function|null - * @default null <i>Use automatically calculated column index</i> - * @dtopt Columns - * - * @example - * // Read table data from objects - * $(document).ready( function() { - * var oTable = $('#example').dataTable( { - * "sAjaxSource": "sources/deep.txt", - * "aoColumns": [ - * { "mData": "engine" }, - * { "mData": "browser" }, - * { "mData": "platform.inner" }, - * { "mData": "platform.details.0" }, - * { "mData": "platform.details.1" } - * ] - * } ); - * } ); - * * @example - * // Using mData as a function to provide different information for + * // Using `data` as a function to provide different information for * // sorting, filtering and display. In this case, currency (price) * $(document).ready( function() { - * var oTable = $('#example').dataTable( { - * "aoColumnDefs": [ { - * "aTargets": [ 0 ], - * "mData": function ( source, type, val ) { + * $('#example').dataTable( { + * "columnDefs": [ { + * "targets": [ 0 ], + * "data": function ( source, type, val ) { * if (type === 'set') { * source.price = val; * // Store the computed dislay and filter values for efficiency @@ -10140,73 +12108,150 @@ * } ] * } ); * } ); + * + * @example + * // Using default content + * $(document).ready( function() { + * $('#example').dataTable( { + * "columnDefs": [ { + * "targets": [ 0 ], + * "data": null, + * "defaultContent": "Click to edit" + * } ] + * } ); + * } ); + * + * @example + * // Using array notation - outputting a list from an array + * $(document).ready( function() { + * $('#example').dataTable( { + * "columnDefs": [ { + * "targets": [ 0 ], + * "data": "name[, ]" + * } ] + * } ); + * } ); + * */ "mData": null, /** - * This property is the rendering partner to mData and it is suggested that - * when you want to manipulate data for display (including filtering, sorting etc) - * but not altering the underlying data for the table, use this property. mData - * can actually do everything this property can and more, but this parameter is - * easier to use since there is no 'set' option. Like mData is can be given - * in a number of different ways to effect its behaviour, with the addition of - * supporting array syntax for easy outputting of arrays (including arrays of - * objects): - * <ul> - * <li>integer - treated as an array index for the data source. This is the - * default that DataTables uses (incrementally increased for each column).</li> - * <li>string - read an object property from the data source. Note that you can - * use Javascript dotted notation to read deep properties / arrays from the - * data source and also array brackets to indicate that the data reader should - * loop over the data source array. When characters are given between the array - * brackets, these characters are used to join the data source array together. - * For example: "accounts[, ].name" would result in a comma separated list with - * the 'name' value from the 'accounts' array of objects.</li> - * <li>function - the function given will be executed whenever DataTables - * needs to set or get the data for a cell in the column. The function - * takes three parameters: - * <ul> - * <li>{array|object} The data source for the row (based on mData)</li> - * <li>{string} The type call data requested - this will be 'filter', 'display', - * 'type' or 'sort'.</li> - * <li>{array|object} The full data source for the row (not based on mData)</li> - * </ul> - * The return value from the function is what will be used for the data - * requested.</li> - * </ul> - * @type string|int|function|null - * @default null <i>Use mData</i> + * This property is the rendering partner to `data` and it is suggested that + * when you want to manipulate data for display (including filtering, + * sorting etc) without altering the underlying data for the table, use this + * property. `render` can be considered to be the the read only companion to + * `data` which is read / write (then as such more complex). Like `data` + * this option can be given in a number of different ways to effect its + * behaviour: + * + * * `integer` - treated as an array index for the data source. This is the + * default that DataTables uses (incrementally increased for each column). + * * `string` - read an object property from the data source. There are + * three 'special' options that can be used in the string to alter how + * DataTables reads the data from the source object: + * * `.` - Dotted Javascript notation. Just as you use a `.` in + * Javascript to read from nested objects, so to can the options + * specified in `data`. For example: `browser.version` or + * `browser.name`. If your object parameter name contains a period, use + * `\\` to escape it - i.e. `first\\.name`. + * * `[]` - Array notation. DataTables can automatically combine data + * from and array source, joining the data with the characters provided + * between the two brackets. For example: `name[, ]` would provide a + * comma-space separated list from the source array. If no characters + * are provided between the brackets, the original array source is + * returned. + * * `()` - Function notation. Adding `()` to the end of a parameter will + * execute a function of the name given. For example: `browser()` for a + * simple function on the data source, `browser.version()` for a + * function in a nested property or even `browser().version` to get an + * object property if the function called returns an object. + * * `object` - use different data for the different data types requested by + * DataTables ('filter', 'display', 'type' or 'sort'). The property names + * of the object is the data type the property refers to and the value can + * defined using an integer, string or function using the same rules as + * `render` normally does. Note that an `_` option _must_ be specified. + * This is the default value to use if you haven't specified a value for + * the data type requested by DataTables. + * * `function` - the function given will be executed whenever DataTables + * needs to set or get the data for a cell in the column. The function + * takes three parameters: + * * Parameters: + * * {array|object} The data source for the row (based on `data`) + * * {string} The type call data requested - this will be 'filter', + * 'display', 'type' or 'sort'. + * * {array|object} The full data source for the row (not based on + * `data`) + * * Return: + * * The return value from the function is what will be used for the + * data requested. + * + * @type string|int|function|object|null + * @default null Use the data source value. + * + * @name DataTable.defaults.column.render * @dtopt Columns - * + * * @example * // Create a comma separated list from an array of objects * $(document).ready( function() { - * var oTable = $('#example').dataTable( { - * "sAjaxSource": "sources/deep.txt", - * "aoColumns": [ - * { "mData": "engine" }, - * { "mData": "browser" }, + * $('#example').dataTable( { + * "ajaxSource": "sources/deep.txt", + * "columns": [ + * { "data": "engine" }, + * { "data": "browser" }, * { - * "mData": "platform", - * "mRender": "[, ].name" + * "data": "platform", + * "render": "[, ].name" * } * ] * } ); * } ); - * + * + * @example + * // Execute a function to obtain data + * $(document).ready( function() { + * $('#example').dataTable( { + * "columnDefs": [ { + * "targets": [ 0 ], + * "data": null, // Use the full data source object for the renderer's source + * "render": "browserName()" + * } ] + * } ); + * } ); + * + * @example + * // As an object, extracting different data for the different types + * // This would be used with a data source such as: + * // { "phone": 5552368, "phone_filter": "5552368 555-2368", "phone_display": "555-2368" } + * // Here the `phone` integer is used for sorting and type detection, while `phone_filter` + * // (which has both forms) is used for filtering for if a user inputs either format, while + * // the formatted phone number is the one that is shown in the table. + * $(document).ready( function() { + * $('#example').dataTable( { + * "columnDefs": [ { + * "targets": [ 0 ], + * "data": null, // Use the full data source object for the renderer's source + * "render": { + * "_": "phone", + * "filter": "phone_filter", + * "display": "phone_display" + * } + * } ] + * } ); + * } ); + * * @example * // Use as a function to create a link from the data source * $(document).ready( function() { - * var oTable = $('#example').dataTable( { - * "aoColumnDefs": [ - * { - * "aTargets": [ 0 ], - * "mData": "download_link", - * "mRender": function ( data, type, full ) { + * $('#example').dataTable( { + * "columnDefs": [ { + * "targets": [ 0 ], + * "data": "download_link", + * "render": function ( data, type, full ) { * return '<a href="'+data+'">Download</a>'; * } - * ] + * } ] * } ); * } ); */ @@ -10219,15 +12264,17 @@ * to act as a header for a row (you may wish to add scope='row' to the TH elements). * @type string * @default td + * + * @name DataTable.defaults.column.cellType * @dtopt Columns - * + * * @example * // Make the first column use TH cells * $(document).ready( function() { - * var oTable = $('#example').dataTable( { - * "aoColumnDefs": [ { - * "aTargets": [ 0 ], - * "sCellType": "th" + * $('#example').dataTable( { + * "columnDefs": [ { + * "targets": [ 0 ], + * "cellType": "th" * } ] * } ); * } ); @@ -10239,24 +12286,26 @@ * Class to give to each cell in this column. * @type string * @default <i>Empty string</i> + * + * @name DataTable.defaults.column.class * @dtopt Columns - * + * * @example - * // Using aoColumnDefs + * // Using `columnDefs` * $(document).ready( function() { * $('#example').dataTable( { - * "aoColumnDefs": [ - * { "sClass": "my_class", "aTargets": [ 0 ] } + * "columnDefs": [ + * { "class": "my_class", "targets": [ 0 ] } * ] * } ); * } ); - * + * * @example - * // Using aoColumns + * // Using `columns` * $(document).ready( function() { * $('#example').dataTable( { - * "aoColumns": [ - * { "sClass": "my_class" }, + * "columns": [ + * { "class": "my_class" }, * null, * null, * null, @@ -10266,32 +12315,33 @@ * } ); */ "sClass": "", - + /** * When DataTables calculates the column widths to assign to each column, * it finds the longest string in each column and then constructs a * temporary table and reads the widths from that. The problem with this - * is that "mmm" is much wider then "iiii", but the latter is a longer + * is that "mmm" is much wider then "iiii", but the latter is a longer * string - thus the calculation can go wrong (doing it properly and putting * it into an DOM object and measuring that is horribly(!) slow). Thus as * a "work around" we provide this option. It will append its value to the * text that is found to be the longest string for the column - i.e. padding. - * Generally you shouldn't need this, and it is not documented on the - * general DataTables.net documentation + * Generally you shouldn't need this! * @type string * @default <i>Empty string<i> + * + * @name DataTable.defaults.column.contentPadding * @dtopt Columns - * + * * @example - * // Using aoColumns + * // Using `columns` * $(document).ready( function() { * $('#example').dataTable( { - * "aoColumns": [ + * "columns": [ * null, * null, * null, * { - * "sContentPadding": "mmm" + * "contentPadding": "mmm" * } * ] * } ); @@ -10302,37 +12352,39 @@ /** * Allows a default value to be given for a column's data, and will be used - * whenever a null data source is encountered (this can be because mData + * whenever a null data source is encountered (this can be because `data` * is set to null, or because the data source itself is null). * @type string * @default null + * + * @name DataTable.defaults.column.defaultContent * @dtopt Columns - * + * * @example - * // Using aoColumnDefs + * // Using `columnDefs` * $(document).ready( function() { * $('#example').dataTable( { - * "aoColumnDefs": [ + * "columnDefs": [ * { - * "mData": null, - * "sDefaultContent": "Edit", - * "aTargets": [ -1 ] + * "data": null, + * "defaultContent": "Edit", + * "targets": [ -1 ] * } * ] * } ); * } ); - * + * * @example - * // Using aoColumns + * // Using `columns` * $(document).ready( function() { * $('#example').dataTable( { - * "aoColumns": [ + * "columns": [ * null, * null, * null, * { - * "mData": null, - * "sDefaultContent": "Edit" + * "data": null, + * "defaultContent": "Edit" * } * ] * } ); @@ -10350,32 +12402,34 @@ * client-side, your server-side code does not also need updating). * @type string * @default <i>Empty string</i> + * + * @name DataTable.defaults.column.name * @dtopt Columns - * + * * @example - * // Using aoColumnDefs + * // Using `columnDefs` * $(document).ready( function() { * $('#example').dataTable( { - * "aoColumnDefs": [ - * { "sName": "engine", "aTargets": [ 0 ] }, - * { "sName": "browser", "aTargets": [ 1 ] }, - * { "sName": "platform", "aTargets": [ 2 ] }, - * { "sName": "version", "aTargets": [ 3 ] }, - * { "sName": "grade", "aTargets": [ 4 ] } + * "columnDefs": [ + * { "name": "engine", "targets": [ 0 ] }, + * { "name": "browser", "targets": [ 1 ] }, + * { "name": "platform", "targets": [ 2 ] }, + * { "name": "version", "targets": [ 3 ] }, + * { "name": "grade", "targets": [ 4 ] } * ] * } ); * } ); - * + * * @example - * // Using aoColumns + * // Using `columns` * $(document).ready( function() { * $('#example').dataTable( { - * "aoColumns": [ - * { "sName": "engine" }, - * { "sName": "browser" }, - * { "sName": "platform" }, - * { "sName": "version" }, - * { "sName": "grade" } + * "columns": [ + * { "name": "engine" }, + * { "name": "browser" }, + * { "name": "platform" }, + * { "name": "version" }, + * { "name": "grade" } * ] * } ); * } ); @@ -10384,38 +12438,40 @@ /** - * Defines a data source type for the sorting which can be used to read + * Defines a data source type for the ordering which can be used to read * real-time information from the table (updating the internally cached - * version) prior to sorting. This allows sorting to occur on user editable - * elements such as form inputs. + * version) prior to ordering. This allows ordering to occur on user + * editable elements such as form inputs. * @type string * @default std + * + * @name DataTable.defaults.column.orderDataType * @dtopt Columns - * + * * @example - * // Using aoColumnDefs + * // Using `columnDefs` * $(document).ready( function() { * $('#example').dataTable( { - * "aoColumnDefs": [ - * { "sSortDataType": "dom-text", "aTargets": [ 2, 3 ] }, - * { "sType": "numeric", "aTargets": [ 3 ] }, - * { "sSortDataType": "dom-select", "aTargets": [ 4 ] }, - * { "sSortDataType": "dom-checkbox", "aTargets": [ 5 ] } + * "columnDefs": [ + * { "orderDataType": "dom-text", "targets": [ 2, 3 ] }, + * { "type": "numeric", "targets": [ 3 ] }, + * { "orderDataType": "dom-select", "targets": [ 4 ] }, + * { "orderDataType": "dom-checkbox", "targets": [ 5 ] } * ] * } ); * } ); - * + * * @example - * // Using aoColumns + * // Using `columns` * $(document).ready( function() { * $('#example').dataTable( { - * "aoColumns": [ + * "columns": [ * null, * null, - * { "sSortDataType": "dom-text" }, - * { "sSortDataType": "dom-text", "sType": "numeric" }, - * { "sSortDataType": "dom-select" }, - * { "sSortDataType": "dom-checkbox" } + * { "orderDataType": "dom-text" }, + * { "orderDataType": "dom-text", "type": "numeric" }, + * { "orderDataType": "dom-select" }, + * { "orderDataType": "dom-checkbox" } * ] * } ); * } ); @@ -10426,26 +12482,28 @@ /** * The title of this column. * @type string - * @default null <i>Derived from the 'TH' value for this column in the + * @default null <i>Derived from the 'TH' value for this column in the * original HTML table.</i> + * + * @name DataTable.defaults.column.title * @dtopt Columns - * + * * @example - * // Using aoColumnDefs + * // Using `columnDefs` * $(document).ready( function() { * $('#example').dataTable( { - * "aoColumnDefs": [ - * { "sTitle": "My column title", "aTargets": [ 0 ] } + * "columnDefs": [ + * { "title": "My column title", "targets": [ 0 ] } * ] * } ); * } ); - * + * * @example - * // Using aoColumns + * // Using `columns` * $(document).ready( function() { * $('#example').dataTable( { - * "aoColumns": [ - * { "sTitle": "My column title" }, + * "columns": [ + * { "title": "My column title" }, * null, * null, * null, @@ -10458,33 +12516,35 @@ /** - * The type allows you to specify how the data for this column will be sorted. - * Four types (string, numeric, date and html (which will strip HTML tags - * before sorting)) are currently available. Note that only date formats - * understood by Javascript's Date() object will be accepted as type date. For - * example: "Mar 26, 2008 5:03 PM". May take the values: 'string', 'numeric', - * 'date' or 'html' (by default). Further types can be adding through - * plug-ins. + * The type allows you to specify how the data for this column will be + * ordered. Four types (string, numeric, date and html (which will strip + * HTML tags before ordering)) are currently available. Note that only date + * formats understood by Javascript's Date() object will be accepted as type + * date. For example: "Mar 26, 2008 5:03 PM". May take the values: 'string', + * 'numeric', 'date' or 'html' (by default). Further types can be adding + * through plug-ins. * @type string * @default null <i>Auto-detected from raw data</i> + * + * @name DataTable.defaults.column.type * @dtopt Columns - * + * * @example - * // Using aoColumnDefs + * // Using `columnDefs` * $(document).ready( function() { * $('#example').dataTable( { - * "aoColumnDefs": [ - * { "sType": "html", "aTargets": [ 0 ] } + * "columnDefs": [ + * { "type": "html", "targets": [ 0 ] } * ] * } ); * } ); - * + * * @example - * // Using aoColumns + * // Using `columns` * $(document).ready( function() { * $('#example').dataTable( { - * "aoColumns": [ - * { "sType": "html" }, + * "columns": [ + * { "type": "html" }, * null, * null, * null, @@ -10498,29 +12558,31 @@ /** * Defining the width of the column, this parameter may take any CSS value - * (3em, 20px etc). DataTables apples 'smart' widths to columns which have not + * (3em, 20px etc). DataTables applies 'smart' widths to columns which have not * been given a specific width through this interface ensuring that the table * remains readable. * @type string * @default null <i>Automatic</i> + * + * @name DataTable.defaults.column.width * @dtopt Columns - * + * * @example - * // Using aoColumnDefs + * // Using `columnDefs` * $(document).ready( function() { * $('#example').dataTable( { - * "aoColumnDefs": [ - * { "sWidth": "20%", "aTargets": [ 0 ] } + * "columnDefs": [ + * { "width": "20%", "targets": [ 0 ] } * ] * } ); * } ); - * + * * @example - * // Using aoColumns + * // Using `columns` * $(document).ready( function() { * $('#example').dataTable( { - * "aoColumns": [ - * { "sWidth": "20%" }, + * "columns": [ + * { "width": "20%" }, * null, * null, * null, @@ -10532,6 +12594,8 @@ "sWidth": null }; + _fnHungarianMap( DataTable.defaults.column ); + /** @@ -10539,11 +12603,11 @@ * given table, including configuration, data and current application of the * table options. DataTables does not have a single instance for each DataTable * with the settings attached to that instance, but rather instances of the - * DataTable "class" are created on-the-fly as needed (typically by a + * DataTable "class" are created on-the-fly as needed (typically by a * $().dataTable() call) and the settings object is then applied to that * instance. - * - * Note that this object is related to {@link DataTable.defaults} but this + * + * Note that this object is related to {@link DataTable.defaults} but this * one is the internal data store for DataTables's cache of columns. It should * NOT be manipulated outside of DataTables. Any configuration should be done * through the initialisation options. @@ -10551,7 +12615,7 @@ * @todo Really should attach the settings object to individual instances so we * don't need to create new instances on each $().dataTable() call (if the * table already exists). It would also save passing oSettings around and - * into every single function. However, this is a very significant + * into every single function. However, this is a very significant * architecture change for DataTables and will almost certainly break * backwards compatibility with older installations. This is something that * will be done in 2.0. @@ -10562,7 +12626,7 @@ * @namespace */ "oFeatures": { - + /** * Flag to say if DataTables should automatically try to calculate the * optimum table and columns widths (true) or not (false). @@ -10582,7 +12646,7 @@ * @type boolean */ "bDeferRender": null, - + /** * Enable filtering on the table or not. Note that if this is disabled * then there is no filtering at all on the table, including fnFilter. @@ -10592,7 +12656,7 @@ * @type boolean */ "bFilter": null, - + /** * Table information element (the 'Showing x of y records' div) enable * flag. @@ -10601,7 +12665,7 @@ * @type boolean */ "bInfo": null, - + /** * Present a user control allowing the end user to change the page size * when pagination is enabled. @@ -10619,7 +12683,7 @@ * @type boolean */ "bPaginate": null, - + /** * Processing indicator enable flag whenever DataTables is enacting a * user request - typically an Ajax request for server-side processing. @@ -10628,7 +12692,7 @@ * @type boolean */ "bProcessing": null, - + /** * Server-side processing enabled flag - when enabled DataTables will * get all data from the server for every draw - there is no filtering, @@ -10638,7 +12702,7 @@ * @type boolean */ "bServerSide": null, - + /** * Sorting enablement flag. * Note that this parameter will be set by the initialisation routine. To @@ -10646,7 +12710,15 @@ * @type boolean */ "bSort": null, - + + /** + * Multi-column sorting + * Note that this parameter will be set by the initialisation routine. To + * set a default use {@link DataTable.defaults}. + * @type boolean + */ + "bSortMulti": null, + /** * Apply a class to the columns which are being sorted to provide a * visual highlight or not. This can slow things down when enabled since @@ -10656,7 +12728,7 @@ * @type boolean */ "bSortClasses": null, - + /** * State saving enablement flag. * Note that this parameter will be set by the initialisation routine. To @@ -10665,7 +12737,7 @@ */ "bStateSave": null }, - + /** * Scrolling settings for a table. @@ -10673,16 +12745,6 @@ */ "oScroll": { /** - * Indicate if DataTables should be allowed to set the padding / margin - * etc for the scrolling header elements or not. Typically you will want - * this. - * Note that this parameter will be set by the initialisation routine. To - * set a default use {@link DataTable.defaults}. - * @type boolean - */ - "bAutoCss": null, - - /** * When the table is shorter in height than sScrollY, collapse the * table container down to the height of the table (when true). * Note that this parameter will be set by the initialisation routine. To @@ -10690,16 +12752,7 @@ * @type boolean */ "bCollapse": null, - - /** - * Infinite scrolling enablement flag. Now deprecated in favour of - * using the Scroller plug-in. - * Note that this parameter will be set by the initialisation routine. To - * set a default use {@link DataTable.defaults}. - * @type boolean - */ - "bInfinite": null, - + /** * Width of the scrollbar for the web-browser's platform. Calculated * during table initialisation. @@ -10707,26 +12760,16 @@ * @default 0 */ "iBarWidth": 0, - - /** - * Space (in pixels) between the bottom of the scrolling container and - * the bottom of the scrolling viewport before the next page is loaded - * when using infinite scrolling. - * Note that this parameter will be set by the initialisation routine. To - * set a default use {@link DataTable.defaults}. - * @type int - */ - "iLoadGap": null, - + /** - * Viewport width for horizontal scrolling. Horizontal scrolling is + * Viewport width for horizontal scrolling. Horizontal scrolling is * disabled if an empty string. * Note that this parameter will be set by the initialisation routine. To * set a default use {@link DataTable.defaults}. * @type string */ "sX": null, - + /** * Width to expand the table to when using x-scrolling. Typically you * should not need to use this. @@ -10736,7 +12779,7 @@ * @deprecated */ "sXInner": null, - + /** * Viewport height for vertical scrolling. Vertical scrolling is disabled * if an empty string. @@ -10746,7 +12789,7 @@ */ "sY": null }, - + /** * Language information for the table. * @namespace @@ -10754,14 +12797,14 @@ */ "oLanguage": { /** - * Information callback function. See + * Information callback function. See * {@link DataTable.defaults.fnInfoCallback} * @type function * @default null */ "fnInfoCallback": null }, - + /** * Browser support parameters * @namespace @@ -10773,11 +12816,24 @@ * @type boolean * @default false */ - "bScrollOversize": false + "bScrollOversize": false, + + /** + * Determine if the vertical scrollbar is on the right or left of the + * scrolling container - needed for rtl language layout, although not + * all browsers move the scrollbar (Safari). + * @type boolean + * @default false + */ + "bScrollbarLeft": false }, - + + + "ajax": null, + + /** - * Array referencing the nodes which are used for the features. The + * Array referencing the nodes which are used for the features. The * parameters of this object match what is allowed by sDom - i.e. * <ul> * <li>'l' - Length changing</li> @@ -10791,7 +12847,7 @@ * @default [] */ "aanFeatures": [], - + /** * Store data information - see {@link DataTable.models.oRow} for detailed * information. @@ -10799,51 +12855,44 @@ * @default [] */ "aoData": [], - + /** * Array of indexes which are in the current display (after filtering etc) * @type array * @default [] */ "aiDisplay": [], - + /** * Array of indexes for display - no filtering * @type array * @default [] */ "aiDisplayMaster": [], - + /** * Store information about each column that is in use * @type array * @default [] */ "aoColumns": [], - + /** * Store information about the table's header * @type array * @default [] */ "aoHeader": [], - + /** * Store information about the table's footer * @type array * @default [] */ "aoFooter": [], - - /** - * Search data array for regular expression searching - * @type array - * @default [] - */ - "asDataSearch": [], - + /** - * Store the applied global search information in case we want to force a + * Store the applied global search information in case we want to force a * research or compare the old search to a new one. * Note that this parameter will be set by the initialisation routine. To * set a default use {@link DataTable.defaults}. @@ -10851,23 +12900,22 @@ * @extends DataTable.models.oSearch */ "oPreviousSearch": {}, - + /** - * Store the applied search for each column - see + * Store the applied search for each column - see * {@link DataTable.models.oSearch} for the format that is used for the * filtering information for each column. * @type array * @default [] */ "aoPreSearchCols": [], - + /** * Sorting that is applied to the table. Note that the inner arrays are * used in the following manner: * <ul> * <li>Index 0 - column number</li> * <li>Index 1 - current sorting direction</li> - * <li>Index 2 - index of asSorting for this column</li> * </ul> * Note that this parameter will be set by the initialisation routine. To * set a default use {@link DataTable.defaults}. @@ -10875,17 +12923,17 @@ * @todo These inner arrays should really be objects */ "aaSorting": null, - + /** * Sorting that is always applied to the table (i.e. prefixed in front of * aaSorting). * Note that this parameter will be set by the initialisation routine. To * set a default use {@link DataTable.defaults}. - * @type array|null - * @default null + * @type array + * @default [] */ - "aaSortingFixed": null, - + "aaSortingFixed": [], + /** * Classes to use for the striping of a table. * Note that this parameter will be set by the initialisation routine. To @@ -10894,64 +12942,64 @@ * @default [] */ "asStripeClasses": null, - + /** * If restoring a table - we should restore its striping classes as well * @type array * @default [] */ "asDestroyStripes": [], - + /** - * If restoring a table - we should restore its width + * If restoring a table - we should restore its width * @type int * @default 0 */ "sDestroyWidth": 0, - + /** * Callback functions array for every time a row is inserted (i.e. on a draw). * @type array * @default [] */ "aoRowCallback": [], - + /** * Callback functions for the header on each draw. * @type array * @default [] */ "aoHeaderCallback": [], - + /** * Callback function for the footer on each draw. * @type array * @default [] */ "aoFooterCallback": [], - + /** * Array of callback functions for draw callback functions * @type array * @default [] */ "aoDrawCallback": [], - + /** * Array of callback functions for row created function * @type array * @default [] */ "aoRowCreatedCallback": [], - + /** - * Callback functions for just before the table is redrawn. A return of + * Callback functions for just before the table is redrawn. A return of * false will be used to cancel the draw. * @type array * @default [] */ "aoPreDrawCallback": [], - + /** * Callback functions for when the table has been initialised. * @type array @@ -10959,7 +13007,7 @@ */ "aoInitComplete": [], - + /** * Callbacks for modifying the settings to be stored for state saving, prior to * saving state. @@ -10967,7 +13015,7 @@ * @default [] */ "aoStateSaveParams": [], - + /** * Callbacks for modifying the settings that have been stored for state saving * prior to using the stored values to restore the state. @@ -10975,7 +13023,7 @@ * @default [] */ "aoStateLoadParams": [], - + /** * Callbacks for operating on the settings object once the saved state has been * loaded @@ -10983,51 +13031,51 @@ * @default [] */ "aoStateLoaded": [], - + /** * Cache the table ID for quick access * @type string * @default <i>Empty string</i> */ "sTableId": "", - + /** * The TABLE node for the main table * @type node * @default null */ "nTable": null, - + /** * Permanent ref to the thead element * @type node * @default null */ "nTHead": null, - + /** * Permanent ref to the tfoot element - if it exists * @type node * @default null */ "nTFoot": null, - + /** * Permanent ref to the tbody element * @type node * @default null */ "nTBody": null, - + /** * Cache the wrapper node (contains all DataTables controlled elements) * @type node * @default null */ "nTableWrapper": null, - + /** - * Indicate if when using server-side processing the loading of data + * Indicate if when using server-side processing the loading of data * should be deferred until the second draw. * Note that this parameter will be set by the initialisation routine. To * set a default use {@link DataTable.defaults}. @@ -11035,14 +13083,14 @@ * @default false */ "bDeferLoading": false, - + /** * Indicate if all required information has been read in * @type boolean * @default false */ "bInitialised": false, - + /** * Information about open rows. Each object in the array has the parameters * 'nTr' and 'nParent' @@ -11050,7 +13098,7 @@ * @default [] */ "aoOpenRows": [], - + /** * Dictate the positioning of DataTables' control elements - see * {@link DataTable.model.oInit.sDom}. @@ -11060,50 +13108,39 @@ * @default null */ "sDom": null, - + + /** + * Search delay (in mS) + * @type integer + * @default null + */ + "searchDelay": null, + /** * Which type of pagination should be used. * Note that this parameter will be set by the initialisation routine. To * set a default use {@link DataTable.defaults}. - * @type string + * @type string * @default two_button */ "sPaginationType": "two_button", - + /** - * The cookie duration (for bStateSave) in seconds. + * The state duration (for `stateSave`) in seconds. * Note that this parameter will be set by the initialisation routine. To * set a default use {@link DataTable.defaults}. * @type int * @default 0 */ - "iCookieDuration": 0, - - /** - * The cookie name prefix. - * Note that this parameter will be set by the initialisation routine. To - * set a default use {@link DataTable.defaults}. - * @type string - * @default <i>Empty string</i> - */ - "sCookiePrefix": "", - - /** - * Callback function for cookie creation. - * Note that this parameter will be set by the initialisation routine. To - * set a default use {@link DataTable.defaults}. - * @type function - * @default null - */ - "fnCookieCallback": null, - + "iStateDuration": 0, + /** - * Array of callback functions for state saving. Each array element is an + * Array of callback functions for state saving. Each array element is an * object with the following parameters: * <ul> * <li>function:fn - function to call. Takes two parameters, oSettings * and the JSON string to save that has been thus far created. Returns - * a JSON string to be inserted into a json object + * a JSON string to be inserted into a json object * (i.e. '"param": [ 0, 1, 2]')</li> * <li>string:sName - name of callback</li> * </ul> @@ -11111,12 +13148,12 @@ * @default [] */ "aoStateSave": [], - + /** - * Array of callback functions for state loading. Each array element is an + * Array of callback functions for state loading. Each array element is an * object with the following parameters: * <ul> - * <li>function:fn - function to call. Takes two parameters, oSettings + * <li>function:fn - function to call. Takes two parameters, oSettings * and the object stored. May return false to cancel state loading</li> * <li>string:sName - name of callback</li> * </ul> @@ -11124,14 +13161,21 @@ * @default [] */ "aoStateLoad": [], - + + /** + * State that was saved. Useful for back reference + * @type object + * @default null + */ + "oSavedState": null, + /** - * State that was loaded from the cookie. Useful for back reference + * State that was loaded. Useful for back reference * @type object * @default null */ "oLoadedState": null, - + /** * Source url for AJAX data for the table. * Note that this parameter will be set by the initialisation routine. To @@ -11140,33 +13184,47 @@ * @default null */ "sAjaxSource": null, - + /** * Property from a given object from which to read the table data from. This - * can be an empty string (when not server-side processing), in which case + * can be an empty string (when not server-side processing), in which case * it is assumed an an array is given directly. * Note that this parameter will be set by the initialisation routine. To * set a default use {@link DataTable.defaults}. * @type string */ "sAjaxDataProp": null, - + /** * Note if draw should be blocked while getting data * @type boolean * @default true */ "bAjaxDataGet": true, - + /** - * The last jQuery XHR object that was used for server-side data gathering. - * This can be used for working with the XHR information in one of the + * The last jQuery XHR object that was used for server-side data gathering. + * This can be used for working with the XHR information in one of the * callbacks * @type object * @default null */ "jqXHR": null, - + + /** + * JSON returned from the server in the last Ajax request + * @type object + * @default undefined + */ + "json": undefined, + + /** + * Data submitted as part of the last Ajax request + * @type object + * @default undefined + */ + "oAjaxData": undefined, + /** * Function to get the server-side data. * Note that this parameter will be set by the initialisation routine. To @@ -11174,24 +13232,24 @@ * @type function */ "fnServerData": null, - + /** - * Functions which are called prior to sending an Ajax request so extra + * Functions which are called prior to sending an Ajax request so extra * parameters can easily be sent to the server * @type array * @default [] */ "aoServerParams": [], - + /** - * Send the XHR HTTP method - GET or POST (could be PUT or DELETE if + * Send the XHR HTTP method - GET or POST (could be PUT or DELETE if * required). * Note that this parameter will be set by the initialisation routine. To * set a default use {@link DataTable.defaults}. * @type string */ "sServerMethod": null, - + /** * Format numbers for display. * Note that this parameter will be set by the initialisation routine. To @@ -11199,7 +13257,7 @@ * @type function */ "fnFormatNumber": null, - + /** * List of options that can be used for the user selectable length menu. * Note that this parameter will be set by the initialisation routine. To @@ -11208,7 +13266,7 @@ * @default [] */ "aLengthMenu": null, - + /** * Counter for the draws that the table does. Also used as a tracker for * server-side processing @@ -11216,21 +13274,21 @@ * @default 0 */ "iDraw": 0, - + /** * Indicate if a redraw is being done - useful for Ajax * @type boolean * @default false */ "bDrawing": false, - + /** * Draw index (iDraw) of the last error when parsing the returned data * @type int * @default -1 */ "iDrawError": -1, - + /** * Paging display length * @type int @@ -11246,15 +13304,6 @@ "_iDisplayStart": 0, /** - * Paging end point - aiDisplay index. Use fnDisplayEnd rather than - * this property to get the end point - * @type int - * @default 10 - * @private - */ - "_iDisplayEnd": 10, - - /** * Server-side processing - number of records in the result set * (i.e. before filtering), Use fnRecordsTotal rather than * this property to get the value of the number of records, regardless of @@ -11275,7 +13324,7 @@ * @private */ "_iRecordsDisplay": 0, - + /** * Flag to indicate if jQuery UI marking and classes should be used. * Note that this parameter will be set by the initialisation routine. To @@ -11283,16 +13332,16 @@ * @type boolean */ "bJUI": null, - + /** * The classes to use for the table * @type object * @default {} */ "oClasses": {}, - + /** - * Flag attached to the settings object so you can check in the draw + * Flag attached to the settings object so you can check in the draw * callback if filtering has been done in the draw. Deprecated in favour of * events. * @type boolean @@ -11300,9 +13349,9 @@ * @deprecated */ "bFiltered": false, - + /** - * Flag attached to the settings object so you can check in the draw + * Flag attached to the settings object so you can check in the draw * callback if sorting has been done in the draw. Deprecated in favour of * events. * @type boolean @@ -11310,24 +13359,24 @@ * @deprecated */ "bSorted": false, - + /** - * Indicate that if multiple rows are in the header and there is more than - * one unique cell per column, if the top one (true) or bottom one (false) + * Indicate that if multiple rows are in the header and there is more than + * one unique cell per column, if the top one (true) or bottom one (false) * should be used for sorting / title by DataTables. * Note that this parameter will be set by the initialisation routine. To * set a default use {@link DataTable.defaults}. * @type boolean */ "bSortCellsTop": null, - + /** * Initialisation object that is used for the table * @type object * @default null */ "oInit": null, - + /** * Destroy callback functions - for plug-ins to attach themselves to the * destroy so they can clean up markup and events. @@ -11336,59 +13385,62 @@ */ "aoDestroyCallback": [], - + /** * Get the number of records in the current record set, before filtering * @type function */ "fnRecordsTotal": function () { - if ( this.oFeatures.bServerSide ) { - return parseInt(this._iRecordsTotal, 10); - } else { - return this.aiDisplayMaster.length; - } + return _fnDataSource( this ) == 'ssp' ? + this._iRecordsTotal * 1 : + this.aiDisplayMaster.length; }, - + /** * Get the number of records in the current record set, after filtering * @type function */ "fnRecordsDisplay": function () { - if ( this.oFeatures.bServerSide ) { - return parseInt(this._iRecordsDisplay, 10); - } else { - return this.aiDisplay.length; - } + return _fnDataSource( this ) == 'ssp' ? + this._iRecordsDisplay * 1 : + this.aiDisplay.length; }, - + /** - * Set the display end point - aiDisplay index + * Get the display end point - aiDisplay index * @type function - * @todo Should do away with _iDisplayEnd and calculate it on-the-fly here */ "fnDisplayEnd": function () { - if ( this.oFeatures.bServerSide ) { - if ( this.oFeatures.bPaginate === false || this._iDisplayLength == -1 ) { - return this._iDisplayStart+this.aiDisplay.length; - } else { - return Math.min( this._iDisplayStart+this._iDisplayLength, - this._iRecordsDisplay ); - } - } else { - return this._iDisplayEnd; + var + len = this._iDisplayLength, + start = this._iDisplayStart, + calc = start + len, + records = this.aiDisplay.length, + features = this.oFeatures, + paginate = features.bPaginate; + + if ( features.bServerSide ) { + return paginate === false || len === -1 ? + start + records : + Math.min( start+len, this._iRecordsDisplay ); + } + else { + return ! paginate || calc>records || len===-1 ? + records : + calc; } }, - + /** * The DataTables object for this table * @type object * @default null */ "oInstance": null, - + /** * Unique identifier for each instance of the DataTables object. If there * is an ID on the table node, then it takes that value, otherwise an @@ -11412,47 +13464,582 @@ /** * DIV container for the footer scrolling table if scrolling */ - "nScrollFoot": null + "nScrollFoot": null, + + /** + * Last applied sort + * @type array + * @default [] + */ + "aLastSort": [], + + /** + * Stored plug-in instances + * @type object + * @default {} + */ + "oPlugins": {} }; /** - * Extension object for DataTables that is used to provide all extension options. - * - * Note that the <i>DataTable.ext</i> object is available through - * <i>jQuery.fn.dataTable.ext</i> where it may be accessed and manipulated. It is - * also aliased to <i>jQuery.fn.dataTableExt</i> for historic reasons. + * Extension object for DataTables that is used to provide all extension + * options. + * + * Note that the `DataTable.ext` object is available through + * `jQuery.fn.dataTable.ext` where it may be accessed and manipulated. It is + * also aliased to `jQuery.fn.dataTableExt` for historic reasons. * @namespace * @extends DataTable.models.ext */ - DataTable.ext = $.extend( true, {}, DataTable.models.ext ); - $.extend( DataTable.ext.oStdClasses, { + + /** + * DataTables extensions + * + * This namespace acts as a collection area for plug-ins that can be used to + * extend DataTables capabilities. Indeed many of the build in methods + * use this method to provide their own capabilities (sorting methods for + * example). + * + * Note that this namespace is aliased to `jQuery.fn.dataTableExt` for legacy + * reasons + * + * @namespace + */ + DataTable.ext = _ext = { + /** + * Buttons. For use with the Buttons extension for DataTables. This is + * defined here so other extensions can define buttons regardless of load + * order. It is _not_ used by DataTables core. + * + * @type object + * @default {} + */ + buttons: {}, + + + /** + * Element class names + * + * @type object + * @default {} + */ + classes: {}, + + + /** + * Error reporting. + * + * How should DataTables report an error. Can take the value 'alert', + * 'throw', 'none' or a function. + * + * @type string|function + * @default alert + */ + errMode: "alert", + + + /** + * Feature plug-ins. + * + * This is an array of objects which describe the feature plug-ins that are + * available to DataTables. These feature plug-ins are then available for + * use through the `dom` initialisation option. + * + * Each feature plug-in is described by an object which must have the + * following properties: + * + * * `fnInit` - function that is used to initialise the plug-in, + * * `cFeature` - a character so the feature can be enabled by the `dom` + * instillation option. This is case sensitive. + * + * The `fnInit` function has the following input parameters: + * + * 1. `{object}` DataTables settings object: see + * {@link DataTable.models.oSettings} + * + * And the following return is expected: + * + * * {node|null} The element which contains your feature. Note that the + * return may also be void if your plug-in does not require to inject any + * DOM elements into DataTables control (`dom`) - for example this might + * be useful when developing a plug-in which allows table control via + * keyboard entry + * + * @type array + * + * @example + * $.fn.dataTable.ext.features.push( { + * "fnInit": function( oSettings ) { + * return new TableTools( { "oDTSettings": oSettings } ); + * }, + * "cFeature": "T" + * } ); + */ + feature: [], + + + /** + * Row searching. + * + * This method of searching is complimentary to the default type based + * searching, and a lot more comprehensive as it allows you complete control + * over the searching logic. Each element in this array is a function + * (parameters described below) that is called for every row in the table, + * and your logic decides if it should be included in the searching data set + * or not. + * + * Searching functions have the following input parameters: + * + * 1. `{object}` DataTables settings object: see + * {@link DataTable.models.oSettings} + * 2. `{array|object}` Data for the row to be processed (same as the + * original format that was passed in as the data source, or an array + * from a DOM data source + * 3. `{int}` Row index ({@link DataTable.models.oSettings.aoData}), which + * can be useful to retrieve the `TR` element if you need DOM interaction. + * + * And the following return is expected: + * + * * {boolean} Include the row in the searched result set (true) or not + * (false) + * + * Note that as with the main search ability in DataTables, technically this + * is "filtering", since it is subtractive. However, for consistency in + * naming we call it searching here. + * + * @type array + * @default [] + * + * @example + * // The following example shows custom search being applied to the + * // fourth column (i.e. the data[3] index) based on two input values + * // from the end-user, matching the data in a certain range. + * $.fn.dataTable.ext.search.push( + * function( settings, data, dataIndex ) { + * var min = document.getElementById('min').value * 1; + * var max = document.getElementById('max').value * 1; + * var version = data[3] == "-" ? 0 : data[3]*1; + * + * if ( min == "" && max == "" ) { + * return true; + * } + * else if ( min == "" && version < max ) { + * return true; + * } + * else if ( min < version && "" == max ) { + * return true; + * } + * else if ( min < version && version < max ) { + * return true; + * } + * return false; + * } + * ); + */ + search: [], + + + /** + * Selector extensions + * + * The `selector` option can be used to extend the options available for the + * selector modifier options (`selector-modifier` object data type) that + * each of the three built in selector types offer (row, column and cell + + * their plural counterparts). For example the Select extension uses this + * mechanism to provide an option to select only rows, columns and cells + * that have been marked as selected by the end user (`{selected: true}`), + * which can be used in conjunction with the existing built in selector + * options. + * + * Each property is an array to which functions can be pushed. The functions + * take three attributes: + * + * * Settings object for the host table + * * Options object (`selector-modifier` object type) + * * Array of selected item indexes + * + * The return is an array of the resulting item indexes after the custom + * selector has been applied. + * + * @type object + */ + selector: { + cell: [], + column: [], + row: [] + }, + + + /** + * Internal functions, exposed for used in plug-ins. + * + * Please note that you should not need to use the internal methods for + * anything other than a plug-in (and even then, try to avoid if possible). + * The internal function may change between releases. + * + * @type object + * @default {} + */ + internal: {}, + + + /** + * Legacy configuration options. Enable and disable legacy options that + * are available in DataTables. + * + * @type object + */ + legacy: { + /** + * Enable / disable DataTables 1.9 compatible server-side processing + * requests + * + * @type boolean + * @default null + */ + ajax: null + }, + + + /** + * Pagination plug-in methods. + * + * Each entry in this object is a function and defines which buttons should + * be shown by the pagination rendering method that is used for the table: + * {@link DataTable.ext.renderer.pageButton}. The renderer addresses how the + * buttons are displayed in the document, while the functions here tell it + * what buttons to display. This is done by returning an array of button + * descriptions (what each button will do). + * + * Pagination types (the four built in options and any additional plug-in + * options defined here) can be used through the `paginationType` + * initialisation parameter. + * + * The functions defined take two parameters: + * + * 1. `{int} page` The current page index + * 2. `{int} pages` The number of pages in the table + * + * Each function is expected to return an array where each element of the + * array can be one of: + * + * * `first` - Jump to first page when activated + * * `last` - Jump to last page when activated + * * `previous` - Show previous page when activated + * * `next` - Show next page when activated + * * `{int}` - Show page of the index given + * * `{array}` - A nested array containing the above elements to add a + * containing 'DIV' element (might be useful for styling). + * + * Note that DataTables v1.9- used this object slightly differently whereby + * an object with two functions would be defined for each plug-in. That + * ability is still supported by DataTables 1.10+ to provide backwards + * compatibility, but this option of use is now decremented and no longer + * documented in DataTables 1.10+. + * + * @type object + * @default {} + * + * @example + * // Show previous, next and current page buttons only + * $.fn.dataTableExt.oPagination.current = function ( page, pages ) { + * return [ 'previous', page, 'next' ]; + * }; + */ + pager: {}, + + + renderer: { + pageButton: {}, + header: {} + }, + + + /** + * Ordering plug-ins - custom data source + * + * The extension options for ordering of data available here is complimentary + * to the default type based ordering that DataTables typically uses. It + * allows much greater control over the the data that is being used to + * order a column, but is necessarily therefore more complex. + * + * This type of ordering is useful if you want to do ordering based on data + * live from the DOM (for example the contents of an 'input' element) rather + * than just the static string that DataTables knows of. + * + * The way these plug-ins work is that you create an array of the values you + * wish to be ordering for the column in question and then return that + * array. The data in the array much be in the index order of the rows in + * the table (not the currently ordering order!). Which order data gathering + * function is run here depends on the `dt-init columns.orderDataType` + * parameter that is used for the column (if any). + * + * The functions defined take two parameters: + * + * 1. `{object}` DataTables settings object: see + * {@link DataTable.models.oSettings} + * 2. `{int}` Target column index + * + * Each function is expected to return an array: + * + * * `{array}` Data for the column to be ordering upon + * + * @type array + * + * @example + * // Ordering using `input` node values + * $.fn.dataTable.ext.order['dom-text'] = function ( settings, col ) + * { + * return this.api().column( col, {order:'index'} ).nodes().map( function ( td, i ) { + * return $('input', td).val(); + * } ); + * } + */ + order: {}, + + + /** + * Type based plug-ins. + * + * Each column in DataTables has a type assigned to it, either by automatic + * detection or by direct assignment using the `type` option for the column. + * The type of a column will effect how it is ordering and search (plug-ins + * can also make use of the column type if required). + * + * @namespace + */ + type: { + /** + * Type detection functions. + * + * The functions defined in this object are used to automatically detect + * a column's type, making initialisation of DataTables super easy, even + * when complex data is in the table. + * + * The functions defined take two parameters: + * + * 1. `{*}` Data from the column cell to be analysed + * 2. `{settings}` DataTables settings object. This can be used to + * perform context specific type detection - for example detection + * based on language settings such as using a comma for a decimal + * place. Generally speaking the options from the settings will not + * be required + * + * Each function is expected to return: + * + * * `{string|null}` Data type detected, or null if unknown (and thus + * pass it on to the other type detection functions. + * + * @type array + * + * @example + * // Currency type detection plug-in: + * $.fn.dataTable.ext.type.detect.push( + * function ( data, settings ) { + * // Check the numeric part + * if ( ! $.isNumeric( data.substring(1) ) ) { + * return null; + * } + * + * // Check prefixed by currency + * if ( data.charAt(0) == '$' || data.charAt(0) == '£' ) { + * return 'currency'; + * } + * return null; + * } + * ); + */ + detect: [], + + + /** + * Type based search formatting. + * + * The type based searching functions can be used to pre-format the + * data to be search on. For example, it can be used to strip HTML + * tags or to de-format telephone numbers for numeric only searching. + * + * Note that is a search is not defined for a column of a given type, + * no search formatting will be performed. + * + * Pre-processing of searching data plug-ins - When you assign the sType + * for a column (or have it automatically detected for you by DataTables + * or a type detection plug-in), you will typically be using this for + * custom sorting, but it can also be used to provide custom searching + * by allowing you to pre-processing the data and returning the data in + * the format that should be searched upon. This is done by adding + * functions this object with a parameter name which matches the sType + * for that target column. This is the corollary of <i>afnSortData</i> + * for searching data. + * + * The functions defined take a single parameter: + * + * 1. `{*}` Data from the column cell to be prepared for searching + * + * Each function is expected to return: + * + * * `{string|null}` Formatted string that will be used for the searching. + * + * @type object + * @default {} + * + * @example + * $.fn.dataTable.ext.type.search['title-numeric'] = function ( d ) { + * return d.replace(/\n/g," ").replace( /<.*?>/g, "" ); + * } + */ + search: {}, + + + /** + * Type based ordering. + * + * The column type tells DataTables what ordering to apply to the table + * when a column is sorted upon. The order for each type that is defined, + * is defined by the functions available in this object. + * + * Each ordering option can be described by three properties added to + * this object: + * + * * `{type}-pre` - Pre-formatting function + * * `{type}-asc` - Ascending order function + * * `{type}-desc` - Descending order function + * + * All three can be used together, only `{type}-pre` or only + * `{type}-asc` and `{type}-desc` together. It is generally recommended + * that only `{type}-pre` is used, as this provides the optimal + * implementation in terms of speed, although the others are provided + * for compatibility with existing Javascript sort functions. + * + * `{type}-pre`: Functions defined take a single parameter: + * + * 1. `{*}` Data from the column cell to be prepared for ordering + * + * And return: + * + * * `{*}` Data to be sorted upon + * + * `{type}-asc` and `{type}-desc`: Functions are typical Javascript sort + * functions, taking two parameters: + * + * 1. `{*}` Data to compare to the second parameter + * 2. `{*}` Data to compare to the first parameter + * + * And returning: + * + * * `{*}` Ordering match: <0 if first parameter should be sorted lower + * than the second parameter, ===0 if the two parameters are equal and + * >0 if the first parameter should be sorted height than the second + * parameter. + * + * @type object + * @default {} + * + * @example + * // Numeric ordering of formatted numbers with a pre-formatter + * $.extend( $.fn.dataTable.ext.type.order, { + * "string-pre": function(x) { + * a = (a === "-" || a === "") ? 0 : a.replace( /[^\d\-\.]/g, "" ); + * return parseFloat( a ); + * } + * } ); + * + * @example + * // Case-sensitive string ordering, with no pre-formatting method + * $.extend( $.fn.dataTable.ext.order, { + * "string-case-asc": function(x,y) { + * return ((x < y) ? -1 : ((x > y) ? 1 : 0)); + * }, + * "string-case-desc": function(x,y) { + * return ((x < y) ? 1 : ((x > y) ? -1 : 0)); + * } + * } ); + */ + order: {} + }, + + /** + * Unique DataTables instance counter + * + * @type int + * @private + */ + _unique: 0, + + + // + // Depreciated + // The following properties are retained for backwards compatiblity only. + // The should not be used in new projects and will be removed in a future + // version + // + + /** + * Version check function. + * @type function + * @depreciated Since 1.10 + */ + fnVersionCheck: DataTable.fnVersionCheck, + + + /** + * Index for what 'this' index API functions should use + * @type int + * @deprecated Since v1.10 + */ + iApiIndex: 0, + + + /** + * jQuery UI class container + * @type object + * @deprecated Since v1.10 + */ + oJUIClasses: {}, + + + /** + * Software version + * @type string + * @deprecated Since v1.10 + */ + sVersion: DataTable.version + }; + + + // + // Backwards compatibility. Alias to pre 1.10 Hungarian notation counter parts + // + $.extend( _ext, { + afnFiltering: _ext.search, + aTypes: _ext.type.detect, + ofnSearch: _ext.type.search, + oSort: _ext.type.order, + afnSortData: _ext.order, + aoFeatures: _ext.feature, + oApi: _ext.internal, + oStdClasses: _ext.classes, + oPagination: _ext.pager + } ); + + + $.extend( DataTable.ext.classes, { "sTable": "dataTable", + "sNoFooter": "no-footer", - /* Two buttons buttons */ - "sPagePrevEnabled": "paginate_enabled_previous", - "sPagePrevDisabled": "paginate_disabled_previous", - "sPageNextEnabled": "paginate_enabled_next", - "sPageNextDisabled": "paginate_disabled_next", - "sPageJUINext": "", - "sPageJUIPrev": "", - - /* Full numbers paging buttons */ + /* Paging buttons */ "sPageButton": "paginate_button", - "sPageButtonActive": "paginate_active", - "sPageButtonStaticDisabled": "paginate_button paginate_button_disabled", - "sPageFirst": "first", - "sPagePrevious": "previous", - "sPageNext": "next", - "sPageLast": "last", - + "sPageButtonActive": "current", + "sPageButtonDisabled": "disabled", + /* Striping classes */ "sStripeOdd": "odd", "sStripeEven": "even", - + /* Empty row */ "sRowEmpty": "dataTables_empty", - + /* Features */ "sWrapper": "dataTables_wrapper", "sFilter": "dataTables_filter", @@ -11460,7 +14047,7 @@ "sPaging": "dataTables_paginate paging_", /* Note that the type is postfixed */ "sLength": "dataTables_length", "sProcessing": "dataTables_processing", - + /* Sorting */ "sSortAsc": "sorting_asc", "sSortDesc": "sorting_desc", @@ -11469,14 +14056,13 @@ "sSortableDesc": "sorting_desc_disabled", "sSortableNone": "sorting_disabled", "sSortColumn": "sorting_", /* Note that an int is postfixed for the sorting order */ - "sSortJUIAsc": "", - "sSortJUIDesc": "", - "sSortJUI": "", - "sSortJUIAscAllowed": "", - "sSortJUIDescAllowed": "", - "sSortJUIWrapper": "", - "sSortIcon": "", - + + /* Filtering */ + "sFilterInput": "", + + /* Page length */ + "sLengthSelect": "", + /* Scrolling */ "sScrollWrapper": "dataTables_scroll", "sScrollHead": "dataTables_scrollHead", @@ -11484,518 +14070,733 @@ "sScrollBody": "dataTables_scrollBody", "sScrollFoot": "dataTables_scrollFoot", "sScrollFootInner": "dataTables_scrollFootInner", - + /* Misc */ + "sHeaderTH": "", "sFooterTH": "", + + // Deprecated + "sSortJUIAsc": "", + "sSortJUIDesc": "", + "sSortJUI": "", + "sSortJUIAscAllowed": "", + "sSortJUIDescAllowed": "", + "sSortJUIWrapper": "", + "sSortIcon": "", "sJUIHeader": "", "sJUIFooter": "" } ); - $.extend( DataTable.ext.oJUIClasses, DataTable.ext.oStdClasses, { - /* Two buttons buttons */ - "sPagePrevEnabled": "fg-button ui-button ui-state-default ui-corner-left", - "sPagePrevDisabled": "fg-button ui-button ui-state-default ui-corner-left ui-state-disabled", - "sPageNextEnabled": "fg-button ui-button ui-state-default ui-corner-right", - "sPageNextDisabled": "fg-button ui-button ui-state-default ui-corner-right ui-state-disabled", - "sPageJUINext": "ui-icon ui-icon-circle-arrow-e", - "sPageJUIPrev": "ui-icon ui-icon-circle-arrow-w", - + (function() { + + // Reused strings for better compression. Closure compiler appears to have a + // weird edge case where it is trying to expand strings rather than use the + // variable version. This results in about 200 bytes being added, for very + // little preference benefit since it this run on script load only. + var _empty = ''; + _empty = ''; + + var _stateDefault = _empty + 'ui-state-default'; + var _sortIcon = _empty + 'css_right ui-icon ui-icon-'; + var _headerFooter = _empty + 'fg-toolbar ui-toolbar ui-widget-header ui-helper-clearfix'; + + $.extend( DataTable.ext.oJUIClasses, DataTable.ext.classes, { /* Full numbers paging buttons */ - "sPageButton": "fg-button ui-button ui-state-default", - "sPageButtonActive": "fg-button ui-button ui-state-default ui-state-disabled", - "sPageButtonStaticDisabled": "fg-button ui-button ui-state-default ui-state-disabled", - "sPageFirst": "first ui-corner-tl ui-corner-bl", - "sPageLast": "last ui-corner-tr ui-corner-br", - + "sPageButton": "fg-button ui-button "+_stateDefault, + "sPageButtonActive": "ui-state-disabled", + "sPageButtonDisabled": "ui-state-disabled", + /* Features */ "sPaging": "dataTables_paginate fg-buttonset ui-buttonset fg-buttonset-multi "+ "ui-buttonset-multi paging_", /* Note that the type is postfixed */ - + /* Sorting */ - "sSortAsc": "ui-state-default", - "sSortDesc": "ui-state-default", - "sSortable": "ui-state-default", - "sSortableAsc": "ui-state-default", - "sSortableDesc": "ui-state-default", - "sSortableNone": "ui-state-default", - "sSortJUIAsc": "css_right ui-icon ui-icon-triangle-1-n", - "sSortJUIDesc": "css_right ui-icon ui-icon-triangle-1-s", - "sSortJUI": "css_right ui-icon ui-icon-carat-2-n-s", - "sSortJUIAscAllowed": "css_right ui-icon ui-icon-carat-1-n", - "sSortJUIDescAllowed": "css_right ui-icon ui-icon-carat-1-s", - "sSortJUIWrapper": "DataTables_sort_wrapper", - "sSortIcon": "DataTables_sort_icon", - + "sSortAsc": _stateDefault+" sorting_asc", + "sSortDesc": _stateDefault+" sorting_desc", + "sSortable": _stateDefault+" sorting", + "sSortableAsc": _stateDefault+" sorting_asc_disabled", + "sSortableDesc": _stateDefault+" sorting_desc_disabled", + "sSortableNone": _stateDefault+" sorting_disabled", + "sSortJUIAsc": _sortIcon+"triangle-1-n", + "sSortJUIDesc": _sortIcon+"triangle-1-s", + "sSortJUI": _sortIcon+"carat-2-n-s", + "sSortJUIAscAllowed": _sortIcon+"carat-1-n", + "sSortJUIDescAllowed": _sortIcon+"carat-1-s", + "sSortJUIWrapper": "DataTables_sort_wrapper", + "sSortIcon": "DataTables_sort_icon", + /* Scrolling */ - "sScrollHead": "dataTables_scrollHead ui-state-default", - "sScrollFoot": "dataTables_scrollFoot ui-state-default", - + "sScrollHead": "dataTables_scrollHead "+_stateDefault, + "sScrollFoot": "dataTables_scrollFoot "+_stateDefault, + /* Misc */ - "sFooterTH": "ui-state-default", - "sJUIHeader": "fg-toolbar ui-toolbar ui-widget-header ui-corner-tl ui-corner-tr ui-helper-clearfix", - "sJUIFooter": "fg-toolbar ui-toolbar ui-widget-header ui-corner-bl ui-corner-br ui-helper-clearfix" + "sHeaderTH": _stateDefault, + "sFooterTH": _stateDefault, + "sJUIHeader": _headerFooter+" ui-corner-tl ui-corner-tr", + "sJUIFooter": _headerFooter+" ui-corner-bl ui-corner-br" } ); - /* - * Variable: oPagination - * Purpose: - * Scope: jQuery.fn.dataTableExt - */ - $.extend( DataTable.ext.oPagination, { - /* - * Variable: two_button - * Purpose: Standard two button (forward/back) pagination - * Scope: jQuery.fn.dataTableExt.oPagination - */ - "two_button": { - /* - * Function: oPagination.two_button.fnInit - * Purpose: Initialise dom elements required for pagination with forward/back buttons only - * Returns: - - * Inputs: object:oSettings - dataTables settings object - * node:nPaging - the DIV which contains this pagination control - * function:fnCallbackDraw - draw function which must be called on update - */ - "fnInit": function ( oSettings, nPaging, fnCallbackDraw ) - { - var oLang = oSettings.oLanguage.oPaginate; - var oClasses = oSettings.oClasses; - var fnClickHandler = function ( e ) { - if ( oSettings.oApi._fnPageChange( oSettings, e.data.action ) ) - { - fnCallbackDraw( oSettings ); - } - }; + }()); - var sAppend = (!oSettings.bJUI) ? - '<a class="'+oSettings.oClasses.sPagePrevDisabled+'" tabindex="'+oSettings.iTabIndex+'" role="button">'+oLang.sPrevious+'</a>'+ - '<a class="'+oSettings.oClasses.sPageNextDisabled+'" tabindex="'+oSettings.iTabIndex+'" role="button">'+oLang.sNext+'</a>' - : - '<a class="'+oSettings.oClasses.sPagePrevDisabled+'" tabindex="'+oSettings.iTabIndex+'" role="button"><span class="'+oSettings.oClasses.sPageJUIPrev+'"></span></a>'+ - '<a class="'+oSettings.oClasses.sPageNextDisabled+'" tabindex="'+oSettings.iTabIndex+'" role="button"><span class="'+oSettings.oClasses.sPageJUINext+'"></span></a>'; - $(nPaging).append( sAppend ); - - var els = $('a', nPaging); - var nPrevious = els[0], - nNext = els[1]; - - oSettings.oApi._fnBindAction( nPrevious, {action: "previous"}, fnClickHandler ); - oSettings.oApi._fnBindAction( nNext, {action: "next"}, fnClickHandler ); - - /* ID the first elements only */ - if ( !oSettings.aanFeatures.p ) - { - nPaging.id = oSettings.sTableId+'_paginate'; - nPrevious.id = oSettings.sTableId+'_previous'; - nNext.id = oSettings.sTableId+'_next'; - nPrevious.setAttribute('aria-controls', oSettings.sTableId); - nNext.setAttribute('aria-controls', oSettings.sTableId); - } - }, - - /* - * Function: oPagination.two_button.fnUpdate - * Purpose: Update the two button pagination at the end of the draw - * Returns: - - * Inputs: object:oSettings - dataTables settings object - * function:fnCallbackDraw - draw function to call on page change - */ - "fnUpdate": function ( oSettings, fnCallbackDraw ) - { - if ( !oSettings.aanFeatures.p ) - { - return; - } - - var oClasses = oSettings.oClasses; - var an = oSettings.aanFeatures.p; - var nNode; - /* Loop over each instance of the pager */ - for ( var i=0, iLen=an.length ; i<iLen ; i++ ) - { - nNode = an[i].firstChild; - if ( nNode ) - { - /* Previous page */ - nNode.className = ( oSettings._iDisplayStart === 0 ) ? - oClasses.sPagePrevDisabled : oClasses.sPagePrevEnabled; - - /* Next page */ - nNode = nNode.nextSibling; - nNode.className = ( oSettings.fnDisplayEnd() == oSettings.fnRecordsDisplay() ) ? - oClasses.sPageNextDisabled : oClasses.sPageNextEnabled; - } - } - } + var extPagination = DataTable.ext.pager; + + function _numbers ( page, pages ) { + var + numbers = [], + buttons = extPagination.numbers_length, + half = Math.floor( buttons / 2 ), + i = 1; + + if ( pages <= buttons ) { + numbers = _range( 0, pages ); + } + else if ( page <= half ) { + numbers = _range( 0, buttons-2 ); + numbers.push( 'ellipsis' ); + numbers.push( pages-1 ); + } + else if ( page >= pages - 1 - half ) { + numbers = _range( pages-(buttons-2), pages ); + numbers.splice( 0, 0, 'ellipsis' ); // no unshift in ie6 + numbers.splice( 0, 0, 0 ); + } + else { + numbers = _range( page-half+2, page+half-1 ); + numbers.push( 'ellipsis' ); + numbers.push( pages-1 ); + numbers.splice( 0, 0, 'ellipsis' ); + numbers.splice( 0, 0, 0 ); + } + + numbers.DT_el = 'span'; + return numbers; + } + + + $.extend( extPagination, { + simple: function ( page, pages ) { + return [ 'previous', 'next' ]; }, - - - /* - * Variable: iFullNumbersShowPages - * Purpose: Change the number of pages which can be seen - * Scope: jQuery.fn.dataTableExt.oPagination - */ - "iFullNumbersShowPages": 5, - - /* - * Variable: full_numbers - * Purpose: Full numbers pagination - * Scope: jQuery.fn.dataTableExt.oPagination - */ - "full_numbers": { - /* - * Function: oPagination.full_numbers.fnInit - * Purpose: Initialise dom elements required for pagination with a list of the pages - * Returns: - - * Inputs: object:oSettings - dataTables settings object - * node:nPaging - the DIV which contains this pagination control - * function:fnCallbackDraw - draw function which must be called on update - */ - "fnInit": function ( oSettings, nPaging, fnCallbackDraw ) - { - var oLang = oSettings.oLanguage.oPaginate; - var oClasses = oSettings.oClasses; - var fnClickHandler = function ( e ) { - if ( oSettings.oApi._fnPageChange( oSettings, e.data.action ) ) - { - fnCallbackDraw( oSettings ); + + full: function ( page, pages ) { + return [ 'first', 'previous', 'next', 'last' ]; + }, + + simple_numbers: function ( page, pages ) { + return [ 'previous', _numbers(page, pages), 'next' ]; + }, + + full_numbers: function ( page, pages ) { + return [ 'first', 'previous', _numbers(page, pages), 'next', 'last' ]; + }, + + // For testing and plug-ins to use + _numbers: _numbers, + + // Number of number buttons (including ellipsis) to show. _Must be odd!_ + numbers_length: 7 + } ); + + + $.extend( true, DataTable.ext.renderer, { + pageButton: { + _: function ( settings, host, idx, buttons, page, pages ) { + var classes = settings.oClasses; + var lang = settings.oLanguage.oPaginate; + var btnDisplay, btnClass, counter=0; + + var attach = function( container, buttons ) { + var i, ien, node, button; + var clickHandler = function ( e ) { + _fnPageChange( settings, e.data.action, true ); + }; + + for ( i=0, ien=buttons.length ; i<ien ; i++ ) { + button = buttons[i]; + + if ( $.isArray( button ) ) { + var inner = $( '<'+(button.DT_el || 'div')+'/>' ) + .appendTo( container ); + attach( inner, button ); + } + else { + btnDisplay = ''; + btnClass = ''; + + switch ( button ) { + case 'ellipsis': + container.append('<span class="ellipsis">…</span>'); + break; + + case 'first': + btnDisplay = lang.sFirst; + btnClass = button + (page > 0 ? + '' : ' '+classes.sPageButtonDisabled); + break; + + case 'previous': + btnDisplay = lang.sPrevious; + btnClass = button + (page > 0 ? + '' : ' '+classes.sPageButtonDisabled); + break; + + case 'next': + btnDisplay = lang.sNext; + btnClass = button + (page < pages-1 ? + '' : ' '+classes.sPageButtonDisabled); + break; + + case 'last': + btnDisplay = lang.sLast; + btnClass = button + (page < pages-1 ? + '' : ' '+classes.sPageButtonDisabled); + break; + + default: + btnDisplay = button + 1; + btnClass = page === button ? + classes.sPageButtonActive : ''; + break; + } + + if ( btnDisplay ) { + node = $('<a>', { + 'class': classes.sPageButton+' '+btnClass, + 'aria-controls': settings.sTableId, + 'data-dt-idx': counter, + 'tabindex': settings.iTabIndex, + 'id': idx === 0 && typeof button === 'string' ? + settings.sTableId +'_'+ button : + null + } ) + .html( btnDisplay ) + .appendTo( container ); + + _fnBindAction( + node, {action: button}, clickHandler + ); + + counter++; + } + } } }; - $(nPaging).append( - '<a tabindex="'+oSettings.iTabIndex+'" class="'+oClasses.sPageButton+" "+oClasses.sPageFirst+'">'+oLang.sFirst+'</a>'+ - '<a tabindex="'+oSettings.iTabIndex+'" class="'+oClasses.sPageButton+" "+oClasses.sPagePrevious+'">'+oLang.sPrevious+'</a>'+ - '<span></span>'+ - '<a tabindex="'+oSettings.iTabIndex+'" class="'+oClasses.sPageButton+" "+oClasses.sPageNext+'">'+oLang.sNext+'</a>'+ - '<a tabindex="'+oSettings.iTabIndex+'" class="'+oClasses.sPageButton+" "+oClasses.sPageLast+'">'+oLang.sLast+'</a>' - ); - var els = $('a', nPaging); - var nFirst = els[0], - nPrev = els[1], - nNext = els[2], - nLast = els[3]; - - oSettings.oApi._fnBindAction( nFirst, {action: "first"}, fnClickHandler ); - oSettings.oApi._fnBindAction( nPrev, {action: "previous"}, fnClickHandler ); - oSettings.oApi._fnBindAction( nNext, {action: "next"}, fnClickHandler ); - oSettings.oApi._fnBindAction( nLast, {action: "last"}, fnClickHandler ); - - /* ID the first elements only */ - if ( !oSettings.aanFeatures.p ) - { - nPaging.id = oSettings.sTableId+'_paginate'; - nFirst.id =oSettings.sTableId+'_first'; - nPrev.id =oSettings.sTableId+'_previous'; - nNext.id =oSettings.sTableId+'_next'; - nLast.id =oSettings.sTableId+'_last'; - } - }, - - /* - * Function: oPagination.full_numbers.fnUpdate - * Purpose: Update the list of page buttons shows - * Returns: - - * Inputs: object:oSettings - dataTables settings object - * function:fnCallbackDraw - draw function to call on page change - */ - "fnUpdate": function ( oSettings, fnCallbackDraw ) - { - if ( !oSettings.aanFeatures.p ) - { - return; - } - - var iPageCount = DataTable.ext.oPagination.iFullNumbersShowPages; - var iPageCountHalf = Math.floor(iPageCount / 2); - var iPages = Math.ceil((oSettings.fnRecordsDisplay()) / oSettings._iDisplayLength); - var iCurrentPage = Math.ceil(oSettings._iDisplayStart / oSettings._iDisplayLength) + 1; - var sList = ""; - var iStartButton, iEndButton, i, iLen; - var oClasses = oSettings.oClasses; - var anButtons, anStatic, nPaginateList, nNode; - var an = oSettings.aanFeatures.p; - var fnBind = function (j) { - oSettings.oApi._fnBindAction( this, {"page": j+iStartButton-1}, function(e) { - /* Use the information in the element to jump to the required page */ - oSettings.oApi._fnPageChange( oSettings, e.data.page ); - fnCallbackDraw( oSettings ); - e.preventDefault(); - } ); - }; - - /* Pages calculation */ - if ( oSettings._iDisplayLength === -1 ) - { - iStartButton = 1; - iEndButton = 1; - iCurrentPage = 1; - } - else if (iPages < iPageCount) - { - iStartButton = 1; - iEndButton = iPages; - } - else if (iCurrentPage <= iPageCountHalf) - { - iStartButton = 1; - iEndButton = iPageCount; - } - else if (iCurrentPage >= (iPages - iPageCountHalf)) - { - iStartButton = iPages - iPageCount + 1; - iEndButton = iPages; - } - else - { - iStartButton = iCurrentPage - Math.ceil(iPageCount / 2) + 1; - iEndButton = iStartButton + iPageCount - 1; - } + // IE9 throws an 'unknown error' if document.activeElement is used + // inside an iframe or frame. Try / catch the error. Not good for + // accessibility, but neither are frames. + var activeEl; - - /* Build the dynamic list */ - for ( i=iStartButton ; i<=iEndButton ; i++ ) - { - sList += (iCurrentPage !== i) ? - '<a tabindex="'+oSettings.iTabIndex+'" class="'+oClasses.sPageButton+'">'+oSettings.fnFormatNumber(i)+'</a>' : - '<a tabindex="'+oSettings.iTabIndex+'" class="'+oClasses.sPageButtonActive+'">'+oSettings.fnFormatNumber(i)+'</a>'; + try { + // Because this approach is destroying and recreating the paging + // elements, focus is lost on the select button which is bad for + // accessibility. So we want to restore focus once the draw has + // completed + activeEl = $(document.activeElement).data('dt-idx'); } - - /* Loop over each instance of the pager */ - for ( i=0, iLen=an.length ; i<iLen ; i++ ) - { - nNode = an[i]; - if ( !nNode.hasChildNodes() ) - { - continue; - } - - /* Build up the dynamic list first - html and listeners */ - $('span:eq(0)', nNode) - .html( sList ) - .children('a').each( fnBind ); - - /* Update the permanent button's classes */ - anButtons = nNode.getElementsByTagName('a'); - anStatic = [ - anButtons[0], anButtons[1], - anButtons[anButtons.length-2], anButtons[anButtons.length-1] - ]; - - $(anStatic).removeClass( oClasses.sPageButton+" "+oClasses.sPageButtonActive+" "+oClasses.sPageButtonStaticDisabled ); - $([anStatic[0], anStatic[1]]).addClass( - (iCurrentPage==1) ? - oClasses.sPageButtonStaticDisabled : - oClasses.sPageButton - ); - $([anStatic[2], anStatic[3]]).addClass( - (iPages===0 || iCurrentPage===iPages || oSettings._iDisplayLength===-1) ? - oClasses.sPageButtonStaticDisabled : - oClasses.sPageButton - ); + catch (e) {} + + attach( $(host).empty(), buttons ); + + if ( activeEl ) { + $(host).find( '[data-dt-idx='+activeEl+']' ).focus(); } } } } ); - $.extend( DataTable.ext.oSort, { - /* - * text sorting - */ - "string-pre": function ( a ) - { - if ( typeof a != 'string' ) { - a = (a !== null && a.toString) ? a.toString() : ''; - } - return a.toLowerCase(); - }, - "string-asc": function ( x, y ) - { - return ((x < y) ? -1 : ((x > y) ? 1 : 0)); - }, - - "string-desc": function ( x, y ) - { - return ((x < y) ? 1 : ((x > y) ? -1 : 0)); - }, - - - /* - * html sorting (ignore html tags) - */ - "html-pre": function ( a ) - { - return a.replace( /<.*?>/g, "" ).toLowerCase(); - }, - - "html-asc": function ( x, y ) - { - return ((x < y) ? -1 : ((x > y) ? 1 : 0)); - }, - - "html-desc": function ( x, y ) + + // Built in type detection. See model.ext.aTypes for information about + // what is required from this methods. + $.extend( DataTable.ext.type.detect, [ + // Plain numbers - first since V8 detects some plain numbers as dates + // e.g. Date.parse('55') (but not all, e.g. Date.parse('22')...). + function ( d, settings ) { - return ((x < y) ? 1 : ((x > y) ? -1 : 0)); + var decimal = settings.oLanguage.sDecimal; + return _isNumber( d, decimal ) ? 'num'+decimal : null; }, - - - /* - * date sorting - */ - "date-pre": function ( a ) + + // Dates (only those recognised by the browser's Date.parse) + function ( d, settings ) { - var x = Date.parse( a ); - - if ( isNaN(x) || x==="" ) - { - x = Date.parse( "01/01/1970 00:00:00" ); + // V8 will remove any unknown characters at the start and end of the + // expression, leading to false matches such as `$245.12` or `10%` being + // a valid date. See forum thread 18941 for detail. + if ( d && !(d instanceof Date) && ( ! _re_date_start.test(d) || ! _re_date_end.test(d) ) ) { + return null; } - return x; + var parsed = Date.parse(d); + return (parsed !== null && !isNaN(parsed)) || _empty(d) ? 'date' : null; }, - "date-asc": function ( x, y ) + // Formatted numbers + function ( d, settings ) { - return x - y; + var decimal = settings.oLanguage.sDecimal; + return _isNumber( d, decimal, true ) ? 'num-fmt'+decimal : null; }, - - "date-desc": function ( x, y ) + + // HTML numeric + function ( d, settings ) { - return y - x; + var decimal = settings.oLanguage.sDecimal; + return _htmlNumeric( d, decimal ) ? 'html-num'+decimal : null; }, - - - /* - * numerical sorting - */ - "numeric-pre": function ( a ) + + // HTML numeric, formatted + function ( d, settings ) { - return (a=="-" || a==="") ? 0 : a*1; + var decimal = settings.oLanguage.sDecimal; + return _htmlNumeric( d, decimal, true ) ? 'html-num-fmt'+decimal : null; }, - "numeric-asc": function ( x, y ) + // HTML (this is strict checking - there must be html) + function ( d, settings ) { - return x - y; + return _empty( d ) || (typeof d === 'string' && d.indexOf('<') !== -1) ? + 'html' : null; + } + ] ); + + + + // Filter formatting functions. See model.ext.ofnSearch for information about + // what is required from these methods. + // + // Note that additional search methods are added for the html numbers and + // html formatted numbers by `_addNumericSort()` when we know what the decimal + // place is + + + $.extend( DataTable.ext.type.search, { + html: function ( data ) { + return _empty(data) ? + data : + typeof data === 'string' ? + data + .replace( _re_new_lines, " " ) + .replace( _re_html, "" ) : + ''; }, - - "numeric-desc": function ( x, y ) - { - return y - x; + + string: function ( data ) { + return _empty(data) ? + data : + typeof data === 'string' ? + data.replace( _re_new_lines, " " ) : + data; } } ); - $.extend( DataTable.ext.aTypes, [ - /* - * Function: - - * Purpose: Check to see if a string is numeric - * Returns: string:'numeric' or null - * Inputs: mixed:sText - string to check - */ - function ( sData ) - { - /* Allow zero length strings as a number */ - if ( typeof sData === 'number' ) - { - return 'numeric'; - } - else if ( typeof sData !== 'string' ) - { - return null; + + var __numericReplace = function ( d, decimalPlace, re1, re2 ) { + if ( d !== 0 && (!d || d === '-') ) { + return -Infinity; + } + + // If a decimal place other than `.` is used, it needs to be given to the + // function so we can detect it and replace with a `.` which is the only + // decimal place Javascript recognises - it is not locale aware. + if ( decimalPlace ) { + d = _numToDecimal( d, decimalPlace ); + } + + if ( d.replace ) { + if ( re1 ) { + d = d.replace( re1, '' ); } - - var sValidFirstChars = "0123456789-"; - var sValidChars = "0123456789."; - var Char; - var bDecimal = false; - - /* Check for a valid first char (no period and allow negatives) */ - Char = sData.charAt(0); - if (sValidFirstChars.indexOf(Char) == -1) - { - return null; + + if ( re2 ) { + d = d.replace( re2, '' ); } - - /* Check all the other characters are valid */ - for ( var i=1 ; i<sData.length ; i++ ) + } + + return d * 1; + }; + + + // Add the numeric 'deformatting' functions for sorting and search. This is done + // in a function to provide an easy ability for the language options to add + // additional methods if a non-period decimal place is used. + function _addNumericSort ( decimalPlace ) { + $.each( { - Char = sData.charAt(i); - if (sValidChars.indexOf(Char) == -1) - { - return null; + // Plain numbers + "num": function ( d ) { + return __numericReplace( d, decimalPlace ); + }, + + // Formatted numbers + "num-fmt": function ( d ) { + return __numericReplace( d, decimalPlace, _re_formatted_numeric ); + }, + + // HTML numeric + "html-num": function ( d ) { + return __numericReplace( d, decimalPlace, _re_html ); + }, + + // HTML numeric, formatted + "html-num-fmt": function ( d ) { + return __numericReplace( d, decimalPlace, _re_html, _re_formatted_numeric ); } - - /* Only allowed one decimal place... */ - if ( Char == "." ) - { - if ( bDecimal ) - { - return null; - } - bDecimal = true; + }, + function ( key, fn ) { + // Add the ordering method + _ext.type.order[ key+decimalPlace+'-pre' ] = fn; + + // For HTML types add a search formatter that will strip the HTML + if ( key.match(/^html\-/) ) { + _ext.type.search[ key+decimalPlace ] = _ext.type.search.html; } } - - return 'numeric'; + ); + } + + + // Default sort methods + $.extend( _ext.type.order, { + // Dates + "date-pre": function ( d ) { + return Date.parse( d ) || 0; }, - - /* - * Function: - - * Purpose: Check to see if a string is actually a formatted date - * Returns: string:'date' or null - * Inputs: string:sText - string to check - */ - function ( sData ) - { - var iParse = Date.parse(sData); - if ( (iParse !== null && !isNaN(iParse)) || (typeof sData === 'string' && sData.length === 0) ) - { - return 'date'; - } - return null; + + // html + "html-pre": function ( a ) { + return _empty(a) ? + '' : + a.replace ? + a.replace( /<.*?>/g, "" ).toLowerCase() : + a+''; }, - - /* - * Function: - - * Purpose: Check to see if a string should be treated as an HTML string - * Returns: string:'html' or null - * Inputs: string:sText - string to check - */ - function ( sData ) - { - if ( typeof sData === 'string' && sData.indexOf('<') != -1 && sData.indexOf('>') != -1 ) - { - return 'html'; + + // string + "string-pre": function ( a ) { + // This is a little complex, but faster than always calling toString, + // http://jsperf.com/tostring-v-check + return _empty(a) ? + '' : + typeof a === 'string' ? + a.toLowerCase() : + ! a.toString ? + '' : + a.toString(); + }, + + // string-asc and -desc are retained only for compatibility with the old + // sort methods + "string-asc": function ( x, y ) { + return ((x < y) ? -1 : ((x > y) ? 1 : 0)); + }, + + "string-desc": function ( x, y ) { + return ((x < y) ? 1 : ((x > y) ? -1 : 0)); + } + } ); + + + // Numeric sorting types - order doesn't matter here + _addNumericSort( '' ); + + + $.extend( true, DataTable.ext.renderer, { + header: { + _: function ( settings, cell, column, classes ) { + // No additional mark-up required + // Attach a sort listener to update on sort - note that using the + // `DT` namespace will allow the event to be removed automatically + // on destroy, while the `dt` namespaced event is the one we are + // listening for + $(settings.nTable).on( 'order.dt.DT', function ( e, ctx, sorting, columns ) { + if ( settings !== ctx ) { // need to check this this is the host + return; // table, not a nested one + } + + var colIdx = column.idx; + + cell + .removeClass( + column.sSortingClass +' '+ + classes.sSortAsc +' '+ + classes.sSortDesc + ) + .addClass( columns[ colIdx ] == 'asc' ? + classes.sSortAsc : columns[ colIdx ] == 'desc' ? + classes.sSortDesc : + column.sSortingClass + ); + } ); + }, + + jqueryui: function ( settings, cell, column, classes ) { + $('<div/>') + .addClass( classes.sSortJUIWrapper ) + .append( cell.contents() ) + .append( $('<span/>') + .addClass( classes.sSortIcon+' '+column.sSortingClassJUI ) + ) + .appendTo( cell ); + + // Attach a sort listener to update on sort + $(settings.nTable).on( 'order.dt.DT', function ( e, ctx, sorting, columns ) { + if ( settings !== ctx ) { + return; + } + + var colIdx = column.idx; + + cell + .removeClass( classes.sSortAsc +" "+classes.sSortDesc ) + .addClass( columns[ colIdx ] == 'asc' ? + classes.sSortAsc : columns[ colIdx ] == 'desc' ? + classes.sSortDesc : + column.sSortingClass + ); + + cell + .find( 'span.'+classes.sSortIcon ) + .removeClass( + classes.sSortJUIAsc +" "+ + classes.sSortJUIDesc +" "+ + classes.sSortJUI +" "+ + classes.sSortJUIAscAllowed +" "+ + classes.sSortJUIDescAllowed + ) + .addClass( columns[ colIdx ] == 'asc' ? + classes.sSortJUIAsc : columns[ colIdx ] == 'desc' ? + classes.sSortJUIDesc : + column.sSortingClassJUI + ); + } ); } - return null; } - ] ); + } ); + + /* + * Public helper functions. These aren't used internally by DataTables, or + * called by any of the options passed into DataTables, but they can be used + * externally by developers working with DataTables. They are helper functions + * to make working with DataTables a little bit easier. + */ + + /** + * Helpers for `columns.render`. + * + * The options defined here can be used with the `columns.render` initialisation + * option to provide a display renderer. The following functions are defined: + * + * * `number` - Will format numeric data (defined by `columns.data`) for + * display, retaining the original unformatted data for sorting and filtering. + * It takes 4 parameters: + * * `string` - Thousands grouping separator + * * `string` - Decimal point indicator + * * `integer` - Number of decimal points to show + * * `string` (optional) - Prefix. + * + * @example + * // Column definition using the number renderer + * { + * data: "salary", + * render: $.fn.dataTable.render.number( '\'', '.', 0, '$' ) + * } + * + * @namespace + */ + DataTable.render = { + number: function ( thousands, decimal, precision, prefix ) { + return { + display: function ( d ) { + if ( typeof d !== 'number' && typeof d !== 'string' ) { + return d; + } + + var negative = d < 0 ? '-' : ''; + d = Math.abs( parseFloat( d ) ); + + var intPart = parseInt( d, 10 ); + var floatPart = precision ? + decimal+(d - intPart).toFixed( precision ).substring( 2 ): + ''; + + return negative + (prefix||'') + + intPart.toString().replace( + /\B(?=(\d{3})+(?!\d))/g, thousands + ) + + floatPart; + } + }; + } + }; + + + /* + * This is really a good bit rubbish this method of exposing the internal methods + * publicly... - To be fixed in 2.0 using methods on the prototype + */ + + + /** + * Create a wrapper function for exporting an internal functions to an external API. + * @param {string} fn API function name + * @returns {function} wrapped function + * @memberof DataTable#internal + */ + function _fnExternApiFunc (fn) + { + return function() { + var args = [_fnSettingsFromNode( this[DataTable.ext.iApiIndex] )].concat( + Array.prototype.slice.call(arguments) + ); + return DataTable.ext.internal[fn].apply( this, args ); + }; + } + + + /** + * Reference to internal functions for use by plug-in developers. Note that + * these methods are references to internal functions and are considered to be + * private. If you use these methods, be aware that they are liable to change + * between versions. + * @namespace + */ + $.extend( DataTable.ext.internal, { + _fnExternApiFunc: _fnExternApiFunc, + _fnBuildAjax: _fnBuildAjax, + _fnAjaxUpdate: _fnAjaxUpdate, + _fnAjaxParameters: _fnAjaxParameters, + _fnAjaxUpdateDraw: _fnAjaxUpdateDraw, + _fnAjaxDataSrc: _fnAjaxDataSrc, + _fnAddColumn: _fnAddColumn, + _fnColumnOptions: _fnColumnOptions, + _fnAdjustColumnSizing: _fnAdjustColumnSizing, + _fnVisibleToColumnIndex: _fnVisibleToColumnIndex, + _fnColumnIndexToVisible: _fnColumnIndexToVisible, + _fnVisbleColumns: _fnVisbleColumns, + _fnGetColumns: _fnGetColumns, + _fnColumnTypes: _fnColumnTypes, + _fnApplyColumnDefs: _fnApplyColumnDefs, + _fnHungarianMap: _fnHungarianMap, + _fnCamelToHungarian: _fnCamelToHungarian, + _fnLanguageCompat: _fnLanguageCompat, + _fnBrowserDetect: _fnBrowserDetect, + _fnAddData: _fnAddData, + _fnAddTr: _fnAddTr, + _fnNodeToDataIndex: _fnNodeToDataIndex, + _fnNodeToColumnIndex: _fnNodeToColumnIndex, + _fnGetCellData: _fnGetCellData, + _fnSetCellData: _fnSetCellData, + _fnSplitObjNotation: _fnSplitObjNotation, + _fnGetObjectDataFn: _fnGetObjectDataFn, + _fnSetObjectDataFn: _fnSetObjectDataFn, + _fnGetDataMaster: _fnGetDataMaster, + _fnClearTable: _fnClearTable, + _fnDeleteIndex: _fnDeleteIndex, + _fnInvalidate: _fnInvalidate, + _fnGetRowElements: _fnGetRowElements, + _fnCreateTr: _fnCreateTr, + _fnBuildHead: _fnBuildHead, + _fnDrawHead: _fnDrawHead, + _fnDraw: _fnDraw, + _fnReDraw: _fnReDraw, + _fnAddOptionsHtml: _fnAddOptionsHtml, + _fnDetectHeader: _fnDetectHeader, + _fnGetUniqueThs: _fnGetUniqueThs, + _fnFeatureHtmlFilter: _fnFeatureHtmlFilter, + _fnFilterComplete: _fnFilterComplete, + _fnFilterCustom: _fnFilterCustom, + _fnFilterColumn: _fnFilterColumn, + _fnFilter: _fnFilter, + _fnFilterCreateSearch: _fnFilterCreateSearch, + _fnEscapeRegex: _fnEscapeRegex, + _fnFilterData: _fnFilterData, + _fnFeatureHtmlInfo: _fnFeatureHtmlInfo, + _fnUpdateInfo: _fnUpdateInfo, + _fnInfoMacros: _fnInfoMacros, + _fnInitialise: _fnInitialise, + _fnInitComplete: _fnInitComplete, + _fnLengthChange: _fnLengthChange, + _fnFeatureHtmlLength: _fnFeatureHtmlLength, + _fnFeatureHtmlPaginate: _fnFeatureHtmlPaginate, + _fnPageChange: _fnPageChange, + _fnFeatureHtmlProcessing: _fnFeatureHtmlProcessing, + _fnProcessingDisplay: _fnProcessingDisplay, + _fnFeatureHtmlTable: _fnFeatureHtmlTable, + _fnScrollDraw: _fnScrollDraw, + _fnApplyToChildren: _fnApplyToChildren, + _fnCalculateColumnWidths: _fnCalculateColumnWidths, + _fnThrottle: _fnThrottle, + _fnConvertToWidth: _fnConvertToWidth, + _fnScrollingWidthAdjust: _fnScrollingWidthAdjust, + _fnGetWidestNode: _fnGetWidestNode, + _fnGetMaxLenString: _fnGetMaxLenString, + _fnStringToCss: _fnStringToCss, + _fnScrollBarWidth: _fnScrollBarWidth, + _fnSortFlatten: _fnSortFlatten, + _fnSort: _fnSort, + _fnSortAria: _fnSortAria, + _fnSortListener: _fnSortListener, + _fnSortAttachListener: _fnSortAttachListener, + _fnSortingClasses: _fnSortingClasses, + _fnSortData: _fnSortData, + _fnSaveState: _fnSaveState, + _fnLoadState: _fnLoadState, + _fnSettingsFromNode: _fnSettingsFromNode, + _fnLog: _fnLog, + _fnMap: _fnMap, + _fnBindAction: _fnBindAction, + _fnCallbackReg: _fnCallbackReg, + _fnCallbackFire: _fnCallbackFire, + _fnLengthOverflow: _fnLengthOverflow, + _fnRenderer: _fnRenderer, + _fnDataSource: _fnDataSource, + _fnRowAttributes: _fnRowAttributes, + _fnCalculateEnd: function () {} // Used by a lot of plug-ins, but redundant + // in 1.10, so this dead-end function is + // added to prevent errors + } ); - // jQuery aliases - $.fn.DataTable = DataTable; + // jQuery access $.fn.dataTable = DataTable; + + // Legacy aliases $.fn.dataTableSettings = DataTable.settings; $.fn.dataTableExt = DataTable.ext; + // With a capital `D` we return a DataTables API instance rather than a + // jQuery object + $.fn.DataTable = function ( opts ) { + return $(this).dataTable( opts ).api(); + }; + + // All properties that are available to $.fn.dataTable should also be + // available on $.fn.DataTable + $.each( DataTable, function ( prop, val ) { + $.fn.DataTable[ prop ] = val; + } ); + // Information about events fired by DataTables - for documentation. /** - * Draw event, fired whenever the table is redrawn on the page, at the same point as - * fnDrawCallback. This may be useful for binding events or performing calculations when - * the table is altered at all. - * @name DataTable#draw + * Draw event, fired whenever the table is redrawn on the page, at the same + * point as fnDrawCallback. This may be useful for binding events or + * performing calculations when the table is altered at all. + * @name DataTable#draw.dt * @event * @param {event} e jQuery event object * @param {object} o DataTables settings object {@link DataTable.models.oSettings} */ /** - * Filter event, fired when the filtering applied to the table (using the build in global - * global filter, or column filters) is altered. - * @name DataTable#filter + * Search event, fired when the searching applied to the table (using the + * built-in global search, or column filters) is altered. + * @name DataTable#search.dt * @event * @param {event} e jQuery event object * @param {object} o DataTables settings object {@link DataTable.models.oSettings} @@ -12003,24 +14804,24 @@ /** * Page change event, fired when the paging of the table is altered. - * @name DataTable#page + * @name DataTable#page.dt * @event * @param {event} e jQuery event object * @param {object} o DataTables settings object {@link DataTable.models.oSettings} */ /** - * Sort event, fired when the sorting applied to the table is altered. - * @name DataTable#sort + * Order event, fired when the ordering applied to the table is altered. + * @name DataTable#order.dt * @event * @param {event} e jQuery event object * @param {object} o DataTables settings object {@link DataTable.models.oSettings} */ /** - * DataTables initialisation complete event, fired when the table is fully drawn, - * including Ajax data loaded, if Ajax data is required. - * @name DataTable#init + * DataTables initialisation complete event, fired when the table is fully + * drawn, including Ajax data loaded, if Ajax data is required. + * @name DataTable#init.dt * @event * @param {event} e jQuery event object * @param {object} oSettings DataTables settings object @@ -12029,11 +14830,11 @@ */ /** - * State save event, fired when the table has changed state a new state save is required. - * This method allows modification of the state saving object prior to actually doing the - * save, including addition or other state properties (for plug-ins) or modification - * of a DataTables core property. - * @name DataTable#stateSaveParams + * State save event, fired when the table has changed state a new state save + * is required. This event allows modification of the state saving object + * prior to actually doing the save, including addition or other state + * properties (for plug-ins) or modification of a DataTables core property. + * @name DataTable#stateSaveParams.dt * @event * @param {event} e jQuery event object * @param {object} oSettings DataTables settings object @@ -12041,10 +14842,11 @@ */ /** - * State load event, fired when the table is loading state from the stored data, but - * prior to the settings object being modified by the saved state - allowing modification - * of the saved state is required or loading of state for a plug-in. - * @name DataTable#stateLoadParams + * State load event, fired when the table is loading state from the stored + * data, but prior to the settings object being modified by the saved state + * - allowing modification of the saved state is required or loading of + * state for a plug-in. + * @name DataTable#stateLoadParams.dt * @event * @param {event} e jQuery event object * @param {object} oSettings DataTables settings object @@ -12052,9 +14854,9 @@ */ /** - * State loaded event, fired when state has been loaded from stored data and the settings - * object has been modified by the loaded data. - * @name DataTable#stateLoaded + * State loaded event, fired when state has been loaded from stored data and + * the settings object has been modified by the loaded data. + * @name DataTable#stateLoaded.dt * @event * @param {event} e jQuery event object * @param {object} oSettings DataTables settings object @@ -12062,10 +14864,11 @@ */ /** - * Processing event, fired when DataTables is doing some kind of processing (be it, - * sort, filter or anything else). Can be used to indicate to the end user that - * there is something happening, or that something has finished. - * @name DataTable#processing + * Processing event, fired when DataTables is doing some kind of processing + * (be it, order, searcg or anything else). It can be used to indicate to + * the end user that there is something happening, or that something has + * finished. + * @name DataTable#processing.dt * @event * @param {event} e jQuery event object * @param {object} oSettings DataTables settings object @@ -12073,26 +14876,75 @@ */ /** - * Ajax (XHR) event, fired whenever an Ajax request is completed from a request to - * made to the server for new data (note that this trigger is called in fnServerData, - * if you override fnServerData and which to use this event, you need to trigger it in - * you success function). - * @name DataTable#xhr + * Ajax (XHR) event, fired whenever an Ajax request is completed from a + * request to made to the server for new data. This event is called before + * DataTables processed the returned data, so it can also be used to pre- + * process the data returned from the server, if needed. + * + * Note that this trigger is called in `fnServerData`, if you override + * `fnServerData` and which to use this event, you need to trigger it in you + * success function. + * @name DataTable#xhr.dt * @event * @param {event} e jQuery event object * @param {object} o DataTables settings object {@link DataTable.models.oSettings} * @param {object} json JSON returned from the server + * + * @example + * // Use a custom property returned from the server in another DOM element + * $('#table').dataTable().on('xhr.dt', function (e, settings, json) { + * $('#status').html( json.status ); + * } ); + * + * @example + * // Pre-process the data returned from the server + * $('#table').dataTable().on('xhr.dt', function (e, settings, json) { + * for ( var i=0, ien=json.aaData.length ; i<ien ; i++ ) { + * json.aaData[i].sum = json.aaData[i].one + json.aaData[i].two; + * } + * // Note no return - manipulate the data directly in the JSON object. + * } ); + */ + + /** + * Destroy event, fired when the DataTable is destroyed by calling fnDestroy + * or passing the bDestroy:true parameter in the initialisation object. This + * can be used to remove bound events, added DOM nodes, etc. + * @name DataTable#destroy.dt + * @event + * @param {event} e jQuery event object + * @param {object} o DataTables settings object {@link DataTable.models.oSettings} + */ + + /** + * Page length change event, fired when number of records to show on each + * page (the length) is changed. + * @name DataTable#length.dt + * @event + * @param {event} e jQuery event object + * @param {object} o DataTables settings object {@link DataTable.models.oSettings} + * @param {integer} len New length + */ + + /** + * Column sizing has changed. + * @name DataTable#column-sizing.dt + * @event + * @param {event} e jQuery event object + * @param {object} o DataTables settings object {@link DataTable.models.oSettings} */ /** - * Destroy event, fired when the DataTable is destroyed by calling fnDestroy or passing - * the bDestroy:true parameter in the initialisation object. This can be used to remove - * bound events, added DOM nodes, etc. - * @name DataTable#destroy + * Column visibility has changed. + * @name DataTable#column-visibility.dt * @event * @param {event} e jQuery event object * @param {object} o DataTables settings object {@link DataTable.models.oSettings} + * @param {int} column Column index + * @param {bool} vis `false` if column now hidden, or `true` if visible */ + + return $.fn.dataTable; })); }(window, document)); diff --git a/wqflask/wqflask/static/new/packages/DataTables/js/jquery.dataTables.min.js b/wqflask/wqflask/static/new/packages/DataTables/js/jquery.dataTables.min.js index 02694a4a..85dd817e 100755 --- a/wqflask/wqflask/static/new/packages/DataTables/js/jquery.dataTables.min.js +++ b/wqflask/wqflask/static/new/packages/DataTables/js/jquery.dataTables.min.js @@ -1,155 +1,160 @@ -/* - * File: jquery.dataTables.min.js - * Version: 1.9.4 - * Author: Allan Jardine (www.sprymedia.co.uk) - * Info: www.datatables.net - * - * Copyright 2008-2012 Allan Jardine, all rights reserved. - * - * This source file is free software, under either the GPL v2 license or a - * BSD style license, available at: - * http://datatables.net/license_gpl2 - * http://datatables.net/license_bsd - * - * This source file is distributed in the hope that it will be useful, but - * WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY - * or FITNESS FOR A PARTICULAR PURPOSE. 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null},_fnDetectHeader:V,_fnGetUniqueThs:N,_fnScrollBarWidth:Qa,_fnApplyToChildren:C,_fnMap:p,_fnGetRowData:Y, -_fnGetCellData:v,_fnSetCellData:F,_fnGetObjectDataFn:Q,_fnSetObjectDataFn:L,_fnApplyColumnDefs:ta,_fnBindAction:Ra,_fnExtend:Ta,_fnCallbackReg:z,_fnCallbackFire:A,_fnJsonString:Wa,_fnRender:S,_fnNodeToColumnIndex:fa,_fnInfoMacros:ja,_fnBrowserDetect:Ua,_fnGetColumns:r};h.extend(j.ext.oApi,this.oApi);for(var sa in j.ext.oApi)sa&&(this[sa]=Va(sa));var ca=this;this.each(function(){var a=0,b,c,d;c=this.getAttribute("id");var i=!1,f=!1;if("table"!=this.nodeName.toLowerCase())D(null,0,"Attempted to initialise DataTables on a node which is not a table: "+ -this.nodeName);else{a=0;for(b=j.settings.length;a<b;a++){if(j.settings[a].nTable==this){if(e===n||e.bRetrieve)return j.settings[a].oInstance;if(e.bDestroy){j.settings[a].oInstance.fnDestroy();break}else{D(j.settings[a],0,"Cannot reinitialise DataTable.\n\nTo retrieve the DataTables object for this table, pass no arguments or see 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h=function(e,h){for(;e.length<h;)e+="0";return e},m=j.ext.sVersion.split("."), -e=e.split("."),k="",n="",l=0,t=e.length;l<t;l++)k+=h(m[l],3),n+=h(e[l],3);return parseInt(k,10)>=parseInt(n,10)};j.fnIsDataTable=function(e){for(var h=j.settings,m=0;m<h.length;m++)if(h[m].nTable===e||h[m].nScrollHead===e||h[m].nScrollFoot===e)return!0;return!1};j.fnTables=function(e){var o=[];jQuery.each(j.settings,function(j,k){(!e||!0===e&&h(k.nTable).is(":visible"))&&o.push(k.nTable)});return o};j.version="1.9.4";j.settings=[];j.models={};j.models.ext={afnFiltering:[],afnSortData:[],aoFeatures:[], -aTypes:[],fnVersionCheck:j.fnVersionCheck,iApiIndex:0,ofnSearch:{},oApi:{},oStdClasses:{},oJUIClasses:{},oPagination:{},oSort:{},sVersion:j.version,sErrMode:"alert",_oExternConfig:{iNextUnique:0}};j.models.oSearch={bCaseInsensitive:!0,sSearch:"",bRegex:!1,bSmart:!0};j.models.oRow={nTr:null,_aData:[],_aSortData:[],_anHidden:[],_sRowStripe:""};j.models.oColumn={aDataSort:null,asSorting:null,bSearchable:null,bSortable:null,bUseRendered:null,bVisible:null,_bAutoType:!0,fnCreatedCell:null,fnGetData:null, -fnRender:null,fnSetData:null,mData:null,mRender:null,nTh:null,nTf:null,sClass:null,sContentPadding:null,sDefaultContent:null,sName:null,sSortDataType:"std",sSortingClass:null,sSortingClassJUI:null,sTitle:null,sType:null,sWidth:null,sWidthOrig:null};j.defaults={aaData:null,aaSorting:[[0,"asc"]],aaSortingFixed:null,aLengthMenu:[10,25,50,100],aoColumns:null,aoColumnDefs:null,aoSearchCols:[],asStripeClasses:null,bAutoWidth:!0,bDeferRender:!1,bDestroy:!1,bFilter:!0,bInfo:!0,bJQueryUI:!1,bLengthChange:!0, -bPaginate:!0,bProcessing:!1,bRetrieve:!1,bScrollAutoCss:!0,bScrollCollapse:!1,bScrollInfinite:!1,bServerSide:!1,bSort:!0,bSortCellsTop:!1,bSortClasses:!0,bStateSave:!1,fnCookieCallback:null,fnCreatedRow:null,fnDrawCallback:null,fnFooterCallback:null,fnFormatNumber:function(e){if(1E3>e)return e;for(var h=e+"",e=h.split(""),j="",h=h.length,k=0;k<h;k++)0===k%3&&0!==k&&(j=this.oLanguage.sInfoThousands+j),j=e[h-k-1]+j;return j},fnHeaderCallback:null,fnInfoCallback:null,fnInitComplete:null,fnPreDrawCallback:null, -fnRowCallback:null,fnServerData:function(e,j,m,k){k.jqXHR=h.ajax({url:e,data:j,success:function(e){e.sError&&k.oApi._fnLog(k,0,e.sError);h(k.oInstance).trigger("xhr",[k,e]);m(e)},dataType:"json",cache:!1,type:k.sServerMethod,error:function(e,h){"parsererror"==h&&k.oApi._fnLog(k,0,"DataTables warning: JSON data from server could not be parsed. This is caused by a JSON formatting error.")}})},fnServerParams:null,fnStateLoad:function(e){var e=this.oApi._fnReadCookie(e.sCookiePrefix+e.sInstance),j;try{j= -"function"===typeof h.parseJSON?h.parseJSON(e):eval("("+e+")")}catch(m){j=null}return j},fnStateLoadParams:null,fnStateLoaded:null,fnStateSave:function(e,h){this.oApi._fnCreateCookie(e.sCookiePrefix+e.sInstance,this.oApi._fnJsonString(h),e.iCookieDuration,e.sCookiePrefix,e.fnCookieCallback)},fnStateSaveParams:null,iCookieDuration:7200,iDeferLoading:null,iDisplayLength:10,iDisplayStart:0,iScrollLoadGap:100,iTabIndex:0,oLanguage:{oAria:{sSortAscending:": activate to sort column ascending",sSortDescending:": activate to sort column descending"}, -oPaginate:{sFirst:"First",sLast:"Last",sNext:"Next",sPrevious:"Previous"},sEmptyTable:"No data available in table",sInfo:"Showing _START_ to _END_ of _TOTAL_ entries",sInfoEmpty:"Showing 0 to 0 of 0 entries",sInfoFiltered:"(filtered from _MAX_ total entries)",sInfoPostFix:"",sInfoThousands:",",sLengthMenu:"Show _MENU_ entries",sLoadingRecords:"Loading...",sProcessing:"Processing...",sSearch:"Search:",sUrl:"",sZeroRecords:"No matching records found"},oSearch:h.extend({},j.models.oSearch),sAjaxDataProp:"aaData", -sAjaxSource:null,sCookiePrefix:"SpryMedia_DataTables_",sDom:"lfrtip",sPaginationType:"two_button",sScrollX:"",sScrollXInner:"",sScrollY:"",sServerMethod:"GET"};j.defaults.columns={aDataSort:null,asSorting:["asc","desc"],bSearchable:!0,bSortable:!0,bUseRendered:!0,bVisible:!0,fnCreatedCell:null,fnRender:null,iDataSort:-1,mData:null,mRender:null,sCellType:"td",sClass:"",sContentPadding:"",sDefaultContent:null,sName:"",sSortDataType:"std",sTitle:null,sType:null,sWidth:null};j.models.oSettings={oFeatures:{bAutoWidth:null, -bDeferRender:null,bFilter:null,bInfo:null,bLengthChange:null,bPaginate:null,bProcessing:null,bServerSide:null,bSort:null,bSortClasses:null,bStateSave:null},oScroll:{bAutoCss:null,bCollapse:null,bInfinite:null,iBarWidth:0,iLoadGap:null,sX:null,sXInner:null,sY:null},oLanguage:{fnInfoCallback:null},oBrowser:{bScrollOversize:!1},aanFeatures:[],aoData:[],aiDisplay:[],aiDisplayMaster:[],aoColumns:[],aoHeader:[],aoFooter:[],asDataSearch:[],oPreviousSearch:{},aoPreSearchCols:[],aaSorting:null,aaSortingFixed:null, -asStripeClasses:null,asDestroyStripes:[],sDestroyWidth:0,aoRowCallback:[],aoHeaderCallback:[],aoFooterCallback:[],aoDrawCallback:[],aoRowCreatedCallback:[],aoPreDrawCallback:[],aoInitComplete:[],aoStateSaveParams:[],aoStateLoadParams:[],aoStateLoaded:[],sTableId:"",nTable:null,nTHead:null,nTFoot:null,nTBody:null,nTableWrapper:null,bDeferLoading:!1,bInitialised:!1,aoOpenRows:[],sDom:null,sPaginationType:"two_button",iCookieDuration:0,sCookiePrefix:"",fnCookieCallback:null,aoStateSave:[],aoStateLoad:[], -oLoadedState:null,sAjaxSource:null,sAjaxDataProp:null,bAjaxDataGet:!0,jqXHR:null,fnServerData:null,aoServerParams:[],sServerMethod:null,fnFormatNumber:null,aLengthMenu:null,iDraw:0,bDrawing:!1,iDrawError:-1,_iDisplayLength:10,_iDisplayStart:0,_iDisplayEnd:10,_iRecordsTotal:0,_iRecordsDisplay:0,bJUI:null,oClasses:{},bFiltered:!1,bSorted:!1,bSortCellsTop:null,oInit:null,aoDestroyCallback:[],fnRecordsTotal:function(){return this.oFeatures.bServerSide?parseInt(this._iRecordsTotal,10):this.aiDisplayMaster.length}, -fnRecordsDisplay:function(){return this.oFeatures.bServerSide?parseInt(this._iRecordsDisplay,10):this.aiDisplay.length},fnDisplayEnd:function(){return this.oFeatures.bServerSide?!1===this.oFeatures.bPaginate||-1==this._iDisplayLength?this._iDisplayStart+this.aiDisplay.length:Math.min(this._iDisplayStart+this._iDisplayLength,this._iRecordsDisplay):this._iDisplayEnd},oInstance:null,sInstance:null,iTabIndex:0,nScrollHead:null,nScrollFoot:null};j.ext=h.extend(!0,{},j.models.ext);h.extend(j.ext.oStdClasses, -{sTable:"dataTable",sPagePrevEnabled:"paginate_enabled_previous",sPagePrevDisabled:"paginate_disabled_previous",sPageNextEnabled:"paginate_enabled_next",sPageNextDisabled:"paginate_disabled_next",sPageJUINext:"",sPageJUIPrev:"",sPageButton:"paginate_button",sPageButtonActive:"paginate_active",sPageButtonStaticDisabled:"paginate_button paginate_button_disabled",sPageFirst:"first",sPagePrevious:"previous",sPageNext:"next",sPageLast:"last",sStripeOdd:"odd",sStripeEven:"even",sRowEmpty:"dataTables_empty", -sWrapper:"dataTables_wrapper",sFilter:"dataTables_filter",sInfo:"dataTables_info",sPaging:"dataTables_paginate paging_",sLength:"dataTables_length",sProcessing:"dataTables_processing",sSortAsc:"sorting_asc",sSortDesc:"sorting_desc",sSortable:"sorting",sSortableAsc:"sorting_asc_disabled",sSortableDesc:"sorting_desc_disabled",sSortableNone:"sorting_disabled",sSortColumn:"sorting_",sSortJUIAsc:"",sSortJUIDesc:"",sSortJUI:"",sSortJUIAscAllowed:"",sSortJUIDescAllowed:"",sSortJUIWrapper:"",sSortIcon:"", -sScrollWrapper:"dataTables_scroll",sScrollHead:"dataTables_scrollHead",sScrollHeadInner:"dataTables_scrollHeadInner",sScrollBody:"dataTables_scrollBody",sScrollFoot:"dataTables_scrollFoot",sScrollFootInner:"dataTables_scrollFootInner",sFooterTH:"",sJUIHeader:"",sJUIFooter:""});h.extend(j.ext.oJUIClasses,j.ext.oStdClasses,{sPagePrevEnabled:"fg-button ui-button ui-state-default ui-corner-left",sPagePrevDisabled:"fg-button ui-button ui-state-default ui-corner-left ui-state-disabled",sPageNextEnabled:"fg-button ui-button ui-state-default ui-corner-right", -sPageNextDisabled:"fg-button ui-button ui-state-default ui-corner-right ui-state-disabled",sPageJUINext:"ui-icon ui-icon-circle-arrow-e",sPageJUIPrev:"ui-icon ui-icon-circle-arrow-w",sPageButton:"fg-button ui-button ui-state-default",sPageButtonActive:"fg-button ui-button ui-state-default ui-state-disabled",sPageButtonStaticDisabled:"fg-button ui-button ui-state-default ui-state-disabled",sPageFirst:"first ui-corner-tl ui-corner-bl",sPageLast:"last ui-corner-tr ui-corner-br",sPaging:"dataTables_paginate fg-buttonset ui-buttonset fg-buttonset-multi ui-buttonset-multi paging_", -sSortAsc:"ui-state-default",sSortDesc:"ui-state-default",sSortable:"ui-state-default",sSortableAsc:"ui-state-default",sSortableDesc:"ui-state-default",sSortableNone:"ui-state-default",sSortJUIAsc:"css_right ui-icon ui-icon-triangle-1-n",sSortJUIDesc:"css_right ui-icon ui-icon-triangle-1-s",sSortJUI:"css_right ui-icon ui-icon-carat-2-n-s",sSortJUIAscAllowed:"css_right ui-icon ui-icon-carat-1-n",sSortJUIDescAllowed:"css_right ui-icon ui-icon-carat-1-s",sSortJUIWrapper:"DataTables_sort_wrapper",sSortIcon:"DataTables_sort_icon", -sScrollHead:"dataTables_scrollHead ui-state-default",sScrollFoot:"dataTables_scrollFoot ui-state-default",sFooterTH:"ui-state-default",sJUIHeader:"fg-toolbar ui-toolbar ui-widget-header ui-corner-tl ui-corner-tr ui-helper-clearfix",sJUIFooter:"fg-toolbar ui-toolbar ui-widget-header ui-corner-bl ui-corner-br ui-helper-clearfix"});h.extend(j.ext.oPagination,{two_button:{fnInit:function(e,j,m){var k=e.oLanguage.oPaginate,n=function(h){e.oApi._fnPageChange(e,h.data.action)&&m(e)},k=!e.bJUI?'<a class="'+ -e.oClasses.sPagePrevDisabled+'" tabindex="'+e.iTabIndex+'" role="button">'+k.sPrevious+'</a><a class="'+e.oClasses.sPageNextDisabled+'" tabindex="'+e.iTabIndex+'" role="button">'+k.sNext+"</a>":'<a class="'+e.oClasses.sPagePrevDisabled+'" tabindex="'+e.iTabIndex+'" role="button"><span class="'+e.oClasses.sPageJUIPrev+'"></span></a><a class="'+e.oClasses.sPageNextDisabled+'" tabindex="'+e.iTabIndex+'" role="button"><span class="'+e.oClasses.sPageJUINext+'"></span></a>';h(j).append(k);var l=h("a",j), -k=l[0],l=l[1];e.oApi._fnBindAction(k,{action:"previous"},n);e.oApi._fnBindAction(l,{action:"next"},n);e.aanFeatures.p||(j.id=e.sTableId+"_paginate",k.id=e.sTableId+"_previous",l.id=e.sTableId+"_next",k.setAttribute("aria-controls",e.sTableId),l.setAttribute("aria-controls",e.sTableId))},fnUpdate:function(e){if(e.aanFeatures.p)for(var h=e.oClasses,j=e.aanFeatures.p,k,l=0,n=j.length;l<n;l++)if(k=j[l].firstChild)k.className=0===e._iDisplayStart?h.sPagePrevDisabled:h.sPagePrevEnabled,k=k.nextSibling, -k.className=e.fnDisplayEnd()==e.fnRecordsDisplay()?h.sPageNextDisabled:h.sPageNextEnabled}},iFullNumbersShowPages:5,full_numbers:{fnInit:function(e,j,m){var k=e.oLanguage.oPaginate,l=e.oClasses,n=function(h){e.oApi._fnPageChange(e,h.data.action)&&m(e)};h(j).append('<a tabindex="'+e.iTabIndex+'" class="'+l.sPageButton+" "+l.sPageFirst+'">'+k.sFirst+'</a><a tabindex="'+e.iTabIndex+'" class="'+l.sPageButton+" "+l.sPagePrevious+'">'+k.sPrevious+'</a><span></span><a tabindex="'+e.iTabIndex+'" class="'+ -l.sPageButton+" "+l.sPageNext+'">'+k.sNext+'</a><a tabindex="'+e.iTabIndex+'" class="'+l.sPageButton+" "+l.sPageLast+'">'+k.sLast+"</a>");var t=h("a",j),k=t[0],l=t[1],r=t[2],t=t[3];e.oApi._fnBindAction(k,{action:"first"},n);e.oApi._fnBindAction(l,{action:"previous"},n);e.oApi._fnBindAction(r,{action:"next"},n);e.oApi._fnBindAction(t,{action:"last"},n);e.aanFeatures.p||(j.id=e.sTableId+"_paginate",k.id=e.sTableId+"_first",l.id=e.sTableId+"_previous",r.id=e.sTableId+"_next",t.id=e.sTableId+"_last")}, -fnUpdate:function(e,o){if(e.aanFeatures.p){var m=j.ext.oPagination.iFullNumbersShowPages,k=Math.floor(m/2),l=Math.ceil(e.fnRecordsDisplay()/e._iDisplayLength),n=Math.ceil(e._iDisplayStart/e._iDisplayLength)+1,t="",r,B=e.oClasses,u,M=e.aanFeatures.p,L=function(h){e.oApi._fnBindAction(this,{page:h+r-1},function(h){e.oApi._fnPageChange(e,h.data.page);o(e);h.preventDefault()})};-1===e._iDisplayLength?n=k=r=1:l<m?(r=1,k=l):n<=k?(r=1,k=m):n>=l-k?(r=l-m+1,k=l):(r=n-Math.ceil(m/2)+1,k=r+m-1);for(m=r;m<=k;m++)t+= -n!==m?'<a tabindex="'+e.iTabIndex+'" class="'+B.sPageButton+'">'+e.fnFormatNumber(m)+"</a>":'<a tabindex="'+e.iTabIndex+'" class="'+B.sPageButtonActive+'">'+e.fnFormatNumber(m)+"</a>";m=0;for(k=M.length;m<k;m++)u=M[m],u.hasChildNodes()&&(h("span:eq(0)",u).html(t).children("a").each(L),u=u.getElementsByTagName("a"),u=[u[0],u[1],u[u.length-2],u[u.length-1]],h(u).removeClass(B.sPageButton+" "+B.sPageButtonActive+" "+B.sPageButtonStaticDisabled),h([u[0],u[1]]).addClass(1==n?B.sPageButtonStaticDisabled: 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h,j=!1;h=e.charAt(0);if(-1=="0123456789-".indexOf(h))return null; -for(var k=1;k<e.length;k++){h=e.charAt(k);if(-1=="0123456789.".indexOf(h))return null;if("."==h){if(j)return null;j=!0}}return"numeric"},function(e){var h=Date.parse(e);return null!==h&&!isNaN(h)||"string"===typeof e&&0===e.length?"date":null},function(e){return"string"===typeof e&&-1!=e.indexOf("<")&&-1!=e.indexOf(">")?"html":null}]);h.fn.DataTable=j;h.fn.dataTable=j;h.fn.dataTableSettings=j.settings;h.fn.dataTableExt=j.ext};"function"===typeof define&&define.amd?define(["jquery"],L):jQuery&&!jQuery.fn.dataTable&& -L(jQuery)})(window,document); +(function(Ea,Q,k){var P=function(h){function W(a){var b,c,e={};h.each(a,function(d){if((b=d.match(/^([^A-Z]+?)([A-Z])/))&&-1!=="a aa ai ao as b fn i m o s ".indexOf(b[1]+" "))c=d.replace(b[0],b[2].toLowerCase()),e[c]=d,"o"===b[1]&&W(a[d])});a._hungarianMap=e}function H(a,b,c){a._hungarianMap||W(a);var 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d.bServerSide?!1===f||-1===a?b+e:Math.min(b+a,this._iRecordsDisplay):!f||c>e||-1===a?e:c},oInstance:null,sInstance:null,iTabIndex:0,nScrollHead:null,nScrollFoot:null,aLastSort:[],oPlugins:{}};m.ext=u={buttons:{},classes:{},errMode:"alert",feature:[],search:[],selector:{cell:[],column:[],row:[]},internal:{},legacy:{ajax:null},pager:{},renderer:{pageButton:{}, +header:{}},order:{},type:{detect:[],search:{},order:{}},_unique:0,fnVersionCheck:m.fnVersionCheck,iApiIndex:0,oJUIClasses:{},sVersion:m.version};h.extend(u,{afnFiltering:u.search,aTypes:u.type.detect,ofnSearch:u.type.search,oSort:u.type.order,afnSortData:u.order,aoFeatures:u.feature,oApi:u.internal,oStdClasses:u.classes,oPagination:u.pager});h.extend(m.ext.classes,{sTable:"dataTable",sNoFooter:"no-footer",sPageButton:"paginate_button",sPageButtonActive:"current",sPageButtonDisabled:"disabled",sStripeOdd:"odd", 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ui-helper-clearfix";h.extend(m.ext.oJUIClasses, +m.ext.classes,{sPageButton:"fg-button ui-button "+F,sPageButtonActive:"ui-state-disabled",sPageButtonDisabled:"ui-state-disabled",sPaging:"dataTables_paginate fg-buttonset ui-buttonset fg-buttonset-multi ui-buttonset-multi paging_",sSortAsc:F+" sorting_asc",sSortDesc:F+" sorting_desc",sSortable:F+" sorting",sSortableAsc:F+" sorting_asc_disabled",sSortableDesc:F+" sorting_desc_disabled",sSortableNone:F+" sorting_disabled",sSortJUIAsc:ja+"triangle-1-n",sSortJUIDesc:ja+"triangle-1-s",sSortJUI:ja+"carat-2-n-s", +sSortJUIAscAllowed:ja+"carat-1-n",sSortJUIDescAllowed:ja+"carat-1-s",sSortJUIWrapper:"DataTables_sort_wrapper",sSortIcon:"DataTables_sort_icon",sScrollHead:"dataTables_scrollHead "+F,sScrollFoot:"dataTables_scrollFoot "+F,sHeaderTH:F,sFooterTH:F,sJUIHeader:Xb+" ui-corner-tl ui-corner-tr",sJUIFooter:Xb+" ui-corner-bl ui-corner-br"});var Mb=m.ext.pager;h.extend(Mb,{simple:function(){return["previous","next"]},full:function(){return["first","previous","next","last"]},simple_numbers:function(a,b){return["previous", +Wa(a,b),"next"]},full_numbers:function(a,b){return["first","previous",Wa(a,b),"next","last"]},_numbers:Wa,numbers_length:7});h.extend(!0,m.ext.renderer,{pageButton:{_:function(a,b,c,e,d,f){var g=a.oClasses,j=a.oLanguage.oPaginate,i,k,l=0,m=function(b,e){var n,r,t,s,u=function(b){Ta(a,b.data.action,true)};n=0;for(r=e.length;n<r;n++){s=e[n];if(h.isArray(s)){t=h("<"+(s.DT_el||"div")+"/>").appendTo(b);m(t,s)}else{k=i="";switch(s){case "ellipsis":b.append('<span class="ellipsis">…</span>');break; +case "first":i=j.sFirst;k=s+(d>0?"":" "+g.sPageButtonDisabled);break;case "previous":i=j.sPrevious;k=s+(d>0?"":" "+g.sPageButtonDisabled);break;case "next":i=j.sNext;k=s+(d<f-1?"":" "+g.sPageButtonDisabled);break;case "last":i=j.sLast;k=s+(d<f-1?"":" 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"+e.sSortDesc).addClass(h[d]=="asc"?e.sSortAsc:h[d]=="desc"?e.sSortDesc:c.sSortingClass)}})},jqueryui:function(a,b,c,e){h("<div/>").addClass(e.sSortJUIWrapper).append(b.contents()).append(h("<span/>").addClass(e.sSortIcon+" "+c.sSortingClassJUI)).appendTo(b);h(a.nTable).on("order.dt.DT",function(d,f,g,h){if(a===f){d=c.idx;b.removeClass(e.sSortAsc+" "+e.sSortDesc).addClass(h[d]=="asc"?e.sSortAsc:h[d]=="desc"?e.sSortDesc:c.sSortingClass); +b.find("span."+e.sSortIcon).removeClass(e.sSortJUIAsc+" "+e.sSortJUIDesc+" "+e.sSortJUI+" "+e.sSortJUIAscAllowed+" "+e.sSortJUIDescAllowed).addClass(h[d]=="asc"?e.sSortJUIAsc:h[d]=="desc"?e.sSortJUIDesc:c.sSortingClassJUI)}})}}});m.render={number:function(a,b,c,e){return{display:function(d){if("number"!==typeof d&&"string"!==typeof d)return d;var f=0>d?"-":"",d=Math.abs(parseFloat(d)),g=parseInt(d,10),d=c?b+(d-g).toFixed(c).substring(2):"";return f+(e||"")+g.toString().replace(/\B(?=(\d{3})+(?!\d))/g, +a)+d}}}};h.extend(m.ext.internal,{_fnExternApiFunc:Nb,_fnBuildAjax:ra,_fnAjaxUpdate:kb,_fnAjaxParameters:tb,_fnAjaxUpdateDraw:ub,_fnAjaxDataSrc:sa,_fnAddColumn:Fa,_fnColumnOptions:ka,_fnAdjustColumnSizing:X,_fnVisibleToColumnIndex:la,_fnColumnIndexToVisible:$,_fnVisbleColumns:aa,_fnGetColumns:Z,_fnColumnTypes:Ha,_fnApplyColumnDefs:ib,_fnHungarianMap:W,_fnCamelToHungarian:H,_fnLanguageCompat:P,_fnBrowserDetect:gb,_fnAddData:K,_fnAddTr:ma,_fnNodeToDataIndex:function(a,b){return b._DT_RowIndex!==k?b._DT_RowIndex: +null},_fnNodeToColumnIndex:function(a,b,c){return h.inArray(c,a.aoData[b].anCells)},_fnGetCellData:x,_fnSetCellData:Ia,_fnSplitObjNotation:Ka,_fnGetObjectDataFn:R,_fnSetObjectDataFn:S,_fnGetDataMaster:La,_fnClearTable:oa,_fnDeleteIndex:pa,_fnInvalidate:ca,_fnGetRowElements:na,_fnCreateTr:Ja,_fnBuildHead:jb,_fnDrawHead:ea,_fnDraw:M,_fnReDraw:N,_fnAddOptionsHtml:mb,_fnDetectHeader:da,_fnGetUniqueThs:qa,_fnFeatureHtmlFilter:ob,_fnFilterComplete:fa,_fnFilterCustom:xb,_fnFilterColumn:wb,_fnFilter:vb,_fnFilterCreateSearch:Qa, +_fnEscapeRegex:va,_fnFilterData:yb,_fnFeatureHtmlInfo:rb,_fnUpdateInfo:Bb,_fnInfoMacros:Cb,_fnInitialise:ga,_fnInitComplete:ta,_fnLengthChange:Ra,_fnFeatureHtmlLength:nb,_fnFeatureHtmlPaginate:sb,_fnPageChange:Ta,_fnFeatureHtmlProcessing:pb,_fnProcessingDisplay:C,_fnFeatureHtmlTable:qb,_fnScrollDraw:Y,_fnApplyToChildren:G,_fnCalculateColumnWidths:Ga,_fnThrottle:ua,_fnConvertToWidth:Db,_fnScrollingWidthAdjust:Fb,_fnGetWidestNode:Eb,_fnGetMaxLenString:Gb,_fnStringToCss:s,_fnScrollBarWidth:Hb,_fnSortFlatten:U, +_fnSort:lb,_fnSortAria:Jb,_fnSortListener:Ua,_fnSortAttachListener:Oa,_fnSortingClasses:xa,_fnSortData:Ib,_fnSaveState:ya,_fnLoadState:Kb,_fnSettingsFromNode:za,_fnLog:I,_fnMap:E,_fnBindAction:Va,_fnCallbackReg:z,_fnCallbackFire:w,_fnLengthOverflow:Sa,_fnRenderer:Pa,_fnDataSource:B,_fnRowAttributes:Ma,_fnCalculateEnd:function(){}});h.fn.dataTable=m;h.fn.dataTableSettings=m.settings;h.fn.dataTableExt=m.ext;h.fn.DataTable=function(a){return h(this).dataTable(a).api()};h.each(m,function(a,b){h.fn.DataTable[a]= +b});return h.fn.dataTable};"function"===typeof define&&define.amd?define("datatables",["jquery"],P):"object"===typeof exports?module.exports=P(require("jquery")):jQuery&&!jQuery.fn.dataTable&&P(jQuery)})(window,document); diff --git a/wqflask/wqflask/static/new/packages/DataTables/js/jquery.js b/wqflask/wqflask/static/new/packages/DataTables/js/jquery.js index 63174a0d..fdd413a6 100755 --- a/wqflask/wqflask/static/new/packages/DataTables/js/jquery.js +++ 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\ No newline at end of file diff --git a/wqflask/wqflask/static/new/packages/noUiSlider/nouislider.css b/wqflask/wqflask/static/new/packages/noUiSlider/nouislider.css new file mode 100644 index 00000000..d07b87f6 --- /dev/null +++ b/wqflask/wqflask/static/new/packages/noUiSlider/nouislider.css @@ -0,0 +1,162 @@ + +/* Functional styling; + * These styles are required for noUiSlider to function. + * You don't need to change these rules to apply your design. + */ +.noUi-target, +.noUi-target * { +-webkit-touch-callout: none; +-webkit-user-select: none; +-ms-touch-action: none; +-ms-user-select: none; +-moz-user-select: none; +-moz-box-sizing: border-box; + box-sizing: border-box; +} +.noUi-target { + position: relative; + direction: ltr; +} +.noUi-base { + width: 100%; + height: 100%; + position: relative; + z-index: 1; /* Fix 401 */ +} +.noUi-origin { + position: absolute; + right: 0; + top: 0; + left: 0; + bottom: 0; +} +.noUi-handle { + position: relative; + z-index: 1; +} +.noUi-stacking .noUi-handle { +/* This class is applied to the lower origin when + its values is > 50%. */ + z-index: 10; +} +.noUi-state-tap .noUi-origin { +-webkit-transition: left 0.3s, top 0.3s; + transition: left 0.3s, top 0.3s; +} +.noUi-state-drag * { + cursor: inherit !important; +} + +/* Painting and performance; + * Browsers can paint handles in their own layer. + */ +.noUi-base { + -webkit-transform: translate3d(0,0,0); + transform: translate3d(0,0,0); +} + +/* Slider size and handle placement; + */ +.noUi-horizontal { + height: 18px; +} +.noUi-horizontal .noUi-handle { + width: 34px; + height: 28px; + left: -17px; + top: -6px; +} +.noUi-vertical { + width: 18px; +} +.noUi-vertical .noUi-handle { + width: 28px; + height: 34px; + left: -6px; + top: -17px; +} + +/* Styling; + */ +.noUi-background { + background: #FAFAFA; + box-shadow: inset 0 1px 1px #f0f0f0; +} +.noUi-connect { + background: #3FB8AF; + box-shadow: inset 0 0 3px rgba(51,51,51,0.45); +-webkit-transition: background 450ms; + transition: background 450ms; +} +.noUi-origin { + border-radius: 2px; +} +.noUi-target { + border-radius: 4px; + border: 1px solid #D3D3D3; + box-shadow: inset 0 1px 1px #F0F0F0, 0 3px 6px -5px #BBB; +} +.noUi-target.noUi-connect { + box-shadow: inset 0 0 3px rgba(51,51,51,0.45), 0 3px 6px -5px #BBB; +} + +/* Handles and cursors; + */ +.noUi-dragable { + cursor: w-resize; +} +.noUi-vertical .noUi-dragable { + cursor: n-resize; +} +.noUi-handle { + border: 1px solid #D9D9D9; + border-radius: 3px; + background: #FFF; + cursor: default; + box-shadow: inset 0 0 1px #FFF, + inset 0 1px 7px #EBEBEB, + 0 3px 6px -3px #BBB; +} +.noUi-active { + box-shadow: inset 0 0 1px #FFF, + inset 0 1px 7px #DDD, + 0 3px 6px -3px #BBB; +} + +/* Handle stripes; + */ +.noUi-handle:before, +.noUi-handle:after { + content: ""; + display: block; + position: absolute; + height: 14px; + width: 1px; + background: #E8E7E6; + left: 14px; + top: 6px; +} +.noUi-handle:after { + left: 17px; +} +.noUi-vertical .noUi-handle:before, +.noUi-vertical .noUi-handle:after { + width: 14px; + height: 1px; + left: 6px; + top: 14px; +} +.noUi-vertical .noUi-handle:after { + top: 17px; +} + +/* Disabled state; + */ +[disabled].noUi-connect, +[disabled] .noUi-connect { + background: #B8B8B8; +} +[disabled].noUi-origin, +[disabled] .noUi-handle { + cursor: not-allowed; +} diff --git a/wqflask/wqflask/static/new/packages/noUiSlider/nouislider.js b/wqflask/wqflask/static/new/packages/noUiSlider/nouislider.js new file mode 100644 index 00000000..67ae7549 --- /dev/null +++ b/wqflask/wqflask/static/new/packages/noUiSlider/nouislider.js @@ -0,0 +1,1629 @@ +/*! nouislider - 8.0.2 - 2015-07-06 13:22:09 */
+
+/*jslint browser: true */
+/*jslint white: true */
+
+(function (factory) {
+
+ if ( typeof define === 'function' && define.amd ) {
+
+ // AMD. Register as an anonymous module.
+ define([], factory);
+
+ } else if ( typeof exports === 'object' ) {
+
+ var fs = require('fs');
+
+ // Node/CommonJS
+ module.exports = factory();
+ module.exports.css = function () {
+ return fs.readFileSync(__dirname + '/nouislider.min.css', 'utf8');
+ };
+
+ } else {
+
+ // Browser globals
+ window.noUiSlider = factory();
+ }
+
+}(function( ){
+
+ 'use strict';
+
+
+ // Removes duplicates from an array.
+ function unique(array) {
+ return array.filter(function(a){
+ return !this[a] ? this[a] = true : false;
+ }, {});
+ }
+
+ // Round a value to the closest 'to'.
+ function closest ( value, to ) {
+ return Math.round(value / to) * to;
+ }
+
+ // Current position of an element relative to the document.
+ function offset ( elem ) {
+
+ var rect = elem.getBoundingClientRect(),
+ doc = elem.ownerDocument,
+ win = doc.defaultView || doc.parentWindow,
+ docElem = doc.documentElement,
+ xOff = win.pageXOffset;
+
+ // getBoundingClientRect contains left scroll in Chrome on Android.
+ // I haven't found a feature detection that proves this. Worst case
+ // scenario on mis-match: the 'tap' feature on horizontal sliders breaks.
+ if ( /webkit.*Chrome.*Mobile/i.test(navigator.userAgent) ) {
+ xOff = 0;
+ }
+
+ return {
+ top: rect.top + win.pageYOffset - docElem.clientTop,
+ left: rect.left + xOff - docElem.clientLeft
+ };
+ }
+
+ // Checks whether a value is numerical.
+ function isNumeric ( a ) {
+ return typeof a === 'number' && !isNaN( a ) && isFinite( a );
+ }
+
+ // Rounds a number to 7 supported decimals.
+ function accurateNumber( number ) {
+ var p = Math.pow(10, 7);
+ return Number((Math.round(number*p)/p).toFixed(7));
+ }
+
+ // Sets a class and removes it after [duration] ms.
+ function addClassFor ( element, className, duration ) {
+ addClass(element, className);
+ setTimeout(function(){
+ removeClass(element, className);
+ }, duration);
+ }
+
+ // Limits a value to 0 - 100
+ function limit ( a ) {
+ return Math.max(Math.min(a, 100), 0);
+ }
+
+ // Wraps a variable as an array, if it isn't one yet.
+ function asArray ( a ) {
+ return Array.isArray(a) ? a : [a];
+ }
+
+ // Counts decimals
+ function countDecimals ( numStr ) {
+ var pieces = numStr.split(".");
+ return pieces.length > 1 ? pieces[1].length : 0;
+ }
+
+ // http://youmightnotneedjquery.com/#add_class
+ function addClass ( el, className ) {
+ if ( el.classList ) {
+ el.classList.add(className);
+ } else {
+ el.className += ' ' + className;
+ }
+ }
+
+ // http://youmightnotneedjquery.com/#remove_class
+ function removeClass ( el, className ) {
+ if ( el.classList ) {
+ el.classList.remove(className);
+ } else {
+ el.className = el.className.replace(new RegExp('(^|\\b)' + className.split(' ').join('|') + '(\\b|$)', 'gi'), ' ');
+ }
+ }
+
+ // http://youmightnotneedjquery.com/#has_class
+ function hasClass ( el, className ) {
+ if ( el.classList ) {
+ el.classList.contains(className);
+ } else {
+ new RegExp('(^| )' + className + '( |$)', 'gi').test(el.className);
+ }
+ }
+
+
+ var
+ // Determine the events to bind. IE11 implements pointerEvents without
+ // a prefix, which breaks compatibility with the IE10 implementation.
+ /** @const */
+ actions = window.navigator.pointerEnabled ? {
+ start: 'pointerdown',
+ move: 'pointermove',
+ end: 'pointerup'
+ } : window.navigator.msPointerEnabled ? {
+ start: 'MSPointerDown',
+ move: 'MSPointerMove',
+ end: 'MSPointerUp'
+ } : {
+ start: 'mousedown touchstart',
+ move: 'mousemove touchmove',
+ end: 'mouseup touchend'
+ },
+ // Re-usable list of classes;
+ /** @const */
+ Classes = [
+/* 0 */ 'noUi-target'
+/* 1 */ ,'noUi-base'
+/* 2 */ ,'noUi-origin'
+/* 3 */ ,'noUi-handle'
+/* 4 */ ,'noUi-horizontal'
+/* 5 */ ,'noUi-vertical'
+/* 6 */ ,'noUi-background'
+/* 7 */ ,'noUi-connect'
+/* 8 */ ,'noUi-ltr'
+/* 9 */ ,'noUi-rtl'
+/* 10 */ ,'noUi-dragable'
+/* 11 */ ,''
+/* 12 */ ,'noUi-state-drag'
+/* 13 */ ,''
+/* 14 */ ,'noUi-state-tap'
+/* 15 */ ,'noUi-active'
+/* 16 */ ,''
+/* 17 */ ,'noUi-stacking'
+ ];
+
+
+// Value calculation
+
+ // Determine the size of a sub-range in relation to a full range.
+ function subRangeRatio ( pa, pb ) {
+ return (100 / (pb - pa));
+ }
+
+ // (percentage) How many percent is this value of this range?
+ function fromPercentage ( range, value ) {
+ return (value * 100) / ( range[1] - range[0] );
+ }
+
+ // (percentage) Where is this value on this range?
+ function toPercentage ( range, value ) {
+ return fromPercentage( range, range[0] < 0 ?
+ value + Math.abs(range[0]) :
+ value - range[0] );
+ }
+
+ // (value) How much is this percentage on this range?
+ function isPercentage ( range, value ) {
+ return ((value * ( range[1] - range[0] )) / 100) + range[0];
+ }
+
+
+// Range conversion
+
+ function getJ ( value, arr ) {
+
+ var j = 1;
+
+ while ( value >= arr[j] ){
+ j += 1;
+ }
+
+ return j;
+ }
+
+ // (percentage) Input a value, find where, on a scale of 0-100, it applies.
+ function toStepping ( xVal, xPct, value ) {
+
+ if ( value >= xVal.slice(-1)[0] ){
+ return 100;
+ }
+
+ var j = getJ( value, xVal ), va, vb, pa, pb;
+
+ va = xVal[j-1];
+ vb = xVal[j];
+ pa = xPct[j-1];
+ pb = xPct[j];
+
+ return pa + (toPercentage([va, vb], value) / subRangeRatio (pa, pb));
+ }
+
+ // (value) Input a percentage, find where it is on the specified range.
+ function fromStepping ( xVal, xPct, value ) {
+
+ // There is no range group that fits 100
+ if ( value >= 100 ){
+ return xVal.slice(-1)[0];
+ }
+
+ var j = getJ( value, xPct ), va, vb, pa, pb;
+
+ va = xVal[j-1];
+ vb = xVal[j];
+ pa = xPct[j-1];
+ pb = xPct[j];
+
+ return isPercentage([va, vb], (value - pa) * subRangeRatio (pa, pb));
+ }
+
+ // (percentage) Get the step that applies at a certain value.
+ function getStep ( xPct, xSteps, snap, value ) {
+
+ if ( value === 100 ) {
+ return value;
+ }
+
+ var j = getJ( value, xPct ), a, b;
+
+ // If 'snap' is set, steps are used as fixed points on the slider.
+ if ( snap ) {
+
+ a = xPct[j-1];
+ b = xPct[j];
+
+ // Find the closest position, a or b.
+ if ((value - a) > ((b-a)/2)){
+ return b;
+ }
+
+ return a;
+ }
+
+ if ( !xSteps[j-1] ){
+ return value;
+ }
+
+ return xPct[j-1] + closest(
+ value - xPct[j-1],
+ xSteps[j-1]
+ );
+ }
+
+
+// Entry parsing
+
+ function handleEntryPoint ( index, value, that ) {
+
+ var percentage;
+
+ // Wrap numerical input in an array.
+ if ( typeof value === "number" ) {
+ value = [value];
+ }
+
+ // Reject any invalid input, by testing whether value is an array.
+ if ( Object.prototype.toString.call( value ) !== '[object Array]' ){
+ throw new Error("noUiSlider: 'range' contains invalid value.");
+ }
+
+ // Covert min/max syntax to 0 and 100.
+ if ( index === 'min' ) {
+ percentage = 0;
+ } else if ( index === 'max' ) {
+ percentage = 100;
+ } else {
+ percentage = parseFloat( index );
+ }
+
+ // Check for correct input.
+ if ( !isNumeric( percentage ) || !isNumeric( value[0] ) ) {
+ throw new Error("noUiSlider: 'range' value isn't numeric.");
+ }
+
+ // Store values.
+ that.xPct.push( percentage );
+ that.xVal.push( value[0] );
+
+ // NaN will evaluate to false too, but to keep
+ // logging clear, set step explicitly. Make sure
+ // not to override the 'step' setting with false.
+ if ( !percentage ) {
+ if ( !isNaN( value[1] ) ) {
+ that.xSteps[0] = value[1];
+ }
+ } else {
+ that.xSteps.push( isNaN(value[1]) ? false : value[1] );
+ }
+ }
+
+ function handleStepPoint ( i, n, that ) {
+
+ // Ignore 'false' stepping.
+ if ( !n ) {
+ return true;
+ }
+
+ // Factor to range ratio
+ that.xSteps[i] = fromPercentage([
+ that.xVal[i]
+ ,that.xVal[i+1]
+ ], n) / subRangeRatio (
+ that.xPct[i],
+ that.xPct[i+1] );
+ }
+
+
+// Interface
+
+ // The interface to Spectrum handles all direction-based
+ // conversions, so the above values are unaware.
+
+ function Spectrum ( entry, snap, direction, singleStep ) {
+
+ this.xPct = [];
+ this.xVal = [];
+ this.xSteps = [ singleStep || false ];
+ this.xNumSteps = [ false ];
+
+ this.snap = snap;
+ this.direction = direction;
+
+ var index, ordered = [ /* [0, 'min'], [1, '50%'], [2, 'max'] */ ];
+
+ // Map the object keys to an array.
+ for ( index in entry ) {
+ if ( entry.hasOwnProperty(index) ) {
+ ordered.push([entry[index], index]);
+ }
+ }
+
+ // Sort all entries by value (numeric sort).
+ ordered.sort(function(a, b) { return a[0] - b[0]; });
+
+ // Convert all entries to subranges.
+ for ( index = 0; index < ordered.length; index++ ) {
+ handleEntryPoint(ordered[index][1], ordered[index][0], this);
+ }
+
+ // Store the actual step values.
+ // xSteps is sorted in the same order as xPct and xVal.
+ this.xNumSteps = this.xSteps.slice(0);
+
+ // Convert all numeric steps to the percentage of the subrange they represent.
+ for ( index = 0; index < this.xNumSteps.length; index++ ) {
+ handleStepPoint(index, this.xNumSteps[index], this);
+ }
+ }
+
+ Spectrum.prototype.getMargin = function ( value ) {
+ return this.xPct.length === 2 ? fromPercentage(this.xVal, value) : false;
+ };
+
+ Spectrum.prototype.toStepping = function ( value ) {
+
+ value = toStepping( this.xVal, this.xPct, value );
+
+ // Invert the value if this is a right-to-left slider.
+ if ( this.direction ) {
+ value = 100 - value;
+ }
+
+ return value;
+ };
+
+ Spectrum.prototype.fromStepping = function ( value ) {
+
+ // Invert the value if this is a right-to-left slider.
+ if ( this.direction ) {
+ value = 100 - value;
+ }
+
+ return accurateNumber(fromStepping( this.xVal, this.xPct, value ));
+ };
+
+ Spectrum.prototype.getStep = function ( value ) {
+
+ // Find the proper step for rtl sliders by search in inverse direction.
+ // Fixes issue #262.
+ if ( this.direction ) {
+ value = 100 - value;
+ }
+
+ value = getStep(this.xPct, this.xSteps, this.snap, value );
+
+ if ( this.direction ) {
+ value = 100 - value;
+ }
+
+ return value;
+ };
+
+ Spectrum.prototype.getApplicableStep = function ( value ) {
+
+ // If the value is 100%, return the negative step twice.
+ var j = getJ(value, this.xPct), offset = value === 100 ? 2 : 1;
+ return [this.xNumSteps[j-2], this.xVal[j-offset], this.xNumSteps[j-offset]];
+ };
+
+ // Outside testing
+ Spectrum.prototype.convert = function ( value ) {
+ return this.getStep(this.toStepping(value));
+ };
+
+/* Every input option is tested and parsed. This'll prevent
+ endless validation in internal methods. These tests are
+ structured with an item for every option available. An
+ option can be marked as required by setting the 'r' flag.
+ The testing function is provided with three arguments:
+ - The provided value for the option;
+ - A reference to the options object;
+ - The name for the option;
+
+ The testing function returns false when an error is detected,
+ or true when everything is OK. It can also modify the option
+ object, to make sure all values can be correctly looped elsewhere. */
+
+ var defaultFormatter = { 'to': function( value ){
+ return value.toFixed(2);
+ }, 'from': Number };
+
+ function testStep ( parsed, entry ) {
+
+ if ( !isNumeric( entry ) ) {
+ throw new Error("noUiSlider: 'step' is not numeric.");
+ }
+
+ // The step option can still be used to set stepping
+ // for linear sliders. Overwritten if set in 'range'.
+ parsed.singleStep = entry;
+ }
+
+ function testRange ( parsed, entry ) {
+
+ // Filter incorrect input.
+ if ( typeof entry !== 'object' || Array.isArray(entry) ) {
+ throw new Error("noUiSlider: 'range' is not an object.");
+ }
+
+ // Catch missing start or end.
+ if ( entry.min === undefined || entry.max === undefined ) {
+ throw new Error("noUiSlider: Missing 'min' or 'max' in 'range'.");
+ }
+
+ parsed.spectrum = new Spectrum(entry, parsed.snap, parsed.dir, parsed.singleStep);
+ }
+
+ function testStart ( parsed, entry ) {
+
+ entry = asArray(entry);
+
+ // Validate input. Values aren't tested, as the public .val method
+ // will always provide a valid location.
+ if ( !Array.isArray( entry ) || !entry.length || entry.length > 2 ) {
+ throw new Error("noUiSlider: 'start' option is incorrect.");
+ }
+
+ // Store the number of handles.
+ parsed.handles = entry.length;
+
+ // When the slider is initialized, the .val method will
+ // be called with the start options.
+ parsed.start = entry;
+ }
+
+ function testSnap ( parsed, entry ) {
+
+ // Enforce 100% stepping within subranges.
+ parsed.snap = entry;
+
+ if ( typeof entry !== 'boolean' ){
+ throw new Error("noUiSlider: 'snap' option must be a boolean.");
+ }
+ }
+
+ function testAnimate ( parsed, entry ) {
+
+ // Enforce 100% stepping within subranges.
+ parsed.animate = entry;
+
+ if ( typeof entry !== 'boolean' ){
+ throw new Error("noUiSlider: 'animate' option must be a boolean.");
+ }
+ }
+
+ function testConnect ( parsed, entry ) {
+
+ if ( entry === 'lower' && parsed.handles === 1 ) {
+ parsed.connect = 1;
+ } else if ( entry === 'upper' && parsed.handles === 1 ) {
+ parsed.connect = 2;
+ } else if ( entry === true && parsed.handles === 2 ) {
+ parsed.connect = 3;
+ } else if ( entry === false ) {
+ parsed.connect = 0;
+ } else {
+ throw new Error("noUiSlider: 'connect' option doesn't match handle count.");
+ }
+ }
+
+ function testOrientation ( parsed, entry ) {
+
+ // Set orientation to an a numerical value for easy
+ // array selection.
+ switch ( entry ){
+ case 'horizontal':
+ parsed.ort = 0;
+ break;
+ case 'vertical':
+ parsed.ort = 1;
+ break;
+ default:
+ throw new Error("noUiSlider: 'orientation' option is invalid.");
+ }
+ }
+
+ function testMargin ( parsed, entry ) {
+
+ if ( !isNumeric(entry) ){
+ throw new Error("noUiSlider: 'margin' option must be numeric.");
+ }
+
+ parsed.margin = parsed.spectrum.getMargin(entry);
+
+ if ( !parsed.margin ) {
+ throw new Error("noUiSlider: 'margin' option is only supported on linear sliders.");
+ }
+ }
+
+ function testLimit ( parsed, entry ) {
+
+ if ( !isNumeric(entry) ){
+ throw new Error("noUiSlider: 'limit' option must be numeric.");
+ }
+
+ parsed.limit = parsed.spectrum.getMargin(entry);
+
+ if ( !parsed.limit ) {
+ throw new Error("noUiSlider: 'limit' option is only supported on linear sliders.");
+ }
+ }
+
+ function testDirection ( parsed, entry ) {
+
+ // Set direction as a numerical value for easy parsing.
+ // Invert connection for RTL sliders, so that the proper
+ // handles get the connect/background classes.
+ switch ( entry ) {
+ case 'ltr':
+ parsed.dir = 0;
+ break;
+ case 'rtl':
+ parsed.dir = 1;
+ parsed.connect = [0,2,1,3][parsed.connect];
+ break;
+ default:
+ throw new Error("noUiSlider: 'direction' option was not recognized.");
+ }
+ }
+
+ function testBehaviour ( parsed, entry ) {
+
+ // Make sure the input is a string.
+ if ( typeof entry !== 'string' ) {
+ throw new Error("noUiSlider: 'behaviour' must be a string containing options.");
+ }
+
+ // Check if the string contains any keywords.
+ // None are required.
+ var tap = entry.indexOf('tap') >= 0,
+ drag = entry.indexOf('drag') >= 0,
+ fixed = entry.indexOf('fixed') >= 0,
+ snap = entry.indexOf('snap') >= 0;
+
+ parsed.events = {
+ tap: tap || snap,
+ drag: drag,
+ fixed: fixed,
+ snap: snap
+ };
+ }
+
+ function testFormat ( parsed, entry ) {
+
+ parsed.format = entry;
+
+ // Any object with a to and from method is supported.
+ if ( typeof entry.to === 'function' && typeof entry.from === 'function' ) {
+ return true;
+ }
+
+ throw new Error( "noUiSlider: 'format' requires 'to' and 'from' methods.");
+ }
+
+ // Test all developer settings and parse to assumption-safe values.
+ function testOptions ( options ) {
+
+ var parsed = {
+ margin: 0,
+ limit: 0,
+ animate: true,
+ format: defaultFormatter
+ }, tests;
+
+ // Tests are executed in the order they are presented here.
+ tests = {
+ 'step': { r: false, t: testStep },
+ 'start': { r: true, t: testStart },
+ 'connect': { r: true, t: testConnect },
+ 'direction': { r: true, t: testDirection },
+ 'snap': { r: false, t: testSnap },
+ 'animate': { r: false, t: testAnimate },
+ 'range': { r: true, t: testRange },
+ 'orientation': { r: false, t: testOrientation },
+ 'margin': { r: false, t: testMargin },
+ 'limit': { r: false, t: testLimit },
+ 'behaviour': { r: true, t: testBehaviour },
+ 'format': { r: false, t: testFormat }
+ };
+
+ var defaults = {
+ 'connect': false,
+ 'direction': 'ltr',
+ 'behaviour': 'tap',
+ 'orientation': 'horizontal'
+ };
+
+ // Set defaults where applicable.
+ Object.keys(defaults).forEach(function ( name ) {
+ if ( options[name] === undefined ) {
+ options[name] = defaults[name];
+ }
+ });
+
+ // Run all options through a testing mechanism to ensure correct
+ // input. It should be noted that options might get modified to
+ // be handled properly. E.g. wrapping integers in arrays.
+ Object.keys(tests).forEach(function( name ){
+
+ var test = tests[name];
+
+ // If the option isn't set, but it is required, throw an error.
+ if ( options[name] === undefined ) {
+
+ if ( test.r ) {
+ throw new Error("noUiSlider: '" + name + "' is required.");
+ }
+
+ return true;
+ }
+
+ test.t( parsed, options[name] );
+ });
+
+ // Forward pips options
+ parsed.pips = options.pips;
+
+ // Pre-define the styles.
+ parsed.style = parsed.ort ? 'top' : 'left';
+
+ return parsed;
+ }
+
+
+ // Delimit proposed values for handle positions.
+ function getPositions ( a, b, delimit ) {
+
+ // Add movement to current position.
+ var c = a + b[0], d = a + b[1];
+
+ // Only alter the other position on drag,
+ // not on standard sliding.
+ if ( delimit ) {
+ if ( c < 0 ) {
+ d += Math.abs(c);
+ }
+ if ( d > 100 ) {
+ c -= ( d - 100 );
+ }
+
+ // Limit values to 0 and 100.
+ return [limit(c), limit(d)];
+ }
+
+ return [c,d];
+ }
+
+ // Provide a clean event with standardized offset values.
+ function fixEvent ( e ) {
+
+ // Prevent scrolling and panning on touch events, while
+ // attempting to slide. The tap event also depends on this.
+ e.preventDefault();
+
+ // Filter the event to register the type, which can be
+ // touch, mouse or pointer. Offset changes need to be
+ // made on an event specific basis.
+ var touch = e.type.indexOf('touch') === 0,
+ mouse = e.type.indexOf('mouse') === 0,
+ pointer = e.type.indexOf('pointer') === 0,
+ x,y, event = e;
+
+ // IE10 implemented pointer events with a prefix;
+ if ( e.type.indexOf('MSPointer') === 0 ) {
+ pointer = true;
+ }
+
+ if ( touch ) {
+ // noUiSlider supports one movement at a time,
+ // so we can select the first 'changedTouch'.
+ x = e.changedTouches[0].pageX;
+ y = e.changedTouches[0].pageY;
+ }
+
+ if ( mouse || pointer ) {
+ x = e.clientX + window.pageXOffset;
+ y = e.clientY + window.pageYOffset;
+ }
+
+ event.points = [x, y];
+ event.cursor = mouse || pointer; // Fix #435
+
+ return event;
+ }
+
+ // Append a handle to the base.
+ function addHandle ( direction, index ) {
+
+ var origin = document.createElement('div'),
+ handle = document.createElement('div'),
+ additions = [ '-lower', '-upper' ];
+
+ if ( direction ) {
+ additions.reverse();
+ }
+
+ addClass(handle, Classes[3]);
+ addClass(handle, Classes[3] + additions[index]);
+
+ addClass(origin, Classes[2]);
+ origin.appendChild(handle);
+
+ return origin;
+ }
+
+ // Add the proper connection classes.
+ function addConnection ( connect, target, handles ) {
+
+ // Apply the required connection classes to the elements
+ // that need them. Some classes are made up for several
+ // segments listed in the class list, to allow easy
+ // renaming and provide a minor compression benefit.
+ switch ( connect ) {
+ case 1: addClass(target, Classes[7]);
+ addClass(handles[0], Classes[6]);
+ break;
+ case 3: addClass(handles[1], Classes[6]);
+ /* falls through */
+ case 2: addClass(handles[0], Classes[7]);
+ /* falls through */
+ case 0: addClass(target, Classes[6]);
+ break;
+ }
+ }
+
+ // Add handles to the slider base.
+ function addHandles ( nrHandles, direction, base ) {
+
+ var index, handles = [];
+
+ // Append handles.
+ for ( index = 0; index < nrHandles; index += 1 ) {
+
+ // Keep a list of all added handles.
+ handles.push( base.appendChild(addHandle( direction, index )) );
+ }
+
+ return handles;
+ }
+
+ // Initialize a single slider.
+ function addSlider ( direction, orientation, target ) {
+
+ // Apply classes and data to the target.
+ addClass(target, Classes[0]);
+ addClass(target, Classes[8 + direction]);
+ addClass(target, Classes[4 + orientation]);
+
+ var div = document.createElement('div');
+ addClass(div, Classes[1]);
+ target.appendChild(div);
+ return div;
+ }
+
+
+function closure ( target, options ){
+
+ // All variables local to 'closure' are prefixed with 'scope_'
+ var scope_Target = target,
+ scope_Locations = [-1, -1],
+ scope_Base,
+ scope_Handles,
+ scope_Spectrum = options.spectrum,
+ scope_Values = [],
+ scope_Events = {};
+
+
+ function getGroup ( mode, values, stepped ) {
+
+ // Use the range.
+ if ( mode === 'range' || mode === 'steps' ) {
+ return scope_Spectrum.xVal;
+ }
+
+ if ( mode === 'count' ) {
+
+ // Divide 0 - 100 in 'count' parts.
+ var spread = ( 100 / (values-1) ), v, i = 0;
+ values = [];
+
+ // List these parts and have them handled as 'positions'.
+ while ((v=i++*spread) <= 100 ) {
+ values.push(v);
+ }
+
+ mode = 'positions';
+ }
+
+ if ( mode === 'positions' ) {
+
+ // Map all percentages to on-range values.
+ return values.map(function( value ){
+ return scope_Spectrum.fromStepping( stepped ? scope_Spectrum.getStep( value ) : value );
+ });
+ }
+
+ if ( mode === 'values' ) {
+
+ // If the value must be stepped, it needs to be converted to a percentage first.
+ if ( stepped ) {
+
+ return values.map(function( value ){
+
+ // Convert to percentage, apply step, return to value.
+ return scope_Spectrum.fromStepping( scope_Spectrum.getStep( scope_Spectrum.toStepping( value ) ) );
+ });
+
+ }
+
+ // Otherwise, we can simply use the values.
+ return values;
+ }
+ }
+
+ function generateSpread ( density, mode, group ) {
+
+ var originalSpectrumDirection = scope_Spectrum.direction,
+ indexes = {},
+ firstInRange = scope_Spectrum.xVal[0],
+ lastInRange = scope_Spectrum.xVal[scope_Spectrum.xVal.length-1],
+ ignoreFirst = false,
+ ignoreLast = false,
+ prevPct = 0;
+
+ // This function loops the spectrum in an ltr linear fashion,
+ // while the toStepping method is direction aware. Trick it into
+ // believing it is ltr.
+ scope_Spectrum.direction = 0;
+
+ // Create a copy of the group, sort it and filter away all duplicates.
+ group = unique(group.slice().sort(function(a, b){ return a - b; }));
+
+ // Make sure the range starts with the first element.
+ if ( group[0] !== firstInRange ) {
+ group.unshift(firstInRange);
+ ignoreFirst = true;
+ }
+
+ // Likewise for the last one.
+ if ( group[group.length - 1] !== lastInRange ) {
+ group.push(lastInRange);
+ ignoreLast = true;
+ }
+
+ group.forEach(function ( current, index ) {
+
+ // Get the current step and the lower + upper positions.
+ var step, i, q,
+ low = current,
+ high = group[index+1],
+ newPct, pctDifference, pctPos, type,
+ steps, realSteps, stepsize;
+
+ // When using 'steps' mode, use the provided steps.
+ // Otherwise, we'll step on to the next subrange.
+ if ( mode === 'steps' ) {
+ step = scope_Spectrum.xNumSteps[ index ];
+ }
+
+ // Default to a 'full' step.
+ if ( !step ) {
+ step = high-low;
+ }
+
+ // Low can be 0, so test for false. If high is undefined,
+ // we are at the last subrange. Index 0 is already handled.
+ if ( low === false || high === undefined ) {
+ return;
+ }
+
+ // Find all steps in the subrange.
+ for ( i = low; i <= high; i += step ) {
+
+ // Get the percentage value for the current step,
+ // calculate the size for the subrange.
+ newPct = scope_Spectrum.toStepping( i );
+ pctDifference = newPct - prevPct;
+
+ steps = pctDifference / density;
+ realSteps = Math.round(steps);
+
+ // This ratio represents the ammount of percentage-space a point indicates.
+ // For a density 1 the points/percentage = 1. For density 2, that percentage needs to be re-devided.
+ // Round the percentage offset to an even number, then divide by two
+ // to spread the offset on both sides of the range.
+ stepsize = pctDifference/realSteps;
+
+ // Divide all points evenly, adding the correct number to this subrange.
+ // Run up to <= so that 100% gets a point, event if ignoreLast is set.
+ for ( q = 1; q <= realSteps; q += 1 ) {
+
+ // The ratio between the rounded value and the actual size might be ~1% off.
+ // Correct the percentage offset by the number of points
+ // per subrange. density = 1 will result in 100 points on the
+ // full range, 2 for 50, 4 for 25, etc.
+ pctPos = prevPct + ( q * stepsize );
+ indexes[pctPos.toFixed(5)] = ['x', 0];
+ }
+
+ // Determine the point type.
+ type = (group.indexOf(i) > -1) ? 1 : ( mode === 'steps' ? 2 : 0 );
+
+ // Enforce the 'ignoreFirst' option by overwriting the type for 0.
+ if ( !index && ignoreFirst ) {
+ type = 0;
+ }
+
+ if ( !(i === high && ignoreLast)) {
+ // Mark the 'type' of this point. 0 = plain, 1 = real value, 2 = step value.
+ indexes[newPct.toFixed(5)] = [i, type];
+ }
+
+ // Update the percentage count.
+ prevPct = newPct;
+ }
+ });
+
+ // Reset the spectrum.
+ scope_Spectrum.direction = originalSpectrumDirection;
+
+ return indexes;
+ }
+
+ function addMarking ( spread, filterFunc, formatter ) {
+
+ var style = ['horizontal', 'vertical'][options.ort],
+ element = document.createElement('div');
+
+ addClass(element, 'noUi-pips');
+ addClass(element, 'noUi-pips-' + style);
+
+ function getSize( type ){
+ return [ '-normal', '-large', '-sub' ][type];
+ }
+
+ function getTags( offset, source, values ) {
+ return 'class="' + source + ' ' +
+ source + '-' + style + ' ' +
+ source + getSize(values[1]) +
+ '" style="' + options.style + ': ' + offset + '%"';
+ }
+
+ function addSpread ( offset, values ){
+
+ if ( scope_Spectrum.direction ) {
+ offset = 100 - offset;
+ }
+
+ // Apply the filter function, if it is set.
+ values[1] = (values[1] && filterFunc) ? filterFunc(values[0], values[1]) : values[1];
+
+ // Add a marker for every point
+ element.innerHTML += '<div ' + getTags(offset, 'noUi-marker', values) + '></div>';
+
+ // Values are only appended for points marked '1' or '2'.
+ if ( values[1] ) {
+ element.innerHTML += '<div '+getTags(offset, 'noUi-value', values)+'>' + formatter.to(values[0]) + '</div>';
+ }
+ }
+
+ // Append all points.
+ Object.keys(spread).forEach(function(a){
+ addSpread(a, spread[a]);
+ });
+
+ return element;
+ }
+
+ function pips ( grid ) {
+
+ var mode = grid.mode,
+ density = grid.density || 1,
+ filter = grid.filter || false,
+ values = grid.values || false,
+ stepped = grid.stepped || false,
+ group = getGroup( mode, values, stepped ),
+ spread = generateSpread( density, mode, group ),
+ format = grid.format || {
+ to: Math.round
+ };
+
+ return scope_Target.appendChild(addMarking(
+ spread,
+ filter,
+ format
+ ));
+ }
+
+
+ // Shorthand for base dimensions.
+ function baseSize ( ) {
+ return scope_Base['offset' + ['Width', 'Height'][options.ort]];
+ }
+
+ // External event handling
+ function fireEvent ( event, handleNumber ) {
+
+ if ( handleNumber !== undefined ) {
+ handleNumber = Math.abs(handleNumber - options.dir);
+ }
+
+ Object.keys(scope_Events).forEach(function( targetEvent ) {
+
+ var eventType = targetEvent.split('.')[0];
+
+ if ( event === eventType ) {
+ scope_Events[targetEvent].forEach(function( callback ) {
+ // .reverse is in place
+ // Return values as array, so arg_1[arg_2] is always valid.
+ callback( asArray(valueGet()), handleNumber, inSliderOrder(Array.prototype.slice.call(scope_Values)) );
+ });
+ }
+ });
+ }
+
+ // Returns the input array, respecting the slider direction configuration.
+ function inSliderOrder ( values ) {
+
+ // If only one handle is used, return a single value.
+ if ( values.length === 1 ){
+ return values[0];
+ }
+
+ if ( options.dir ) {
+ return values.reverse();
+ }
+
+ return values;
+ }
+
+
+ // Handler for attaching events trough a proxy.
+ function attach ( events, element, callback, data ) {
+
+ // This function can be used to 'filter' events to the slider.
+ // element is a node, not a nodeList
+
+ var method = function ( e ){
+
+ if ( scope_Target.hasAttribute('disabled') ) {
+ return false;
+ }
+
+ // Stop if an active 'tap' transition is taking place.
+ if ( hasClass(scope_Target, Classes[14]) ) {
+ return false;
+ }
+
+ e = fixEvent(e);
+
+ // Ignore right or middle clicks on start #454
+ if ( events === actions.start && e.buttons !== undefined && e.buttons > 1 ) {
+ return false;
+ }
+
+ e.calcPoint = e.points[ options.ort ];
+
+ // Call the event handler with the event [ and additional data ].
+ callback ( e, data );
+
+ }, methods = [];
+
+ // Bind a closure on the target for every event type.
+ events.split(' ').forEach(function( eventName ){
+ element.addEventListener(eventName, method, false);
+ methods.push([eventName, method]);
+ });
+
+ return methods;
+ }
+
+ // Handle movement on document for handle and range drag.
+ function move ( event, data ) {
+
+ var handles = data.handles || scope_Handles, positions, state = false,
+ proposal = ((event.calcPoint - data.start) * 100) / baseSize(),
+ handleNumber = handles[0] === scope_Handles[0] ? 0 : 1, i;
+
+ // Calculate relative positions for the handles.
+ positions = getPositions( proposal, data.positions, handles.length > 1);
+
+ state = setHandle ( handles[0], positions[handleNumber], handles.length === 1 );
+
+ if ( handles.length > 1 ) {
+
+ state = setHandle ( handles[1], positions[handleNumber?0:1], false ) || state;
+
+ if ( state ) {
+ // fire for both handles
+ for ( i = 0; i < data.handles.length; i++ ) {
+ fireEvent('slide', i);
+ }
+ }
+ } else if ( state ) {
+ // Fire for a single handle
+ fireEvent('slide', handleNumber);
+ }
+ }
+
+ // Unbind move events on document, call callbacks.
+ function end ( event, data ) {
+
+ // The handle is no longer active, so remove the class.
+ var active = scope_Base.getElementsByClassName(Classes[15]),
+ handleNumber = data.handles[0] === scope_Handles[0] ? 0 : 1;
+
+ if ( active.length ) {
+ removeClass(active[0], Classes[15]);
+ }
+
+ // Remove cursor styles and text-selection events bound to the body.
+ if ( event.cursor ) {
+ document.body.style.cursor = '';
+ document.body.removeEventListener('selectstart', document.body.noUiListener);
+ }
+
+ var d = document.documentElement;
+
+ // Unbind the move and end events, which are added on 'start'.
+ d.noUiListeners.forEach(function( c ) {
+ d.removeEventListener(c[0], c[1]);
+ });
+
+ // Remove dragging class.
+ removeClass(scope_Target, Classes[12]);
+
+ // Fire the change and set events.
+ fireEvent('set', handleNumber);
+ fireEvent('change', handleNumber);
+ }
+
+ // Bind move events on document.
+ function start ( event, data ) {
+
+ var d = document.documentElement;
+
+ // Mark the handle as 'active' so it can be styled.
+ if ( data.handles.length === 1 ) {
+ addClass(data.handles[0].children[0], Classes[15]);
+
+ // Support 'disabled' handles
+ if ( data.handles[0].hasAttribute('disabled') ) {
+ return false;
+ }
+ }
+
+ // A drag should never propagate up to the 'tap' event.
+ event.stopPropagation();
+
+ // Attach the move and end events.
+ var moveEvent = attach(actions.move, d, move, {
+ start: event.calcPoint,
+ handles: data.handles,
+ positions: [
+ scope_Locations[0],
+ scope_Locations[scope_Handles.length - 1]
+ ]
+ }), endEvent = attach(actions.end, d, end, {
+ handles: data.handles
+ });
+
+ d.noUiListeners = moveEvent.concat(endEvent);
+
+ // Text selection isn't an issue on touch devices,
+ // so adding cursor styles can be skipped.
+ if ( event.cursor ) {
+
+ // Prevent the 'I' cursor and extend the range-drag cursor.
+ document.body.style.cursor = getComputedStyle(event.target).cursor;
+
+ // Mark the target with a dragging state.
+ if ( scope_Handles.length > 1 ) {
+ addClass(scope_Target, Classes[12]);
+ }
+
+ var f = function(){
+ return false;
+ };
+
+ document.body.noUiListener = f;
+
+ // Prevent text selection when dragging the handles.
+ document.body.addEventListener('selectstart', f, false);
+ }
+ }
+
+ // Move closest handle to tapped location.
+ function tap ( event ) {
+
+ var location = event.calcPoint, total = 0, handleNumber, to;
+
+ // The tap event shouldn't propagate up and cause 'edge' to run.
+ event.stopPropagation();
+
+ // Add up the handle offsets.
+ scope_Handles.forEach(function(a){
+ total += offset(a)[ options.style ];
+ });
+
+ // Find the handle closest to the tapped position.
+ handleNumber = ( location < total/2 || scope_Handles.length === 1 ) ? 0 : 1;
+
+ location -= offset(scope_Base)[ options.style ];
+
+ // Calculate the new position.
+ to = ( location * 100 ) / baseSize();
+
+ if ( !options.events.snap ) {
+ // Flag the slider as it is now in a transitional state.
+ // Transition takes 300 ms, so re-enable the slider afterwards.
+ addClassFor( scope_Target, Classes[14], 300 );
+ }
+
+ // Support 'disabled' handles
+ if ( scope_Handles[handleNumber].hasAttribute('disabled') ) {
+ return false;
+ }
+
+ // Find the closest handle and calculate the tapped point.
+ // The set handle to the new position.
+ setHandle( scope_Handles[handleNumber], to );
+
+ fireEvent('slide', handleNumber);
+ fireEvent('set', handleNumber);
+ fireEvent('change', handleNumber);
+
+ if ( options.events.snap ) {
+ start(event, { handles: [scope_Handles[total]] });
+ }
+ }
+
+ // Attach events to several slider parts.
+ function events ( behaviour ) {
+
+ var i, drag;
+
+ // Attach the standard drag event to the handles.
+ if ( !behaviour.fixed ) {
+
+ for ( i = 0; i < scope_Handles.length; i += 1 ) {
+
+ // These events are only bound to the visual handle
+ // element, not the 'real' origin element.
+ attach ( actions.start, scope_Handles[i].children[0], start, {
+ handles: [ scope_Handles[i] ]
+ });
+ }
+ }
+
+ // Attach the tap event to the slider base.
+ if ( behaviour.tap ) {
+
+ attach ( actions.start, scope_Base, tap, {
+ handles: scope_Handles
+ });
+ }
+
+ // Make the range dragable.
+ if ( behaviour.drag ){
+
+ drag = [scope_Base.getElementsByClassName( Classes[7] )[0]];
+ addClass(drag[0], Classes[10]);
+
+ // When the range is fixed, the entire range can
+ // be dragged by the handles. The handle in the first
+ // origin will propagate the start event upward,
+ // but it needs to be bound manually on the other.
+ if ( behaviour.fixed ) {
+ drag.push(scope_Handles[(drag[0] === scope_Handles[0] ? 1 : 0)].children[0]);
+ }
+
+ drag.forEach(function( element ) {
+ attach ( actions.start, element, start, {
+ handles: scope_Handles
+ });
+ });
+ }
+ }
+
+
+ // Test suggested values and apply margin, step.
+ function setHandle ( handle, to, noLimitOption ) {
+
+ var trigger = handle !== scope_Handles[0] ? 1 : 0,
+ lowerMargin = scope_Locations[0] + options.margin,
+ upperMargin = scope_Locations[1] - options.margin,
+ lowerLimit = scope_Locations[0] + options.limit,
+ upperLimit = scope_Locations[1] - options.limit;
+
+ // For sliders with multiple handles,
+ // limit movement to the other handle.
+ // Apply the margin option by adding it to the handle positions.
+ if ( scope_Handles.length > 1 ) {
+ to = trigger ? Math.max( to, lowerMargin ) : Math.min( to, upperMargin );
+ }
+
+ // The limit option has the opposite effect, limiting handles to a
+ // maximum distance from another. Limit must be > 0, as otherwise
+ // handles would be unmoveable. 'noLimitOption' is set to 'false'
+ // for the .val() method, except for pass 4/4.
+ if ( noLimitOption !== false && options.limit && scope_Handles.length > 1 ) {
+ to = trigger ? Math.min ( to, lowerLimit ) : Math.max( to, upperLimit );
+ }
+
+ // Handle the step option.
+ to = scope_Spectrum.getStep( to );
+
+ // Limit to 0/100 for .val input, trim anything beyond 7 digits, as
+ // JavaScript has some issues in its floating point implementation.
+ to = limit(parseFloat(to.toFixed(7)));
+
+ // Return false if handle can't move.
+ if ( to === scope_Locations[trigger] ) {
+ return false;
+ }
+
+ // Set the handle to the new position.
+ handle.style[options.style] = to + '%';
+
+ // Force proper handle stacking
+ if ( !handle.previousSibling ) {
+ removeClass(handle, Classes[17]);
+ if ( to > 50 ) {
+ addClass(handle, Classes[17]);
+ }
+ }
+
+ // Update locations.
+ scope_Locations[trigger] = to;
+
+ // Convert the value to the slider stepping/range.
+ scope_Values[trigger] = scope_Spectrum.fromStepping( to );
+
+ fireEvent('update', trigger);
+
+ return true;
+ }
+
+ // Loop values from value method and apply them.
+ function setValues ( count, values ) {
+
+ var i, trigger, to;
+
+ // With the limit option, we'll need another limiting pass.
+ if ( options.limit ) {
+ count += 1;
+ }
+
+ // If there are multiple handles to be set run the setting
+ // mechanism twice for the first handle, to make sure it
+ // can be bounced of the second one properly.
+ for ( i = 0; i < count; i += 1 ) {
+
+ trigger = i%2;
+
+ // Get the current argument from the array.
+ to = values[trigger];
+
+ // Setting with null indicates an 'ignore'.
+ // Inputting 'false' is invalid.
+ if ( to !== null && to !== false ) {
+
+ // If a formatted number was passed, attemt to decode it.
+ if ( typeof to === 'number' ) {
+ to = String(to);
+ }
+
+ to = options.format.from( to );
+
+ // Request an update for all links if the value was invalid.
+ // Do so too if setting the handle fails.
+ if ( to === false || isNaN(to) || setHandle( scope_Handles[trigger], scope_Spectrum.toStepping( to ), i === (3 - options.dir) ) === false ) {
+ fireEvent('update', trigger);
+ }
+ }
+ }
+ }
+
+ // Set the slider value.
+ function valueSet ( input ) {
+
+ var count, values = asArray( input ), i;
+
+ // The RTL settings is implemented by reversing the front-end,
+ // internal mechanisms are the same.
+ if ( options.dir && options.handles > 1 ) {
+ values.reverse();
+ }
+
+ // Animation is optional.
+ // Make sure the initial values where set before using animated placement.
+ if ( options.animate && scope_Locations[0] !== -1 ) {
+ addClassFor( scope_Target, Classes[14], 300 );
+ }
+
+ // Determine how often to set the handles.
+ count = scope_Handles.length > 1 ? 3 : 1;
+
+ if ( values.length === 1 ) {
+ count = 1;
+ }
+
+ setValues ( count, values );
+
+ // Fire the 'set' event for both handles.
+ for ( i = 0; i < scope_Handles.length; i++ ) {
+ fireEvent('set', i);
+ }
+ }
+
+ // Get the slider value.
+ function valueGet ( ) {
+
+ var i, retour = [];
+
+ // Get the value from all handles.
+ for ( i = 0; i < options.handles; i += 1 ){
+ retour[i] = options.format.to( scope_Values[i] );
+ }
+
+ return inSliderOrder( retour );
+ }
+
+ // Removes classes from the root and empties it.
+ function destroy ( ) {
+ Classes.forEach(function(cls){
+ if ( !cls ) { return; } // Ignore empty classes
+ removeClass(scope_Target, cls);
+ });
+ scope_Target.innerHTML = '';
+ delete scope_Target.noUiSlider;
+ }
+
+ // Get the current step size for the slider.
+ function getCurrentStep ( ) {
+
+ // Check all locations, map them to their stepping point.
+ // Get the step point, then find it in the input list.
+ var retour = scope_Locations.map(function( location, index ){
+
+ var step = scope_Spectrum.getApplicableStep( location ),
+
+ // As per #391, the comparison for the decrement step can have some rounding issues.
+ // Round the value to the precision used in the step.
+ stepDecimals = countDecimals(String(step[2])),
+
+ // Get the current numeric value
+ value = scope_Values[index],
+
+ // To move the slider 'one step up', the current step value needs to be added.
+ // Use null if we are at the maximum slider value.
+ increment = location === 100 ? null : step[2],
+
+ // Going 'one step down' might put the slider in a different sub-range, so we
+ // need to switch between the current or the previous step.
+ prev = Number((value - step[2]).toFixed(stepDecimals)),
+
+ // If the value fits the step, return the current step value. Otherwise, use the
+ // previous step. Return null if the slider is at its minimum value.
+ decrement = location === 0 ? null : (prev >= step[1]) ? step[2] : (step[0] || false);
+
+ return [decrement, increment];
+ });
+
+ // Return values in the proper order.
+ return inSliderOrder( retour );
+ }
+
+ // Attach an event to this slider, possibly including a namespace
+ function bindEvent ( namespacedEvent, callback ) {
+ scope_Events[namespacedEvent] = scope_Events[namespacedEvent] || [];
+ scope_Events[namespacedEvent].push(callback);
+
+ // If the event bound is 'update,' fire it immediately for all handles.
+ if ( namespacedEvent.split('.')[0] === 'update' ) {
+ scope_Handles.forEach(function(a, index){
+ fireEvent('update', index);
+ });
+ }
+ }
+
+ // Undo attachment of event
+ function removeEvent ( namespacedEvent ) {
+
+ var event = namespacedEvent.split('.')[0],
+ namespace = namespacedEvent.substring(event.length);
+
+ Object.keys(scope_Events).forEach(function( bind ){
+
+ var tEvent = bind.split('.')[0],
+ tNamespace = bind.substring(tEvent.length);
+
+ if ( (!event || event === tEvent) && (!namespace || namespace === tNamespace) ) {
+ delete scope_Events[bind];
+ }
+ });
+ }
+
+
+ // Throw an error if the slider was already initialized.
+ if ( scope_Target.noUiSlider ) {
+ throw new Error('Slider was already initialized.');
+ }
+
+
+ // Create the base element, initialise HTML and set classes.
+ // Add handles and links.
+ scope_Base = addSlider( options.dir, options.ort, scope_Target );
+ scope_Handles = addHandles( options.handles, options.dir, scope_Base );
+
+ // Set the connect classes.
+ addConnection ( options.connect, scope_Target, scope_Handles );
+
+ // Attach user events.
+ events( options.events );
+
+ if ( options.pips ) {
+ pips(options.pips);
+ }
+
+ return {
+ destroy: destroy,
+ steps: getCurrentStep,
+ on: bindEvent,
+ off: removeEvent,
+ get: valueGet,
+ set: valueSet
+ };
+
+}
+
+
+ // Run the standard initializer
+ function initialize ( target, originalOptions ) {
+
+ if ( !target.nodeName ) {
+ throw new Error('noUiSlider.create requires a single element.');
+ }
+
+ // Test the options and create the slider environment;
+ var options = testOptions( originalOptions, target ),
+ slider = closure( target, options );
+
+ // Use the public value method to set the start values.
+ slider.set(options.start);
+
+ target.noUiSlider = slider;
+ }
+
+ // Use an object instead of a function for future expansibility;
+ return {
+ create: initialize
+ };
+
+}));
\ No newline at end of file diff --git a/wqflask/wqflask/static/new/packages/noUiSlider/nouislider.pips.css b/wqflask/wqflask/static/new/packages/noUiSlider/nouislider.pips.css new file mode 100644 index 00000000..d1a93971 --- /dev/null +++ b/wqflask/wqflask/static/new/packages/noUiSlider/nouislider.pips.css @@ -0,0 +1,98 @@ + +/* Base; + * + */ +.noUi-pips, +.noUi-pips * { +-moz-box-sizing: border-box; + box-sizing: border-box; +} +.noUi-pips { + position: absolute; + font: 400 12px Arial; + color: #999; +} + +/* Values; + * + */ +.noUi-value { + width: 40px; + position: absolute; + text-align: center; +} +.noUi-value-sub { + color: #ccc; + font-size: 10px; +} + +/* Markings; + * + */ +.noUi-marker { + position: absolute; + background: #CCC; +} +.noUi-marker-sub { + background: #AAA; +} +.noUi-marker-large { + background: #AAA; +} + +/* Horizontal layout; + * + */ +.noUi-pips-horizontal { + padding: 10px 0; + height: 50px; + top: 100%; + left: 0; + width: 100%; +} +.noUi-value-horizontal { + margin-left: -20px; + padding-top: 20px; +} +.noUi-value-horizontal.noUi-value-sub { + padding-top: 15px; +} + +.noUi-marker-horizontal.noUi-marker { + margin-left: -1px; + width: 2px; + height: 5px; +} +.noUi-marker-horizontal.noUi-marker-sub { + height: 10px; +} +.noUi-marker-horizontal.noUi-marker-large { + height: 15px; +} + +/* Vertical layout; + * + */ +.noUi-pips-vertical { + padding: 0 10px; + height: 100%; + top: 0; + left: 100%; +} +.noUi-value-vertical { + width: 15px; + margin-left: 20px; + margin-top: -5px; +} + +.noUi-marker-vertical.noUi-marker { + width: 5px; + height: 2px; + margin-top: -1px; +} +.noUi-marker-vertical.noUi-marker-sub { + width: 10px; +} +.noUi-marker-vertical.noUi-marker-large { + width: 15px; +} diff --git a/wqflask/wqflask/static/new/packages/nvd3/nv.d3.css b/wqflask/wqflask/static/new/packages/nvd3/nv.d3.css new file mode 100644 index 00000000..726f76c3 --- /dev/null +++ b/wqflask/wqflask/static/new/packages/nvd3/nv.d3.css @@ -0,0 +1,641 @@ +/* nvd3 version 1.8.1 (https://github.com/novus/nvd3) 2015-05-25 */ +.nvd3 .nv-axis {
+ pointer-events:none;
+ opacity: 1;
+}
+
+.nvd3 .nv-axis path {
+ fill: none;
+ stroke: #000;
+ stroke-opacity: .75;
+ shape-rendering: crispEdges;
+}
+
+.nvd3 .nv-axis path.domain {
+ stroke-opacity: .75;
+}
+
+.nvd3 .nv-axis.nv-x path.domain {
+ stroke-opacity: 0;
+}
+
+.nvd3 .nv-axis line {
+ fill: none;
+ stroke: #e5e5e5;
+ shape-rendering: crispEdges;
+}
+
+.nvd3 .nv-axis .zero line,
+ /*this selector may not be necessary*/ .nvd3 .nv-axis line.zero {
+ stroke-opacity: .75;
+}
+
+.nvd3 .nv-axis .nv-axisMaxMin text {
+ font-weight: bold;
+}
+
+.nvd3 .x .nv-axis .nv-axisMaxMin text,
+.nvd3 .x2 .nv-axis .nv-axisMaxMin text,
+.nvd3 .x3 .nv-axis .nv-axisMaxMin text {
+ text-anchor: middle
+}
+
+.nvd3 .nv-axis.nv-disabled {
+ opacity: 0;
+}
+ +.nvd3 .nv-bars rect {
+ fill-opacity: .75;
+
+ transition: fill-opacity 250ms linear;
+ -moz-transition: fill-opacity 250ms linear;
+ -webkit-transition: fill-opacity 250ms linear;
+}
+
+.nvd3 .nv-bars rect.hover {
+ fill-opacity: 1;
+}
+
+.nvd3 .nv-bars .hover rect {
+ fill: lightblue;
+}
+
+.nvd3 .nv-bars text {
+ fill: rgba(0,0,0,0);
+}
+
+.nvd3 .nv-bars .hover text {
+ fill: rgba(0,0,0,1);
+}
+
+.nvd3 .nv-multibar .nv-groups rect,
+.nvd3 .nv-multibarHorizontal .nv-groups rect,
+.nvd3 .nv-discretebar .nv-groups rect {
+ stroke-opacity: 0;
+
+ transition: fill-opacity 250ms linear;
+ -moz-transition: fill-opacity 250ms linear;
+ -webkit-transition: fill-opacity 250ms linear;
+}
+
+.nvd3 .nv-multibar .nv-groups rect:hover,
+.nvd3 .nv-multibarHorizontal .nv-groups rect:hover,
+.nvd3 .nv-candlestickBar .nv-ticks rect:hover,
+.nvd3 .nv-discretebar .nv-groups rect:hover {
+ fill-opacity: 1;
+}
+
+.nvd3 .nv-discretebar .nv-groups text,
+.nvd3 .nv-multibarHorizontal .nv-groups text {
+ font-weight: bold;
+ fill: rgba(0,0,0,1);
+ stroke: rgba(0,0,0,0);
+}
+ +/* boxplot CSS */ +.nvd3 .nv-boxplot circle { + fill-opacity: 0.5; +} + +.nvd3 .nv-boxplot circle:hover { + fill-opacity: 1; +} + +.nvd3 .nv-boxplot rect:hover { + fill-opacity: 1; +} + +.nvd3 line.nv-boxplot-median { + stroke: black; +} + +.nv-boxplot-tick:hover { + stroke-width: 2.5px; +} +/* bullet */
+.nvd3.nv-bullet { font: 10px sans-serif; }
+.nvd3.nv-bullet .nv-measure { fill-opacity: .8; }
+.nvd3.nv-bullet .nv-measure:hover { fill-opacity: 1; }
+.nvd3.nv-bullet .nv-marker { stroke: #000; stroke-width: 2px; }
+.nvd3.nv-bullet .nv-markerTriangle { stroke: #000; fill: #fff; stroke-width: 1.5px; }
+.nvd3.nv-bullet .nv-tick line { stroke: #666; stroke-width: .5px; }
+.nvd3.nv-bullet .nv-range.nv-s0 { fill: #eee; }
+.nvd3.nv-bullet .nv-range.nv-s1 { fill: #ddd; }
+.nvd3.nv-bullet .nv-range.nv-s2 { fill: #ccc; }
+.nvd3.nv-bullet .nv-title { font-size: 14px; font-weight: bold; }
+.nvd3.nv-bullet .nv-subtitle { fill: #999; }
+
+
+.nvd3.nv-bullet .nv-range {
+ fill: #bababa;
+ fill-opacity: .4;
+}
+.nvd3.nv-bullet .nv-range:hover {
+ fill-opacity: .7;
+}
+ +.nvd3.nv-candlestickBar .nv-ticks .nv-tick {
+ stroke-width: 1px;
+}
+
+.nvd3.nv-candlestickBar .nv-ticks .nv-tick.hover {
+ stroke-width: 2px;
+}
+
+.nvd3.nv-candlestickBar .nv-ticks .nv-tick.positive rect {
+ stroke: #2ca02c;
+ fill: #2ca02c;
+}
+
+.nvd3.nv-candlestickBar .nv-ticks .nv-tick.negative rect {
+ stroke: #d62728;
+ fill: #d62728;
+}
+
+.with-transitions .nv-candlestickBar .nv-ticks .nv-tick {
+ transition: stroke-width 250ms linear, stroke-opacity 250ms linear;
+ -moz-transition: stroke-width 250ms linear, stroke-opacity 250ms linear;
+ -webkit-transition: stroke-width 250ms linear, stroke-opacity 250ms linear;
+
+}
+
+.nvd3.nv-candlestickBar .nv-ticks line {
+ stroke: #333;
+}
+
+ +.nvd3 .nv-legend .nv-disabled rect { + /*fill-opacity: 0;*/ +} + +.nvd3 .nv-check-box .nv-box { + fill-opacity:0; + stroke-width:2; +} + +.nvd3 .nv-check-box .nv-check { + fill-opacity:0; + stroke-width:4; +} + +.nvd3 .nv-series.nv-disabled .nv-check-box .nv-check { + fill-opacity:0; + stroke-opacity:0; +} + +.nvd3 .nv-controlsWrap .nv-legend .nv-check-box .nv-check { + opacity: 0; +} + +/* line plus bar */
+.nvd3.nv-linePlusBar .nv-bar rect {
+ fill-opacity: .75;
+}
+
+.nvd3.nv-linePlusBar .nv-bar rect:hover {
+ fill-opacity: 1;
+} +.nvd3 .nv-groups path.nv-line {
+ fill: none;
+}
+
+.nvd3 .nv-groups path.nv-area {
+ stroke: none;
+}
+
+.nvd3.nv-line .nvd3.nv-scatter .nv-groups .nv-point {
+ fill-opacity: 0;
+ stroke-opacity: 0;
+}
+
+.nvd3.nv-scatter.nv-single-point .nv-groups .nv-point {
+ fill-opacity: .5 !important;
+ stroke-opacity: .5 !important;
+}
+
+
+.with-transitions .nvd3 .nv-groups .nv-point {
+ transition: stroke-width 250ms linear, stroke-opacity 250ms linear;
+ -moz-transition: stroke-width 250ms linear, stroke-opacity 250ms linear;
+ -webkit-transition: stroke-width 250ms linear, stroke-opacity 250ms linear;
+
+}
+
+.nvd3.nv-scatter .nv-groups .nv-point.hover,
+.nvd3 .nv-groups .nv-point.hover {
+ stroke-width: 7px;
+ fill-opacity: .95 !important;
+ stroke-opacity: .95 !important;
+}
+
+
+.nvd3 .nv-point-paths path {
+ stroke: #aaa;
+ stroke-opacity: 0;
+ fill: #eee;
+ fill-opacity: 0;
+}
+
+
+
+.nvd3 .nv-indexLine {
+ cursor: ew-resize;
+}
+ +/********************
+ * SVG CSS
+ */
+
+/********************
+ Default CSS for an svg element nvd3 used
+*/
+svg.nvd3-svg {
+ -webkit-touch-callout: none;
+ -webkit-user-select: none;
+ -khtml-user-select: none;
+ -ms-user-select: none;
+ -moz-user-select: none;
+ user-select: none;
+ display: block;
+ width:100%;
+ height:100%;
+}
+
+/********************
+ Box shadow and border radius styling
+*/
+.nvtooltip.with-3d-shadow, .with-3d-shadow .nvtooltip {
+ -moz-box-shadow: 0 5px 10px rgba(0,0,0,.2);
+ -webkit-box-shadow: 0 5px 10px rgba(0,0,0,.2);
+ box-shadow: 0 5px 10px rgba(0,0,0,.2);
+
+ -webkit-border-radius: 5px;
+ -moz-border-radius: 5px;
+ border-radius: 5px;
+}
+
+
+.nvd3 text {
+ font: normal 12px Arial;
+}
+
+.nvd3 .title {
+ font: bold 14px Arial;
+}
+
+.nvd3 .nv-background {
+ fill: white;
+ fill-opacity: 0;
+}
+
+.nvd3.nv-noData {
+ font-size: 18px;
+ font-weight: bold;
+}
+
+
+/**********
+* Brush
+*/
+
+.nv-brush .extent {
+ fill-opacity: .125;
+ shape-rendering: crispEdges;
+}
+
+.nv-brush .resize path {
+ fill: #eee;
+ stroke: #666;
+}
+
+
+/**********
+* Legend
+*/
+
+.nvd3 .nv-legend .nv-series {
+ cursor: pointer;
+}
+
+.nvd3 .nv-legend .nv-disabled circle {
+ fill-opacity: 0;
+}
+
+/* focus */
+.nvd3 .nv-brush .extent {
+ fill-opacity: 0 !important;
+}
+
+.nvd3 .nv-brushBackground rect {
+ stroke: #000;
+ stroke-width: .4;
+ fill: #fff;
+ fill-opacity: .7;
+}
+
+ +.nvd3.nv-ohlcBar .nv-ticks .nv-tick {
+ stroke-width: 1px;
+}
+
+.nvd3.nv-ohlcBar .nv-ticks .nv-tick.hover {
+ stroke-width: 2px;
+}
+
+.nvd3.nv-ohlcBar .nv-ticks .nv-tick.positive {
+ stroke: #2ca02c;
+}
+
+.nvd3.nv-ohlcBar .nv-ticks .nv-tick.negative {
+ stroke: #d62728;
+}
+
+ +.nvd3 .background path {
+ fill: none;
+ stroke: #EEE;
+ stroke-opacity: .4;
+ shape-rendering: crispEdges;
+}
+
+.nvd3 .foreground path {
+ fill: none;
+ stroke-opacity: .7;
+}
+
+.nvd3 .nv-parallelCoordinates-brush .extent
+{
+ fill: #fff;
+ fill-opacity: .6;
+ stroke: gray;
+ shape-rendering: crispEdges;
+}
+
+.nvd3 .nv-parallelCoordinates .hover {
+ fill-opacity: 1;
+ stroke-width: 3px;
+}
+
+
+.nvd3 .missingValuesline line {
+ fill: none;
+ stroke: black;
+ stroke-width: 1;
+ stroke-opacity: 1;
+ stroke-dasharray: 5, 5;
+} +.nvd3.nv-pie path {
+ stroke-opacity: 0;
+ transition: fill-opacity 250ms linear, stroke-width 250ms linear, stroke-opacity 250ms linear;
+ -moz-transition: fill-opacity 250ms linear, stroke-width 250ms linear, stroke-opacity 250ms linear;
+ -webkit-transition: fill-opacity 250ms linear, stroke-width 250ms linear, stroke-opacity 250ms linear;
+
+}
+
+.nvd3.nv-pie .nv-pie-title {
+ font-size: 24px;
+ fill: rgba(19, 196, 249, 0.59);
+}
+
+.nvd3.nv-pie .nv-slice text {
+ stroke: #000;
+ stroke-width: 0;
+}
+
+.nvd3.nv-pie path {
+ stroke: #fff;
+ stroke-width: 1px;
+ stroke-opacity: 1;
+}
+
+.nvd3.nv-pie .hover path {
+ fill-opacity: .7;
+}
+.nvd3.nv-pie .nv-label {
+ pointer-events: none;
+}
+.nvd3.nv-pie .nv-label rect {
+ fill-opacity: 0;
+ stroke-opacity: 0;
+}
+ +/* scatter */
+.nvd3 .nv-groups .nv-point.hover {
+ stroke-width: 20px;
+ stroke-opacity: .5;
+}
+
+.nvd3 .nv-scatter .nv-point.hover {
+ fill-opacity: 1;
+}
+.nv-noninteractive {
+ pointer-events: none;
+}
+
+.nv-distx, .nv-disty {
+ pointer-events: none;
+}
+ +/* sparkline */
+.nvd3.nv-sparkline path {
+ fill: none;
+}
+
+.nvd3.nv-sparklineplus g.nv-hoverValue {
+ pointer-events: none;
+}
+
+.nvd3.nv-sparklineplus .nv-hoverValue line {
+ stroke: #333;
+ stroke-width: 1.5px;
+}
+
+.nvd3.nv-sparklineplus,
+.nvd3.nv-sparklineplus g {
+ pointer-events: all;
+}
+
+.nvd3 .nv-hoverArea {
+ fill-opacity: 0;
+ stroke-opacity: 0;
+}
+
+.nvd3.nv-sparklineplus .nv-xValue,
+.nvd3.nv-sparklineplus .nv-yValue {
+ stroke-width: 0;
+ font-size: .9em;
+ font-weight: normal;
+}
+
+.nvd3.nv-sparklineplus .nv-yValue {
+ stroke: #f66;
+}
+
+.nvd3.nv-sparklineplus .nv-maxValue {
+ stroke: #2ca02c;
+ fill: #2ca02c;
+}
+
+.nvd3.nv-sparklineplus .nv-minValue {
+ stroke: #d62728;
+ fill: #d62728;
+}
+
+.nvd3.nv-sparklineplus .nv-currentValue {
+ font-weight: bold;
+ font-size: 1.1em;
+} +/* stacked area */
+.nvd3.nv-stackedarea path.nv-area {
+ fill-opacity: .7;
+ stroke-opacity: 0;
+ transition: fill-opacity 250ms linear, stroke-opacity 250ms linear;
+ -moz-transition: fill-opacity 250ms linear, stroke-opacity 250ms linear;
+ -webkit-transition: fill-opacity 250ms linear, stroke-opacity 250ms linear;
+}
+
+.nvd3.nv-stackedarea path.nv-area.hover {
+ fill-opacity: .9;
+}
+
+
+.nvd3.nv-stackedarea .nv-groups .nv-point {
+ stroke-opacity: 0;
+ fill-opacity: 0;
+} +
+
+.nvtooltip {
+ position: absolute;
+ background-color: rgba(255,255,255,1.0);
+ color: rgba(0,0,0,1.0);
+ padding: 1px;
+ border: 1px solid rgba(0,0,0,.2);
+ z-index: 10000;
+ display: block;
+
+ font-family: Arial;
+ font-size: 13px;
+ text-align: left;
+ pointer-events: none;
+
+ white-space: nowrap;
+
+ -webkit-touch-callout: none;
+ -webkit-user-select: none;
+ -khtml-user-select: none;
+ -moz-user-select: none;
+ -ms-user-select: none;
+ user-select: none;
+}
+
+.nvtooltip {
+ background: rgba(255,255,255, 0.8);
+ border: 1px solid rgba(0,0,0,0.5);
+ border-radius: 4px;
+}
+
+/*Give tooltips that old fade in transition by
+ putting a "with-transitions" class on the container div.
+*/
+.nvtooltip.with-transitions, .with-transitions .nvtooltip {
+ transition: opacity 50ms linear;
+ -moz-transition: opacity 50ms linear;
+ -webkit-transition: opacity 50ms linear;
+
+ transition-delay: 200ms;
+ -moz-transition-delay: 200ms;
+ -webkit-transition-delay: 200ms;
+}
+
+.nvtooltip.x-nvtooltip,
+.nvtooltip.y-nvtooltip {
+ padding: 8px;
+}
+
+.nvtooltip h3 {
+ margin: 0;
+ padding: 4px 14px;
+ line-height: 18px;
+ font-weight: normal;
+ background-color: rgba(247,247,247,0.75);
+ color: rgba(0,0,0,1.0);
+ text-align: center;
+
+ border-bottom: 1px solid #ebebeb;
+
+ -webkit-border-radius: 5px 5px 0 0;
+ -moz-border-radius: 5px 5px 0 0;
+ border-radius: 5px 5px 0 0;
+}
+
+.nvtooltip p {
+ margin: 0;
+ padding: 5px 14px;
+ text-align: center;
+}
+
+.nvtooltip span {
+ display: inline-block;
+ margin: 2px 0;
+}
+
+.nvtooltip table {
+ margin: 6px;
+ border-spacing:0;
+}
+
+
+.nvtooltip table td {
+ padding: 2px 9px 2px 0;
+ vertical-align: middle;
+}
+
+.nvtooltip table td.key {
+ font-weight:normal;
+}
+.nvtooltip table td.value {
+ text-align: right;
+ font-weight: bold;
+}
+
+.nvtooltip table tr.highlight td {
+ padding: 1px 9px 1px 0;
+ border-bottom-style: solid;
+ border-bottom-width: 1px;
+ border-top-style: solid;
+ border-top-width: 1px;
+}
+
+.nvtooltip table td.legend-color-guide div {
+ width: 8px;
+ height: 8px;
+ vertical-align: middle;
+}
+
+.nvtooltip table td.legend-color-guide div {
+ width: 12px;
+ height: 12px;
+ border: 1px solid #999;
+}
+
+.nvtooltip .footer {
+ padding: 3px;
+ text-align: center;
+}
+
+.nvtooltip-pending-removal {
+ pointer-events: none;
+ display: none;
+}
+
+
+/****
+Interactive Layer
+*/
+.nvd3 .nv-interactiveGuideLine {
+ pointer-events:none;
+}
+.nvd3 line.nv-guideline {
+ stroke: #ccc;
+}
\ No newline at end of file diff --git a/wqflask/wqflask/static/new/packages/nvd3/nv.d3.js b/wqflask/wqflask/static/new/packages/nvd3/nv.d3.js new file mode 100644 index 00000000..b11ce58f --- /dev/null +++ b/wqflask/wqflask/static/new/packages/nvd3/nv.d3.js @@ -0,0 +1,13362 @@ +/* nvd3 version 1.8.1 (https://github.com/novus/nvd3) 2015-05-25 */ +(function(){ + +// set up main nv object +var nv = {}; + +// the major global objects under the nv namespace +nv.dev = false; //set false when in production +nv.tooltip = nv.tooltip || {}; // For the tooltip system +nv.utils = nv.utils || {}; // Utility subsystem +nv.models = nv.models || {}; //stores all the possible models/components +nv.charts = {}; //stores all the ready to use charts +nv.logs = {}; //stores some statistics and potential error messages +nv.dom = {}; //DOM manipulation functions + +nv.dispatch = d3.dispatch('render_start', 'render_end'); + +// Function bind polyfill +// Needed ONLY for phantomJS as it's missing until version 2.0 which is unreleased as of this comment +// https://github.com/ariya/phantomjs/issues/10522 +// http://kangax.github.io/compat-table/es5/#Function.prototype.bind +// phantomJS is used for running the test suite +if (!Function.prototype.bind) { + Function.prototype.bind = function (oThis) { + if (typeof this !== "function") { + // closest thing possible to the ECMAScript 5 internal IsCallable function + throw new TypeError("Function.prototype.bind - what is trying to be bound is not callable"); + } + + var aArgs = Array.prototype.slice.call(arguments, 1), + fToBind = this, + fNOP = function () {}, + fBound = function () { + return fToBind.apply(this instanceof fNOP && oThis + ? this + : oThis, + aArgs.concat(Array.prototype.slice.call(arguments))); + }; + + fNOP.prototype = this.prototype; + fBound.prototype = new fNOP(); + return fBound; + }; +} + +// Development render timers - disabled if dev = false +if (nv.dev) { + nv.dispatch.on('render_start', function(e) { + nv.logs.startTime = +new Date(); + }); + + nv.dispatch.on('render_end', function(e) { + nv.logs.endTime = +new Date(); + nv.logs.totalTime = nv.logs.endTime - nv.logs.startTime; + nv.log('total', nv.logs.totalTime); // used for development, to keep track of graph generation times + }); +} + +// Logs all arguments, and returns the last so you can test things in place +// Note: in IE8 console.log is an object not a function, and if modernizr is used +// then calling Function.prototype.bind with with anything other than a function +// causes a TypeError to be thrown. +nv.log = function() { + if (nv.dev && window.console && console.log && console.log.apply) + console.log.apply(console, arguments); + else if (nv.dev && window.console && typeof console.log == "function" && Function.prototype.bind) { + var log = Function.prototype.bind.call(console.log, console); + log.apply(console, arguments); + } + return arguments[arguments.length - 1]; +}; + +// print console warning, should be used by deprecated functions +nv.deprecated = function(name, info) { + if (console && console.warn) { + console.warn('nvd3 warning: `' + name + '` has been deprecated. ', info || ''); + } +}; + +// The nv.render function is used to queue up chart rendering +// in non-blocking async functions. +// When all queued charts are done rendering, nv.dispatch.render_end is invoked. +nv.render = function render(step) { + // number of graphs to generate in each timeout loop + step = step || 1; + + nv.render.active = true; + nv.dispatch.render_start(); + + var renderLoop = function() { + var chart, graph; + + for (var i = 0; i < step && (graph = nv.render.queue[i]); i++) { + chart = graph.generate(); + if (typeof graph.callback == typeof(Function)) graph.callback(chart); + } + + nv.render.queue.splice(0, i); + + if (nv.render.queue.length) { + setTimeout(renderLoop); + } + else { + nv.dispatch.render_end(); + nv.render.active = false; + } + }; + + setTimeout(renderLoop); +}; + +nv.render.active = false; +nv.render.queue = []; + +/* +Adds a chart to the async rendering queue. This method can take arguments in two forms: +nv.addGraph({ + generate: <Function> + callback: <Function> +}) + +or + +nv.addGraph(<generate Function>, <callback Function>) + +The generate function should contain code that creates the NVD3 model, sets options +on it, adds data to an SVG element, and invokes the chart model. The generate function +should return the chart model. See examples/lineChart.html for a usage example. + +The callback function is optional, and it is called when the generate function completes. +*/ +nv.addGraph = function(obj) { + if (typeof arguments[0] === typeof(Function)) { + obj = {generate: arguments[0], callback: arguments[1]}; + } + + nv.render.queue.push(obj); + + if (!nv.render.active) { + nv.render(); + } +}; + +// Node/CommonJS exports +if (typeof(module) !== 'undefined' && typeof(exports) !== 'undefined') { + module.exports = nv; +} + +if (typeof(window) !== 'undefined') { + window.nv = nv; +} +/* Facade for queueing DOM write operations
+ * with Fastdom (https://github.com/wilsonpage/fastdom)
+ * if available.
+ * This could easily be extended to support alternate
+ * implementations in the future.
+ */
+nv.dom.write = function(callback) {
+ if (window.fastdom !== undefined) {
+ return fastdom.write(callback);
+ }
+ return callback();
+};
+
+/* Facade for queueing DOM read operations
+ * with Fastdom (https://github.com/wilsonpage/fastdom)
+ * if available.
+ * This could easily be extended to support alternate
+ * implementations in the future.
+ */
+nv.dom.read = function(callback) {
+ if (window.fastdom !== undefined) {
+ return fastdom.read(callback);
+ }
+ return callback();
+};/* Utility class to handle creation of an interactive layer. + This places a rectangle on top of the chart. When you mouse move over it, it sends a dispatch + containing the X-coordinate. It can also render a vertical line where the mouse is located. + + dispatch.elementMousemove is the important event to latch onto. It is fired whenever the mouse moves over + the rectangle. The dispatch is given one object which contains the mouseX/Y location. + It also has 'pointXValue', which is the conversion of mouseX to the x-axis scale. + */ +nv.interactiveGuideline = function() { + "use strict"; + + var tooltip = nv.models.tooltip(); + tooltip.duration(0).hideDelay(0)._isInteractiveLayer(true).hidden(false); + + //Public settings + var width = null; + var height = null; + + //Please pass in the bounding chart's top and left margins + //This is important for calculating the correct mouseX/Y positions. + var margin = {left: 0, top: 0} + , xScale = d3.scale.linear() + , dispatch = d3.dispatch('elementMousemove', 'elementMouseout', 'elementClick', 'elementDblclick') + , showGuideLine = true; + //Must pass in the bounding chart's <svg> container. + //The mousemove event is attached to this container. + var svgContainer = null; + + // check if IE by looking for activeX + var isMSIE = "ActiveXObject" in window; + + + function layer(selection) { + selection.each(function(data) { + var container = d3.select(this); + var availableWidth = (width || 960), availableHeight = (height || 400); + var wrap = container.selectAll("g.nv-wrap.nv-interactiveLineLayer") + .data([data]); + var wrapEnter = wrap.enter() + .append("g").attr("class", " nv-wrap nv-interactiveLineLayer"); + wrapEnter.append("g").attr("class","nv-interactiveGuideLine"); + + if (!svgContainer) { + return; + } + + function mouseHandler() { + var d3mouse = d3.mouse(this); + var mouseX = d3mouse[0]; + var mouseY = d3mouse[1]; + var subtractMargin = true; + var mouseOutAnyReason = false; + if (isMSIE) { + /* + D3.js (or maybe SVG.getScreenCTM) has a nasty bug in Internet Explorer 10. + d3.mouse() returns incorrect X,Y mouse coordinates when mouse moving + over a rect in IE 10. + However, d3.event.offsetX/Y also returns the mouse coordinates + relative to the triggering <rect>. So we use offsetX/Y on IE. + */ + mouseX = d3.event.offsetX; + mouseY = d3.event.offsetY; + + /* + On IE, if you attach a mouse event listener to the <svg> container, + it will actually trigger it for all the child elements (like <path>, <circle>, etc). + When this happens on IE, the offsetX/Y is set to where ever the child element + is located. + As a result, we do NOT need to subtract margins to figure out the mouse X/Y + position under this scenario. Removing the line below *will* cause + the interactive layer to not work right on IE. + */ + if(d3.event.target.tagName !== "svg") { + subtractMargin = false; + } + + if (d3.event.target.className.baseVal.match("nv-legend")) { + mouseOutAnyReason = true; + } + + } + + if(subtractMargin) { + mouseX -= margin.left; + mouseY -= margin.top; + } + + /* If mouseX/Y is outside of the chart's bounds, + trigger a mouseOut event. + */ + if (mouseX < 0 || mouseY < 0 + || mouseX > availableWidth || mouseY > availableHeight + || (d3.event.relatedTarget && d3.event.relatedTarget.ownerSVGElement === undefined) + || mouseOutAnyReason + ) { + + if (isMSIE) { + if (d3.event.relatedTarget + && d3.event.relatedTarget.ownerSVGElement === undefined + && (d3.event.relatedTarget.className === undefined + || d3.event.relatedTarget.className.match(tooltip.nvPointerEventsClass))) { + + return; + } + } + dispatch.elementMouseout({ + mouseX: mouseX, + mouseY: mouseY + }); + layer.renderGuideLine(null); //hide the guideline + tooltip.hidden(true); + return; + } else { + tooltip.hidden(false); + } + + var pointXValue = xScale.invert(mouseX); + dispatch.elementMousemove({ + mouseX: mouseX, + mouseY: mouseY, + pointXValue: pointXValue + }); + + //If user double clicks the layer, fire a elementDblclick + if (d3.event.type === "dblclick") { + dispatch.elementDblclick({ + mouseX: mouseX, + mouseY: mouseY, + pointXValue: pointXValue + }); + } + + // if user single clicks the layer, fire elementClick + if (d3.event.type === 'click') { + dispatch.elementClick({ + mouseX: mouseX, + mouseY: mouseY, + pointXValue: pointXValue + }); + } + } + + svgContainer + .on("touchmove",mouseHandler) + .on("mousemove",mouseHandler, true) + .on("mouseout" ,mouseHandler,true) + .on("dblclick" ,mouseHandler) + .on("click", mouseHandler) + ; + + layer.guideLine = null; + //Draws a vertical guideline at the given X postion. + layer.renderGuideLine = function(x) { + if (!showGuideLine) return; + if (layer.guideLine && layer.guideLine.attr("x1") === x) return; + nv.dom.write(function() { + var line = wrap.select(".nv-interactiveGuideLine") + .selectAll("line") + .data((x != null) ? [nv.utils.NaNtoZero(x)] : [], String); + line.enter() + .append("line") + .attr("class", "nv-guideline") + .attr("x1", function(d) { return d;}) + .attr("x2", function(d) { return d;}) + .attr("y1", availableHeight) + .attr("y2",0); + line.exit().remove(); + }); + } + }); + } + + layer.dispatch = dispatch; + layer.tooltip = tooltip; + + layer.margin = function(_) { + if (!arguments.length) return margin; + margin.top = typeof _.top != 'undefined' ? _.top : margin.top; + margin.left = typeof _.left != 'undefined' ? _.left : margin.left; + return layer; + }; + + layer.width = function(_) { + if (!arguments.length) return width; + width = _; + return layer; + }; + + layer.height = function(_) { + if (!arguments.length) return height; + height = _; + return layer; + }; + + layer.xScale = function(_) { + if (!arguments.length) return xScale; + xScale = _; + return layer; + }; + + layer.showGuideLine = function(_) { + if (!arguments.length) return showGuideLine; + showGuideLine = _; + return layer; + }; + + layer.svgContainer = function(_) { + if (!arguments.length) return svgContainer; + svgContainer = _; + return layer; + }; + + return layer; +}; + +/* Utility class that uses d3.bisect to find the index in a given array, where a search value can be inserted. + This is different from normal bisectLeft; this function finds the nearest index to insert the search value. + + For instance, lets say your array is [1,2,3,5,10,30], and you search for 28. + Normal d3.bisectLeft will return 4, because 28 is inserted after the number 10. But interactiveBisect will return 5 + because 28 is closer to 30 than 10. + + Unit tests can be found in: interactiveBisectTest.html + + Has the following known issues: + * Will not work if the data points move backwards (ie, 10,9,8,7, etc) or if the data points are in random order. + * Won't work if there are duplicate x coordinate values. + */ +nv.interactiveBisect = function (values, searchVal, xAccessor) { + "use strict"; + if (! (values instanceof Array)) { + return null; + } + var _xAccessor; + if (typeof xAccessor !== 'function') { + _xAccessor = function(d) { + return d.x; + } + } else { + _xAccessor = xAccessor; + } + var _cmp = function(d, v) { + // Accessors are no longer passed the index of the element along with + // the element itself when invoked by d3.bisector. + // + // Starting at D3 v3.4.4, d3.bisector() started inspecting the + // function passed to determine if it should consider it an accessor + // or a comparator. This meant that accessors that take two arguments + // (expecting an index as the second parameter) are treated as + // comparators where the second argument is the search value against + // which the first argument is compared. + return _xAccessor(d) - v; + }; + + var bisect = d3.bisector(_cmp).left; + var index = d3.max([0, bisect(values,searchVal) - 1]); + var currentValue = _xAccessor(values[index]); + + if (typeof currentValue === 'undefined') { + currentValue = index; + } + + if (currentValue === searchVal) { + return index; //found exact match + } + + var nextIndex = d3.min([index+1, values.length - 1]); + var nextValue = _xAccessor(values[nextIndex]); + + if (typeof nextValue === 'undefined') { + nextValue = nextIndex; + } + + if (Math.abs(nextValue - searchVal) >= Math.abs(currentValue - searchVal)) { + return index; + } else { + return nextIndex + } +}; + +/* + Returns the index in the array "values" that is closest to searchVal. + Only returns an index if searchVal is within some "threshold". + Otherwise, returns null. + */ +nv.nearestValueIndex = function (values, searchVal, threshold) { + "use strict"; + var yDistMax = Infinity, indexToHighlight = null; + values.forEach(function(d,i) { + var delta = Math.abs(searchVal - d); + if ( d != null && delta <= yDistMax && delta < threshold) { + yDistMax = delta; + indexToHighlight = i; + } + }); + return indexToHighlight; +}; +/* Tooltip rendering model for nvd3 charts. + window.nv.models.tooltip is the updated,new way to render tooltips. + + window.nv.tooltip.show is the old tooltip code. + window.nv.tooltip.* also has various helper methods. + */ +(function() { + "use strict"; + + /* Model which can be instantiated to handle tooltip rendering. + Example usage: + var tip = nv.models.tooltip().gravity('w').distance(23) + .data(myDataObject); + + tip(); //just invoke the returned function to render tooltip. + */ + nv.models.tooltip = function() { + + /* + Tooltip data. If data is given in the proper format, a consistent tooltip is generated. + Example Format of data: + { + key: "Date", + value: "August 2009", + series: [ + {key: "Series 1", value: "Value 1", color: "#000"}, + {key: "Series 2", value: "Value 2", color: "#00f"} + ] + } + */ + var data = null; + var gravity = 'w' //Can be 'n','s','e','w'. Determines how tooltip is positioned. + , distance = 25 //Distance to offset tooltip from the mouse location. + , snapDistance = 0 //Tolerance allowed before tooltip is moved from its current position (creates 'snapping' effect) + , fixedTop = null //If not null, this fixes the top position of the tooltip. + , classes = null //Attaches additional CSS classes to the tooltip DIV that is created. + , chartContainer = null //Parent dom element of the SVG that holds the chart. + , hidden = true // start off hidden, toggle with hide/show functions below + , hideDelay = 400 // delay before the tooltip hides after calling hide() + , tooltip = null // d3 select of tooltipElem below + , tooltipElem = null //actual DOM element representing the tooltip. + , position = {left: null, top: null} //Relative position of the tooltip inside chartContainer. + , offset = {left: 0, top: 0} //Offset of tooltip against the pointer + , enabled = true //True -> tooltips are rendered. False -> don't render tooltips. + , duration = 100 // duration for tooltip movement + , headerEnabled = true + ; + + // set to true by interactive layer to adjust tooltip positions + // eventually we should probably fix interactive layer to get the position better. + // for now this is needed if you want to set chartContainer for normal tooltips, else it "fixes" it to broken + var isInteractiveLayer = false; + + //Generates a unique id when you create a new tooltip() object + var id = "nvtooltip-" + Math.floor(Math.random() * 100000); + + //CSS class to specify whether element should not have mouse events. + var nvPointerEventsClass = "nv-pointer-events-none"; + + //Format function for the tooltip values column + var valueFormatter = function(d,i) { + return d; + }; + + //Format function for the tooltip header value. + var headerFormatter = function(d) { + return d; + }; + + var keyFormatter = function(d, i) { + return d; + }; + + //By default, the tooltip model renders a beautiful table inside a DIV. + //You can override this function if a custom tooltip is desired. + var contentGenerator = function(d) { + if (d === null) { + return ''; + } + + var table = d3.select(document.createElement("table")); + if (headerEnabled) { + var theadEnter = table.selectAll("thead") + .data([d]) + .enter().append("thead"); + + theadEnter.append("tr") + .append("td") + .attr("colspan", 3) + .append("strong") + .classed("x-value", true) + .html(headerFormatter(d.value)); + } + + var tbodyEnter = table.selectAll("tbody") + .data([d]) + .enter().append("tbody"); + + var trowEnter = tbodyEnter.selectAll("tr") + .data(function(p) { return p.series}) + .enter() + .append("tr") + .classed("highlight", function(p) { return p.highlight}); + + trowEnter.append("td") + .classed("legend-color-guide",true) + .append("div") + .style("background-color", function(p) { return p.color}); + + trowEnter.append("td") + .classed("key",true) + .html(function(p, i) {return keyFormatter(p.key, i)}); + + trowEnter.append("td") + .classed("value",true) + .html(function(p, i) { return valueFormatter(p.value, i) }); + + + trowEnter.selectAll("td").each(function(p) { + if (p.highlight) { + var opacityScale = d3.scale.linear().domain([0,1]).range(["#fff",p.color]); + var opacity = 0.6; + d3.select(this) + .style("border-bottom-color", opacityScale(opacity)) + .style("border-top-color", opacityScale(opacity)) + ; + } + }); + + var html = table.node().outerHTML; + if (d.footer !== undefined) + html += "<div class='footer'>" + d.footer + "</div>"; + return html; + + }; + + var dataSeriesExists = function(d) { + if (d && d.series) { + if (d.series instanceof Array) { + return !!d.series.length; + } + // if object, it's okay just convert to array of the object + if (d.series instanceof Object) { + d.series = [d.series]; + return true; + } + } + return false; + }; + + var calcTooltipPosition = function(pos) { + if (!tooltipElem) return; + + nv.dom.read(function() { + var height = parseInt(tooltipElem.offsetHeight, 10), + width = parseInt(tooltipElem.offsetWidth, 10), + windowWidth = nv.utils.windowSize().width, + windowHeight = nv.utils.windowSize().height, + scrollTop = window.pageYOffset, + scrollLeft = window.pageXOffset, + left, top; + + windowHeight = window.innerWidth >= document.body.scrollWidth ? windowHeight : windowHeight - 16; + windowWidth = window.innerHeight >= document.body.scrollHeight ? windowWidth : windowWidth - 16; + + + //Helper functions to find the total offsets of a given DOM element. + //Looks up the entire ancestry of an element, up to the first relatively positioned element. + var tooltipTop = function ( Elem ) { + var offsetTop = top; + do { + if( !isNaN( Elem.offsetTop ) ) { + offsetTop += (Elem.offsetTop); + } + Elem = Elem.offsetParent; + } while( Elem ); + return offsetTop; + }; + var tooltipLeft = function ( Elem ) { + var offsetLeft = left; + do { + if( !isNaN( Elem.offsetLeft ) ) { + offsetLeft += (Elem.offsetLeft); + } + Elem = Elem.offsetParent; + } while( Elem ); + return offsetLeft; + }; + + // calculate position based on gravity + var tLeft, tTop; + switch (gravity) { + case 'e': + left = pos[0] - width - distance; + top = pos[1] - (height / 2); + tLeft = tooltipLeft(tooltipElem); + tTop = tooltipTop(tooltipElem); + if (tLeft < scrollLeft) left = pos[0] + distance > scrollLeft ? pos[0] + distance : scrollLeft - tLeft + left; + if (tTop < scrollTop) top = scrollTop - tTop + top; + if (tTop + height > scrollTop + windowHeight) top = scrollTop + windowHeight - tTop + top - height; + break; + case 'w': + left = pos[0] + distance; + top = pos[1] - (height / 2); + tLeft = tooltipLeft(tooltipElem); + tTop = tooltipTop(tooltipElem); + if (tLeft + width > windowWidth) left = pos[0] - width - distance; + if (tTop < scrollTop) top = scrollTop + 5; + if (tTop + height > scrollTop + windowHeight) top = scrollTop + windowHeight - tTop + top - height; + break; + case 'n': + left = pos[0] - (width / 2) - 5; + top = pos[1] + distance; + tLeft = tooltipLeft(tooltipElem); + tTop = tooltipTop(tooltipElem); + if (tLeft < scrollLeft) left = scrollLeft + 5; + if (tLeft + width > windowWidth) left = left - width/2 + 5; + if (tTop + height > scrollTop + windowHeight) top = scrollTop + windowHeight - tTop + top - height; + break; + case 's': + left = pos[0] - (width / 2); + top = pos[1] - height - distance; + tLeft = tooltipLeft(tooltipElem); + tTop = tooltipTop(tooltipElem); + if (tLeft < scrollLeft) left = scrollLeft + 5; + if (tLeft + width > windowWidth) left = left - width/2 + 5; + if (scrollTop > tTop) top = scrollTop; + break; + case 'none': + left = pos[0]; + top = pos[1] - distance; + tLeft = tooltipLeft(tooltipElem); + tTop = tooltipTop(tooltipElem); + break; + } + + // adjust tooltip offsets + left -= offset.left; + top -= offset.top; + + // using tooltip.style('transform') returns values un-usable for tween + var box = tooltipElem.getBoundingClientRect(); + var scrollTop = window.pageYOffset || document.documentElement.scrollTop; + var scrollLeft = window.pageXOffset || document.documentElement.scrollLeft; + var old_translate = 'translate(' + (box.left + scrollLeft) + 'px, ' + (box.top + scrollTop) + 'px)'; + var new_translate = 'translate(' + left + 'px, ' + top + 'px)'; + var translateInterpolator = d3.interpolateString(old_translate, new_translate); + + var is_hidden = tooltip.style('opacity') < 0.1; + + // delay hiding a bit to avoid flickering + if (hidden) { + tooltip + .transition() + .delay(hideDelay) + .duration(0) + .style('opacity', 0); + } else { + tooltip + .interrupt() // cancel running transitions + .transition() + .duration(is_hidden ? 0 : duration) + // using tween since some versions of d3 can't auto-tween a translate on a div + .styleTween('transform', function (d) { + return translateInterpolator; + }, 'important') + // Safari has its own `-webkit-transform` and does not support `transform` + // transform tooltip without transition only in Safari + .style('-webkit-transform', new_translate) + .style('opacity', 1); + } + + + + }); + }; + + //In situations where the chart is in a 'viewBox', re-position the tooltip based on how far chart is zoomed. + function convertViewBoxRatio() { + if (chartContainer) { + var svg = d3.select(chartContainer); + if (svg.node().tagName !== "svg") { + svg = svg.select("svg"); + } + var viewBox = (svg.node()) ? svg.attr('viewBox') : null; + if (viewBox) { + viewBox = viewBox.split(' '); + var ratio = parseInt(svg.style('width'), 10) / viewBox[2]; + + position.left = position.left * ratio; + position.top = position.top * ratio; + } + } + } + + //Creates new tooltip container, or uses existing one on DOM. + function initTooltip() { + if (!tooltip) { + var body; + if (chartContainer) { + body = chartContainer; + } else { + body = document.body; + } + //Create new tooltip div if it doesn't exist on DOM. + tooltip = d3.select(body).append("div") + .attr("class", "nvtooltip " + (classes ? classes : "xy-tooltip")) + .attr("id", id); + tooltip.style("top", 0).style("left", 0); + tooltip.style('opacity', 0); + tooltip.selectAll("div, table, td, tr").classed(nvPointerEventsClass, true); + tooltip.classed(nvPointerEventsClass, true); + tooltipElem = tooltip.node(); + } + } + + //Draw the tooltip onto the DOM. + function nvtooltip() { + if (!enabled) return; + if (!dataSeriesExists(data)) return; + + convertViewBoxRatio(); + + var left = position.left; + var top = (fixedTop !== null) ? fixedTop : position.top; + + nv.dom.write(function () { + initTooltip(); + // generate data and set it into tooltip + // Bonus - If you override contentGenerator and return falsey you can use something like + // React or Knockout to bind the data for your tooltip + var newContent = contentGenerator(data); + if (newContent) { + tooltipElem.innerHTML = newContent; + } + + if (chartContainer && isInteractiveLayer) { + nv.dom.read(function() { + var svgComp = chartContainer.getElementsByTagName("svg")[0]; + var svgOffset = {left:0,top:0}; + if (svgComp) { + var svgBound = svgComp.getBoundingClientRect(); + var chartBound = chartContainer.getBoundingClientRect(); + var svgBoundTop = svgBound.top; + + //Defensive code. Sometimes, svgBoundTop can be a really negative + // number, like -134254. That's a bug. + // If such a number is found, use zero instead. FireFox bug only + if (svgBoundTop < 0) { + var containerBound = chartContainer.getBoundingClientRect(); + svgBoundTop = (Math.abs(svgBoundTop) > containerBound.height) ? 0 : svgBoundTop; + } + svgOffset.top = Math.abs(svgBoundTop - chartBound.top); + svgOffset.left = Math.abs(svgBound.left - chartBound.left); + } + //If the parent container is an overflow <div> with scrollbars, subtract the scroll offsets. + //You need to also add any offset between the <svg> element and its containing <div> + //Finally, add any offset of the containing <div> on the whole page. + left += chartContainer.offsetLeft + svgOffset.left - 2*chartContainer.scrollLeft; + top += chartContainer.offsetTop + svgOffset.top - 2*chartContainer.scrollTop; + + if (snapDistance && snapDistance > 0) { + top = Math.floor(top/snapDistance) * snapDistance; + } + calcTooltipPosition([left,top]); + }); + } else { + calcTooltipPosition([left,top]); + } + }); + + return nvtooltip; + } + + nvtooltip.nvPointerEventsClass = nvPointerEventsClass; + nvtooltip.options = nv.utils.optionsFunc.bind(nvtooltip); + + nvtooltip._options = Object.create({}, { + // simple read/write options + duration: {get: function(){return duration;}, set: function(_){duration=_;}}, + gravity: {get: function(){return gravity;}, set: function(_){gravity=_;}}, + distance: {get: function(){return distance;}, set: function(_){distance=_;}}, + snapDistance: {get: function(){return snapDistance;}, set: function(_){snapDistance=_;}}, + classes: {get: function(){return classes;}, set: function(_){classes=_;}}, + chartContainer: {get: function(){return chartContainer;}, set: function(_){chartContainer=_;}}, + fixedTop: {get: function(){return fixedTop;}, set: function(_){fixedTop=_;}}, + enabled: {get: function(){return enabled;}, set: function(_){enabled=_;}}, + hideDelay: {get: function(){return hideDelay;}, set: function(_){hideDelay=_;}}, + contentGenerator: {get: function(){return contentGenerator;}, set: function(_){contentGenerator=_;}}, + valueFormatter: {get: function(){return valueFormatter;}, set: function(_){valueFormatter=_;}}, + headerFormatter: {get: function(){return headerFormatter;}, set: function(_){headerFormatter=_;}}, + keyFormatter: {get: function(){return keyFormatter;}, set: function(_){keyFormatter=_;}}, + headerEnabled: {get: function(){return headerEnabled;}, set: function(_){headerEnabled=_;}}, + + // internal use only, set by interactive layer to adjust position. + _isInteractiveLayer: {get: function(){return isInteractiveLayer;}, set: function(_){isInteractiveLayer=!!_;}}, + + // options with extra logic + position: {get: function(){return position;}, set: function(_){ + position.left = _.left !== undefined ? _.left : position.left; + position.top = _.top !== undefined ? _.top : position.top; + }}, + offset: {get: function(){return offset;}, set: function(_){ + offset.left = _.left !== undefined ? _.left : offset.left; + offset.top = _.top !== undefined ? _.top : offset.top; + }}, + hidden: {get: function(){return hidden;}, set: function(_){ + if (hidden != _) { + hidden = !!_; + nvtooltip(); + } + }}, + data: {get: function(){return data;}, set: function(_){ + // if showing a single data point, adjust data format with that + if (_.point) { + _.value = _.point.x; + _.series = _.series || {}; + _.series.value = _.point.y; + _.series.color = _.point.color || _.series.color; + } + data = _; + }}, + + // read only properties + tooltipElem: {get: function(){return tooltipElem;}, set: function(_){}}, + id: {get: function(){return id;}, set: function(_){}} + }); + + nv.utils.initOptions(nvtooltip); + return nvtooltip; + }; + +})(); + + +/* +Gets the browser window size + +Returns object with height and width properties + */ +nv.utils.windowSize = function() { + // Sane defaults + var size = {width: 640, height: 480}; + + // Most recent browsers use + if (window.innerWidth && window.innerHeight) { + size.width = window.innerWidth; + size.height = window.innerHeight; + return (size); + } + + // IE can use depending on mode it is in + if (document.compatMode=='CSS1Compat' && + document.documentElement && + document.documentElement.offsetWidth ) { + + size.width = document.documentElement.offsetWidth; + size.height = document.documentElement.offsetHeight; + return (size); + } + + // Earlier IE uses Doc.body + if (document.body && document.body.offsetWidth) { + size.width = document.body.offsetWidth; + size.height = document.body.offsetHeight; + return (size); + } + + return (size); +}; + +/* +Binds callback function to run when window is resized + */ +nv.utils.windowResize = function(handler) { + if (window.addEventListener) { + window.addEventListener('resize', handler); + } else { + nv.log("ERROR: Failed to bind to window.resize with: ", handler); + } + // return object with clear function to remove the single added callback. + return { + callback: handler, + clear: function() { + window.removeEventListener('resize', handler); + } + } +}; + + +/* +Backwards compatible way to implement more d3-like coloring of graphs. +Can take in nothing, an array, or a function/scale +To use a normal scale, get the range and pass that because we must be able +to take two arguments and use the index to keep backward compatibility +*/ +nv.utils.getColor = function(color) { + //if you pass in nothing, get default colors back + if (color === undefined) { + return nv.utils.defaultColor(); + + //if passed an array, turn it into a color scale + // use isArray, instanceof fails if d3 range is created in an iframe + } else if(Array.isArray(color)) { + var color_scale = d3.scale.ordinal().range(color); + return function(d, i) { + var key = i === undefined ? d : i; + return d.color || color_scale(key); + }; + + //if passed a function or scale, return it, or whatever it may be + //external libs, such as angularjs-nvd3-directives use this + } else { + //can't really help it if someone passes rubbish as color + return color; + } +}; + + +/* +Default color chooser uses a color scale of 20 colors from D3 + https://github.com/mbostock/d3/wiki/Ordinal-Scales#categorical-colors + */ +nv.utils.defaultColor = function() { + // get range of the scale so we'll turn it into our own function. + return nv.utils.getColor(d3.scale.category20().range()); +}; + + +/* +Returns a color function that takes the result of 'getKey' for each series and +looks for a corresponding color from the dictionary +*/ +nv.utils.customTheme = function(dictionary, getKey, defaultColors) { + // use default series.key if getKey is undefined + getKey = getKey || function(series) { return series.key }; + defaultColors = defaultColors || d3.scale.category20().range(); + + // start at end of default color list and walk back to index 0 + var defIndex = defaultColors.length; + + return function(series, index) { + var key = getKey(series); + if (typeof dictionary[key] === 'function') { + return dictionary[key](); + } else if (dictionary[key] !== undefined) { + return dictionary[key]; + } else { + // no match in dictionary, use a default color + if (!defIndex) { + // used all the default colors, start over + defIndex = defaultColors.length; + } + defIndex = defIndex - 1; + return defaultColors[defIndex]; + } + }; +}; + + +/* +From the PJAX example on d3js.org, while this is not really directly needed +it's a very cool method for doing pjax, I may expand upon it a little bit, +open to suggestions on anything that may be useful +*/ +nv.utils.pjax = function(links, content) { + + var load = function(href) { + d3.html(href, function(fragment) { + var target = d3.select(content).node(); + target.parentNode.replaceChild( + d3.select(fragment).select(content).node(), + target); + nv.utils.pjax(links, content); + }); + }; + + d3.selectAll(links).on("click", function() { + history.pushState(this.href, this.textContent, this.href); + load(this.href); + d3.event.preventDefault(); + }); + + d3.select(window).on("popstate", function() { + if (d3.event.state) { + load(d3.event.state); + } + }); +}; + + +/* +For when we want to approximate the width in pixels for an SVG:text element. +Most common instance is when the element is in a display:none; container. +Forumla is : text.length * font-size * constant_factor +*/ +nv.utils.calcApproxTextWidth = function (svgTextElem) { + if (typeof svgTextElem.style === 'function' + && typeof svgTextElem.text === 'function') { + + var fontSize = parseInt(svgTextElem.style("font-size").replace("px",""), 10); + var textLength = svgTextElem.text().length; + return textLength * fontSize * 0.5; + } + return 0; +}; + + +/* +Numbers that are undefined, null or NaN, convert them to zeros. +*/ +nv.utils.NaNtoZero = function(n) { + if (typeof n !== 'number' + || isNaN(n) + || n === null + || n === Infinity + || n === -Infinity) { + + return 0; + } + return n; +}; + +/* +Add a way to watch for d3 transition ends to d3 +*/ +d3.selection.prototype.watchTransition = function(renderWatch){ + var args = [this].concat([].slice.call(arguments, 1)); + return renderWatch.transition.apply(renderWatch, args); +}; + + +/* +Helper object to watch when d3 has rendered something +*/ +nv.utils.renderWatch = function(dispatch, duration) { + if (!(this instanceof nv.utils.renderWatch)) { + return new nv.utils.renderWatch(dispatch, duration); + } + + var _duration = duration !== undefined ? duration : 250; + var renderStack = []; + var self = this; + + this.models = function(models) { + models = [].slice.call(arguments, 0); + models.forEach(function(model){ + model.__rendered = false; + (function(m){ + m.dispatch.on('renderEnd', function(arg){ + m.__rendered = true; + self.renderEnd('model'); + }); + })(model); + + if (renderStack.indexOf(model) < 0) { + renderStack.push(model); + } + }); + return this; + }; + + this.reset = function(duration) { + if (duration !== undefined) { + _duration = duration; + } + renderStack = []; + }; + + this.transition = function(selection, args, duration) { + args = arguments.length > 1 ? [].slice.call(arguments, 1) : []; + + if (args.length > 1) { + duration = args.pop(); + } else { + duration = _duration !== undefined ? _duration : 250; + } + selection.__rendered = false; + + if (renderStack.indexOf(selection) < 0) { + renderStack.push(selection); + } + + if (duration === 0) { + selection.__rendered = true; + selection.delay = function() { return this; }; + selection.duration = function() { return this; }; + return selection; + } else { + if (selection.length === 0) { + selection.__rendered = true; + } else if (selection.every( function(d){ return !d.length; } )) { + selection.__rendered = true; + } else { + selection.__rendered = false; + } + + var n = 0; + return selection + .transition() + .duration(duration) + .each(function(){ ++n; }) + .each('end', function(d, i) { + if (--n === 0) { + selection.__rendered = true; + self.renderEnd.apply(this, args); + } + }); + } + }; + + this.renderEnd = function() { + if (renderStack.every( function(d){ return d.__rendered; } )) { + renderStack.forEach( function(d){ d.__rendered = false; }); + dispatch.renderEnd.apply(this, arguments); + } + } + +}; + + +/* +Takes multiple objects and combines them into the first one (dst) +example: nv.utils.deepExtend({a: 1}, {a: 2, b: 3}, {c: 4}); +gives: {a: 2, b: 3, c: 4} +*/ +nv.utils.deepExtend = function(dst){ + var sources = arguments.length > 1 ? [].slice.call(arguments, 1) : []; + sources.forEach(function(source) { + for (var key in source) { + var isArray = dst[key] instanceof Array; + var isObject = typeof dst[key] === 'object'; + var srcObj = typeof source[key] === 'object'; + + if (isObject && !isArray && srcObj) { + nv.utils.deepExtend(dst[key], source[key]); + } else { + dst[key] = source[key]; + } + } + }); +}; + + +/* +state utility object, used to track d3 states in the models +*/ +nv.utils.state = function(){ + if (!(this instanceof nv.utils.state)) { + return new nv.utils.state(); + } + var state = {}; + var _self = this; + var _setState = function(){}; + var _getState = function(){ return {}; }; + var init = null; + var changed = null; + + this.dispatch = d3.dispatch('change', 'set'); + + this.dispatch.on('set', function(state){ + _setState(state, true); + }); + + this.getter = function(fn){ + _getState = fn; + return this; + }; + + this.setter = function(fn, callback) { + if (!callback) { + callback = function(){}; + } + _setState = function(state, update){ + fn(state); + if (update) { + callback(); + } + }; + return this; + }; + + this.init = function(state){ + init = init || {}; + nv.utils.deepExtend(init, state); + }; + + var _set = function(){ + var settings = _getState(); + + if (JSON.stringify(settings) === JSON.stringify(state)) { + return false; + } + + for (var key in settings) { + if (state[key] === undefined) { + state[key] = {}; + } + state[key] = settings[key]; + changed = true; + } + return true; + }; + + this.update = function(){ + if (init) { + _setState(init, false); + init = null; + } + if (_set.call(this)) { + this.dispatch.change(state); + } + }; + +}; + + +/* +Snippet of code you can insert into each nv.models.* to give you the ability to +do things like: +chart.options({ + showXAxis: true, + tooltips: true +}); + +To enable in the chart: +chart.options = nv.utils.optionsFunc.bind(chart); +*/ +nv.utils.optionsFunc = function(args) { + if (args) { + d3.map(args).forEach((function(key,value) { + if (typeof this[key] === "function") { + this[key](value); + } + }).bind(this)); + } + return this; +}; + + +/* +numTicks: requested number of ticks +data: the chart data + +returns the number of ticks to actually use on X axis, based on chart data +to avoid duplicate ticks with the same value +*/ +nv.utils.calcTicksX = function(numTicks, data) { + // find max number of values from all data streams + var numValues = 1; + var i = 0; + for (i; i < data.length; i += 1) { + var stream_len = data[i] && data[i].values ? data[i].values.length : 0; + numValues = stream_len > numValues ? stream_len : numValues; + } + nv.log("Requested number of ticks: ", numTicks); + nv.log("Calculated max values to be: ", numValues); + // make sure we don't have more ticks than values to avoid duplicates + numTicks = numTicks > numValues ? numTicks = numValues - 1 : numTicks; + // make sure we have at least one tick + numTicks = numTicks < 1 ? 1 : numTicks; + // make sure it's an integer + numTicks = Math.floor(numTicks); + nv.log("Calculating tick count as: ", numTicks); + return numTicks; +}; + + +/* +returns number of ticks to actually use on Y axis, based on chart data +*/ +nv.utils.calcTicksY = function(numTicks, data) { + // currently uses the same logic but we can adjust here if needed later + return nv.utils.calcTicksX(numTicks, data); +}; + + +/* +Add a particular option from an options object onto chart +Options exposed on a chart are a getter/setter function that returns chart +on set to mimic typical d3 option chaining, e.g. svg.option1('a').option2('b'); + +option objects should be generated via Object.create() to provide +the option of manipulating data via get/set functions. +*/ +nv.utils.initOption = function(chart, name) { + // if it's a call option, just call it directly, otherwise do get/set + if (chart._calls && chart._calls[name]) { + chart[name] = chart._calls[name]; + } else { + chart[name] = function (_) { + if (!arguments.length) return chart._options[name]; + chart._overrides[name] = true; + chart._options[name] = _; + return chart; + }; + // calling the option as _option will ignore if set by option already + // so nvd3 can set options internally but the stop if set manually + chart['_' + name] = function(_) { + if (!arguments.length) return chart._options[name]; + if (!chart._overrides[name]) { + chart._options[name] = _; + } + return chart; + } + } +}; + + +/* +Add all options in an options object to the chart +*/ +nv.utils.initOptions = function(chart) { + chart._overrides = chart._overrides || {}; + var ops = Object.getOwnPropertyNames(chart._options || {}); + var calls = Object.getOwnPropertyNames(chart._calls || {}); + ops = ops.concat(calls); + for (var i in ops) { + nv.utils.initOption(chart, ops[i]); + } +}; + + +/* +Inherit options from a D3 object +d3.rebind makes calling the function on target actually call it on source +Also use _d3options so we can track what we inherit for documentation and chained inheritance +*/ +nv.utils.inheritOptionsD3 = function(target, d3_source, oplist) { + target._d3options = oplist.concat(target._d3options || []); + oplist.unshift(d3_source); + oplist.unshift(target); + d3.rebind.apply(this, oplist); +}; + + +/* +Remove duplicates from an array +*/ +nv.utils.arrayUnique = function(a) { + return a.sort().filter(function(item, pos) { + return !pos || item != a[pos - 1]; + }); +}; + + +/* +Keeps a list of custom symbols to draw from in addition to d3.svg.symbol +Necessary since d3 doesn't let you extend its list -_- +Add new symbols by doing nv.utils.symbols.set('name', function(size){...}); +*/ +nv.utils.symbolMap = d3.map(); + + +/* +Replaces d3.svg.symbol so that we can look both there and our own map + */ +nv.utils.symbol = function() { + var type, + size = 64; + function symbol(d,i) { + var t = type.call(this,d,i); + var s = size.call(this,d,i); + if (d3.svg.symbolTypes.indexOf(t) !== -1) { + return d3.svg.symbol().type(t).size(s)(); + } else { + return nv.utils.symbolMap.get(t)(s); + } + } + symbol.type = function(_) { + if (!arguments.length) return type; + type = d3.functor(_); + return symbol; + }; + symbol.size = function(_) { + if (!arguments.length) return size; + size = d3.functor(_); + return symbol; + }; + return symbol; +}; + + +/* +Inherit option getter/setter functions from source to target +d3.rebind makes calling the function on target actually call it on source +Also track via _inherited and _d3options so we can track what we inherit +for documentation generation purposes and chained inheritance +*/ +nv.utils.inheritOptions = function(target, source) { + // inherit all the things + var ops = Object.getOwnPropertyNames(source._options || {}); + var calls = Object.getOwnPropertyNames(source._calls || {}); + var inherited = source._inherited || []; + var d3ops = source._d3options || []; + var args = ops.concat(calls).concat(inherited).concat(d3ops); + args.unshift(source); + args.unshift(target); + d3.rebind.apply(this, args); + // pass along the lists to keep track of them, don't allow duplicates + target._inherited = nv.utils.arrayUnique(ops.concat(calls).concat(inherited).concat(ops).concat(target._inherited || [])); + target._d3options = nv.utils.arrayUnique(d3ops.concat(target._d3options || [])); +}; + + +/* +Runs common initialize code on the svg before the chart builds +*/ +nv.utils.initSVG = function(svg) { + svg.classed({'nvd3-svg':true}); +}; + + +/* +Sanitize and provide default for the container height. +*/ +nv.utils.sanitizeHeight = function(height, container) { + return (height || parseInt(container.style('height'), 10) || 400); +}; + + +/* +Sanitize and provide default for the container width. +*/ +nv.utils.sanitizeWidth = function(width, container) { + return (width || parseInt(container.style('width'), 10) || 960); +}; + + +/* +Calculate the available height for a chart. +*/ +nv.utils.availableHeight = function(height, container, margin) { + return nv.utils.sanitizeHeight(height, container) - margin.top - margin.bottom; +}; + +/* +Calculate the available width for a chart. +*/ +nv.utils.availableWidth = function(width, container, margin) { + return nv.utils.sanitizeWidth(width, container) - margin.left - margin.right; +}; + +/* +Clear any rendered chart components and display a chart's 'noData' message +*/ +nv.utils.noData = function(chart, container) { + var opt = chart.options(), + margin = opt.margin(), + noData = opt.noData(), + data = (noData == null) ? ["No Data Available."] : [noData], + height = nv.utils.availableHeight(opt.height(), container, margin), + width = nv.utils.availableWidth(opt.width(), container, margin), + x = margin.left + width/2, + y = margin.top + height/2; + + //Remove any previously created chart components + container.selectAll('g').remove(); + + var noDataText = container.selectAll('.nv-noData').data(data); + + noDataText.enter().append('text') + .attr('class', 'nvd3 nv-noData') + .attr('dy', '-.7em') + .style('text-anchor', 'middle'); + + noDataText + .attr('x', x) + .attr('y', y) + .text(function(t){ return t; }); +}; + +nv.models.axis = function() { + "use strict"; + + //============================================================ + // Public Variables with Default Settings + //------------------------------------------------------------ + + var axis = d3.svg.axis(); + var scale = d3.scale.linear(); + + var margin = {top: 0, right: 0, bottom: 0, left: 0} + , width = 75 //only used for tickLabel currently + , height = 60 //only used for tickLabel currently + , axisLabelText = null + , showMaxMin = true //TODO: showMaxMin should be disabled on all ordinal scaled axes + , rotateLabels = 0 + , rotateYLabel = true + , staggerLabels = false + , isOrdinal = false + , ticks = null + , axisLabelDistance = 0 + , duration = 250 + , dispatch = d3.dispatch('renderEnd') + ; + axis + .scale(scale) + .orient('bottom') + .tickFormat(function(d) { return d }) + ; + + //============================================================ + // Private Variables + //------------------------------------------------------------ + + var scale0; + var renderWatch = nv.utils.renderWatch(dispatch, duration); + + function chart(selection) { + renderWatch.reset(); + selection.each(function(data) { + var container = d3.select(this); + nv.utils.initSVG(container); + + // Setup containers and skeleton of chart + var wrap = container.selectAll('g.nv-wrap.nv-axis').data([data]); + var wrapEnter = wrap.enter().append('g').attr('class', 'nvd3 nv-wrap nv-axis'); + var gEnter = wrapEnter.append('g'); + var g = wrap.select('g'); + + if (ticks !== null) + axis.ticks(ticks); + else if (axis.orient() == 'top' || axis.orient() == 'bottom') + axis.ticks(Math.abs(scale.range()[1] - scale.range()[0]) / 100); + + //TODO: consider calculating width/height based on whether or not label is added, for reference in charts using this component + g.watchTransition(renderWatch, 'axis').call(axis); + + scale0 = scale0 || axis.scale(); + + var fmt = axis.tickFormat(); + if (fmt == null) { + fmt = scale0.tickFormat(); + } + + var axisLabel = g.selectAll('text.nv-axislabel') + .data([axisLabelText || null]); + axisLabel.exit().remove(); + + var xLabelMargin; + var axisMaxMin; + var w; + switch (axis.orient()) { + case 'top': + axisLabel.enter().append('text').attr('class', 'nv-axislabel'); + if (scale.range().length < 2) { + w = 0; + } else if (scale.range().length === 2) { + w = scale.range()[1]; + } else { + w = scale.range()[scale.range().length-1]+(scale.range()[1]-scale.range()[0]); + } + axisLabel + .attr('text-anchor', 'middle') + .attr('y', 0) + .attr('x', w/2); + if (showMaxMin) { + axisMaxMin = wrap.selectAll('g.nv-axisMaxMin') + .data(scale.domain()); + axisMaxMin.enter().append('g').attr('class',function(d,i){ + return ['nv-axisMaxMin','nv-axisMaxMin-x',(i == 0 ? 'nv-axisMin-x':'nv-axisMax-x')].join(' ') + }).append('text'); + axisMaxMin.exit().remove(); + axisMaxMin + .attr('transform', function(d,i) { + return 'translate(' + nv.utils.NaNtoZero(scale(d)) + ',0)' + }) + .select('text') + .attr('dy', '-0.5em') + .attr('y', -axis.tickPadding()) + .attr('text-anchor', 'middle') + .text(function(d,i) { + var v = fmt(d); + return ('' + v).match('NaN') ? '' : v; + }); + axisMaxMin.watchTransition(renderWatch, 'min-max top') + .attr('transform', function(d,i) { + return 'translate(' + nv.utils.NaNtoZero(scale.range()[i]) + ',0)' + }); + } + break; + case 'bottom': + xLabelMargin = axisLabelDistance + 36; + var maxTextWidth = 30; + var textHeight = 0; + var xTicks = g.selectAll('g').select("text"); + var rotateLabelsRule = ''; + if (rotateLabels%360) { + //Calculate the longest xTick width + xTicks.each(function(d,i){ + var box = this.getBoundingClientRect(); + var width = box.width; + textHeight = box.height; + if(width > maxTextWidth) maxTextWidth = width; + }); + rotateLabelsRule = 'rotate(' + rotateLabels + ' 0,' + (textHeight/2 + axis.tickPadding()) + ')'; + //Convert to radians before calculating sin. Add 30 to margin for healthy padding. + var sin = Math.abs(Math.sin(rotateLabels*Math.PI/180)); + xLabelMargin = (sin ? sin*maxTextWidth : maxTextWidth)+30; + //Rotate all xTicks + xTicks + .attr('transform', rotateLabelsRule) + .style('text-anchor', rotateLabels%360 > 0 ? 'start' : 'end'); + } + axisLabel.enter().append('text').attr('class', 'nv-axislabel'); + if (scale.range().length < 2) { + w = 0; + } else if (scale.range().length === 2) { + w = scale.range()[1]; + } else { + w = scale.range()[scale.range().length-1]+(scale.range()[1]-scale.range()[0]); + } + axisLabel + .attr('text-anchor', 'middle') + .attr('y', xLabelMargin) + .attr('x', w/2); + if (showMaxMin) { + //if (showMaxMin && !isOrdinal) { + axisMaxMin = wrap.selectAll('g.nv-axisMaxMin') + //.data(scale.domain()) + .data([scale.domain()[0], scale.domain()[scale.domain().length - 1]]); + axisMaxMin.enter().append('g').attr('class',function(d,i){ + return ['nv-axisMaxMin','nv-axisMaxMin-x',(i == 0 ? 'nv-axisMin-x':'nv-axisMax-x')].join(' ') + }).append('text'); + axisMaxMin.exit().remove(); + axisMaxMin + .attr('transform', function(d,i) { + return 'translate(' + nv.utils.NaNtoZero((scale(d) + (isOrdinal ? scale.rangeBand() / 2 : 0))) + ',0)' + }) + .select('text') + .attr('dy', '.71em') + .attr('y', axis.tickPadding()) + .attr('transform', rotateLabelsRule) + .style('text-anchor', rotateLabels ? (rotateLabels%360 > 0 ? 'start' : 'end') : 'middle') + .text(function(d,i) { + var v = fmt(d); + return ('' + v).match('NaN') ? '' : v; + }); + axisMaxMin.watchTransition(renderWatch, 'min-max bottom') + .attr('transform', function(d,i) { + return 'translate(' + nv.utils.NaNtoZero((scale(d) + (isOrdinal ? scale.rangeBand() / 2 : 0))) + ',0)' + }); + } + if (staggerLabels) + xTicks + .attr('transform', function(d,i) { + return 'translate(0,' + (i % 2 == 0 ? '0' : '12') + ')' + }); + + break; + case 'right': + axisLabel.enter().append('text').attr('class', 'nv-axislabel'); + axisLabel + .style('text-anchor', rotateYLabel ? 'middle' : 'begin') + .attr('transform', rotateYLabel ? 'rotate(90)' : '') + .attr('y', rotateYLabel ? (-Math.max(margin.right, width) + 12) : -10) //TODO: consider calculating this based on largest tick width... OR at least expose this on chart + .attr('x', rotateYLabel ? (d3.max(scale.range()) / 2) : axis.tickPadding()); + if (showMaxMin) { + axisMaxMin = wrap.selectAll('g.nv-axisMaxMin') + .data(scale.domain()); + axisMaxMin.enter().append('g').attr('class',function(d,i){ + return ['nv-axisMaxMin','nv-axisMaxMin-y',(i == 0 ? 'nv-axisMin-y':'nv-axisMax-y')].join(' ') + }).append('text') + .style('opacity', 0); + axisMaxMin.exit().remove(); + axisMaxMin + .attr('transform', function(d,i) { + return 'translate(0,' + nv.utils.NaNtoZero(scale(d)) + ')' + }) + .select('text') + .attr('dy', '.32em') + .attr('y', 0) + .attr('x', axis.tickPadding()) + .style('text-anchor', 'start') + .text(function(d, i) { + var v = fmt(d); + return ('' + v).match('NaN') ? '' : v; + }); + axisMaxMin.watchTransition(renderWatch, 'min-max right') + .attr('transform', function(d,i) { + return 'translate(0,' + nv.utils.NaNtoZero(scale.range()[i]) + ')' + }) + .select('text') + .style('opacity', 1); + } + break; + case 'left': + /* + //For dynamically placing the label. Can be used with dynamically-sized chart axis margins + var yTicks = g.selectAll('g').select("text"); + yTicks.each(function(d,i){ + var labelPadding = this.getBoundingClientRect().width + axis.tickPadding() + 16; + if(labelPadding > width) width = labelPadding; + }); + */ + axisLabel.enter().append('text').attr('class', 'nv-axislabel'); + axisLabel + .style('text-anchor', rotateYLabel ? 'middle' : 'end') + .attr('transform', rotateYLabel ? 'rotate(-90)' : '') + .attr('y', rotateYLabel ? (-Math.max(margin.left, width) + 25 - (axisLabelDistance || 0)) : -10) + .attr('x', rotateYLabel ? (-d3.max(scale.range()) / 2) : -axis.tickPadding()); + if (showMaxMin) { + axisMaxMin = wrap.selectAll('g.nv-axisMaxMin') + .data(scale.domain()); + axisMaxMin.enter().append('g').attr('class',function(d,i){ + return ['nv-axisMaxMin','nv-axisMaxMin-y',(i == 0 ? 'nv-axisMin-y':'nv-axisMax-y')].join(' ') + }).append('text') + .style('opacity', 0); + axisMaxMin.exit().remove(); + axisMaxMin + .attr('transform', function(d,i) { + return 'translate(0,' + nv.utils.NaNtoZero(scale0(d)) + ')' + }) + .select('text') + .attr('dy', '.32em') + .attr('y', 0) + .attr('x', -axis.tickPadding()) + .attr('text-anchor', 'end') + .text(function(d,i) { + var v = fmt(d); + return ('' + v).match('NaN') ? '' : v; + }); + axisMaxMin.watchTransition(renderWatch, 'min-max right') + .attr('transform', function(d,i) { + return 'translate(0,' + nv.utils.NaNtoZero(scale.range()[i]) + ')' + }) + .select('text') + .style('opacity', 1); + } + break; + } + axisLabel.text(function(d) { return d }); + + if (showMaxMin && (axis.orient() === 'left' || axis.orient() === 'right')) { + //check if max and min overlap other values, if so, hide the values that overlap + g.selectAll('g') // the g's wrapping each tick + .each(function(d,i) { + d3.select(this).select('text').attr('opacity', 1); + if (scale(d) < scale.range()[1] + 10 || scale(d) > scale.range()[0] - 10) { // 10 is assuming text height is 16... if d is 0, leave it! + if (d > 1e-10 || d < -1e-10) // accounts for minor floating point errors... though could be problematic if the scale is EXTREMELY SMALL + d3.select(this).attr('opacity', 0); + + d3.select(this).select('text').attr('opacity', 0); // Don't remove the ZERO line!! + } + }); + + //if Max and Min = 0 only show min, Issue #281 + if (scale.domain()[0] == scale.domain()[1] && scale.domain()[0] == 0) { + wrap.selectAll('g.nv-axisMaxMin').style('opacity', function (d, i) { + return !i ? 1 : 0 + }); + } + } + + if (showMaxMin && (axis.orient() === 'top' || axis.orient() === 'bottom')) { + var maxMinRange = []; + wrap.selectAll('g.nv-axisMaxMin') + .each(function(d,i) { + try { + if (i) // i== 1, max position + maxMinRange.push(scale(d) - this.getBoundingClientRect().width - 4); //assuming the max and min labels are as wide as the next tick (with an extra 4 pixels just in case) + else // i==0, min position + maxMinRange.push(scale(d) + this.getBoundingClientRect().width + 4) + }catch (err) { + if (i) // i== 1, max position + maxMinRange.push(scale(d) - 4); //assuming the max and min labels are as wide as the next tick (with an extra 4 pixels just in case) + else // i==0, min position + maxMinRange.push(scale(d) + 4); + } + }); + // the g's wrapping each tick + g.selectAll('g').each(function(d, i) { + if (scale(d) < maxMinRange[0] || scale(d) > maxMinRange[1]) { + if (d > 1e-10 || d < -1e-10) // accounts for minor floating point errors... though could be problematic if the scale is EXTREMELY SMALL + d3.select(this).remove(); + else + d3.select(this).select('text').remove(); // Don't remove the ZERO line!! + } + }); + } + + //Highlight zero tick line + g.selectAll('.tick') + .filter(function (d) { + /* + The filter needs to return only ticks at or near zero. + Numbers like 0.00001 need to count as zero as well, + and the arithmetic trick below solves that. + */ + return !parseFloat(Math.round(d * 100000) / 1000000) && (d !== undefined) + }) + .classed('zero', true); + + //store old scales for use in transitions on update + scale0 = scale.copy(); + + }); + + renderWatch.renderEnd('axis immediate'); + return chart; + } + + //============================================================ + // Expose Public Variables + //------------------------------------------------------------ + + // expose chart's sub-components + chart.axis = axis; + chart.dispatch = dispatch; + + chart.options = nv.utils.optionsFunc.bind(chart); + chart._options = Object.create({}, { + // simple options, just get/set the necessary values + axisLabelDistance: {get: function(){return axisLabelDistance;}, set: function(_){axisLabelDistance=_;}}, + staggerLabels: {get: function(){return staggerLabels;}, set: function(_){staggerLabels=_;}}, + rotateLabels: {get: function(){return rotateLabels;}, set: function(_){rotateLabels=_;}}, + rotateYLabel: {get: function(){return rotateYLabel;}, set: function(_){rotateYLabel=_;}}, + showMaxMin: {get: function(){return showMaxMin;}, set: function(_){showMaxMin=_;}}, + axisLabel: {get: function(){return axisLabelText;}, set: function(_){axisLabelText=_;}}, + height: {get: function(){return height;}, set: function(_){height=_;}}, + ticks: {get: function(){return ticks;}, set: function(_){ticks=_;}}, + width: {get: function(){return width;}, set: function(_){width=_;}}, + + // options that require extra logic in the setter + margin: {get: function(){return margin;}, set: function(_){ + margin.top = _.top !== undefined ? _.top : margin.top; + margin.right = _.right !== undefined ? _.right : margin.right; + margin.bottom = _.bottom !== undefined ? _.bottom : margin.bottom; + margin.left = _.left !== undefined ? _.left : margin.left; + }}, + duration: {get: function(){return duration;}, set: function(_){ + duration=_; + renderWatch.reset(duration); + }}, + scale: {get: function(){return scale;}, set: function(_){ + scale = _; + axis.scale(scale); + isOrdinal = typeof scale.rangeBands === 'function'; + nv.utils.inheritOptionsD3(chart, scale, ['domain', 'range', 'rangeBand', 'rangeBands']); + }} + }); + + nv.utils.initOptions(chart); + nv.utils.inheritOptionsD3(chart, axis, ['orient', 'tickValues', 'tickSubdivide', 'tickSize', 'tickPadding', 'tickFormat']); + nv.utils.inheritOptionsD3(chart, scale, ['domain', 'range', 'rangeBand', 'rangeBands']); + + return chart; +}; +nv.models.boxPlot = function() { + "use strict"; + + //============================================================ + // Public Variables with Default Settings + //------------------------------------------------------------ + + var margin = {top: 0, right: 0, bottom: 0, left: 0} + , width = 960 + , height = 500 + , id = Math.floor(Math.random() * 10000) //Create semi-unique ID in case user doesn't select one + , x = d3.scale.ordinal() + , y = d3.scale.linear() + , getX = function(d) { return d.x } + , getY = function(d) { return d.y } + , color = nv.utils.defaultColor() + , container = null + , xDomain + , yDomain + , xRange + , yRange + , dispatch = d3.dispatch('elementMouseover', 'elementMouseout', 'elementMousemove', 'renderEnd') + , duration = 250 + , maxBoxWidth = null + ; + + //============================================================ + // Private Variables + //------------------------------------------------------------ + + var x0, y0; + var renderWatch = nv.utils.renderWatch(dispatch, duration); + + function chart(selection) { + renderWatch.reset(); + selection.each(function(data) { + var availableWidth = width - margin.left - margin.right, + availableHeight = height - margin.top - margin.bottom; + + container = d3.select(this); + nv.utils.initSVG(container); + + // Setup Scales + x .domain(xDomain || data.map(function(d,i) { return getX(d,i); })) + .rangeBands(xRange || [0, availableWidth], .1); + + // if we know yDomain, no need to calculate + var yData = [] + if (!yDomain) { + // (y-range is based on quartiles, whiskers and outliers) + + // lower values + var yMin = d3.min(data.map(function(d) { + var min_arr = []; + + min_arr.push(d.values.Q1); + if (d.values.hasOwnProperty('whisker_low') && d.values.whisker_low !== null) { min_arr.push(d.values.whisker_low); } + if (d.values.hasOwnProperty('outliers') && d.values.outliers !== null) { min_arr = min_arr.concat(d.values.outliers); } + + return d3.min(min_arr); + })); + + // upper values + var yMax = d3.max(data.map(function(d) { + var max_arr = []; + + max_arr.push(d.values.Q3); + if (d.values.hasOwnProperty('whisker_high') && d.values.whisker_high !== null) { max_arr.push(d.values.whisker_high); } + if (d.values.hasOwnProperty('outliers') && d.values.outliers !== null) { max_arr = max_arr.concat(d.values.outliers); } + + return d3.max(max_arr); + })); + + yData = [ yMin, yMax ] ; + } + + y.domain(yDomain || yData); + y.range(yRange || [availableHeight, 0]); + + //store old scales if they exist + x0 = x0 || x; + y0 = y0 || y.copy().range([y(0),y(0)]); + + // Setup containers and skeleton of chart + var wrap = container.selectAll('g.nv-wrap').data([data]); + var wrapEnter = wrap.enter().append('g').attr('class', 'nvd3 nv-wrap'); + wrap.attr('transform', 'translate(' + margin.left + ',' + margin.top + ')'); + + var boxplots = wrap.selectAll('.nv-boxplot').data(function(d) { return d }); + var boxEnter = boxplots.enter().append('g').style('stroke-opacity', 1e-6).style('fill-opacity', 1e-6); + boxplots + .attr('class', 'nv-boxplot') + .attr('transform', function(d,i,j) { return 'translate(' + (x(getX(d,i)) + x.rangeBand() * .05) + ', 0)'; }) + .classed('hover', function(d) { return d.hover }); + boxplots + .watchTransition(renderWatch, 'nv-boxplot: boxplots') + .style('stroke-opacity', 1) + .style('fill-opacity', .75) + .delay(function(d,i) { return i * duration / data.length }) + .attr('transform', function(d,i) { + return 'translate(' + (x(getX(d,i)) + x.rangeBand() * .05) + ', 0)'; + }); + boxplots.exit().remove(); + + // ----- add the SVG elements for each boxPlot ----- + + // conditionally append whisker lines + boxEnter.each(function(d,i) { + var box = d3.select(this); + + ['low', 'high'].forEach(function(key) { + if (d.values.hasOwnProperty('whisker_' + key) && d.values['whisker_' + key] !== null) { + box.append('line') + .style('stroke', (d.color) ? d.color : color(d,i)) + .attr('class', 'nv-boxplot-whisker nv-boxplot-' + key); + + box.append('line') + .style('stroke', (d.color) ? d.color : color(d,i)) + .attr('class', 'nv-boxplot-tick nv-boxplot-' + key); + } + }); + }); + + // outliers + // TODO: support custom colors here + var outliers = boxplots.selectAll('.nv-boxplot-outlier').data(function(d) { + if (d.values.hasOwnProperty('outliers') && d.values.outliers !== null) { return d.values.outliers; } + else { return []; } + }); + outliers.enter().append('circle') + .style('fill', function(d,i,j) { return color(d,j) }).style('stroke', function(d,i,j) { return color(d,j) }) + .on('mouseover', function(d,i,j) { + d3.select(this).classed('hover', true); + dispatch.elementMouseover({ + series: { key: d, color: color(d,j) }, + e: d3.event + }); + }) + .on('mouseout', function(d,i,j) { + d3.select(this).classed('hover', false); + dispatch.elementMouseout({ + series: { key: d, color: color(d,j) }, + e: d3.event + }); + }) + .on('mousemove', function(d,i) { + dispatch.elementMousemove({e: d3.event}); + }); + + outliers.attr('class', 'nv-boxplot-outlier'); + outliers + .watchTransition(renderWatch, 'nv-boxplot: nv-boxplot-outlier') + .attr('cx', x.rangeBand() * .45) + .attr('cy', function(d,i,j) { return y(d); }) + .attr('r', '3'); + outliers.exit().remove(); + + var box_width = function() { return (maxBoxWidth === null ? x.rangeBand() * .9 : Math.min(75, x.rangeBand() * .9)); }; + var box_left = function() { return x.rangeBand() * .45 - box_width()/2; }; + var box_right = function() { return x.rangeBand() * .45 + box_width()/2; }; + + // update whisker lines and ticks + ['low', 'high'].forEach(function(key) { + var endpoint = (key === 'low') ? 'Q1' : 'Q3'; + + boxplots.select('line.nv-boxplot-whisker.nv-boxplot-' + key) + .watchTransition(renderWatch, 'nv-boxplot: boxplots') + .attr('x1', x.rangeBand() * .45 ) + .attr('y1', function(d,i) { return y(d.values['whisker_' + key]); }) + .attr('x2', x.rangeBand() * .45 ) + .attr('y2', function(d,i) { return y(d.values[endpoint]); }); + + boxplots.select('line.nv-boxplot-tick.nv-boxplot-' + key) + .watchTransition(renderWatch, 'nv-boxplot: boxplots') + .attr('x1', box_left ) + .attr('y1', function(d,i) { return y(d.values['whisker_' + key]); }) + .attr('x2', box_right ) + .attr('y2', function(d,i) { return y(d.values['whisker_' + key]); }); + }); + + ['low', 'high'].forEach(function(key) { + boxEnter.selectAll('.nv-boxplot-' + key) + .on('mouseover', function(d,i,j) { + d3.select(this).classed('hover', true); + dispatch.elementMouseover({ + series: { key: d.values['whisker_' + key], color: color(d,j) }, + e: d3.event + }); + }) + .on('mouseout', function(d,i,j) { + d3.select(this).classed('hover', false); + dispatch.elementMouseout({ + series: { key: d.values['whisker_' + key], color: color(d,j) }, + e: d3.event + }); + }) + .on('mousemove', function(d,i) { + dispatch.elementMousemove({e: d3.event}); + }); + }); + + // boxes + boxEnter.append('rect') + .attr('class', 'nv-boxplot-box') + // tooltip events + .on('mouseover', function(d,i) { + d3.select(this).classed('hover', true); + dispatch.elementMouseover({ + key: d.label, + value: d.label, + series: [ + { key: 'Q3', value: d.values.Q3, color: d.color || color(d,i) }, + { key: 'Q2', value: d.values.Q2, color: d.color || color(d,i) }, + { key: 'Q1', value: d.values.Q1, color: d.color || color(d,i) } + ], + data: d, + index: i, + e: d3.event + }); + }) + .on('mouseout', function(d,i) { + d3.select(this).classed('hover', false); + dispatch.elementMouseout({ + key: d.label, + value: d.label, + series: [ + { key: 'Q3', value: d.values.Q3, color: d.color || color(d,i) }, + { key: 'Q2', value: d.values.Q2, color: d.color || color(d,i) }, + { key: 'Q1', value: d.values.Q1, color: d.color || color(d,i) } + ], + data: d, + index: i, + e: d3.event + }); + }) + .on('mousemove', function(d,i) { + dispatch.elementMousemove({e: d3.event}); + }); + + // box transitions + boxplots.select('rect.nv-boxplot-box') + .watchTransition(renderWatch, 'nv-boxplot: boxes') + .attr('y', function(d,i) { return y(d.values.Q3); }) + .attr('width', box_width) + .attr('x', box_left ) + + .attr('height', function(d,i) { return Math.abs(y(d.values.Q3) - y(d.values.Q1)) || 1 }) + .style('fill', function(d,i) { return d.color || color(d,i) }) + .style('stroke', function(d,i) { return d.color || color(d,i) }); + + // median line + boxEnter.append('line').attr('class', 'nv-boxplot-median'); + + boxplots.select('line.nv-boxplot-median') + .watchTransition(renderWatch, 'nv-boxplot: boxplots line') + .attr('x1', box_left) + .attr('y1', function(d,i) { return y(d.values.Q2); }) + .attr('x2', box_right) + .attr('y2', function(d,i) { return y(d.values.Q2); }); + + //store old scales for use in transitions on update + x0 = x.copy(); + y0 = y.copy(); + }); + + renderWatch.renderEnd('nv-boxplot immediate'); + return chart; + } + + //============================================================ + // Expose Public Variables + //------------------------------------------------------------ + + chart.dispatch = dispatch; + chart.options = nv.utils.optionsFunc.bind(chart); + + chart._options = Object.create({}, { + // simple options, just get/set the necessary values + width: {get: function(){return width;}, set: function(_){width=_;}}, + height: {get: function(){return height;}, set: function(_){height=_;}}, + maxBoxWidth: {get: function(){return maxBoxWidth;}, set: function(_){maxBoxWidth=_;}}, + x: {get: function(){return getX;}, set: function(_){getX=_;}}, + y: {get: function(){return getY;}, set: function(_){getY=_;}}, + xScale: {get: function(){return x;}, set: function(_){x=_;}}, + yScale: {get: function(){return y;}, set: function(_){y=_;}}, + xDomain: {get: function(){return xDomain;}, set: function(_){xDomain=_;}}, + yDomain: {get: function(){return yDomain;}, set: function(_){yDomain=_;}}, + xRange: {get: function(){return xRange;}, set: function(_){xRange=_;}}, + yRange: {get: function(){return yRange;}, set: function(_){yRange=_;}}, + id: {get: function(){return id;}, set: function(_){id=_;}}, + // rectClass: {get: function(){return rectClass;}, set: function(_){rectClass=_;}}, + + // options that require extra logic in the setter + margin: {get: function(){return margin;}, set: function(_){ + margin.top = _.top !== undefined ? _.top : margin.top; + margin.right = _.right !== undefined ? _.right : margin.right; + margin.bottom = _.bottom !== undefined ? _.bottom : margin.bottom; + margin.left = _.left !== undefined ? _.left : margin.left; + }}, + color: {get: function(){return color;}, set: function(_){ + color = nv.utils.getColor(_); + }}, + duration: {get: function(){return duration;}, set: function(_){ + duration = _; + renderWatch.reset(duration); + }} + }); + + nv.utils.initOptions(chart); + + return chart; +}; +nv.models.boxPlotChart = function() { + "use strict"; + + //============================================================ + // Public Variables with Default Settings + //------------------------------------------------------------ + + var boxplot = nv.models.boxPlot() + , xAxis = nv.models.axis() + , yAxis = nv.models.axis() + ; + + var margin = {top: 15, right: 10, bottom: 50, left: 60} + , width = null + , height = null + , color = nv.utils.getColor() + , showXAxis = true + , showYAxis = true + , rightAlignYAxis = false + , staggerLabels = false + , tooltip = nv.models.tooltip() + , x + , y + , noData = "No Data Available." + , dispatch = d3.dispatch('tooltipShow', 'tooltipHide', 'beforeUpdate', 'renderEnd') + , duration = 250 + ; + + xAxis + .orient('bottom') + .showMaxMin(false) + .tickFormat(function(d) { return d }) + ; + yAxis + .orient((rightAlignYAxis) ? 'right' : 'left') + .tickFormat(d3.format(',.1f')) + ; + + tooltip.duration(0); + + //============================================================ + // Private Variables + //------------------------------------------------------------ + + var renderWatch = nv.utils.renderWatch(dispatch, duration); + + function chart(selection) { + renderWatch.reset(); + renderWatch.models(boxplot); + if (showXAxis) renderWatch.models(xAxis); + if (showYAxis) renderWatch.models(yAxis); + + selection.each(function(data) { + var container = d3.select(this), + that = this; + nv.utils.initSVG(container); + var availableWidth = (width || parseInt(container.style('width')) || 960) + - margin.left - margin.right, + availableHeight = (height || parseInt(container.style('height')) || 400) + - margin.top - margin.bottom; + + chart.update = function() { + dispatch.beforeUpdate(); + container.transition().duration(duration).call(chart); + }; + chart.container = this; + + // Display No Data message if there's nothing to show. (quartiles required at minimum) + if (!data || !data.length || + !data.filter(function(d) { return d.values.hasOwnProperty("Q1") && d.values.hasOwnProperty("Q2") && d.values.hasOwnProperty("Q3"); }).length) { + var noDataText = container.selectAll('.nv-noData').data([noData]); + + noDataText.enter().append('text') + .attr('class', 'nvd3 nv-noData') + .attr('dy', '-.7em') + .style('text-anchor', 'middle'); + + noDataText + .attr('x', margin.left + availableWidth / 2) + .attr('y', margin.top + availableHeight / 2) + .text(function(d) { return d }); + + return chart; + } else { + container.selectAll('.nv-noData').remove(); + } + + // Setup Scales + x = boxplot.xScale(); + y = boxplot.yScale().clamp(true); + + // Setup containers and skeleton of chart + var wrap = container.selectAll('g.nv-wrap.nv-boxPlotWithAxes').data([data]); + var gEnter = wrap.enter().append('g').attr('class', 'nvd3 nv-wrap nv-boxPlotWithAxes').append('g'); + var defsEnter = gEnter.append('defs'); + var g = wrap.select('g'); + + gEnter.append('g').attr('class', 'nv-x nv-axis'); + gEnter.append('g').attr('class', 'nv-y nv-axis') + .append('g').attr('class', 'nv-zeroLine') + .append('line'); + + gEnter.append('g').attr('class', 'nv-barsWrap'); + + g.attr('transform', 'translate(' + margin.left + ',' + margin.top + ')'); + + if (rightAlignYAxis) { + g.select(".nv-y.nv-axis") + .attr("transform", "translate(" + availableWidth + ",0)"); + } + + // Main Chart Component(s) + boxplot + .width(availableWidth) + .height(availableHeight); + + var barsWrap = g.select('.nv-barsWrap') + .datum(data.filter(function(d) { return !d.disabled })) + + barsWrap.transition().call(boxplot); + + + defsEnter.append('clipPath') + .attr('id', 'nv-x-label-clip-' + boxplot.id()) + .append('rect'); + + g.select('#nv-x-label-clip-' + boxplot.id() + ' rect') + .attr('width', x.rangeBand() * (staggerLabels ? 2 : 1)) + .attr('height', 16) + .attr('x', -x.rangeBand() / (staggerLabels ? 1 : 2 )); + + // Setup Axes + if (showXAxis) { + xAxis + .scale(x) + .ticks( nv.utils.calcTicksX(availableWidth/100, data) ) + .tickSize(-availableHeight, 0); + + g.select('.nv-x.nv-axis').attr('transform', 'translate(0,' + y.range()[0] + ')'); + g.select('.nv-x.nv-axis').call(xAxis); + + var xTicks = g.select('.nv-x.nv-axis').selectAll('g'); + if (staggerLabels) { + xTicks + .selectAll('text') + .attr('transform', function(d,i,j) { return 'translate(0,' + (j % 2 == 0 ? '5' : '17') + ')' }) + } + } + + if (showYAxis) { + yAxis + .scale(y) + .ticks( Math.floor(availableHeight/36) ) // can't use nv.utils.calcTicksY with Object data + .tickSize( -availableWidth, 0); + + g.select('.nv-y.nv-axis').call(yAxis); + } + + // Zero line + g.select(".nv-zeroLine line") + .attr("x1",0) + .attr("x2",availableWidth) + .attr("y1", y(0)) + .attr("y2", y(0)) + ; + + //============================================================ + // Event Handling/Dispatching (in chart's scope) + //------------------------------------------------------------ + }); + + renderWatch.renderEnd('nv-boxplot chart immediate'); + return chart; + } + + //============================================================ + // Event Handling/Dispatching (out of chart's scope) + //------------------------------------------------------------ + + boxplot.dispatch.on('elementMouseover.tooltip', function(evt) { + tooltip.data(evt).hidden(false); + }); + + boxplot.dispatch.on('elementMouseout.tooltip', function(evt) { + tooltip.data(evt).hidden(true); + }); + + boxplot.dispatch.on('elementMousemove.tooltip', function(evt) { + tooltip.position({top: d3.event.pageY, left: d3.event.pageX})(); + }); + + //============================================================ + // Expose Public Variables + //------------------------------------------------------------ + + chart.dispatch = dispatch; + chart.boxplot = boxplot; + chart.xAxis = xAxis; + chart.yAxis = yAxis; + chart.tooltip = tooltip; + + chart.options = nv.utils.optionsFunc.bind(chart); + + chart._options = Object.create({}, { + // simple options, just get/set the necessary values + width: {get: function(){return width;}, set: function(_){width=_;}}, + height: {get: function(){return height;}, set: function(_){height=_;}}, + staggerLabels: {get: function(){return staggerLabels;}, set: function(_){staggerLabels=_;}}, + showXAxis: {get: function(){return showXAxis;}, set: function(_){showXAxis=_;}}, + showYAxis: {get: function(){return showYAxis;}, set: function(_){showYAxis=_;}}, + tooltips: {get: function(){return tooltips;}, set: function(_){tooltips=_;}}, + tooltipContent: {get: function(){return tooltip;}, set: function(_){tooltip=_;}}, + noData: {get: function(){return noData;}, set: function(_){noData=_;}}, + + // options that require extra logic in the setter + margin: {get: function(){return margin;}, set: function(_){ + margin.top = _.top !== undefined ? _.top : margin.top; + margin.right = _.right !== undefined ? _.right : margin.right; + margin.bottom = _.bottom !== undefined ? _.bottom : margin.bottom; + margin.left = _.left !== undefined ? _.left : margin.left; + }}, + duration: {get: function(){return duration;}, set: function(_){ + duration = _; + renderWatch.reset(duration); + boxplot.duration(duration); + xAxis.duration(duration); + yAxis.duration(duration); + }}, + color: {get: function(){return color;}, set: function(_){ + color = nv.utils.getColor(_); + boxplot.color(color); + }}, + rightAlignYAxis: {get: function(){return rightAlignYAxis;}, set: function(_){ + rightAlignYAxis = _; + yAxis.orient( (_) ? 'right' : 'left'); + }} + }); + + nv.utils.inheritOptions(chart, boxplot); + nv.utils.initOptions(chart); + + return chart; +} +// Chart design based on the recommendations of Stephen Few. Implementation +// based on the work of Clint Ivy, Jamie Love, and Jason Davies. +// http://projects.instantcognition.com/protovis/bulletchart/ + +nv.models.bullet = function() { + "use strict"; + + //============================================================ + // Public Variables with Default Settings + //------------------------------------------------------------ + + var margin = {top: 0, right: 0, bottom: 0, left: 0} + , orient = 'left' // TODO top & bottom + , reverse = false + , ranges = function(d) { return d.ranges } + , markers = function(d) { return d.markers ? d.markers : [0] } + , measures = function(d) { return d.measures } + , rangeLabels = function(d) { return d.rangeLabels ? d.rangeLabels : [] } + , markerLabels = function(d) { return d.markerLabels ? d.markerLabels : [] } + , measureLabels = function(d) { return d.measureLabels ? d.measureLabels : [] } + , forceX = [0] // List of numbers to Force into the X scale (ie. 0, or a max / min, etc.) + , width = 380 + , height = 30 + , container = null + , tickFormat = null + , color = nv.utils.getColor(['#1f77b4']) + , dispatch = d3.dispatch('elementMouseover', 'elementMouseout', 'elementMousemove') + ; + + function chart(selection) { + selection.each(function(d, i) { + var availableWidth = width - margin.left - margin.right, + availableHeight = height - margin.top - margin.bottom; + + container = d3.select(this); + nv.utils.initSVG(container); + + var rangez = ranges.call(this, d, i).slice().sort(d3.descending), + markerz = markers.call(this, d, i).slice().sort(d3.descending), + measurez = measures.call(this, d, i).slice().sort(d3.descending), + rangeLabelz = rangeLabels.call(this, d, i).slice(), + markerLabelz = markerLabels.call(this, d, i).slice(), + measureLabelz = measureLabels.call(this, d, i).slice(); + + // Setup Scales + // Compute the new x-scale. + var x1 = d3.scale.linear() + .domain( d3.extent(d3.merge([forceX, rangez])) ) + .range(reverse ? [availableWidth, 0] : [0, availableWidth]); + + // Retrieve the old x-scale, if this is an update. + var x0 = this.__chart__ || d3.scale.linear() + .domain([0, Infinity]) + .range(x1.range()); + + // Stash the new scale. + this.__chart__ = x1; + + var rangeMin = d3.min(rangez), //rangez[2] + rangeMax = d3.max(rangez), //rangez[0] + rangeAvg = rangez[1]; + + // Setup containers and skeleton of chart + var wrap = container.selectAll('g.nv-wrap.nv-bullet').data([d]); + var wrapEnter = wrap.enter().append('g').attr('class', 'nvd3 nv-wrap nv-bullet'); + var gEnter = wrapEnter.append('g'); + var g = wrap.select('g'); + + gEnter.append('rect').attr('class', 'nv-range nv-rangeMax'); + gEnter.append('rect').attr('class', 'nv-range nv-rangeAvg'); + gEnter.append('rect').attr('class', 'nv-range nv-rangeMin'); + gEnter.append('rect').attr('class', 'nv-measure'); + + wrap.attr('transform', 'translate(' + margin.left + ',' + margin.top + ')'); + + var w0 = function(d) { return Math.abs(x0(d) - x0(0)) }, // TODO: could optimize by precalculating x0(0) and x1(0) + w1 = function(d) { return Math.abs(x1(d) - x1(0)) }; + var xp0 = function(d) { return d < 0 ? x0(d) : x0(0) }, + xp1 = function(d) { return d < 0 ? x1(d) : x1(0) }; + + g.select('rect.nv-rangeMax') + .attr('height', availableHeight) + .attr('width', w1(rangeMax > 0 ? rangeMax : rangeMin)) + .attr('x', xp1(rangeMax > 0 ? rangeMax : rangeMin)) + .datum(rangeMax > 0 ? rangeMax : rangeMin) + + g.select('rect.nv-rangeAvg') + .attr('height', availableHeight) + .attr('width', w1(rangeAvg)) + .attr('x', xp1(rangeAvg)) + .datum(rangeAvg) + + g.select('rect.nv-rangeMin') + .attr('height', availableHeight) + .attr('width', w1(rangeMax)) + .attr('x', xp1(rangeMax)) + .attr('width', w1(rangeMax > 0 ? rangeMin : rangeMax)) + .attr('x', xp1(rangeMax > 0 ? rangeMin : rangeMax)) + .datum(rangeMax > 0 ? rangeMin : rangeMax) + + g.select('rect.nv-measure') + .style('fill', color) + .attr('height', availableHeight / 3) + .attr('y', availableHeight / 3) + .attr('width', measurez < 0 ? + x1(0) - x1(measurez[0]) + : x1(measurez[0]) - x1(0)) + .attr('x', xp1(measurez)) + .on('mouseover', function() { + dispatch.elementMouseover({ + value: measurez[0], + label: measureLabelz[0] || 'Current', + color: d3.select(this).style("fill") + }) + }) + .on('mousemove', function() { + dispatch.elementMousemove({ + value: measurez[0], + label: measureLabelz[0] || 'Current', + color: d3.select(this).style("fill") + }) + }) + .on('mouseout', function() { + dispatch.elementMouseout({ + value: measurez[0], + label: measureLabelz[0] || 'Current', + color: d3.select(this).style("fill") + }) + }); + + var h3 = availableHeight / 6; + + var markerData = markerz.map( function(marker, index) { + return {value: marker, label: markerLabelz[index]} + }); + gEnter + .selectAll("path.nv-markerTriangle") + .data(markerData) + .enter() + .append('path') + .attr('class', 'nv-markerTriangle') + .attr('transform', function(d) { return 'translate(' + x1(d.value) + ',' + (availableHeight / 2) + ')' }) + .attr('d', 'M0,' + h3 + 'L' + h3 + ',' + (-h3) + ' ' + (-h3) + ',' + (-h3) + 'Z') + .on('mouseover', function(d) { + dispatch.elementMouseover({ + value: d.value, + label: d.label || 'Previous', + color: d3.select(this).style("fill"), + pos: [x1(d.value), availableHeight/2] + }) + + }) + .on('mousemove', function(d) { + dispatch.elementMousemove({ + value: d.value, + label: d.label || 'Previous', + color: d3.select(this).style("fill") + }) + }) + .on('mouseout', function(d, i) { + dispatch.elementMouseout({ + value: d.value, + label: d.label || 'Previous', + color: d3.select(this).style("fill") + }) + }); + + wrap.selectAll('.nv-range') + .on('mouseover', function(d,i) { + var label = rangeLabelz[i] || (!i ? "Maximum" : i == 1 ? "Mean" : "Minimum"); + dispatch.elementMouseover({ + value: d, + label: label, + color: d3.select(this).style("fill") + }) + }) + .on('mousemove', function() { + dispatch.elementMousemove({ + value: measurez[0], + label: measureLabelz[0] || 'Previous', + color: d3.select(this).style("fill") + }) + }) + .on('mouseout', function(d,i) { + var label = rangeLabelz[i] || (!i ? "Maximum" : i == 1 ? "Mean" : "Minimum"); + dispatch.elementMouseout({ + value: d, + label: label, + color: d3.select(this).style("fill") + }) + }); + }); + + return chart; + } + + //============================================================ + // Expose Public Variables + //------------------------------------------------------------ + + chart.dispatch = dispatch; + chart.options = nv.utils.optionsFunc.bind(chart); + + chart._options = Object.create({}, { + // simple options, just get/set the necessary values + ranges: {get: function(){return ranges;}, set: function(_){ranges=_;}}, // ranges (bad, satisfactory, good) + markers: {get: function(){return markers;}, set: function(_){markers=_;}}, // markers (previous, goal) + measures: {get: function(){return measures;}, set: function(_){measures=_;}}, // measures (actual, forecast) + forceX: {get: function(){return forceX;}, set: function(_){forceX=_;}}, + width: {get: function(){return width;}, set: function(_){width=_;}}, + height: {get: function(){return height;}, set: function(_){height=_;}}, + tickFormat: {get: function(){return tickFormat;}, set: function(_){tickFormat=_;}}, + + // options that require extra logic in the setter + margin: {get: function(){return margin;}, set: function(_){ + margin.top = _.top !== undefined ? _.top : margin.top; + margin.right = _.right !== undefined ? _.right : margin.right; + margin.bottom = _.bottom !== undefined ? _.bottom : margin.bottom; + margin.left = _.left !== undefined ? _.left : margin.left; + }}, + orient: {get: function(){return orient;}, set: function(_){ // left, right, top, bottom + orient = _; + reverse = orient == 'right' || orient == 'bottom'; + }}, + color: {get: function(){return color;}, set: function(_){ + color = nv.utils.getColor(_); + }} + }); + + nv.utils.initOptions(chart); + return chart; +}; + + + +// Chart design based on the recommendations of Stephen Few. Implementation +// based on the work of Clint Ivy, Jamie Love, and Jason Davies. +// http://projects.instantcognition.com/protovis/bulletchart/ +nv.models.bulletChart = function() { + "use strict"; + + //============================================================ + // Public Variables with Default Settings + //------------------------------------------------------------ + + var bullet = nv.models.bullet(); + var tooltip = nv.models.tooltip(); + + var orient = 'left' // TODO top & bottom + , reverse = false + , margin = {top: 5, right: 40, bottom: 20, left: 120} + , ranges = function(d) { return d.ranges } + , markers = function(d) { return d.markers ? d.markers : [0] } + , measures = function(d) { return d.measures } + , width = null + , height = 55 + , tickFormat = null + , ticks = null + , noData = null + , dispatch = d3.dispatch('tooltipShow', 'tooltipHide') + ; + + tooltip.duration(0).headerEnabled(false); + + function chart(selection) { + selection.each(function(d, i) { + var container = d3.select(this); + nv.utils.initSVG(container); + + var availableWidth = nv.utils.availableWidth(width, container, margin), + availableHeight = height - margin.top - margin.bottom, + that = this; + + chart.update = function() { chart(selection) }; + chart.container = this; + + // Display No Data message if there's nothing to show. + if (!d || !ranges.call(this, d, i)) { + nv.utils.noData(chart, container) + return chart; + } else { + container.selectAll('.nv-noData').remove(); + } + + var rangez = ranges.call(this, d, i).slice().sort(d3.descending), + markerz = markers.call(this, d, i).slice().sort(d3.descending), + measurez = measures.call(this, d, i).slice().sort(d3.descending); + + // Setup containers and skeleton of chart + var wrap = container.selectAll('g.nv-wrap.nv-bulletChart').data([d]); + var wrapEnter = wrap.enter().append('g').attr('class', 'nvd3 nv-wrap nv-bulletChart'); + var gEnter = wrapEnter.append('g'); + var g = wrap.select('g'); + + gEnter.append('g').attr('class', 'nv-bulletWrap'); + gEnter.append('g').attr('class', 'nv-titles'); + + wrap.attr('transform', 'translate(' + margin.left + ',' + margin.top + ')'); + + // Compute the new x-scale. + var x1 = d3.scale.linear() + .domain([0, Math.max(rangez[0], markerz[0], measurez[0])]) // TODO: need to allow forceX and forceY, and xDomain, yDomain + .range(reverse ? [availableWidth, 0] : [0, availableWidth]); + + // Retrieve the old x-scale, if this is an update. + var x0 = this.__chart__ || d3.scale.linear() + .domain([0, Infinity]) + .range(x1.range()); + + // Stash the new scale. + this.__chart__ = x1; + + var w0 = function(d) { return Math.abs(x0(d) - x0(0)) }, // TODO: could optimize by precalculating x0(0) and x1(0) + w1 = function(d) { return Math.abs(x1(d) - x1(0)) }; + + var title = gEnter.select('.nv-titles').append('g') + .attr('text-anchor', 'end') + .attr('transform', 'translate(-6,' + (height - margin.top - margin.bottom) / 2 + ')'); + title.append('text') + .attr('class', 'nv-title') + .text(function(d) { return d.title; }); + + title.append('text') + .attr('class', 'nv-subtitle') + .attr('dy', '1em') + .text(function(d) { return d.subtitle; }); + + bullet + .width(availableWidth) + .height(availableHeight) + + var bulletWrap = g.select('.nv-bulletWrap'); + d3.transition(bulletWrap).call(bullet); + + // Compute the tick format. + var format = tickFormat || x1.tickFormat( availableWidth / 100 ); + + // Update the tick groups. + var tick = g.selectAll('g.nv-tick') + .data(x1.ticks( ticks ? ticks : (availableWidth / 50) ), function(d) { + return this.textContent || format(d); + }); + + // Initialize the ticks with the old scale, x0. + var tickEnter = tick.enter().append('g') + .attr('class', 'nv-tick') + .attr('transform', function(d) { return 'translate(' + x0(d) + ',0)' }) + .style('opacity', 1e-6); + + tickEnter.append('line') + .attr('y1', availableHeight) + .attr('y2', availableHeight * 7 / 6); + + tickEnter.append('text') + .attr('text-anchor', 'middle') + .attr('dy', '1em') + .attr('y', availableHeight * 7 / 6) + .text(format); + + // Transition the updating ticks to the new scale, x1. + var tickUpdate = d3.transition(tick) + .attr('transform', function(d) { return 'translate(' + x1(d) + ',0)' }) + .style('opacity', 1); + + tickUpdate.select('line') + .attr('y1', availableHeight) + .attr('y2', availableHeight * 7 / 6); + + tickUpdate.select('text') + .attr('y', availableHeight * 7 / 6); + + // Transition the exiting ticks to the new scale, x1. + d3.transition(tick.exit()) + .attr('transform', function(d) { return 'translate(' + x1(d) + ',0)' }) + .style('opacity', 1e-6) + .remove(); + }); + + d3.timer.flush(); + return chart; + } + + //============================================================ + // Event Handling/Dispatching (out of chart's scope) + //------------------------------------------------------------ + + bullet.dispatch.on('elementMouseover.tooltip', function(evt) { + evt['series'] = { + key: evt.label, + value: evt.value, + color: evt.color + }; + tooltip.data(evt).hidden(false); + }); + + bullet.dispatch.on('elementMouseout.tooltip', function(evt) { + tooltip.hidden(true); + }); + + bullet.dispatch.on('elementMousemove.tooltip', function(evt) { + tooltip.position({top: d3.event.pageY, left: d3.event.pageX})(); + }); + + //============================================================ + // Expose Public Variables + //------------------------------------------------------------ + + chart.bullet = bullet; + chart.dispatch = dispatch; + chart.tooltip = tooltip; + + chart.options = nv.utils.optionsFunc.bind(chart); + + chart._options = Object.create({}, { + // simple options, just get/set the necessary values + ranges: {get: function(){return ranges;}, set: function(_){ranges=_;}}, // ranges (bad, satisfactory, good) + markers: {get: function(){return markers;}, set: function(_){markers=_;}}, // markers (previous, goal) + measures: {get: function(){return measures;}, set: function(_){measures=_;}}, // measures (actual, forecast) + width: {get: function(){return width;}, set: function(_){width=_;}}, + height: {get: function(){return height;}, set: function(_){height=_;}}, + tickFormat: {get: function(){return tickFormat;}, set: function(_){tickFormat=_;}}, + ticks: {get: function(){return ticks;}, set: function(_){ticks=_;}}, + noData: {get: function(){return noData;}, set: function(_){noData=_;}}, + + // deprecated options + tooltips: {get: function(){return tooltip.enabled();}, set: function(_){ + // deprecated after 1.7.1 + nv.deprecated('tooltips', 'use chart.tooltip.enabled() instead'); + tooltip.enabled(!!_); + }}, + tooltipContent: {get: function(){return tooltip.contentGenerator();}, set: function(_){ + // deprecated after 1.7.1 + nv.deprecated('tooltipContent', 'use chart.tooltip.contentGenerator() instead'); + tooltip.contentGenerator(_); + }}, + + // options that require extra logic in the setter + margin: {get: function(){return margin;}, set: function(_){ + margin.top = _.top !== undefined ? _.top : margin.top; + margin.right = _.right !== undefined ? _.right : margin.right; + margin.bottom = _.bottom !== undefined ? _.bottom : margin.bottom; + margin.left = _.left !== undefined ? _.left : margin.left; + }}, + orient: {get: function(){return orient;}, set: function(_){ // left, right, top, bottom + orient = _; + reverse = orient == 'right' || orient == 'bottom'; + }} + }); + + nv.utils.inheritOptions(chart, bullet); + nv.utils.initOptions(chart); + + return chart; +}; + + + +nv.models.candlestickBar = function() { + "use strict"; + + //============================================================ + // Public Variables with Default Settings + //------------------------------------------------------------ + + var margin = {top: 0, right: 0, bottom: 0, left: 0} + , width = null + , height = null + , id = Math.floor(Math.random() * 10000) //Create semi-unique ID in case user doesn't select one + , container + , x = d3.scale.linear() + , y = d3.scale.linear() + , getX = function(d) { return d.x } + , getY = function(d) { return d.y } + , getOpen = function(d) { return d.open } + , getClose = function(d) { return d.close } + , getHigh = function(d) { return d.high } + , getLow = function(d) { return d.low } + , forceX = [] + , forceY = [] + , padData = false // If true, adds half a data points width to front and back, for lining up a line chart with a bar chart + , clipEdge = true + , color = nv.utils.defaultColor() + , interactive = false + , xDomain + , yDomain + , xRange + , yRange + , dispatch = d3.dispatch('tooltipShow', 'tooltipHide', 'stateChange', 'changeState', 'renderEnd', 'chartClick', 'elementClick', 'elementDblClick', 'elementMouseover', 'elementMouseout', 'elementMousemove') + ; + + //============================================================ + // Private Variables + //------------------------------------------------------------ + + function chart(selection) { + selection.each(function(data) { + container = d3.select(this); + var availableWidth = nv.utils.availableWidth(width, container, margin), + availableHeight = nv.utils.availableHeight(height, container, margin); + + nv.utils.initSVG(container); + + // Width of the candlestick bars. + var barWidth = (availableWidth / data[0].values.length) * .45; + + // Setup Scales + x.domain(xDomain || d3.extent(data[0].values.map(getX).concat(forceX) )); + + if (padData) + x.range(xRange || [availableWidth * .5 / data[0].values.length, availableWidth * (data[0].values.length - .5) / data[0].values.length ]); + else + x.range(xRange || [5 + barWidth / 2, availableWidth - barWidth / 2 - 5]); + + y.domain(yDomain || [ + d3.min(data[0].values.map(getLow).concat(forceY)), + d3.max(data[0].values.map(getHigh).concat(forceY)) + ] + ).range(yRange || [availableHeight, 0]); + + // If scale's domain don't have a range, slightly adjust to make one... so a chart can show a single data point + if (x.domain()[0] === x.domain()[1]) + x.domain()[0] ? + x.domain([x.domain()[0] - x.domain()[0] * 0.01, x.domain()[1] + x.domain()[1] * 0.01]) + : x.domain([-1,1]); + + if (y.domain()[0] === y.domain()[1]) + y.domain()[0] ? + y.domain([y.domain()[0] + y.domain()[0] * 0.01, y.domain()[1] - y.domain()[1] * 0.01]) + : y.domain([-1,1]); + + // Setup containers and skeleton of chart + var wrap = d3.select(this).selectAll('g.nv-wrap.nv-candlestickBar').data([data[0].values]); + var wrapEnter = wrap.enter().append('g').attr('class', 'nvd3 nv-wrap nv-candlestickBar'); + var defsEnter = wrapEnter.append('defs'); + var gEnter = wrapEnter.append('g'); + var g = wrap.select('g'); + + gEnter.append('g').attr('class', 'nv-ticks'); + + wrap.attr('transform', 'translate(' + margin.left + ',' + margin.top + ')'); + + container + .on('click', function(d,i) { + dispatch.chartClick({ + data: d, + index: i, + pos: d3.event, + id: id + }); + }); + + defsEnter.append('clipPath') + .attr('id', 'nv-chart-clip-path-' + id) + .append('rect'); + + wrap.select('#nv-chart-clip-path-' + id + ' rect') + .attr('width', availableWidth) + .attr('height', availableHeight); + + g .attr('clip-path', clipEdge ? 'url(#nv-chart-clip-path-' + id + ')' : ''); + + var ticks = wrap.select('.nv-ticks').selectAll('.nv-tick') + .data(function(d) { return d }); + ticks.exit().remove(); + + // The colors are currently controlled by CSS. + var tickGroups = ticks.enter().append('g') + .attr('class', function(d, i, j) { return (getOpen(d, i) > getClose(d, i) ? 'nv-tick negative' : 'nv-tick positive') + ' nv-tick-' + j + '-' + i}); + + var lines = tickGroups.append('line') + .attr('class', 'nv-candlestick-lines') + .attr('transform', function(d, i) { return 'translate(' + x(getX(d, i)) + ',0)'; }) + .attr('x1', 0) + .attr('y1', function(d, i) { return y(getHigh(d, i)); }) + .attr('x2', 0) + .attr('y2', function(d, i) { return y(getLow(d, i)); }); + + var rects = tickGroups.append('rect') + .attr('class', 'nv-candlestick-rects nv-bars') + .attr('transform', function(d, i) { + return 'translate(' + (x(getX(d, i)) - barWidth/2) + ',' + + (y(getY(d, i)) - (getOpen(d, i) > getClose(d, i) ? (y(getClose(d, i)) - y(getOpen(d, i))) : 0)) + + ')'; + }) + .attr('x', 0) + .attr('y', 0) + .attr('width', barWidth) + .attr('height', function(d, i) { + var open = getOpen(d, i); + var close = getClose(d, i); + return open > close ? y(close) - y(open) : y(open) - y(close); + }); + + container.selectAll('.nv-candlestick-lines').transition() + .attr('transform', function(d, i) { return 'translate(' + x(getX(d, i)) + ',0)'; }) + .attr('x1', 0) + .attr('y1', function(d, i) { return y(getHigh(d, i)); }) + .attr('x2', 0) + .attr('y2', function(d, i) { return y(getLow(d, i)); }); + + container.selectAll('.nv-candlestick-rects').transition() + .attr('transform', function(d, i) { + return 'translate(' + (x(getX(d, i)) - barWidth/2) + ',' + + (y(getY(d, i)) - (getOpen(d, i) > getClose(d, i) ? (y(getClose(d, i)) - y(getOpen(d, i))) : 0)) + + ')'; + }) + .attr('x', 0) + .attr('y', 0) + .attr('width', barWidth) + .attr('height', function(d, i) { + var open = getOpen(d, i); + var close = getClose(d, i); + return open > close ? y(close) - y(open) : y(open) - y(close); + }); + }); + + return chart; + } + + + //Create methods to allow outside functions to highlight a specific bar. + chart.highlightPoint = function(pointIndex, isHoverOver) { + chart.clearHighlights(); + container.select(".nv-candlestickBar .nv-tick-0-" + pointIndex) + .classed("hover", isHoverOver) + ; + }; + + chart.clearHighlights = function() { + container.select(".nv-candlestickBar .nv-tick.hover") + .classed("hover", false) + ; + }; + + //============================================================ + // Expose Public Variables + //------------------------------------------------------------ + + chart.dispatch = dispatch; + chart.options = nv.utils.optionsFunc.bind(chart); + + chart._options = Object.create({}, { + // simple options, just get/set the necessary values + width: {get: function(){return width;}, set: function(_){width=_;}}, + height: {get: function(){return height;}, set: function(_){height=_;}}, + xScale: {get: function(){return x;}, set: function(_){x=_;}}, + yScale: {get: function(){return y;}, set: function(_){y=_;}}, + xDomain: {get: function(){return xDomain;}, set: function(_){xDomain=_;}}, + yDomain: {get: function(){return yDomain;}, set: function(_){yDomain=_;}}, + xRange: {get: function(){return xRange;}, set: function(_){xRange=_;}}, + yRange: {get: function(){return yRange;}, set: function(_){yRange=_;}}, + forceX: {get: function(){return forceX;}, set: function(_){forceX=_;}}, + forceY: {get: function(){return forceY;}, set: function(_){forceY=_;}}, + padData: {get: function(){return padData;}, set: function(_){padData=_;}}, + clipEdge: {get: function(){return clipEdge;}, set: function(_){clipEdge=_;}}, + id: {get: function(){return id;}, set: function(_){id=_;}}, + interactive: {get: function(){return interactive;}, set: function(_){interactive=_;}}, + + x: {get: function(){return getX;}, set: function(_){getX=_;}}, + y: {get: function(){return getY;}, set: function(_){getY=_;}}, + open: {get: function(){return getOpen();}, set: function(_){getOpen=_;}}, + close: {get: function(){return getClose();}, set: function(_){getClose=_;}}, + high: {get: function(){return getHigh;}, set: function(_){getHigh=_;}}, + low: {get: function(){return getLow;}, set: function(_){getLow=_;}}, + + // options that require extra logic in the setter + margin: {get: function(){return margin;}, set: function(_){ + margin.top = _.top != undefined ? _.top : margin.top; + margin.right = _.right != undefined ? _.right : margin.right; + margin.bottom = _.bottom != undefined ? _.bottom : margin.bottom; + margin.left = _.left != undefined ? _.left : margin.left; + }}, + color: {get: function(){return color;}, set: function(_){ + color = nv.utils.getColor(_); + }} + }); + + nv.utils.initOptions(chart); + return chart; +}; + +nv.models.cumulativeLineChart = function() { + "use strict"; + + //============================================================ + // Public Variables with Default Settings + //------------------------------------------------------------ + + var lines = nv.models.line() + , xAxis = nv.models.axis() + , yAxis = nv.models.axis() + , legend = nv.models.legend() + , controls = nv.models.legend() + , interactiveLayer = nv.interactiveGuideline() + , tooltip = nv.models.tooltip() + ; + + var margin = {top: 30, right: 30, bottom: 50, left: 60} + , color = nv.utils.defaultColor() + , width = null + , height = null + , showLegend = true + , showXAxis = true + , showYAxis = true + , rightAlignYAxis = false + , showControls = true + , useInteractiveGuideline = false + , rescaleY = true + , x //can be accessed via chart.xScale() + , y //can be accessed via chart.yScale() + , id = lines.id() + , state = nv.utils.state() + , defaultState = null + , noData = null + , average = function(d) { return d.average } + , dispatch = d3.dispatch('stateChange', 'changeState', 'renderEnd') + , transitionDuration = 250 + , duration = 250 + , noErrorCheck = false //if set to TRUE, will bypass an error check in the indexify function. + ; + + state.index = 0; + state.rescaleY = rescaleY; + + xAxis.orient('bottom').tickPadding(7); + yAxis.orient((rightAlignYAxis) ? 'right' : 'left'); + + tooltip.valueFormatter(function(d, i) { + return yAxis.tickFormat()(d, i); + }).headerFormatter(function(d, i) { + return xAxis.tickFormat()(d, i); + }); + + controls.updateState(false); + + //============================================================ + // Private Variables + //------------------------------------------------------------ + + var dx = d3.scale.linear() + , index = {i: 0, x: 0} + , renderWatch = nv.utils.renderWatch(dispatch, duration) + ; + + var stateGetter = function(data) { + return function(){ + return { + active: data.map(function(d) { return !d.disabled }), + index: index.i, + rescaleY: rescaleY + }; + } + }; + + var stateSetter = function(data) { + return function(state) { + if (state.index !== undefined) + index.i = state.index; + if (state.rescaleY !== undefined) + rescaleY = state.rescaleY; + if (state.active !== undefined) + data.forEach(function(series,i) { + series.disabled = !state.active[i]; + }); + } + }; + + function chart(selection) { + renderWatch.reset(); + renderWatch.models(lines); + if (showXAxis) renderWatch.models(xAxis); + if (showYAxis) renderWatch.models(yAxis); + selection.each(function(data) { + var container = d3.select(this); + nv.utils.initSVG(container); + container.classed('nv-chart-' + id, true); + var that = this; + + var availableWidth = nv.utils.availableWidth(width, container, margin), + availableHeight = nv.utils.availableHeight(height, container, margin); + + chart.update = function() { + if (duration === 0) + container.call(chart); + else + container.transition().duration(duration).call(chart) + }; + chart.container = this; + + state + .setter(stateSetter(data), chart.update) + .getter(stateGetter(data)) + .update(); + + // DEPRECATED set state.disableddisabled + state.disabled = data.map(function(d) { return !!d.disabled }); + + if (!defaultState) { + var key; + defaultState = {}; + for (key in state) { + if (state[key] instanceof Array) + defaultState[key] = state[key].slice(0); + else + defaultState[key] = state[key]; + } + } + + var indexDrag = d3.behavior.drag() + .on('dragstart', dragStart) + .on('drag', dragMove) + .on('dragend', dragEnd); + + + function dragStart(d,i) { + d3.select(chart.container) + .style('cursor', 'ew-resize'); + } + + function dragMove(d,i) { + index.x = d3.event.x; + index.i = Math.round(dx.invert(index.x)); + updateZero(); + } + + function dragEnd(d,i) { + d3.select(chart.container) + .style('cursor', 'auto'); + + // update state and send stateChange with new index + state.index = index.i; + dispatch.stateChange(state); + } + + // Display No Data message if there's nothing to show. + if (!data || !data.length || !data.filter(function(d) { return d.values.length }).length) { + nv.utils.noData(chart, container) + return chart; + } else { + container.selectAll('.nv-noData').remove(); + } + + // Setup Scales + x = lines.xScale(); + y = lines.yScale(); + + if (!rescaleY) { + var seriesDomains = data + .filter(function(series) { return !series.disabled }) + .map(function(series,i) { + var initialDomain = d3.extent(series.values, lines.y()); + + //account for series being disabled when losing 95% or more + if (initialDomain[0] < -.95) initialDomain[0] = -.95; + + return [ + (initialDomain[0] - initialDomain[1]) / (1 + initialDomain[1]), + (initialDomain[1] - initialDomain[0]) / (1 + initialDomain[0]) + ]; + }); + + var completeDomain = [ + d3.min(seriesDomains, function(d) { return d[0] }), + d3.max(seriesDomains, function(d) { return d[1] }) + ]; + + lines.yDomain(completeDomain); + } else { + lines.yDomain(null); + } + + dx.domain([0, data[0].values.length - 1]) //Assumes all series have same length + .range([0, availableWidth]) + .clamp(true); + + var data = indexify(index.i, data); + + // Setup containers and skeleton of chart + var interactivePointerEvents = (useInteractiveGuideline) ? "none" : "all"; + var wrap = container.selectAll('g.nv-wrap.nv-cumulativeLine').data([data]); + var gEnter = wrap.enter().append('g').attr('class', 'nvd3 nv-wrap nv-cumulativeLine').append('g'); + var g = wrap.select('g'); + + gEnter.append('g').attr('class', 'nv-interactive'); + gEnter.append('g').attr('class', 'nv-x nv-axis').style("pointer-events","none"); + gEnter.append('g').attr('class', 'nv-y nv-axis'); + gEnter.append('g').attr('class', 'nv-background'); + gEnter.append('g').attr('class', 'nv-linesWrap').style("pointer-events",interactivePointerEvents); + gEnter.append('g').attr('class', 'nv-avgLinesWrap').style("pointer-events","none"); + gEnter.append('g').attr('class', 'nv-legendWrap'); + gEnter.append('g').attr('class', 'nv-controlsWrap'); + + // Legend + if (showLegend) { + legend.width(availableWidth); + + g.select('.nv-legendWrap') + .datum(data) + .call(legend); + + if ( margin.top != legend.height()) { + margin.top = legend.height(); + availableHeight = nv.utils.availableHeight(height, container, margin); + } + + g.select('.nv-legendWrap') + .attr('transform', 'translate(0,' + (-margin.top) +')') + } + + // Controls + if (showControls) { + var controlsData = [ + { key: 'Re-scale y-axis', disabled: !rescaleY } + ]; + + controls + .width(140) + .color(['#444', '#444', '#444']) + .rightAlign(false) + .margin({top: 5, right: 0, bottom: 5, left: 20}) + ; + + g.select('.nv-controlsWrap') + .datum(controlsData) + .attr('transform', 'translate(0,' + (-margin.top) +')') + .call(controls); + } + + wrap.attr('transform', 'translate(' + margin.left + ',' + margin.top + ')'); + + if (rightAlignYAxis) { + g.select(".nv-y.nv-axis") + .attr("transform", "translate(" + availableWidth + ",0)"); + } + + // Show error if series goes below 100% + var tempDisabled = data.filter(function(d) { return d.tempDisabled }); + + wrap.select('.tempDisabled').remove(); //clean-up and prevent duplicates + if (tempDisabled.length) { + wrap.append('text').attr('class', 'tempDisabled') + .attr('x', availableWidth / 2) + .attr('y', '-.71em') + .style('text-anchor', 'end') + .text(tempDisabled.map(function(d) { return d.key }).join(', ') + ' values cannot be calculated for this time period.'); + } + + //Set up interactive layer + if (useInteractiveGuideline) { + interactiveLayer + .width(availableWidth) + .height(availableHeight) + .margin({left:margin.left,top:margin.top}) + .svgContainer(container) + .xScale(x); + wrap.select(".nv-interactive").call(interactiveLayer); + } + + gEnter.select('.nv-background') + .append('rect'); + + g.select('.nv-background rect') + .attr('width', availableWidth) + .attr('height', availableHeight); + + lines + //.x(function(d) { return d.x }) + .y(function(d) { return d.display.y }) + .width(availableWidth) + .height(availableHeight) + .color(data.map(function(d,i) { + return d.color || color(d, i); + }).filter(function(d,i) { return !data[i].disabled && !data[i].tempDisabled; })); + + var linesWrap = g.select('.nv-linesWrap') + .datum(data.filter(function(d) { return !d.disabled && !d.tempDisabled })); + + linesWrap.call(lines); + + //Store a series index number in the data array. + data.forEach(function(d,i) { + d.seriesIndex = i; + }); + + var avgLineData = data.filter(function(d) { + return !d.disabled && !!average(d); + }); + + var avgLines = g.select(".nv-avgLinesWrap").selectAll("line") + .data(avgLineData, function(d) { return d.key; }); + + var getAvgLineY = function(d) { + //If average lines go off the svg element, clamp them to the svg bounds. + var yVal = y(average(d)); + if (yVal < 0) return 0; + if (yVal > availableHeight) return availableHeight; + return yVal; + }; + + avgLines.enter() + .append('line') + .style('stroke-width',2) + .style('stroke-dasharray','10,10') + .style('stroke',function (d,i) { + return lines.color()(d,d.seriesIndex); + }) + .attr('x1',0) + .attr('x2',availableWidth) + .attr('y1', getAvgLineY) + .attr('y2', getAvgLineY); + + avgLines + .style('stroke-opacity',function(d){ + //If average lines go offscreen, make them transparent + var yVal = y(average(d)); + if (yVal < 0 || yVal > availableHeight) return 0; + return 1; + }) + .attr('x1',0) + .attr('x2',availableWidth) + .attr('y1', getAvgLineY) + .attr('y2', getAvgLineY); + + avgLines.exit().remove(); + + //Create index line + var indexLine = linesWrap.selectAll('.nv-indexLine') + .data([index]); + indexLine.enter().append('rect').attr('class', 'nv-indexLine') + .attr('width', 3) + .attr('x', -2) + .attr('fill', 'red') + .attr('fill-opacity', .5) + .style("pointer-events","all") + .call(indexDrag); + + indexLine + .attr('transform', function(d) { return 'translate(' + dx(d.i) + ',0)' }) + .attr('height', availableHeight); + + // Setup Axes + if (showXAxis) { + xAxis + .scale(x) + ._ticks( nv.utils.calcTicksX(availableWidth/70, data) ) + .tickSize(-availableHeight, 0); + + g.select('.nv-x.nv-axis') + .attr('transform', 'translate(0,' + y.range()[0] + ')'); + g.select('.nv-x.nv-axis') + .call(xAxis); + } + + if (showYAxis) { + yAxis + .scale(y) + ._ticks( nv.utils.calcTicksY(availableHeight/36, data) ) + .tickSize( -availableWidth, 0); + + g.select('.nv-y.nv-axis') + .call(yAxis); + } + + //============================================================ + // Event Handling/Dispatching (in chart's scope) + //------------------------------------------------------------ + + function updateZero() { + indexLine + .data([index]); + + //When dragging the index line, turn off line transitions. + // Then turn them back on when done dragging. + var oldDuration = chart.duration(); + chart.duration(0); + chart.update(); + chart.duration(oldDuration); + } + + g.select('.nv-background rect') + .on('click', function() { + index.x = d3.mouse(this)[0]; + index.i = Math.round(dx.invert(index.x)); + + // update state and send stateChange with new index + state.index = index.i; + dispatch.stateChange(state); + + updateZero(); + }); + + lines.dispatch.on('elementClick', function(e) { + index.i = e.pointIndex; + index.x = dx(index.i); + + // update state and send stateChange with new index + state.index = index.i; + dispatch.stateChange(state); + + updateZero(); + }); + + controls.dispatch.on('legendClick', function(d,i) { + d.disabled = !d.disabled; + rescaleY = !d.disabled; + + state.rescaleY = rescaleY; + dispatch.stateChange(state); + chart.update(); + }); + + legend.dispatch.on('stateChange', function(newState) { + for (var key in newState) + state[key] = newState[key]; + dispatch.stateChange(state); + chart.update(); + }); + + interactiveLayer.dispatch.on('elementMousemove', function(e) { + lines.clearHighlights(); + var singlePoint, pointIndex, pointXLocation, allData = []; + + data + .filter(function(series, i) { + series.seriesIndex = i; + return !series.disabled; + }) + .forEach(function(series,i) { + pointIndex = nv.interactiveBisect(series.values, e.pointXValue, chart.x()); + lines.highlightPoint(i, pointIndex, true); + var point = series.values[pointIndex]; + if (typeof point === 'undefined') return; + if (typeof singlePoint === 'undefined') singlePoint = point; + if (typeof pointXLocation === 'undefined') pointXLocation = chart.xScale()(chart.x()(point,pointIndex)); + allData.push({ + key: series.key, + value: chart.y()(point, pointIndex), + color: color(series,series.seriesIndex) + }); + }); + + //Highlight the tooltip entry based on which point the mouse is closest to. + if (allData.length > 2) { + var yValue = chart.yScale().invert(e.mouseY); + var domainExtent = Math.abs(chart.yScale().domain()[0] - chart.yScale().domain()[1]); + var threshold = 0.03 * domainExtent; + var indexToHighlight = nv.nearestValueIndex(allData.map(function(d){return d.value}),yValue,threshold); + if (indexToHighlight !== null) + allData[indexToHighlight].highlight = true; + } + + var xValue = xAxis.tickFormat()(chart.x()(singlePoint,pointIndex), pointIndex); + interactiveLayer.tooltip + .position({left: pointXLocation + margin.left, top: e.mouseY + margin.top}) + .chartContainer(that.parentNode) + .valueFormatter(function(d,i) { + return yAxis.tickFormat()(d); + }) + .data( + { + value: xValue, + series: allData + } + )(); + + interactiveLayer.renderGuideLine(pointXLocation); + }); + + interactiveLayer.dispatch.on("elementMouseout",function(e) { + lines.clearHighlights(); + }); + + // Update chart from a state object passed to event handler + dispatch.on('changeState', function(e) { + if (typeof e.disabled !== 'undefined') { + data.forEach(function(series,i) { + series.disabled = e.disabled[i]; + }); + + state.disabled = e.disabled; + } + + if (typeof e.index !== 'undefined') { + index.i = e.index; + index.x = dx(index.i); + + state.index = e.index; + + indexLine + .data([index]); + } + + if (typeof e.rescaleY !== 'undefined') { + rescaleY = e.rescaleY; + } + + chart.update(); + }); + + }); + + renderWatch.renderEnd('cumulativeLineChart immediate'); + + return chart; + } + + //============================================================ + // Event Handling/Dispatching (out of chart's scope) + //------------------------------------------------------------ + + lines.dispatch.on('elementMouseover.tooltip', function(evt) { + var point = { + x: chart.x()(evt.point), + y: chart.y()(evt.point), + color: evt.point.color + }; + evt.point = point; + tooltip.data(evt).position(evt.pos).hidden(false); + }); + + lines.dispatch.on('elementMouseout.tooltip', function(evt) { + tooltip.hidden(true) + }); + + //============================================================ + // Functions + //------------------------------------------------------------ + + var indexifyYGetter = null; + /* Normalize the data according to an index point. */ + function indexify(idx, data) { + if (!indexifyYGetter) indexifyYGetter = lines.y(); + return data.map(function(line, i) { + if (!line.values) { + return line; + } + var indexValue = line.values[idx]; + if (indexValue == null) { + return line; + } + var v = indexifyYGetter(indexValue, idx); + + //TODO: implement check below, and disable series if series loses 100% or more cause divide by 0 issue + if (v < -.95 && !noErrorCheck) { + //if a series loses more than 100%, calculations fail.. anything close can cause major distortion (but is mathematically correct till it hits 100) + + line.tempDisabled = true; + return line; + } + + line.tempDisabled = false; + + line.values = line.values.map(function(point, pointIndex) { + point.display = {'y': (indexifyYGetter(point, pointIndex) - v) / (1 + v) }; + return point; + }); + + return line; + }) + } + + //============================================================ + // Expose Public Variables + //------------------------------------------------------------ + + // expose chart's sub-components + chart.dispatch = dispatch; + chart.lines = lines; + chart.legend = legend; + chart.controls = controls; + chart.xAxis = xAxis; + chart.yAxis = yAxis; + chart.interactiveLayer = interactiveLayer; + chart.state = state; + chart.tooltip = tooltip; + + chart.options = nv.utils.optionsFunc.bind(chart); + + chart._options = Object.create({}, { + // simple options, just get/set the necessary values + width: {get: function(){return width;}, set: function(_){width=_;}}, + height: {get: function(){return height;}, set: function(_){height=_;}}, + rescaleY: {get: function(){return rescaleY;}, set: function(_){rescaleY=_;}}, + showControls: {get: function(){return showControls;}, set: function(_){showControls=_;}}, + showLegend: {get: function(){return showLegend;}, set: function(_){showLegend=_;}}, + average: {get: function(){return average;}, set: function(_){average=_;}}, + defaultState: {get: function(){return defaultState;}, set: function(_){defaultState=_;}}, + noData: {get: function(){return noData;}, set: function(_){noData=_;}}, + showXAxis: {get: function(){return showXAxis;}, set: function(_){showXAxis=_;}}, + showYAxis: {get: function(){return showYAxis;}, set: function(_){showYAxis=_;}}, + noErrorCheck: {get: function(){return noErrorCheck;}, set: function(_){noErrorCheck=_;}}, + + // deprecated options + tooltips: {get: function(){return tooltip.enabled();}, set: function(_){ + // deprecated after 1.7.1 + nv.deprecated('tooltips', 'use chart.tooltip.enabled() instead'); + tooltip.enabled(!!_); + }}, + tooltipContent: {get: function(){return tooltip.contentGenerator();}, set: function(_){ + // deprecated after 1.7.1 + nv.deprecated('tooltipContent', 'use chart.tooltip.contentGenerator() instead'); + tooltip.contentGenerator(_); + }}, + + // options that require extra logic in the setter + margin: {get: function(){return margin;}, set: function(_){ + margin.top = _.top !== undefined ? _.top : margin.top; + margin.right = _.right !== undefined ? _.right : margin.right; + margin.bottom = _.bottom !== undefined ? _.bottom : margin.bottom; + margin.left = _.left !== undefined ? _.left : margin.left; + }}, + color: {get: function(){return color;}, set: function(_){ + color = nv.utils.getColor(_); + legend.color(color); + }}, + useInteractiveGuideline: {get: function(){return useInteractiveGuideline;}, set: function(_){ + useInteractiveGuideline = _; + if (_ === true) { + chart.interactive(false); + chart.useVoronoi(false); + } + }}, + rightAlignYAxis: {get: function(){return rightAlignYAxis;}, set: function(_){ + rightAlignYAxis = _; + yAxis.orient( (_) ? 'right' : 'left'); + }}, + duration: {get: function(){return duration;}, set: function(_){ + duration = _; + lines.duration(duration); + xAxis.duration(duration); + yAxis.duration(duration); + renderWatch.reset(duration); + }} + }); + + nv.utils.inheritOptions(chart, lines); + nv.utils.initOptions(chart); + + return chart; +}; +//TODO: consider deprecating by adding necessary features to multiBar model +nv.models.discreteBar = function() { + "use strict"; + + //============================================================ + // Public Variables with Default Settings + //------------------------------------------------------------ + + var margin = {top: 0, right: 0, bottom: 0, left: 0} + , width = 960 + , height = 500 + , id = Math.floor(Math.random() * 10000) //Create semi-unique ID in case user doesn't select one + , container + , x = d3.scale.ordinal() + , y = d3.scale.linear() + , getX = function(d) { return d.x } + , getY = function(d) { return d.y } + , forceY = [0] // 0 is forced by default.. this makes sense for the majority of bar graphs... user can always do chart.forceY([]) to remove + , color = nv.utils.defaultColor() + , showValues = false + , valueFormat = d3.format(',.2f') + , xDomain + , yDomain + , xRange + , yRange + , dispatch = d3.dispatch('chartClick', 'elementClick', 'elementDblClick', 'elementMouseover', 'elementMouseout', 'elementMousemove', 'renderEnd') + , rectClass = 'discreteBar' + , duration = 250 + ; + + //============================================================ + // Private Variables + //------------------------------------------------------------ + + var x0, y0; + var renderWatch = nv.utils.renderWatch(dispatch, duration); + + function chart(selection) { + renderWatch.reset(); + selection.each(function(data) { + var availableWidth = width - margin.left - margin.right, + availableHeight = height - margin.top - margin.bottom; + + container = d3.select(this); + nv.utils.initSVG(container); + + //add series index to each data point for reference + data.forEach(function(series, i) { + series.values.forEach(function(point) { + point.series = i; + }); + }); + + // Setup Scales + // remap and flatten the data for use in calculating the scales' domains + var seriesData = (xDomain && yDomain) ? [] : // if we know xDomain and yDomain, no need to calculate + data.map(function(d) { + return d.values.map(function(d,i) { + return { x: getX(d,i), y: getY(d,i), y0: d.y0 } + }) + }); + + x .domain(xDomain || d3.merge(seriesData).map(function(d) { return d.x })) + .rangeBands(xRange || [0, availableWidth], .1); + y .domain(yDomain || d3.extent(d3.merge(seriesData).map(function(d) { return d.y }).concat(forceY))); + + // If showValues, pad the Y axis range to account for label height + if (showValues) y.range(yRange || [availableHeight - (y.domain()[0] < 0 ? 12 : 0), y.domain()[1] > 0 ? 12 : 0]); + else y.range(yRange || [availableHeight, 0]); + + //store old scales if they exist + x0 = x0 || x; + y0 = y0 || y.copy().range([y(0),y(0)]); + + // Setup containers and skeleton of chart + var wrap = container.selectAll('g.nv-wrap.nv-discretebar').data([data]); + var wrapEnter = wrap.enter().append('g').attr('class', 'nvd3 nv-wrap nv-discretebar'); + var gEnter = wrapEnter.append('g'); + var g = wrap.select('g'); + + gEnter.append('g').attr('class', 'nv-groups'); + wrap.attr('transform', 'translate(' + margin.left + ',' + margin.top + ')'); + + //TODO: by definition, the discrete bar should not have multiple groups, will modify/remove later + var groups = wrap.select('.nv-groups').selectAll('.nv-group') + .data(function(d) { return d }, function(d) { return d.key }); + groups.enter().append('g') + .style('stroke-opacity', 1e-6) + .style('fill-opacity', 1e-6); + groups.exit() + .watchTransition(renderWatch, 'discreteBar: exit groups') + .style('stroke-opacity', 1e-6) + .style('fill-opacity', 1e-6) + .remove(); + groups + .attr('class', function(d,i) { return 'nv-group nv-series-' + i }) + .classed('hover', function(d) { return d.hover }); + groups + .watchTransition(renderWatch, 'discreteBar: groups') + .style('stroke-opacity', 1) + .style('fill-opacity', .75); + + var bars = groups.selectAll('g.nv-bar') + .data(function(d) { return d.values }); + bars.exit().remove(); + + var barsEnter = bars.enter().append('g') + .attr('transform', function(d,i,j) { + return 'translate(' + (x(getX(d,i)) + x.rangeBand() * .05 ) + ', ' + y(0) + ')' + }) + .on('mouseover', function(d,i) { //TODO: figure out why j works above, but not here + d3.select(this).classed('hover', true); + dispatch.elementMouseover({ + data: d, + index: i, + color: d3.select(this).style("fill") + }); + }) + .on('mouseout', function(d,i) { + d3.select(this).classed('hover', false); + dispatch.elementMouseout({ + data: d, + index: i, + color: d3.select(this).style("fill") + }); + }) + .on('mousemove', function(d,i) { + dispatch.elementMousemove({ + data: d, + index: i, + color: d3.select(this).style("fill") + }); + }) + .on('click', function(d,i) { + dispatch.elementClick({ + data: d, + index: i, + color: d3.select(this).style("fill") + }); + d3.event.stopPropagation(); + }) + .on('dblclick', function(d,i) { + dispatch.elementDblClick({ + data: d, + index: i, + color: d3.select(this).style("fill") + }); + d3.event.stopPropagation(); + }); + + barsEnter.append('rect') + .attr('height', 0) + .attr('width', x.rangeBand() * .9 / data.length ) + + if (showValues) { + barsEnter.append('text') + .attr('text-anchor', 'middle') + ; + + bars.select('text') + .text(function(d,i) { return valueFormat(getY(d,i)) }) + .watchTransition(renderWatch, 'discreteBar: bars text') + .attr('x', x.rangeBand() * .9 / 2) + .attr('y', function(d,i) { return getY(d,i) < 0 ? y(getY(d,i)) - y(0) + 12 : -4 }) + + ; + } else { + bars.selectAll('text').remove(); + } + + bars + .attr('class', function(d,i) { return getY(d,i) < 0 ? 'nv-bar negative' : 'nv-bar positive' }) + .style('fill', function(d,i) { return d.color || color(d,i) }) + .style('stroke', function(d,i) { return d.color || color(d,i) }) + .select('rect') + .attr('class', rectClass) + .watchTransition(renderWatch, 'discreteBar: bars rect') + .attr('width', x.rangeBand() * .9 / data.length); + bars.watchTransition(renderWatch, 'discreteBar: bars') + //.delay(function(d,i) { return i * 1200 / data[0].values.length }) + .attr('transform', function(d,i) { + var left = x(getX(d,i)) + x.rangeBand() * .05, + top = getY(d,i) < 0 ? + y(0) : + y(0) - y(getY(d,i)) < 1 ? + y(0) - 1 : //make 1 px positive bars show up above y=0 + y(getY(d,i)); + + return 'translate(' + left + ', ' + top + ')' + }) + .select('rect') + .attr('height', function(d,i) { + return Math.max(Math.abs(y(getY(d,i)) - y((yDomain && yDomain[0]) || 0)) || 1) + }); + + + //store old scales for use in transitions on update + x0 = x.copy(); + y0 = y.copy(); + + }); + + renderWatch.renderEnd('discreteBar immediate'); + return chart; + } + + //============================================================ + // Expose Public Variables + //------------------------------------------------------------ + + chart.dispatch = dispatch; + chart.options = nv.utils.optionsFunc.bind(chart); + + chart._options = Object.create({}, { + // simple options, just get/set the necessary values + width: {get: function(){return width;}, set: function(_){width=_;}}, + height: {get: function(){return height;}, set: function(_){height=_;}}, + forceY: {get: function(){return forceY;}, set: function(_){forceY=_;}}, + showValues: {get: function(){return showValues;}, set: function(_){showValues=_;}}, + x: {get: function(){return getX;}, set: function(_){getX=_;}}, + y: {get: function(){return getY;}, set: function(_){getY=_;}}, + xScale: {get: function(){return x;}, set: function(_){x=_;}}, + yScale: {get: function(){return y;}, set: function(_){y=_;}}, + xDomain: {get: function(){return xDomain;}, set: function(_){xDomain=_;}}, + yDomain: {get: function(){return yDomain;}, set: function(_){yDomain=_;}}, + xRange: {get: function(){return xRange;}, set: function(_){xRange=_;}}, + yRange: {get: function(){return yRange;}, set: function(_){yRange=_;}}, + valueFormat: {get: function(){return valueFormat;}, set: function(_){valueFormat=_;}}, + id: {get: function(){return id;}, set: function(_){id=_;}}, + rectClass: {get: function(){return rectClass;}, set: function(_){rectClass=_;}}, + + // options that require extra logic in the setter + margin: {get: function(){return margin;}, set: function(_){ + margin.top = _.top !== undefined ? _.top : margin.top; + margin.right = _.right !== undefined ? _.right : margin.right; + margin.bottom = _.bottom !== undefined ? _.bottom : margin.bottom; + margin.left = _.left !== undefined ? _.left : margin.left; + }}, + color: {get: function(){return color;}, set: function(_){ + color = nv.utils.getColor(_); + }}, + duration: {get: function(){return duration;}, set: function(_){ + duration = _; + renderWatch.reset(duration); + }} + }); + + nv.utils.initOptions(chart); + + return chart; +}; + +nv.models.discreteBarChart = function() { + "use strict"; + + //============================================================ + // Public Variables with Default Settings + //------------------------------------------------------------ + + var discretebar = nv.models.discreteBar() + , xAxis = nv.models.axis() + , yAxis = nv.models.axis() + , tooltip = nv.models.tooltip() + ; + + var margin = {top: 15, right: 10, bottom: 50, left: 60} + , width = null + , height = null + , color = nv.utils.getColor() + , showXAxis = true + , showYAxis = true + , rightAlignYAxis = false + , staggerLabels = false + , x + , y + , noData = null + , dispatch = d3.dispatch('beforeUpdate','renderEnd') + , duration = 250 + ; + + xAxis + .orient('bottom') + .showMaxMin(false) + .tickFormat(function(d) { return d }) + ; + yAxis + .orient((rightAlignYAxis) ? 'right' : 'left') + .tickFormat(d3.format(',.1f')) + ; + + tooltip + .duration(0) + .headerEnabled(false) + .valueFormatter(function(d, i) { + return yAxis.tickFormat()(d, i); + }) + .keyFormatter(function(d, i) { + return xAxis.tickFormat()(d, i); + }); + + //============================================================ + // Private Variables + //------------------------------------------------------------ + + var renderWatch = nv.utils.renderWatch(dispatch, duration); + + function chart(selection) { + renderWatch.reset(); + renderWatch.models(discretebar); + if (showXAxis) renderWatch.models(xAxis); + if (showYAxis) renderWatch.models(yAxis); + + selection.each(function(data) { + var container = d3.select(this), + that = this; + nv.utils.initSVG(container); + var availableWidth = nv.utils.availableWidth(width, container, margin), + availableHeight = nv.utils.availableHeight(height, container, margin); + + chart.update = function() { + dispatch.beforeUpdate(); + container.transition().duration(duration).call(chart); + }; + chart.container = this; + + // Display No Data message if there's nothing to show. + if (!data || !data.length || !data.filter(function(d) { return d.values.length }).length) { + nv.utils.noData(chart, container); + return chart; + } else { + container.selectAll('.nv-noData').remove(); + } + + // Setup Scales + x = discretebar.xScale(); + y = discretebar.yScale().clamp(true); + + // Setup containers and skeleton of chart + var wrap = container.selectAll('g.nv-wrap.nv-discreteBarWithAxes').data([data]); + var gEnter = wrap.enter().append('g').attr('class', 'nvd3 nv-wrap nv-discreteBarWithAxes').append('g'); + var defsEnter = gEnter.append('defs'); + var g = wrap.select('g'); + + gEnter.append('g').attr('class', 'nv-x nv-axis'); + gEnter.append('g').attr('class', 'nv-y nv-axis') + .append('g').attr('class', 'nv-zeroLine') + .append('line'); + + gEnter.append('g').attr('class', 'nv-barsWrap'); + + g.attr('transform', 'translate(' + margin.left + ',' + margin.top + ')'); + + if (rightAlignYAxis) { + g.select(".nv-y.nv-axis") + .attr("transform", "translate(" + availableWidth + ",0)"); + } + + // Main Chart Component(s) + discretebar + .width(availableWidth) + .height(availableHeight); + + var barsWrap = g.select('.nv-barsWrap') + .datum(data.filter(function(d) { return !d.disabled })); + + barsWrap.transition().call(discretebar); + + + defsEnter.append('clipPath') + .attr('id', 'nv-x-label-clip-' + discretebar.id()) + .append('rect'); + + g.select('#nv-x-label-clip-' + discretebar.id() + ' rect') + .attr('width', x.rangeBand() * (staggerLabels ? 2 : 1)) + .attr('height', 16) + .attr('x', -x.rangeBand() / (staggerLabels ? 1 : 2 )); + + // Setup Axes + if (showXAxis) { + xAxis + .scale(x) + ._ticks( nv.utils.calcTicksX(availableWidth/100, data) ) + .tickSize(-availableHeight, 0); + + g.select('.nv-x.nv-axis') + .attr('transform', 'translate(0,' + (y.range()[0] + ((discretebar.showValues() && y.domain()[0] < 0) ? 16 : 0)) + ')'); + g.select('.nv-x.nv-axis').call(xAxis); + + var xTicks = g.select('.nv-x.nv-axis').selectAll('g'); + if (staggerLabels) { + xTicks + .selectAll('text') + .attr('transform', function(d,i,j) { return 'translate(0,' + (j % 2 == 0 ? '5' : '17') + ')' }) + } + } + + if (showYAxis) { + yAxis + .scale(y) + ._ticks( nv.utils.calcTicksY(availableHeight/36, data) ) + .tickSize( -availableWidth, 0); + + g.select('.nv-y.nv-axis').call(yAxis); + } + + // Zero line + g.select(".nv-zeroLine line") + .attr("x1",0) + .attr("x2",availableWidth) + .attr("y1", y(0)) + .attr("y2", y(0)) + ; + }); + + renderWatch.renderEnd('discreteBar chart immediate'); + return chart; + } + + //============================================================ + // Event Handling/Dispatching (out of chart's scope) + //------------------------------------------------------------ + + discretebar.dispatch.on('elementMouseover.tooltip', function(evt) { + evt['series'] = { + key: chart.x()(evt.data), + value: chart.y()(evt.data), + color: evt.color + }; + tooltip.data(evt).hidden(false); + }); + + discretebar.dispatch.on('elementMouseout.tooltip', function(evt) { + tooltip.hidden(true); + }); + + discretebar.dispatch.on('elementMousemove.tooltip', function(evt) { + tooltip.position({top: d3.event.pageY, left: d3.event.pageX})(); + }); + + //============================================================ + // Expose Public Variables + //------------------------------------------------------------ + + chart.dispatch = dispatch; + chart.discretebar = discretebar; + chart.xAxis = xAxis; + chart.yAxis = yAxis; + chart.tooltip = tooltip; + + chart.options = nv.utils.optionsFunc.bind(chart); + + chart._options = Object.create({}, { + // simple options, just get/set the necessary values + width: {get: function(){return width;}, set: function(_){width=_;}}, + height: {get: function(){return height;}, set: function(_){height=_;}}, + staggerLabels: {get: function(){return staggerLabels;}, set: function(_){staggerLabels=_;}}, + showXAxis: {get: function(){return showXAxis;}, set: function(_){showXAxis=_;}}, + showYAxis: {get: function(){return showYAxis;}, set: function(_){showYAxis=_;}}, + noData: {get: function(){return noData;}, set: function(_){noData=_;}}, + + // deprecated options + tooltips: {get: function(){return tooltip.enabled();}, set: function(_){ + // deprecated after 1.7.1 + nv.deprecated('tooltips', 'use chart.tooltip.enabled() instead'); + tooltip.enabled(!!_); + }}, + tooltipContent: {get: function(){return tooltip.contentGenerator();}, set: function(_){ + // deprecated after 1.7.1 + nv.deprecated('tooltipContent', 'use chart.tooltip.contentGenerator() instead'); + tooltip.contentGenerator(_); + }}, + + // options that require extra logic in the setter + margin: {get: function(){return margin;}, set: function(_){ + margin.top = _.top !== undefined ? _.top : margin.top; + margin.right = _.right !== undefined ? _.right : margin.right; + margin.bottom = _.bottom !== undefined ? _.bottom : margin.bottom; + margin.left = _.left !== undefined ? _.left : margin.left; + }}, + duration: {get: function(){return duration;}, set: function(_){ + duration = _; + renderWatch.reset(duration); + discretebar.duration(duration); + xAxis.duration(duration); + yAxis.duration(duration); + }}, + color: {get: function(){return color;}, set: function(_){ + color = nv.utils.getColor(_); + discretebar.color(color); + }}, + rightAlignYAxis: {get: function(){return rightAlignYAxis;}, set: function(_){ + rightAlignYAxis = _; + yAxis.orient( (_) ? 'right' : 'left'); + }} + }); + + nv.utils.inheritOptions(chart, discretebar); + nv.utils.initOptions(chart); + + return chart; +} + +nv.models.distribution = function() { + "use strict"; + //============================================================ + // Public Variables with Default Settings + //------------------------------------------------------------ + + var margin = {top: 0, right: 0, bottom: 0, left: 0} + , width = 400 //technically width or height depending on x or y.... + , size = 8 + , axis = 'x' // 'x' or 'y'... horizontal or vertical + , getData = function(d) { return d[axis] } // defaults d.x or d.y + , color = nv.utils.defaultColor() + , scale = d3.scale.linear() + , domain + , duration = 250 + , dispatch = d3.dispatch('renderEnd') + ; + + //============================================================ + + + //============================================================ + // Private Variables + //------------------------------------------------------------ + + var scale0; + var renderWatch = nv.utils.renderWatch(dispatch, duration); + + //============================================================ + + + function chart(selection) { + renderWatch.reset(); + selection.each(function(data) { + var availableLength = width - (axis === 'x' ? margin.left + margin.right : margin.top + margin.bottom), + naxis = axis == 'x' ? 'y' : 'x', + container = d3.select(this); + nv.utils.initSVG(container); + + //------------------------------------------------------------ + // Setup Scales + + scale0 = scale0 || scale; + + //------------------------------------------------------------ + + + //------------------------------------------------------------ + // Setup containers and skeleton of chart + + var wrap = container.selectAll('g.nv-distribution').data([data]); + var wrapEnter = wrap.enter().append('g').attr('class', 'nvd3 nv-distribution'); + var gEnter = wrapEnter.append('g'); + var g = wrap.select('g'); + + wrap.attr('transform', 'translate(' + margin.left + ',' + margin.top + ')') + + //------------------------------------------------------------ + + + var distWrap = g.selectAll('g.nv-dist') + .data(function(d) { return d }, function(d) { return d.key }); + + distWrap.enter().append('g'); + distWrap + .attr('class', function(d,i) { return 'nv-dist nv-series-' + i }) + .style('stroke', function(d,i) { return color(d, i) }); + + var dist = distWrap.selectAll('line.nv-dist' + axis) + .data(function(d) { return d.values }) + dist.enter().append('line') + .attr(axis + '1', function(d,i) { return scale0(getData(d,i)) }) + .attr(axis + '2', function(d,i) { return scale0(getData(d,i)) }) + renderWatch.transition(distWrap.exit().selectAll('line.nv-dist' + axis), 'dist exit') + // .transition() + .attr(axis + '1', function(d,i) { return scale(getData(d,i)) }) + .attr(axis + '2', function(d,i) { return scale(getData(d,i)) }) + .style('stroke-opacity', 0) + .remove(); + dist + .attr('class', function(d,i) { return 'nv-dist' + axis + ' nv-dist' + axis + '-' + i }) + .attr(naxis + '1', 0) + .attr(naxis + '2', size); + renderWatch.transition(dist, 'dist') + // .transition() + .attr(axis + '1', function(d,i) { return scale(getData(d,i)) }) + .attr(axis + '2', function(d,i) { return scale(getData(d,i)) }) + + + scale0 = scale.copy(); + + }); + renderWatch.renderEnd('distribution immediate'); + return chart; + } + + + //============================================================ + // Expose Public Variables + //------------------------------------------------------------ + chart.options = nv.utils.optionsFunc.bind(chart); + chart.dispatch = dispatch; + + chart.margin = function(_) { + if (!arguments.length) return margin; + margin.top = typeof _.top != 'undefined' ? _.top : margin.top; + margin.right = typeof _.right != 'undefined' ? _.right : margin.right; + margin.bottom = typeof _.bottom != 'undefined' ? _.bottom : margin.bottom; + margin.left = typeof _.left != 'undefined' ? _.left : margin.left; + return chart; + }; + + chart.width = function(_) { + if (!arguments.length) return width; + width = _; + return chart; + }; + + chart.axis = function(_) { + if (!arguments.length) return axis; + axis = _; + return chart; + }; + + chart.size = function(_) { + if (!arguments.length) return size; + size = _; + return chart; + }; + + chart.getData = function(_) { + if (!arguments.length) return getData; + getData = d3.functor(_); + return chart; + }; + + chart.scale = function(_) { + if (!arguments.length) return scale; + scale = _; + return chart; + }; + + chart.color = function(_) { + if (!arguments.length) return color; + color = nv.utils.getColor(_); + return chart; + }; + + chart.duration = function(_) { + if (!arguments.length) return duration; + duration = _; + renderWatch.reset(duration); + return chart; + }; + //============================================================ + + + return chart; +} +nv.models.furiousLegend = function() { + "use strict"; + + //============================================================ + // Public Variables with Default Settings + //------------------------------------------------------------ + + var margin = {top: 5, right: 0, bottom: 5, left: 0} + , width = 400 + , height = 20 + , getKey = function(d) { return d.key } + , color = nv.utils.getColor() + , align = true + , padding = 28 //define how much space between legend items. - recommend 32 for furious version + , rightAlign = true + , updateState = true //If true, legend will update data.disabled and trigger a 'stateChange' dispatch. + , radioButtonMode = false //If true, clicking legend items will cause it to behave like a radio button. (only one can be selected at a time) + , expanded = false + , dispatch = d3.dispatch('legendClick', 'legendDblclick', 'legendMouseover', 'legendMouseout', 'stateChange') + , vers = 'classic' //Options are "classic" and "furious" + ; + + function chart(selection) { + selection.each(function(data) { + var availableWidth = width - margin.left - margin.right, + container = d3.select(this); + nv.utils.initSVG(container); + + // Setup containers and skeleton of chart + var wrap = container.selectAll('g.nv-legend').data([data]); + var gEnter = wrap.enter().append('g').attr('class', 'nvd3 nv-legend').append('g'); + var g = wrap.select('g'); + + wrap.attr('transform', 'translate(' + margin.left + ',' + margin.top + ')'); + + var series = g.selectAll('.nv-series') + .data(function(d) { + if(vers != 'furious') return d; + + return d.filter(function(n) { + return expanded ? true : !n.disengaged; + }); + }); + var seriesEnter = series.enter().append('g').attr('class', 'nv-series') + + var seriesShape; + + if(vers == 'classic') { + seriesEnter.append('circle') + .style('stroke-width', 2) + .attr('class','nv-legend-symbol') + .attr('r', 5); + + seriesShape = series.select('circle'); + } else if (vers == 'furious') { + seriesEnter.append('rect') + .style('stroke-width', 2) + .attr('class','nv-legend-symbol') + .attr('rx', 3) + .attr('ry', 3); + + seriesShape = series.select('rect'); + + seriesEnter.append('g') + .attr('class', 'nv-check-box') + .property('innerHTML','<path d="M0.5,5 L22.5,5 L22.5,26.5 L0.5,26.5 L0.5,5 Z" class="nv-box"></path><path d="M5.5,12.8618467 L11.9185089,19.2803556 L31,0.198864511" class="nv-check"></path>') + .attr('transform', 'translate(-10,-8)scale(0.5)'); + + var seriesCheckbox = series.select('.nv-check-box'); + + seriesCheckbox.each(function(d,i) { + d3.select(this).selectAll('path') + .attr('stroke', setTextColor(d,i)); + }); + } + + seriesEnter.append('text') + .attr('text-anchor', 'start') + .attr('class','nv-legend-text') + .attr('dy', '.32em') + .attr('dx', '8'); + + var seriesText = series.select('text.nv-legend-text'); + + series + .on('mouseover', function(d,i) { + dispatch.legendMouseover(d,i); //TODO: Make consistent with other event objects + }) + .on('mouseout', function(d,i) { + dispatch.legendMouseout(d,i); + }) + .on('click', function(d,i) { + dispatch.legendClick(d,i); + // make sure we re-get data in case it was modified + var data = series.data(); + if (updateState) { + if(vers =='classic') { + if (radioButtonMode) { + //Radio button mode: set every series to disabled, + // and enable the clicked series. + data.forEach(function(series) { series.disabled = true}); + d.disabled = false; + } + else { + d.disabled = !d.disabled; + if (data.every(function(series) { return series.disabled})) { + //the default behavior of NVD3 legends is, if every single series + // is disabled, turn all series' back on. + data.forEach(function(series) { series.disabled = false}); + } + } + } else if(vers == 'furious') { + if(expanded) { + d.disengaged = !d.disengaged; + d.userDisabled = d.userDisabled == undefined ? !!d.disabled : d.userDisabled; + d.disabled = d.disengaged || d.userDisabled; + } else if (!expanded) { + d.disabled = !d.disabled; + d.userDisabled = d.disabled; + var engaged = data.filter(function(d) { return !d.disengaged; }); + if (engaged.every(function(series) { return series.userDisabled })) { + //the default behavior of NVD3 legends is, if every single series + // is disabled, turn all series' back on. + data.forEach(function(series) { + series.disabled = series.userDisabled = false; + }); + } + } + } + dispatch.stateChange({ + disabled: data.map(function(d) { return !!d.disabled }), + disengaged: data.map(function(d) { return !!d.disengaged }) + }); + + } + }) + .on('dblclick', function(d,i) { + if(vers == 'furious' && expanded) return; + dispatch.legendDblclick(d,i); + if (updateState) { + // make sure we re-get data in case it was modified + var data = series.data(); + //the default behavior of NVD3 legends, when double clicking one, + // is to set all other series' to false, and make the double clicked series enabled. + data.forEach(function(series) { + series.disabled = true; + if(vers == 'furious') series.userDisabled = series.disabled; + }); + d.disabled = false; + if(vers == 'furious') d.userDisabled = d.disabled; + dispatch.stateChange({ + disabled: data.map(function(d) { return !!d.disabled }) + }); + } + }); + + series.classed('nv-disabled', function(d) { return d.userDisabled }); + series.exit().remove(); + + seriesText + .attr('fill', setTextColor) + .text(getKey); + + //TODO: implement fixed-width and max-width options (max-width is especially useful with the align option) + // NEW ALIGNING CODE, TODO: clean up + + var versPadding; + switch(vers) { + case 'furious' : + versPadding = 23; + break; + case 'classic' : + versPadding = 20; + } + + if (align) { + + var seriesWidths = []; + series.each(function(d,i) { + var legendText = d3.select(this).select('text'); + var nodeTextLength; + try { + nodeTextLength = legendText.node().getComputedTextLength(); + // If the legendText is display:none'd (nodeTextLength == 0), simulate an error so we approximate, instead + if(nodeTextLength <= 0) throw Error(); + } + catch(e) { + nodeTextLength = nv.utils.calcApproxTextWidth(legendText); + } + + seriesWidths.push(nodeTextLength + padding); + }); + + var seriesPerRow = 0; + var legendWidth = 0; + var columnWidths = []; + + while ( legendWidth < availableWidth && seriesPerRow < seriesWidths.length) { + columnWidths[seriesPerRow] = seriesWidths[seriesPerRow]; + legendWidth += seriesWidths[seriesPerRow++]; + } + if (seriesPerRow === 0) seriesPerRow = 1; //minimum of one series per row + + while ( legendWidth > availableWidth && seriesPerRow > 1 ) { + columnWidths = []; + seriesPerRow--; + + for (var k = 0; k < seriesWidths.length; k++) { + if (seriesWidths[k] > (columnWidths[k % seriesPerRow] || 0) ) + columnWidths[k % seriesPerRow] = seriesWidths[k]; + } + + legendWidth = columnWidths.reduce(function(prev, cur, index, array) { + return prev + cur; + }); + } + + var xPositions = []; + for (var i = 0, curX = 0; i < seriesPerRow; i++) { + xPositions[i] = curX; + curX += columnWidths[i]; + } + + series + .attr('transform', function(d, i) { + return 'translate(' + xPositions[i % seriesPerRow] + ',' + (5 + Math.floor(i / seriesPerRow) * versPadding) + ')'; + }); + + //position legend as far right as possible within the total width + if (rightAlign) { + g.attr('transform', 'translate(' + (width - margin.right - legendWidth) + ',' + margin.top + ')'); + } + else { + g.attr('transform', 'translate(0' + ',' + margin.top + ')'); + } + + height = margin.top + margin.bottom + (Math.ceil(seriesWidths.length / seriesPerRow) * versPadding); + + } else { + + var ypos = 5, + newxpos = 5, + maxwidth = 0, + xpos; + series + .attr('transform', function(d, i) { + var length = d3.select(this).select('text').node().getComputedTextLength() + padding; + xpos = newxpos; + + if (width < margin.left + margin.right + xpos + length) { + newxpos = xpos = 5; + ypos += versPadding; + } + + newxpos += length; + if (newxpos > maxwidth) maxwidth = newxpos; + + return 'translate(' + xpos + ',' + ypos + ')'; + }); + + //position legend as far right as possible within the total width + g.attr('transform', 'translate(' + (width - margin.right - maxwidth) + ',' + margin.top + ')'); + + height = margin.top + margin.bottom + ypos + 15; + } + + if(vers == 'furious') { + // Size rectangles after text is placed + seriesShape + .attr('width', function(d,i) { + return seriesText[0][i].getComputedTextLength() + 27; + }) + .attr('height', 18) + .attr('y', -9) + .attr('x', -15) + } + + seriesShape + .style('fill', setBGColor) + .style('stroke', function(d,i) { return d.color || color(d, i) }); + }); + + function setTextColor(d,i) { + if(vers != 'furious') return '#000'; + if(expanded) { + return d.disengaged ? color(d,i) : '#fff'; + } else if (!expanded) { + return !!d.disabled ? color(d,i) : '#fff'; + } + } + + function setBGColor(d,i) { + if(expanded && vers == 'furious') { + return d.disengaged ? '#fff' : color(d,i); + } else { + return !!d.disabled ? '#fff' : color(d,i); + } + } + + return chart; + } + + //============================================================ + // Expose Public Variables + //------------------------------------------------------------ + + chart.dispatch = dispatch; + chart.options = nv.utils.optionsFunc.bind(chart); + + chart._options = Object.create({}, { + // simple options, just get/set the necessary values + width: {get: function(){return width;}, set: function(_){width=_;}}, + height: {get: function(){return height;}, set: function(_){height=_;}}, + key: {get: function(){return getKey;}, set: function(_){getKey=_;}}, + align: {get: function(){return align;}, set: function(_){align=_;}}, + rightAlign: {get: function(){return rightAlign;}, set: function(_){rightAlign=_;}}, + padding: {get: function(){return padding;}, set: function(_){padding=_;}}, + updateState: {get: function(){return updateState;}, set: function(_){updateState=_;}}, + radioButtonMode: {get: function(){return radioButtonMode;}, set: function(_){radioButtonMode=_;}}, + expanded: {get: function(){return expanded;}, set: function(_){expanded=_;}}, + vers: {get: function(){return vers;}, set: function(_){vers=_;}}, + + // options that require extra logic in the setter + margin: {get: function(){return margin;}, set: function(_){ + margin.top = _.top !== undefined ? _.top : margin.top; + margin.right = _.right !== undefined ? _.right : margin.right; + margin.bottom = _.bottom !== undefined ? _.bottom : margin.bottom; + margin.left = _.left !== undefined ? _.left : margin.left; + }}, + color: {get: function(){return color;}, set: function(_){ + color = nv.utils.getColor(_); + }} + }); + + nv.utils.initOptions(chart); + + return chart; +}; +//TODO: consider deprecating and using multibar with single series for this +nv.models.historicalBar = function() { + "use strict"; + + //============================================================ + // Public Variables with Default Settings + //------------------------------------------------------------ + + var margin = {top: 0, right: 0, bottom: 0, left: 0} + , width = null + , height = null + , id = Math.floor(Math.random() * 10000) //Create semi-unique ID in case user doesn't select one + , container = null + , x = d3.scale.linear() + , y = d3.scale.linear() + , getX = function(d) { return d.x } + , getY = function(d) { return d.y } + , forceX = [] + , forceY = [0] + , padData = false + , clipEdge = true + , color = nv.utils.defaultColor() + , xDomain + , yDomain + , xRange + , yRange + , dispatch = d3.dispatch('chartClick', 'elementClick', 'elementDblClick', 'elementMouseover', 'elementMouseout', 'elementMousemove', 'renderEnd') + , interactive = true + ; + + var renderWatch = nv.utils.renderWatch(dispatch, 0); + + function chart(selection) { + selection.each(function(data) { + renderWatch.reset(); + + container = d3.select(this); + var availableWidth = nv.utils.availableWidth(width, container, margin), + availableHeight = nv.utils.availableHeight(height, container, margin); + + nv.utils.initSVG(container); + + // Setup Scales + x.domain(xDomain || d3.extent(data[0].values.map(getX).concat(forceX) )); + + if (padData) + x.range(xRange || [availableWidth * .5 / data[0].values.length, availableWidth * (data[0].values.length - .5) / data[0].values.length ]); + else + x.range(xRange || [0, availableWidth]); + + y.domain(yDomain || d3.extent(data[0].values.map(getY).concat(forceY) )) + .range(yRange || [availableHeight, 0]); + + // If scale's domain don't have a range, slightly adjust to make one... so a chart can show a single data point + if (x.domain()[0] === x.domain()[1]) + x.domain()[0] ? + x.domain([x.domain()[0] - x.domain()[0] * 0.01, x.domain()[1] + x.domain()[1] * 0.01]) + : x.domain([-1,1]); + + if (y.domain()[0] === y.domain()[1]) + y.domain()[0] ? + y.domain([y.domain()[0] + y.domain()[0] * 0.01, y.domain()[1] - y.domain()[1] * 0.01]) + : y.domain([-1,1]); + + // Setup containers and skeleton of chart + var wrap = container.selectAll('g.nv-wrap.nv-historicalBar-' + id).data([data[0].values]); + var wrapEnter = wrap.enter().append('g').attr('class', 'nvd3 nv-wrap nv-historicalBar-' + id); + var defsEnter = wrapEnter.append('defs'); + var gEnter = wrapEnter.append('g'); + var g = wrap.select('g'); + + gEnter.append('g').attr('class', 'nv-bars'); + wrap.attr('transform', 'translate(' + margin.left + ',' + margin.top + ')'); + + container + .on('click', function(d,i) { + dispatch.chartClick({ + data: d, + index: i, + pos: d3.event, + id: id + }); + }); + + defsEnter.append('clipPath') + .attr('id', 'nv-chart-clip-path-' + id) + .append('rect'); + + wrap.select('#nv-chart-clip-path-' + id + ' rect') + .attr('width', availableWidth) + .attr('height', availableHeight); + + g.attr('clip-path', clipEdge ? 'url(#nv-chart-clip-path-' + id + ')' : ''); + + var bars = wrap.select('.nv-bars').selectAll('.nv-bar') + .data(function(d) { return d }, function(d,i) {return getX(d,i)}); + bars.exit().remove(); + + bars.enter().append('rect') + .attr('x', 0 ) + .attr('y', function(d,i) { return nv.utils.NaNtoZero(y(Math.max(0, getY(d,i)))) }) + .attr('height', function(d,i) { return nv.utils.NaNtoZero(Math.abs(y(getY(d,i)) - y(0))) }) + .attr('transform', function(d,i) { return 'translate(' + (x(getX(d,i)) - availableWidth / data[0].values.length * .45) + ',0)'; }) + .on('mouseover', function(d,i) { + if (!interactive) return; + d3.select(this).classed('hover', true); + dispatch.elementMouseover({ + data: d, + index: i, + color: d3.select(this).style("fill") + }); + + }) + .on('mouseout', function(d,i) { + if (!interactive) return; + d3.select(this).classed('hover', false); + dispatch.elementMouseout({ + data: d, + index: i, + color: d3.select(this).style("fill") + }); + }) + .on('mousemove', function(d,i) { + if (!interactive) return; + dispatch.elementMousemove({ + data: d, + index: i, + color: d3.select(this).style("fill") + }); + }) + .on('click', function(d,i) { + if (!interactive) return; + dispatch.elementClick({ + data: d, + index: i, + color: d3.select(this).style("fill") + }); + d3.event.stopPropagation(); + }) + .on('dblclick', function(d,i) { + if (!interactive) return; + dispatch.elementDblClick({ + data: d, + index: i, + color: d3.select(this).style("fill") + }); + d3.event.stopPropagation(); + }); + + bars + .attr('fill', function(d,i) { return color(d, i); }) + .attr('class', function(d,i,j) { return (getY(d,i) < 0 ? 'nv-bar negative' : 'nv-bar positive') + ' nv-bar-' + j + '-' + i }) + .watchTransition(renderWatch, 'bars') + .attr('transform', function(d,i) { return 'translate(' + (x(getX(d,i)) - availableWidth / data[0].values.length * .45) + ',0)'; }) + //TODO: better width calculations that don't assume always uniform data spacing;w + .attr('width', (availableWidth / data[0].values.length) * .9 ); + + bars.watchTransition(renderWatch, 'bars') + .attr('y', function(d,i) { + var rval = getY(d,i) < 0 ? + y(0) : + y(0) - y(getY(d,i)) < 1 ? + y(0) - 1 : + y(getY(d,i)); + return nv.utils.NaNtoZero(rval); + }) + .attr('height', function(d,i) { return nv.utils.NaNtoZero(Math.max(Math.abs(y(getY(d,i)) - y(0)),1)) }); + + }); + + renderWatch.renderEnd('historicalBar immediate'); + return chart; + } + + //Create methods to allow outside functions to highlight a specific bar. + chart.highlightPoint = function(pointIndex, isHoverOver) { + container + .select(".nv-bars .nv-bar-0-" + pointIndex) + .classed("hover", isHoverOver) + ; + }; + + chart.clearHighlights = function() { + container + .select(".nv-bars .nv-bar.hover") + .classed("hover", false) + ; + }; + + //============================================================ + // Expose Public Variables + //------------------------------------------------------------ + + chart.dispatch = dispatch; + chart.options = nv.utils.optionsFunc.bind(chart); + + chart._options = Object.create({}, { + // simple options, just get/set the necessary values + width: {get: function(){return width;}, set: function(_){width=_;}}, + height: {get: function(){return height;}, set: function(_){height=_;}}, + forceX: {get: function(){return forceX;}, set: function(_){forceX=_;}}, + forceY: {get: function(){return forceY;}, set: function(_){forceY=_;}}, + padData: {get: function(){return padData;}, set: function(_){padData=_;}}, + x: {get: function(){return getX;}, set: function(_){getX=_;}}, + y: {get: function(){return getY;}, set: function(_){getY=_;}}, + xScale: {get: function(){return x;}, set: function(_){x=_;}}, + yScale: {get: function(){return y;}, set: function(_){y=_;}}, + xDomain: {get: function(){return xDomain;}, set: function(_){xDomain=_;}}, + yDomain: {get: function(){return yDomain;}, set: function(_){yDomain=_;}}, + xRange: {get: function(){return xRange;}, set: function(_){xRange=_;}}, + yRange: {get: function(){return yRange;}, set: function(_){yRange=_;}}, + clipEdge: {get: function(){return clipEdge;}, set: function(_){clipEdge=_;}}, + id: {get: function(){return id;}, set: function(_){id=_;}}, + interactive: {get: function(){return interactive;}, set: function(_){interactive=_;}}, + + // options that require extra logic in the setter + margin: {get: function(){return margin;}, set: function(_){ + margin.top = _.top !== undefined ? _.top : margin.top; + margin.right = _.right !== undefined ? _.right : margin.right; + margin.bottom = _.bottom !== undefined ? _.bottom : margin.bottom; + margin.left = _.left !== undefined ? _.left : margin.left; + }}, + color: {get: function(){return color;}, set: function(_){ + color = nv.utils.getColor(_); + }} + }); + + nv.utils.initOptions(chart); + + return chart; +}; + +nv.models.historicalBarChart = function(bar_model) { + "use strict"; + + //============================================================ + // Public Variables with Default Settings + //------------------------------------------------------------ + + var bars = bar_model || nv.models.historicalBar() + , xAxis = nv.models.axis() + , yAxis = nv.models.axis() + , legend = nv.models.legend() + , interactiveLayer = nv.interactiveGuideline() + , tooltip = nv.models.tooltip() + ; + + + var margin = {top: 30, right: 90, bottom: 50, left: 90} + , color = nv.utils.defaultColor() + , width = null + , height = null + , showLegend = false + , showXAxis = true + , showYAxis = true + , rightAlignYAxis = false + , useInteractiveGuideline = false + , x + , y + , state = {} + , defaultState = null + , noData = null + , dispatch = d3.dispatch('tooltipHide', 'stateChange', 'changeState', 'renderEnd') + , transitionDuration = 250 + ; + + xAxis.orient('bottom').tickPadding(7); + yAxis.orient( (rightAlignYAxis) ? 'right' : 'left'); + tooltip + .duration(0) + .headerEnabled(false) + .valueFormatter(function(d, i) { + return yAxis.tickFormat()(d, i); + }) + .headerFormatter(function(d, i) { + return xAxis.tickFormat()(d, i); + }); + + + //============================================================ + // Private Variables + //------------------------------------------------------------ + + var renderWatch = nv.utils.renderWatch(dispatch, 0); + + function chart(selection) { + selection.each(function(data) { + renderWatch.reset(); + renderWatch.models(bars); + if (showXAxis) renderWatch.models(xAxis); + if (showYAxis) renderWatch.models(yAxis); + + var container = d3.select(this), + that = this; + nv.utils.initSVG(container); + var availableWidth = nv.utils.availableWidth(width, container, margin), + availableHeight = nv.utils.availableHeight(height, container, margin); + + chart.update = function() { container.transition().duration(transitionDuration).call(chart) }; + chart.container = this; + + //set state.disabled + state.disabled = data.map(function(d) { return !!d.disabled }); + + if (!defaultState) { + var key; + defaultState = {}; + for (key in state) { + if (state[key] instanceof Array) + defaultState[key] = state[key].slice(0); + else + defaultState[key] = state[key]; + } + } + + // Display noData message if there's nothing to show. + if (!data || !data.length || !data.filter(function(d) { return d.values.length }).length) { + nv.utils.noData(chart, container) + return chart; + } else { + container.selectAll('.nv-noData').remove(); + } + + // Setup Scales + x = bars.xScale(); + y = bars.yScale(); + + // Setup containers and skeleton of chart + var wrap = container.selectAll('g.nv-wrap.nv-historicalBarChart').data([data]); + var gEnter = wrap.enter().append('g').attr('class', 'nvd3 nv-wrap nv-historicalBarChart').append('g'); + var g = wrap.select('g'); + + gEnter.append('g').attr('class', 'nv-x nv-axis'); + gEnter.append('g').attr('class', 'nv-y nv-axis'); + gEnter.append('g').attr('class', 'nv-barsWrap'); + gEnter.append('g').attr('class', 'nv-legendWrap'); + gEnter.append('g').attr('class', 'nv-interactive'); + + // Legend + if (showLegend) { + legend.width(availableWidth); + + g.select('.nv-legendWrap') + .datum(data) + .call(legend); + + if ( margin.top != legend.height()) { + margin.top = legend.height(); + availableHeight = nv.utils.availableHeight(height, container, margin); + } + + wrap.select('.nv-legendWrap') + .attr('transform', 'translate(0,' + (-margin.top) +')') + } + wrap.attr('transform', 'translate(' + margin.left + ',' + margin.top + ')'); + + if (rightAlignYAxis) { + g.select(".nv-y.nv-axis") + .attr("transform", "translate(" + availableWidth + ",0)"); + } + + //Set up interactive layer + if (useInteractiveGuideline) { + interactiveLayer + .width(availableWidth) + .height(availableHeight) + .margin({left:margin.left, top:margin.top}) + .svgContainer(container) + .xScale(x); + wrap.select(".nv-interactive").call(interactiveLayer); + } + bars + .width(availableWidth) + .height(availableHeight) + .color(data.map(function(d,i) { + return d.color || color(d, i); + }).filter(function(d,i) { return !data[i].disabled })); + + var barsWrap = g.select('.nv-barsWrap') + .datum(data.filter(function(d) { return !d.disabled })); + barsWrap.transition().call(bars); + + // Setup Axes + if (showXAxis) { + xAxis + .scale(x) + ._ticks( nv.utils.calcTicksX(availableWidth/100, data) ) + .tickSize(-availableHeight, 0); + + g.select('.nv-x.nv-axis') + .attr('transform', 'translate(0,' + y.range()[0] + ')'); + g.select('.nv-x.nv-axis') + .transition() + .call(xAxis); + } + + if (showYAxis) { + yAxis + .scale(y) + ._ticks( nv.utils.calcTicksY(availableHeight/36, data) ) + .tickSize( -availableWidth, 0); + + g.select('.nv-y.nv-axis') + .transition() + .call(yAxis); + } + + //============================================================ + // Event Handling/Dispatching (in chart's scope) + //------------------------------------------------------------ + + interactiveLayer.dispatch.on('elementMousemove', function(e) { + bars.clearHighlights(); + + var singlePoint, pointIndex, pointXLocation, allData = []; + data + .filter(function(series, i) { + series.seriesIndex = i; + return !series.disabled; + }) + .forEach(function(series,i) { + pointIndex = nv.interactiveBisect(series.values, e.pointXValue, chart.x()); + bars.highlightPoint(pointIndex,true); + var point = series.values[pointIndex]; + if (point === undefined) return; + if (singlePoint === undefined) singlePoint = point; + if (pointXLocation === undefined) pointXLocation = chart.xScale()(chart.x()(point,pointIndex)); + allData.push({ + key: series.key, + value: chart.y()(point, pointIndex), + color: color(series,series.seriesIndex), + data: series.values[pointIndex] + }); + }); + + var xValue = xAxis.tickFormat()(chart.x()(singlePoint,pointIndex)); + interactiveLayer.tooltip + .position({left: pointXLocation + margin.left, top: e.mouseY + margin.top}) + .chartContainer(that.parentNode) + .valueFormatter(function(d,i) { + return yAxis.tickFormat()(d); + }) + .data({ + value: xValue, + index: pointIndex, + series: allData + })(); + + interactiveLayer.renderGuideLine(pointXLocation); + + }); + + interactiveLayer.dispatch.on("elementMouseout",function(e) { + dispatch.tooltipHide(); + bars.clearHighlights(); + }); + + legend.dispatch.on('legendClick', function(d,i) { + d.disabled = !d.disabled; + + if (!data.filter(function(d) { return !d.disabled }).length) { + data.map(function(d) { + d.disabled = false; + wrap.selectAll('.nv-series').classed('disabled', false); + return d; + }); + } + + state.disabled = data.map(function(d) { return !!d.disabled }); + dispatch.stateChange(state); + + selection.transition().call(chart); + }); + + legend.dispatch.on('legendDblclick', function(d) { + //Double clicking should always enable current series, and disabled all others. + data.forEach(function(d) { + d.disabled = true; + }); + d.disabled = false; + + state.disabled = data.map(function(d) { return !!d.disabled }); + dispatch.stateChange(state); + chart.update(); + }); + + dispatch.on('changeState', function(e) { + if (typeof e.disabled !== 'undefined') { + data.forEach(function(series,i) { + series.disabled = e.disabled[i]; + }); + + state.disabled = e.disabled; + } + + chart.update(); + }); + }); + + renderWatch.renderEnd('historicalBarChart immediate'); + return chart; + } + + //============================================================ + // Event Handling/Dispatching (out of chart's scope) + //------------------------------------------------------------ + + bars.dispatch.on('elementMouseover.tooltip', function(evt) { + evt['series'] = { + key: chart.x()(evt.data), + value: chart.y()(evt.data), + color: evt.color + }; + tooltip.data(evt).hidden(false); + }); + + bars.dispatch.on('elementMouseout.tooltip', function(evt) { + tooltip.hidden(true); + }); + + bars.dispatch.on('elementMousemove.tooltip', function(evt) { + tooltip.position({top: d3.event.pageY, left: d3.event.pageX})(); + }); + + //============================================================ + // Expose Public Variables + //------------------------------------------------------------ + + // expose chart's sub-components + chart.dispatch = dispatch; + chart.bars = bars; + chart.legend = legend; + chart.xAxis = xAxis; + chart.yAxis = yAxis; + chart.interactiveLayer = interactiveLayer; + chart.tooltip = tooltip; + + chart.options = nv.utils.optionsFunc.bind(chart); + + chart._options = Object.create({}, { + // simple options, just get/set the necessary values + width: {get: function(){return width;}, set: function(_){width=_;}}, + height: {get: function(){return height;}, set: function(_){height=_;}}, + showLegend: {get: function(){return showLegend;}, set: function(_){showLegend=_;}}, + showXAxis: {get: function(){return showXAxis;}, set: function(_){showXAxis=_;}}, + showYAxis: {get: function(){return showYAxis;}, set: function(_){showYAxis=_;}}, + defaultState: {get: function(){return defaultState;}, set: function(_){defaultState=_;}}, + noData: {get: function(){return noData;}, set: function(_){noData=_;}}, + + // deprecated options + tooltips: {get: function(){return tooltip.enabled();}, set: function(_){ + // deprecated after 1.7.1 + nv.deprecated('tooltips', 'use chart.tooltip.enabled() instead'); + tooltip.enabled(!!_); + }}, + tooltipContent: {get: function(){return tooltip.contentGenerator();}, set: function(_){ + // deprecated after 1.7.1 + nv.deprecated('tooltipContent', 'use chart.tooltip.contentGenerator() instead'); + tooltip.contentGenerator(_); + }}, + + // options that require extra logic in the setter + margin: {get: function(){return margin;}, set: function(_){ + margin.top = _.top !== undefined ? _.top : margin.top; + margin.right = _.right !== undefined ? _.right : margin.right; + margin.bottom = _.bottom !== undefined ? _.bottom : margin.bottom; + margin.left = _.left !== undefined ? _.left : margin.left; + }}, + color: {get: function(){return color;}, set: function(_){ + color = nv.utils.getColor(_); + legend.color(color); + bars.color(color); + }}, + duration: {get: function(){return transitionDuration;}, set: function(_){ + transitionDuration=_; + renderWatch.reset(transitionDuration); + yAxis.duration(transitionDuration); + xAxis.duration(transitionDuration); + }}, + rightAlignYAxis: {get: function(){return rightAlignYAxis;}, set: function(_){ + rightAlignYAxis = _; + yAxis.orient( (_) ? 'right' : 'left'); + }}, + useInteractiveGuideline: {get: function(){return useInteractiveGuideline;}, set: function(_){ + useInteractiveGuideline = _; + if (_ === true) { + chart.interactive(false); + } + }} + }); + + nv.utils.inheritOptions(chart, bars); + nv.utils.initOptions(chart); + + return chart; +}; + + +// ohlcChart is just a historical chart with ohlc bars and some tweaks +nv.models.ohlcBarChart = function() { + var chart = nv.models.historicalBarChart(nv.models.ohlcBar()); + + // special default tooltip since we show multiple values per x + chart.useInteractiveGuideline(true); + chart.interactiveLayer.tooltip.contentGenerator(function(data) { + // we assume only one series exists for this chart + var d = data.series[0].data; + // match line colors as defined in nv.d3.css + var color = d.open < d.close ? "2ca02c" : "d62728"; + return '' + + '<h3 style="color: #' + color + '">' + data.value + '</h3>' + + '<table>' + + '<tr><td>open:</td><td>' + chart.yAxis.tickFormat()(d.open) + '</td></tr>' + + '<tr><td>close:</td><td>' + chart.yAxis.tickFormat()(d.close) + '</td></tr>' + + '<tr><td>high</td><td>' + chart.yAxis.tickFormat()(d.high) + '</td></tr>' + + '<tr><td>low:</td><td>' + chart.yAxis.tickFormat()(d.low) + '</td></tr>' + + '</table>'; + }); + return chart; +}; + +// candlestickChart is just a historical chart with candlestick bars and some tweaks +nv.models.candlestickBarChart = function() { + var chart = nv.models.historicalBarChart(nv.models.candlestickBar()); + + // special default tooltip since we show multiple values per x + chart.useInteractiveGuideline(true); + chart.interactiveLayer.tooltip.contentGenerator(function(data) { + // we assume only one series exists for this chart + var d = data.series[0].data; + // match line colors as defined in nv.d3.css + var color = d.open < d.close ? "2ca02c" : "d62728"; + return '' + + '<h3 style="color: #' + color + '">' + data.value + '</h3>' + + '<table>' + + '<tr><td>open:</td><td>' + chart.yAxis.tickFormat()(d.open) + '</td></tr>' + + '<tr><td>close:</td><td>' + chart.yAxis.tickFormat()(d.close) + '</td></tr>' + + '<tr><td>high</td><td>' + chart.yAxis.tickFormat()(d.high) + '</td></tr>' + + '<tr><td>low:</td><td>' + chart.yAxis.tickFormat()(d.low) + '</td></tr>' + + '</table>'; + }); + return chart; +}; +nv.models.legend = function() { + "use strict"; + + //============================================================ + // Public Variables with Default Settings + //------------------------------------------------------------ + + var margin = {top: 5, right: 0, bottom: 5, left: 0} + , width = 400 + , height = 20 + , getKey = function(d) { return d.key } + , color = nv.utils.getColor() + , align = true + , padding = 32 //define how much space between legend items. - recommend 32 for furious version + , rightAlign = true + , updateState = true //If true, legend will update data.disabled and trigger a 'stateChange' dispatch. + , radioButtonMode = false //If true, clicking legend items will cause it to behave like a radio button. (only one can be selected at a time) + , expanded = false + , dispatch = d3.dispatch('legendClick', 'legendDblclick', 'legendMouseover', 'legendMouseout', 'stateChange') + , vers = 'classic' //Options are "classic" and "furious" + ; + + function chart(selection) { + selection.each(function(data) { + var availableWidth = width - margin.left - margin.right, + container = d3.select(this); + nv.utils.initSVG(container); + + // Setup containers and skeleton of chart + var wrap = container.selectAll('g.nv-legend').data([data]); + var gEnter = wrap.enter().append('g').attr('class', 'nvd3 nv-legend').append('g'); + var g = wrap.select('g'); + + wrap.attr('transform', 'translate(' + margin.left + ',' + margin.top + ')'); + + var series = g.selectAll('.nv-series') + .data(function(d) { + if(vers != 'furious') return d; + + return d.filter(function(n) { + return expanded ? true : !n.disengaged; + }); + }); + + var seriesEnter = series.enter().append('g').attr('class', 'nv-series'); + var seriesShape; + + var versPadding; + switch(vers) { + case 'furious' : + versPadding = 23; + break; + case 'classic' : + versPadding = 20; + } + + if(vers == 'classic') { + seriesEnter.append('circle') + .style('stroke-width', 2) + .attr('class','nv-legend-symbol') + .attr('r', 5); + + seriesShape = series.select('circle'); + } else if (vers == 'furious') { + seriesEnter.append('rect') + .style('stroke-width', 2) + .attr('class','nv-legend-symbol') + .attr('rx', 3) + .attr('ry', 3); + + seriesShape = series.select('.nv-legend-symbol'); + + seriesEnter.append('g') + .attr('class', 'nv-check-box') + .property('innerHTML','<path d="M0.5,5 L22.5,5 L22.5,26.5 L0.5,26.5 L0.5,5 Z" class="nv-box"></path><path d="M5.5,12.8618467 L11.9185089,19.2803556 L31,0.198864511" class="nv-check"></path>') + .attr('transform', 'translate(-10,-8)scale(0.5)'); + + var seriesCheckbox = series.select('.nv-check-box'); + + seriesCheckbox.each(function(d,i) { + d3.select(this).selectAll('path') + .attr('stroke', setTextColor(d,i)); + }); + } + + seriesEnter.append('text') + .attr('text-anchor', 'start') + .attr('class','nv-legend-text') + .attr('dy', '.32em') + .attr('dx', '8'); + + var seriesText = series.select('text.nv-legend-text'); + + series + .on('mouseover', function(d,i) { + dispatch.legendMouseover(d,i); //TODO: Make consistent with other event objects + }) + .on('mouseout', function(d,i) { + dispatch.legendMouseout(d,i); + }) + .on('click', function(d,i) { + dispatch.legendClick(d,i); + // make sure we re-get data in case it was modified + var data = series.data(); + if (updateState) { + if(vers =='classic') { + if (radioButtonMode) { + //Radio button mode: set every series to disabled, + // and enable the clicked series. + data.forEach(function(series) { series.disabled = true}); + d.disabled = false; + } + else { + d.disabled = !d.disabled; + if (data.every(function(series) { return series.disabled})) { + //the default behavior of NVD3 legends is, if every single series + // is disabled, turn all series' back on. + data.forEach(function(series) { series.disabled = false}); + } + } + } else if(vers == 'furious') { + if(expanded) { + d.disengaged = !d.disengaged; + d.userDisabled = d.userDisabled == undefined ? !!d.disabled : d.userDisabled; + d.disabled = d.disengaged || d.userDisabled; + } else if (!expanded) { + d.disabled = !d.disabled; + d.userDisabled = d.disabled; + var engaged = data.filter(function(d) { return !d.disengaged; }); + if (engaged.every(function(series) { return series.userDisabled })) { + //the default behavior of NVD3 legends is, if every single series + // is disabled, turn all series' back on. + data.forEach(function(series) { + series.disabled = series.userDisabled = false; + }); + } + } + } + dispatch.stateChange({ + disabled: data.map(function(d) { return !!d.disabled }), + disengaged: data.map(function(d) { return !!d.disengaged }) + }); + + } + }) + .on('dblclick', function(d,i) { + if(vers == 'furious' && expanded) return; + dispatch.legendDblclick(d,i); + if (updateState) { + // make sure we re-get data in case it was modified + var data = series.data(); + //the default behavior of NVD3 legends, when double clicking one, + // is to set all other series' to false, and make the double clicked series enabled. + data.forEach(function(series) { + series.disabled = true; + if(vers == 'furious') series.userDisabled = series.disabled; + }); + d.disabled = false; + if(vers == 'furious') d.userDisabled = d.disabled; + dispatch.stateChange({ + disabled: data.map(function(d) { return !!d.disabled }) + }); + } + }); + + series.classed('nv-disabled', function(d) { return d.userDisabled }); + series.exit().remove(); + + seriesText + .attr('fill', setTextColor) + .text(getKey); + + //TODO: implement fixed-width and max-width options (max-width is especially useful with the align option) + // NEW ALIGNING CODE, TODO: clean up + var legendWidth = 0; + if (align) { + + var seriesWidths = []; + series.each(function(d,i) { + var legendText = d3.select(this).select('text'); + var nodeTextLength; + try { + nodeTextLength = legendText.node().getComputedTextLength(); + // If the legendText is display:none'd (nodeTextLength == 0), simulate an error so we approximate, instead + if(nodeTextLength <= 0) throw Error(); + } + catch(e) { + nodeTextLength = nv.utils.calcApproxTextWidth(legendText); + } + + seriesWidths.push(nodeTextLength + padding); + }); + + var seriesPerRow = 0; + var columnWidths = []; + legendWidth = 0; + + while ( legendWidth < availableWidth && seriesPerRow < seriesWidths.length) { + columnWidths[seriesPerRow] = seriesWidths[seriesPerRow]; + legendWidth += seriesWidths[seriesPerRow++]; + } + if (seriesPerRow === 0) seriesPerRow = 1; //minimum of one series per row + + while ( legendWidth > availableWidth && seriesPerRow > 1 ) { + columnWidths = []; + seriesPerRow--; + + for (var k = 0; k < seriesWidths.length; k++) { + if (seriesWidths[k] > (columnWidths[k % seriesPerRow] || 0) ) + columnWidths[k % seriesPerRow] = seriesWidths[k]; + } + + legendWidth = columnWidths.reduce(function(prev, cur, index, array) { + return prev + cur; + }); + } + + var xPositions = []; + for (var i = 0, curX = 0; i < seriesPerRow; i++) { + xPositions[i] = curX; + curX += columnWidths[i]; + } + + series + .attr('transform', function(d, i) { + return 'translate(' + xPositions[i % seriesPerRow] + ',' + (5 + Math.floor(i / seriesPerRow) * versPadding) + ')'; + }); + + //position legend as far right as possible within the total width + if (rightAlign) { + g.attr('transform', 'translate(' + (width - margin.right - legendWidth) + ',' + margin.top + ')'); + } + else { + g.attr('transform', 'translate(0' + ',' + margin.top + ')'); + } + + height = margin.top + margin.bottom + (Math.ceil(seriesWidths.length / seriesPerRow) * versPadding); + + } else { + + var ypos = 5, + newxpos = 5, + maxwidth = 0, + xpos; + series + .attr('transform', function(d, i) { + var length = d3.select(this).select('text').node().getComputedTextLength() + padding; + xpos = newxpos; + + if (width < margin.left + margin.right + xpos + length) { + newxpos = xpos = 5; + ypos += versPadding; + } + + newxpos += length; + if (newxpos > maxwidth) maxwidth = newxpos; + + if(legendWidth < xpos + maxwidth) { + legendWidth = xpos + maxwidth; + } + return 'translate(' + xpos + ',' + ypos + ')'; + }); + + //position legend as far right as possible within the total width + g.attr('transform', 'translate(' + (width - margin.right - maxwidth) + ',' + margin.top + ')'); + + height = margin.top + margin.bottom + ypos + 15; + } + + if(vers == 'furious') { + // Size rectangles after text is placed + seriesShape + .attr('width', function(d,i) { + return seriesText[0][i].getComputedTextLength() + 27; + }) + .attr('height', 18) + .attr('y', -9) + .attr('x', -15); + + // The background for the expanded legend (UI) + gEnter.insert('rect',':first-child') + .attr('class', 'nv-legend-bg') + .attr('fill', '#eee') + // .attr('stroke', '#444') + .attr('opacity',0); + + var seriesBG = g.select('.nv-legend-bg'); + + seriesBG + .transition().duration(300) + .attr('x', -versPadding ) + .attr('width', legendWidth + versPadding - 12) + .attr('height', height + 10) + .attr('y', -margin.top - 10) + .attr('opacity', expanded ? 1 : 0); + + + } + + seriesShape + .style('fill', setBGColor) + .style('fill-opacity', setBGOpacity) + .style('stroke', setBGColor); + }); + + function setTextColor(d,i) { + if(vers != 'furious') return '#000'; + if(expanded) { + return d.disengaged ? '#000' : '#fff'; + } else if (!expanded) { + if(!d.color) d.color = color(d,i); + return !!d.disabled ? d.color : '#fff'; + } + } + + function setBGColor(d,i) { + if(expanded && vers == 'furious') { + return d.disengaged ? '#eee' : d.color || color(d,i); + } else { + return d.color || color(d,i); + } + } + + + function setBGOpacity(d,i) { + if(expanded && vers == 'furious') { + return 1; + } else { + return !!d.disabled ? 0 : 1; + } + } + + return chart; + } + + //============================================================ + // Expose Public Variables + //------------------------------------------------------------ + + chart.dispatch = dispatch; + chart.options = nv.utils.optionsFunc.bind(chart); + + chart._options = Object.create({}, { + // simple options, just get/set the necessary values + width: {get: function(){return width;}, set: function(_){width=_;}}, + height: {get: function(){return height;}, set: function(_){height=_;}}, + key: {get: function(){return getKey;}, set: function(_){getKey=_;}}, + align: {get: function(){return align;}, set: function(_){align=_;}}, + rightAlign: {get: function(){return rightAlign;}, set: function(_){rightAlign=_;}}, + padding: {get: function(){return padding;}, set: function(_){padding=_;}}, + updateState: {get: function(){return updateState;}, set: function(_){updateState=_;}}, + radioButtonMode: {get: function(){return radioButtonMode;}, set: function(_){radioButtonMode=_;}}, + expanded: {get: function(){return expanded;}, set: function(_){expanded=_;}}, + vers: {get: function(){return vers;}, set: function(_){vers=_;}}, + + // options that require extra logic in the setter + margin: {get: function(){return margin;}, set: function(_){ + margin.top = _.top !== undefined ? _.top : margin.top; + margin.right = _.right !== undefined ? _.right : margin.right; + margin.bottom = _.bottom !== undefined ? _.bottom : margin.bottom; + margin.left = _.left !== undefined ? _.left : margin.left; + }}, + color: {get: function(){return color;}, set: function(_){ + color = nv.utils.getColor(_); + }} + }); + + nv.utils.initOptions(chart); + + return chart; +}; + +nv.models.line = function() { + "use strict"; + //============================================================ + // Public Variables with Default Settings + //------------------------------------------------------------ + + var scatter = nv.models.scatter() + ; + + var margin = {top: 0, right: 0, bottom: 0, left: 0} + , width = 960 + , height = 500 + , container = null + , strokeWidth = 1.5 + , color = nv.utils.defaultColor() // a function that returns a color + , getX = function(d) { return d.x } // accessor to get the x value from a data point + , getY = function(d) { return d.y } // accessor to get the y value from a data point + , defined = function(d,i) { return !isNaN(getY(d,i)) && getY(d,i) !== null } // allows a line to be not continuous when it is not defined + , isArea = function(d) { return d.area } // decides if a line is an area or just a line + , clipEdge = false // if true, masks lines within x and y scale + , x //can be accessed via chart.xScale() + , y //can be accessed via chart.yScale() + , interpolate = "linear" // controls the line interpolation + , duration = 250 + , dispatch = d3.dispatch('elementClick', 'elementMouseover', 'elementMouseout', 'renderEnd') + ; + + scatter + .pointSize(16) // default size + .pointDomain([16,256]) //set to speed up calculation, needs to be unset if there is a custom size accessor + ; + + //============================================================ + + + //============================================================ + // Private Variables + //------------------------------------------------------------ + + var x0, y0 //used to store previous scales + , renderWatch = nv.utils.renderWatch(dispatch, duration) + ; + + //============================================================ + + + function chart(selection) { + renderWatch.reset(); + renderWatch.models(scatter); + selection.each(function(data) { + container = d3.select(this); + var availableWidth = nv.utils.availableWidth(width, container, margin), + availableHeight = nv.utils.availableHeight(height, container, margin); + nv.utils.initSVG(container); + + // Setup Scales + x = scatter.xScale(); + y = scatter.yScale(); + + x0 = x0 || x; + y0 = y0 || y; + + // Setup containers and skeleton of chart + var wrap = container.selectAll('g.nv-wrap.nv-line').data([data]); + var wrapEnter = wrap.enter().append('g').attr('class', 'nvd3 nv-wrap nv-line'); + var defsEnter = wrapEnter.append('defs'); + var gEnter = wrapEnter.append('g'); + var g = wrap.select('g'); + + gEnter.append('g').attr('class', 'nv-groups'); + gEnter.append('g').attr('class', 'nv-scatterWrap'); + + wrap.attr('transform', 'translate(' + margin.left + ',' + margin.top + ')'); + + scatter + .width(availableWidth) + .height(availableHeight); + + var scatterWrap = wrap.select('.nv-scatterWrap'); + scatterWrap.call(scatter); + + defsEnter.append('clipPath') + .attr('id', 'nv-edge-clip-' + scatter.id()) + .append('rect'); + + wrap.select('#nv-edge-clip-' + scatter.id() + ' rect') + .attr('width', availableWidth) + .attr('height', (availableHeight > 0) ? availableHeight : 0); + + g .attr('clip-path', clipEdge ? 'url(#nv-edge-clip-' + scatter.id() + ')' : ''); + scatterWrap + .attr('clip-path', clipEdge ? 'url(#nv-edge-clip-' + scatter.id() + ')' : ''); + + var groups = wrap.select('.nv-groups').selectAll('.nv-group') + .data(function(d) { return d }, function(d) { return d.key }); + groups.enter().append('g') + .style('stroke-opacity', 1e-6) + .style('stroke-width', function(d) { return d.strokeWidth || strokeWidth }) + .style('fill-opacity', 1e-6); + + groups.exit().remove(); + + groups + .attr('class', function(d,i) { + return (d.classed || '') + ' nv-group nv-series-' + i; + }) + .classed('hover', function(d) { return d.hover }) + .style('fill', function(d,i){ return color(d, i) }) + .style('stroke', function(d,i){ return color(d, i)}); + groups.watchTransition(renderWatch, 'line: groups') + .style('stroke-opacity', 1) + .style('fill-opacity', function(d) { return d.fillOpacity || .5}); + + var areaPaths = groups.selectAll('path.nv-area') + .data(function(d) { return isArea(d) ? [d] : [] }); // this is done differently than lines because I need to check if series is an area + areaPaths.enter().append('path') + .attr('class', 'nv-area') + .attr('d', function(d) { + return d3.svg.area() + .interpolate(interpolate) + .defined(defined) + .x(function(d,i) { return nv.utils.NaNtoZero(x0(getX(d,i))) }) + .y0(function(d,i) { return nv.utils.NaNtoZero(y0(getY(d,i))) }) + .y1(function(d,i) { return y0( y.domain()[0] <= 0 ? y.domain()[1] >= 0 ? 0 : y.domain()[1] : y.domain()[0] ) }) + //.y1(function(d,i) { return y0(0) }) //assuming 0 is within y domain.. may need to tweak this + .apply(this, [d.values]) + }); + groups.exit().selectAll('path.nv-area') + .remove(); + + areaPaths.watchTransition(renderWatch, 'line: areaPaths') + .attr('d', function(d) { + return d3.svg.area() + .interpolate(interpolate) + .defined(defined) + .x(function(d,i) { return nv.utils.NaNtoZero(x(getX(d,i))) }) + .y0(function(d,i) { return nv.utils.NaNtoZero(y(getY(d,i))) }) + .y1(function(d,i) { return y( y.domain()[0] <= 0 ? y.domain()[1] >= 0 ? 0 : y.domain()[1] : y.domain()[0] ) }) + //.y1(function(d,i) { return y0(0) }) //assuming 0 is within y domain.. may need to tweak this + .apply(this, [d.values]) + }); + + var linePaths = groups.selectAll('path.nv-line') + .data(function(d) { return [d.values] }); + + linePaths.enter().append('path') + .attr('class', 'nv-line') + .attr('d', + d3.svg.line() + .interpolate(interpolate) + .defined(defined) + .x(function(d,i) { return nv.utils.NaNtoZero(x0(getX(d,i))) }) + .y(function(d,i) { return nv.utils.NaNtoZero(y0(getY(d,i))) }) + ); + + linePaths.watchTransition(renderWatch, 'line: linePaths') + .attr('d', + d3.svg.line() + .interpolate(interpolate) + .defined(defined) + .x(function(d,i) { return nv.utils.NaNtoZero(x(getX(d,i))) }) + .y(function(d,i) { return nv.utils.NaNtoZero(y(getY(d,i))) }) + ); + + //store old scales for use in transitions on update + x0 = x.copy(); + y0 = y.copy(); + }); + renderWatch.renderEnd('line immediate'); + return chart; + } + + + //============================================================ + // Expose Public Variables + //------------------------------------------------------------ + + chart.dispatch = dispatch; + chart.scatter = scatter; + // Pass through events + scatter.dispatch.on('elementClick', function(){ dispatch.elementClick.apply(this, arguments); }); + scatter.dispatch.on('elementMouseover', function(){ dispatch.elementMouseover.apply(this, arguments); }); + scatter.dispatch.on('elementMouseout', function(){ dispatch.elementMouseout.apply(this, arguments); }); + + chart.options = nv.utils.optionsFunc.bind(chart); + + chart._options = Object.create({}, { + // simple options, just get/set the necessary values + width: {get: function(){return width;}, set: function(_){width=_;}}, + height: {get: function(){return height;}, set: function(_){height=_;}}, + defined: {get: function(){return defined;}, set: function(_){defined=_;}}, + interpolate: {get: function(){return interpolate;}, set: function(_){interpolate=_;}}, + clipEdge: {get: function(){return clipEdge;}, set: function(_){clipEdge=_;}}, + + // options that require extra logic in the setter + margin: {get: function(){return margin;}, set: function(_){ + margin.top = _.top !== undefined ? _.top : margin.top; + margin.right = _.right !== undefined ? _.right : margin.right; + margin.bottom = _.bottom !== undefined ? _.bottom : margin.bottom; + margin.left = _.left !== undefined ? _.left : margin.left; + }}, + duration: {get: function(){return duration;}, set: function(_){ + duration = _; + renderWatch.reset(duration); + scatter.duration(duration); + }}, + isArea: {get: function(){return isArea;}, set: function(_){ + isArea = d3.functor(_); + }}, + x: {get: function(){return getX;}, set: function(_){ + getX = _; + scatter.x(_); + }}, + y: {get: function(){return getY;}, set: function(_){ + getY = _; + scatter.y(_); + }}, + color: {get: function(){return color;}, set: function(_){ + color = nv.utils.getColor(_); + scatter.color(color); + }} + }); + + nv.utils.inheritOptions(chart, scatter); + nv.utils.initOptions(chart); + + return chart; +}; +nv.models.lineChart = function() { + "use strict"; + + //============================================================ + // Public Variables with Default Settings + //------------------------------------------------------------ + + var lines = nv.models.line() + , xAxis = nv.models.axis() + , yAxis = nv.models.axis() + , legend = nv.models.legend() + , interactiveLayer = nv.interactiveGuideline() + , tooltip = nv.models.tooltip() + ; + + var margin = {top: 30, right: 20, bottom: 50, left: 60} + , color = nv.utils.defaultColor() + , width = null + , height = null + , showLegend = true + , showXAxis = true + , showYAxis = true + , rightAlignYAxis = false + , useInteractiveGuideline = false + , x + , y + , state = nv.utils.state() + , defaultState = null + , noData = null + , dispatch = d3.dispatch('tooltipShow', 'tooltipHide', 'stateChange', 'changeState', 'renderEnd') + , duration = 250 + ; + + // set options on sub-objects for this chart + xAxis.orient('bottom').tickPadding(7); + yAxis.orient(rightAlignYAxis ? 'right' : 'left'); + tooltip.valueFormatter(function(d, i) { + return yAxis.tickFormat()(d, i); + }).headerFormatter(function(d, i) { + return xAxis.tickFormat()(d, i); + }); + + + //============================================================ + // Private Variables + //------------------------------------------------------------ + + var renderWatch = nv.utils.renderWatch(dispatch, duration); + + var stateGetter = function(data) { + return function(){ + return { + active: data.map(function(d) { return !d.disabled }) + }; + } + }; + + var stateSetter = function(data) { + return function(state) { + if (state.active !== undefined) + data.forEach(function(series,i) { + series.disabled = !state.active[i]; + }); + } + }; + + function chart(selection) { + renderWatch.reset(); + renderWatch.models(lines); + if (showXAxis) renderWatch.models(xAxis); + if (showYAxis) renderWatch.models(yAxis); + + selection.each(function(data) { + var container = d3.select(this), + that = this; + nv.utils.initSVG(container); + var availableWidth = nv.utils.availableWidth(width, container, margin), + availableHeight = nv.utils.availableHeight(height, container, margin); + + chart.update = function() { + if (duration === 0) + container.call(chart); + else + container.transition().duration(duration).call(chart) + }; + chart.container = this; + + state + .setter(stateSetter(data), chart.update) + .getter(stateGetter(data)) + .update(); + + // DEPRECATED set state.disableddisabled + state.disabled = data.map(function(d) { return !!d.disabled }); + + if (!defaultState) { + var key; + defaultState = {}; + for (key in state) { + if (state[key] instanceof Array) + defaultState[key] = state[key].slice(0); + else + defaultState[key] = state[key]; + } + } + + // Display noData message if there's nothing to show. + if (!data || !data.length || !data.filter(function(d) { return d.values.length }).length) { + nv.utils.noData(chart, container) + return chart; + } else { + container.selectAll('.nv-noData').remove(); + } + + + // Setup Scales + x = lines.xScale(); + y = lines.yScale(); + + // Setup containers and skeleton of chart + var wrap = container.selectAll('g.nv-wrap.nv-lineChart').data([data]); + var gEnter = wrap.enter().append('g').attr('class', 'nvd3 nv-wrap nv-lineChart').append('g'); + var g = wrap.select('g'); + + gEnter.append("rect").style("opacity",0); + gEnter.append('g').attr('class', 'nv-x nv-axis'); + gEnter.append('g').attr('class', 'nv-y nv-axis'); + gEnter.append('g').attr('class', 'nv-linesWrap'); + gEnter.append('g').attr('class', 'nv-legendWrap'); + gEnter.append('g').attr('class', 'nv-interactive'); + + g.select("rect") + .attr("width",availableWidth) + .attr("height",(availableHeight > 0) ? availableHeight : 0); + + // Legend + if (showLegend) { + legend.width(availableWidth); + + g.select('.nv-legendWrap') + .datum(data) + .call(legend); + + if ( margin.top != legend.height()) { + margin.top = legend.height(); + availableHeight = nv.utils.availableHeight(height, container, margin); + } + + wrap.select('.nv-legendWrap') + .attr('transform', 'translate(0,' + (-margin.top) +')') + } + + wrap.attr('transform', 'translate(' + margin.left + ',' + margin.top + ')'); + + if (rightAlignYAxis) { + g.select(".nv-y.nv-axis") + .attr("transform", "translate(" + availableWidth + ",0)"); + } + + //Set up interactive layer + if (useInteractiveGuideline) { + interactiveLayer + .width(availableWidth) + .height(availableHeight) + .margin({left:margin.left, top:margin.top}) + .svgContainer(container) + .xScale(x); + wrap.select(".nv-interactive").call(interactiveLayer); + } + + lines + .width(availableWidth) + .height(availableHeight) + .color(data.map(function(d,i) { + return d.color || color(d, i); + }).filter(function(d,i) { return !data[i].disabled })); + + + var linesWrap = g.select('.nv-linesWrap') + .datum(data.filter(function(d) { return !d.disabled })); + + linesWrap.call(lines); + + // Setup Axes + if (showXAxis) { + xAxis + .scale(x) + ._ticks(nv.utils.calcTicksX(availableWidth/100, data) ) + .tickSize(-availableHeight, 0); + + g.select('.nv-x.nv-axis') + .attr('transform', 'translate(0,' + y.range()[0] + ')'); + g.select('.nv-x.nv-axis') + .call(xAxis); + } + + if (showYAxis) { + yAxis + .scale(y) + ._ticks(nv.utils.calcTicksY(availableHeight/36, data) ) + .tickSize( -availableWidth, 0); + + g.select('.nv-y.nv-axis') + .call(yAxis); + } + + //============================================================ + // Event Handling/Dispatching (in chart's scope) + //------------------------------------------------------------ + + legend.dispatch.on('stateChange', function(newState) { + for (var key in newState) + state[key] = newState[key]; + dispatch.stateChange(state); + chart.update(); + }); + + interactiveLayer.dispatch.on('elementMousemove', function(e) { + lines.clearHighlights(); + var singlePoint, pointIndex, pointXLocation, allData = []; + data + .filter(function(series, i) { + series.seriesIndex = i; + return !series.disabled; + }) + .forEach(function(series,i) { + pointIndex = nv.interactiveBisect(series.values, e.pointXValue, chart.x()); + var point = series.values[pointIndex]; + var pointYValue = chart.y()(point, pointIndex); + if (pointYValue != null) { + lines.highlightPoint(i, pointIndex, true); + } + if (point === undefined) return; + if (singlePoint === undefined) singlePoint = point; + if (pointXLocation === undefined) pointXLocation = chart.xScale()(chart.x()(point,pointIndex)); + allData.push({ + key: series.key, + value: pointYValue, + color: color(series,series.seriesIndex) + }); + }); + //Highlight the tooltip entry based on which point the mouse is closest to. + if (allData.length > 2) { + var yValue = chart.yScale().invert(e.mouseY); + var domainExtent = Math.abs(chart.yScale().domain()[0] - chart.yScale().domain()[1]); + var threshold = 0.03 * domainExtent; + var indexToHighlight = nv.nearestValueIndex(allData.map(function(d){return d.value}),yValue,threshold); + if (indexToHighlight !== null) + allData[indexToHighlight].highlight = true; + } + + var xValue = xAxis.tickFormat()(chart.x()(singlePoint,pointIndex)); + interactiveLayer.tooltip + .position({left: e.mouseX + margin.left, top: e.mouseY + margin.top}) + .chartContainer(that.parentNode) + .valueFormatter(function(d,i) { + return d == null ? "N/A" : yAxis.tickFormat()(d); + }) + .data({ + value: xValue, + index: pointIndex, + series: allData + })(); + + interactiveLayer.renderGuideLine(pointXLocation); + + }); + + interactiveLayer.dispatch.on('elementClick', function(e) { + var pointXLocation, allData = []; + + data.filter(function(series, i) { + series.seriesIndex = i; + return !series.disabled; + }).forEach(function(series) { + var pointIndex = nv.interactiveBisect(series.values, e.pointXValue, chart.x()); + var point = series.values[pointIndex]; + if (typeof point === 'undefined') return; + if (typeof pointXLocation === 'undefined') pointXLocation = chart.xScale()(chart.x()(point,pointIndex)); + var yPos = chart.yScale()(chart.y()(point,pointIndex)); + allData.push({ + point: point, + pointIndex: pointIndex, + pos: [pointXLocation, yPos], + seriesIndex: series.seriesIndex, + series: series + }); + }); + + lines.dispatch.elementClick(allData); + }); + + interactiveLayer.dispatch.on("elementMouseout",function(e) { + lines.clearHighlights(); + }); + + dispatch.on('changeState', function(e) { + if (typeof e.disabled !== 'undefined' && data.length === e.disabled.length) { + data.forEach(function(series,i) { + series.disabled = e.disabled[i]; + }); + + state.disabled = e.disabled; + } + + chart.update(); + }); + + }); + + renderWatch.renderEnd('lineChart immediate'); + return chart; + } + + //============================================================ + // Event Handling/Dispatching (out of chart's scope) + //------------------------------------------------------------ + + lines.dispatch.on('elementMouseover.tooltip', function(evt) { + tooltip.data(evt).position(evt.pos).hidden(false); + }); + + lines.dispatch.on('elementMouseout.tooltip', function(evt) { + tooltip.hidden(true) + }); + + //============================================================ + // Expose Public Variables + //------------------------------------------------------------ + + // expose chart's sub-components + chart.dispatch = dispatch; + chart.lines = lines; + chart.legend = legend; + chart.xAxis = xAxis; + chart.yAxis = yAxis; + chart.interactiveLayer = interactiveLayer; + chart.tooltip = tooltip; + + chart.dispatch = dispatch; + chart.options = nv.utils.optionsFunc.bind(chart); + + chart._options = Object.create({}, { + // simple options, just get/set the necessary values + width: {get: function(){return width;}, set: function(_){width=_;}}, + height: {get: function(){return height;}, set: function(_){height=_;}}, + showLegend: {get: function(){return showLegend;}, set: function(_){showLegend=_;}}, + showXAxis: {get: function(){return showXAxis;}, set: function(_){showXAxis=_;}}, + showYAxis: {get: function(){return showYAxis;}, set: function(_){showYAxis=_;}}, + defaultState: {get: function(){return defaultState;}, set: function(_){defaultState=_;}}, + noData: {get: function(){return noData;}, set: function(_){noData=_;}}, + + // deprecated options + tooltips: {get: function(){return tooltip.enabled();}, set: function(_){ + // deprecated after 1.7.1 + nv.deprecated('tooltips', 'use chart.tooltip.enabled() instead'); + tooltip.enabled(!!_); + }}, + tooltipContent: {get: function(){return tooltip.contentGenerator();}, set: function(_){ + // deprecated after 1.7.1 + nv.deprecated('tooltipContent', 'use chart.tooltip.contentGenerator() instead'); + tooltip.contentGenerator(_); + }}, + + // options that require extra logic in the setter + margin: {get: function(){return margin;}, set: function(_){ + margin.top = _.top !== undefined ? _.top : margin.top; + margin.right = _.right !== undefined ? _.right : margin.right; + margin.bottom = _.bottom !== undefined ? _.bottom : margin.bottom; + margin.left = _.left !== undefined ? _.left : margin.left; + }}, + duration: {get: function(){return duration;}, set: function(_){ + duration = _; + renderWatch.reset(duration); + lines.duration(duration); + xAxis.duration(duration); + yAxis.duration(duration); + }}, + color: {get: function(){return color;}, set: function(_){ + color = nv.utils.getColor(_); + legend.color(color); + lines.color(color); + }}, + rightAlignYAxis: {get: function(){return rightAlignYAxis;}, set: function(_){ + rightAlignYAxis = _; + yAxis.orient( rightAlignYAxis ? 'right' : 'left'); + }}, + useInteractiveGuideline: {get: function(){return useInteractiveGuideline;}, set: function(_){ + useInteractiveGuideline = _; + if (useInteractiveGuideline) { + lines.interactive(false); + lines.useVoronoi(false); + } + }} + }); + + nv.utils.inheritOptions(chart, lines); + nv.utils.initOptions(chart); + + return chart; +}; +nv.models.linePlusBarChart = function() { + "use strict"; + + //============================================================ + // Public Variables with Default Settings + //------------------------------------------------------------ + + var lines = nv.models.line() + , lines2 = nv.models.line() + , bars = nv.models.historicalBar() + , bars2 = nv.models.historicalBar() + , xAxis = nv.models.axis() + , x2Axis = nv.models.axis() + , y1Axis = nv.models.axis() + , y2Axis = nv.models.axis() + , y3Axis = nv.models.axis() + , y4Axis = nv.models.axis() + , legend = nv.models.legend() + , brush = d3.svg.brush() + , tooltip = nv.models.tooltip() + ; + + var margin = {top: 30, right: 30, bottom: 30, left: 60} + , margin2 = {top: 0, right: 30, bottom: 20, left: 60} + , width = null + , height = null + , getX = function(d) { return d.x } + , getY = function(d) { return d.y } + , color = nv.utils.defaultColor() + , showLegend = true + , focusEnable = true + , focusShowAxisY = false + , focusShowAxisX = true + , focusHeight = 50 + , extent + , brushExtent = null + , x + , x2 + , y1 + , y2 + , y3 + , y4 + , noData = null + , dispatch = d3.dispatch('brush', 'stateChange', 'changeState') + , transitionDuration = 0 + , state = nv.utils.state() + , defaultState = null + , legendLeftAxisHint = ' (left axis)' + , legendRightAxisHint = ' (right axis)' + ; + + lines.clipEdge(true); + lines2.interactive(false); + xAxis.orient('bottom').tickPadding(5); + y1Axis.orient('left'); + y2Axis.orient('right'); + x2Axis.orient('bottom').tickPadding(5); + y3Axis.orient('left'); + y4Axis.orient('right'); + + tooltip.headerEnabled(true).headerFormatter(function(d, i) { + return xAxis.tickFormat()(d, i); + }); + + //============================================================ + // Private Variables + //------------------------------------------------------------ + + var stateGetter = function(data) { + return function(){ + return { + active: data.map(function(d) { return !d.disabled }) + }; + } + }; + + var stateSetter = function(data) { + return function(state) { + if (state.active !== undefined) + data.forEach(function(series,i) { + series.disabled = !state.active[i]; + }); + } + }; + + function chart(selection) { + selection.each(function(data) { + var container = d3.select(this), + that = this; + nv.utils.initSVG(container); + var availableWidth = nv.utils.availableWidth(width, container, margin), + availableHeight1 = nv.utils.availableHeight(height, container, margin) + - (focusEnable ? focusHeight : 0), + availableHeight2 = focusHeight - margin2.top - margin2.bottom; + + chart.update = function() { container.transition().duration(transitionDuration).call(chart); }; + chart.container = this; + + state + .setter(stateSetter(data), chart.update) + .getter(stateGetter(data)) + .update(); + + // DEPRECATED set state.disableddisabled + state.disabled = data.map(function(d) { return !!d.disabled }); + + if (!defaultState) { + var key; + defaultState = {}; + for (key in state) { + if (state[key] instanceof Array) + defaultState[key] = state[key].slice(0); + else + defaultState[key] = state[key]; + } + } + + // Display No Data message if there's nothing to show. + if (!data || !data.length || !data.filter(function(d) { return d.values.length }).length) { + nv.utils.noData(chart, container) + return chart; + } else { + container.selectAll('.nv-noData').remove(); + } + + // Setup Scales + var dataBars = data.filter(function(d) { return !d.disabled && d.bar }); + var dataLines = data.filter(function(d) { return !d.bar }); // removed the !d.disabled clause here to fix Issue #240 + + x = bars.xScale(); + x2 = x2Axis.scale(); + y1 = bars.yScale(); + y2 = lines.yScale(); + y3 = bars2.yScale(); + y4 = lines2.yScale(); + + var series1 = data + .filter(function(d) { return !d.disabled && d.bar }) + .map(function(d) { + return d.values.map(function(d,i) { + return { x: getX(d,i), y: getY(d,i) } + }) + }); + + var series2 = data + .filter(function(d) { return !d.disabled && !d.bar }) + .map(function(d) { + return d.values.map(function(d,i) { + return { x: getX(d,i), y: getY(d,i) } + }) + }); + + x.range([0, availableWidth]); + + x2 .domain(d3.extent(d3.merge(series1.concat(series2)), function(d) { return d.x } )) + .range([0, availableWidth]); + + // Setup containers and skeleton of chart + var wrap = container.selectAll('g.nv-wrap.nv-linePlusBar').data([data]); + var gEnter = wrap.enter().append('g').attr('class', 'nvd3 nv-wrap nv-linePlusBar').append('g'); + var g = wrap.select('g'); + + gEnter.append('g').attr('class', 'nv-legendWrap'); + + // this is the main chart + var focusEnter = gEnter.append('g').attr('class', 'nv-focus'); + focusEnter.append('g').attr('class', 'nv-x nv-axis'); + focusEnter.append('g').attr('class', 'nv-y1 nv-axis'); + focusEnter.append('g').attr('class', 'nv-y2 nv-axis'); + focusEnter.append('g').attr('class', 'nv-barsWrap'); + focusEnter.append('g').attr('class', 'nv-linesWrap'); + + // context chart is where you can focus in + var contextEnter = gEnter.append('g').attr('class', 'nv-context'); + contextEnter.append('g').attr('class', 'nv-x nv-axis'); + contextEnter.append('g').attr('class', 'nv-y1 nv-axis'); + contextEnter.append('g').attr('class', 'nv-y2 nv-axis'); + contextEnter.append('g').attr('class', 'nv-barsWrap'); + contextEnter.append('g').attr('class', 'nv-linesWrap'); + contextEnter.append('g').attr('class', 'nv-brushBackground'); + contextEnter.append('g').attr('class', 'nv-x nv-brush'); + + //============================================================ + // Legend + //------------------------------------------------------------ + + if (showLegend) { + var legendWidth = legend.align() ? availableWidth / 2 : availableWidth; + var legendXPosition = legend.align() ? legendWidth : 0; + + legend.width(legendWidth); + + g.select('.nv-legendWrap') + .datum(data.map(function(series) { + series.originalKey = series.originalKey === undefined ? series.key : series.originalKey; + series.key = series.originalKey + (series.bar ? legendLeftAxisHint : legendRightAxisHint); + return series; + })) + .call(legend); + + if ( margin.top != legend.height()) { + margin.top = legend.height(); + // FIXME: shouldn't this be "- (focusEnabled ? focusHeight : 0)"? + availableHeight1 = nv.utils.availableHeight(height, container, margin) - focusHeight; + } + + g.select('.nv-legendWrap') + .attr('transform', 'translate(' + legendXPosition + ',' + (-margin.top) +')'); + } + + wrap.attr('transform', 'translate(' + margin.left + ',' + margin.top + ')'); + + //============================================================ + // Context chart (focus chart) components + //------------------------------------------------------------ + + // hide or show the focus context chart + g.select('.nv-context').style('display', focusEnable ? 'initial' : 'none'); + + bars2 + .width(availableWidth) + .height(availableHeight2) + .color(data.map(function (d, i) { + return d.color || color(d, i); + }).filter(function (d, i) { + return !data[i].disabled && data[i].bar + })); + lines2 + .width(availableWidth) + .height(availableHeight2) + .color(data.map(function (d, i) { + return d.color || color(d, i); + }).filter(function (d, i) { + return !data[i].disabled && !data[i].bar + })); + + var bars2Wrap = g.select('.nv-context .nv-barsWrap') + .datum(dataBars.length ? dataBars : [ + {values: []} + ]); + var lines2Wrap = g.select('.nv-context .nv-linesWrap') + .datum(!dataLines[0].disabled ? dataLines : [ + {values: []} + ]); + + g.select('.nv-context') + .attr('transform', 'translate(0,' + ( availableHeight1 + margin.bottom + margin2.top) + ')'); + + bars2Wrap.transition().call(bars2); + lines2Wrap.transition().call(lines2); + + // context (focus chart) axis controls + if (focusShowAxisX) { + x2Axis + ._ticks( nv.utils.calcTicksX(availableWidth / 100, data)) + .tickSize(-availableHeight2, 0); + g.select('.nv-context .nv-x.nv-axis') + .attr('transform', 'translate(0,' + y3.range()[0] + ')'); + g.select('.nv-context .nv-x.nv-axis').transition() + .call(x2Axis); + } + + if (focusShowAxisY) { + y3Axis + .scale(y3) + ._ticks( availableHeight2 / 36 ) + .tickSize( -availableWidth, 0); + y4Axis + .scale(y4) + ._ticks( availableHeight2 / 36 ) + .tickSize(dataBars.length ? 0 : -availableWidth, 0); // Show the y2 rules only if y1 has none + + g.select('.nv-context .nv-y3.nv-axis') + .style('opacity', dataBars.length ? 1 : 0) + .attr('transform', 'translate(0,' + x2.range()[0] + ')'); + g.select('.nv-context .nv-y2.nv-axis') + .style('opacity', dataLines.length ? 1 : 0) + .attr('transform', 'translate(' + x2.range()[1] + ',0)'); + + g.select('.nv-context .nv-y1.nv-axis').transition() + .call(y3Axis); + g.select('.nv-context .nv-y2.nv-axis').transition() + .call(y4Axis); + } + + // Setup Brush + brush.x(x2).on('brush', onBrush); + + if (brushExtent) brush.extent(brushExtent); + + var brushBG = g.select('.nv-brushBackground').selectAll('g') + .data([brushExtent || brush.extent()]); + + var brushBGenter = brushBG.enter() + .append('g'); + + brushBGenter.append('rect') + .attr('class', 'left') + .attr('x', 0) + .attr('y', 0) + .attr('height', availableHeight2); + + brushBGenter.append('rect') + .attr('class', 'right') + .attr('x', 0) + .attr('y', 0) + .attr('height', availableHeight2); + + var gBrush = g.select('.nv-x.nv-brush') + .call(brush); + gBrush.selectAll('rect') + //.attr('y', -5) + .attr('height', availableHeight2); + gBrush.selectAll('.resize').append('path').attr('d', resizePath); + + //============================================================ + // Event Handling/Dispatching (in chart's scope) + //------------------------------------------------------------ + + legend.dispatch.on('stateChange', function(newState) { + for (var key in newState) + state[key] = newState[key]; + dispatch.stateChange(state); + chart.update(); + }); + + // Update chart from a state object passed to event handler + dispatch.on('changeState', function(e) { + if (typeof e.disabled !== 'undefined') { + data.forEach(function(series,i) { + series.disabled = e.disabled[i]; + }); + state.disabled = e.disabled; + } + chart.update(); + }); + + //============================================================ + // Functions + //------------------------------------------------------------ + + // Taken from crossfilter (http://square.github.com/crossfilter/) + function resizePath(d) { + var e = +(d == 'e'), + x = e ? 1 : -1, + y = availableHeight2 / 3; + return 'M' + (.5 * x) + ',' + y + + 'A6,6 0 0 ' + e + ' ' + (6.5 * x) + ',' + (y + 6) + + 'V' + (2 * y - 6) + + 'A6,6 0 0 ' + e + ' ' + (.5 * x) + ',' + (2 * y) + + 'Z' + + 'M' + (2.5 * x) + ',' + (y + 8) + + 'V' + (2 * y - 8) + + 'M' + (4.5 * x) + ',' + (y + 8) + + 'V' + (2 * y - 8); + } + + + function updateBrushBG() { + if (!brush.empty()) brush.extent(brushExtent); + brushBG + .data([brush.empty() ? x2.domain() : brushExtent]) + .each(function(d,i) { + var leftWidth = x2(d[0]) - x2.range()[0], + rightWidth = x2.range()[1] - x2(d[1]); + d3.select(this).select('.left') + .attr('width', leftWidth < 0 ? 0 : leftWidth); + + d3.select(this).select('.right') + .attr('x', x2(d[1])) + .attr('width', rightWidth < 0 ? 0 : rightWidth); + }); + } + + function onBrush() { + brushExtent = brush.empty() ? null : brush.extent(); + extent = brush.empty() ? x2.domain() : brush.extent(); + dispatch.brush({extent: extent, brush: brush}); + updateBrushBG(); + + // Prepare Main (Focus) Bars and Lines + bars + .width(availableWidth) + .height(availableHeight1) + .color(data.map(function(d,i) { + return d.color || color(d, i); + }).filter(function(d,i) { return !data[i].disabled && data[i].bar })); + + lines + .width(availableWidth) + .height(availableHeight1) + .color(data.map(function(d,i) { + return d.color || color(d, i); + }).filter(function(d,i) { return !data[i].disabled && !data[i].bar })); + + var focusBarsWrap = g.select('.nv-focus .nv-barsWrap') + .datum(!dataBars.length ? [{values:[]}] : + dataBars + .map(function(d,i) { + return { + key: d.key, + values: d.values.filter(function(d,i) { + return bars.x()(d,i) >= extent[0] && bars.x()(d,i) <= extent[1]; + }) + } + }) + ); + + var focusLinesWrap = g.select('.nv-focus .nv-linesWrap') + .datum(dataLines[0].disabled ? [{values:[]}] : + dataLines + .map(function(d,i) { + return { + area: d.area, + fillOpacity: d.fillOpacity, + key: d.key, + values: d.values.filter(function(d,i) { + return lines.x()(d,i) >= extent[0] && lines.x()(d,i) <= extent[1]; + }) + } + }) + ); + + // Update Main (Focus) X Axis + if (dataBars.length) { + x = bars.xScale(); + } else { + x = lines.xScale(); + } + + xAxis + .scale(x) + ._ticks( nv.utils.calcTicksX(availableWidth/100, data) ) + .tickSize(-availableHeight1, 0); + + xAxis.domain([Math.ceil(extent[0]), Math.floor(extent[1])]); + + g.select('.nv-x.nv-axis').transition().duration(transitionDuration) + .call(xAxis); + + // Update Main (Focus) Bars and Lines + focusBarsWrap.transition().duration(transitionDuration).call(bars); + focusLinesWrap.transition().duration(transitionDuration).call(lines); + + // Setup and Update Main (Focus) Y Axes + g.select('.nv-focus .nv-x.nv-axis') + .attr('transform', 'translate(0,' + y1.range()[0] + ')'); + + y1Axis + .scale(y1) + ._ticks( nv.utils.calcTicksY(availableHeight1/36, data) ) + .tickSize(-availableWidth, 0); + y2Axis + .scale(y2) + ._ticks( nv.utils.calcTicksY(availableHeight1/36, data) ) + .tickSize(dataBars.length ? 0 : -availableWidth, 0); // Show the y2 rules only if y1 has none + + g.select('.nv-focus .nv-y1.nv-axis') + .style('opacity', dataBars.length ? 1 : 0); + g.select('.nv-focus .nv-y2.nv-axis') + .style('opacity', dataLines.length && !dataLines[0].disabled ? 1 : 0) + .attr('transform', 'translate(' + x.range()[1] + ',0)'); + + g.select('.nv-focus .nv-y1.nv-axis').transition().duration(transitionDuration) + .call(y1Axis); + g.select('.nv-focus .nv-y2.nv-axis').transition().duration(transitionDuration) + .call(y2Axis); + } + + onBrush(); + + }); + + return chart; + } + + //============================================================ + // Event Handling/Dispatching (out of chart's scope) + //------------------------------------------------------------ + + lines.dispatch.on('elementMouseover.tooltip', function(evt) { + tooltip + .duration(100) + .valueFormatter(function(d, i) { + return y2Axis.tickFormat()(d, i); + }) + .data(evt) + .position(evt.pos) + .hidden(false); + }); + + lines.dispatch.on('elementMouseout.tooltip', function(evt) { + tooltip.hidden(true) + }); + + bars.dispatch.on('elementMouseover.tooltip', function(evt) { + evt.value = chart.x()(evt.data); + evt['series'] = { + value: chart.y()(evt.data), + color: evt.color + }; + tooltip + .duration(0) + .valueFormatter(function(d, i) { + return y1Axis.tickFormat()(d, i); + }) + .data(evt) + .hidden(false); + }); + + bars.dispatch.on('elementMouseout.tooltip', function(evt) { + tooltip.hidden(true); + }); + + bars.dispatch.on('elementMousemove.tooltip', function(evt) { + tooltip.position({top: d3.event.pageY, left: d3.event.pageX})(); + }); + + //============================================================ + + + //============================================================ + // Expose Public Variables + //------------------------------------------------------------ + + // expose chart's sub-components + chart.dispatch = dispatch; + chart.legend = legend; + chart.lines = lines; + chart.lines2 = lines2; + chart.bars = bars; + chart.bars2 = bars2; + chart.xAxis = xAxis; + chart.x2Axis = x2Axis; + chart.y1Axis = y1Axis; + chart.y2Axis = y2Axis; + chart.y3Axis = y3Axis; + chart.y4Axis = y4Axis; + chart.tooltip = tooltip; + + chart.options = nv.utils.optionsFunc.bind(chart); + + chart._options = Object.create({}, { + // simple options, just get/set the necessary values + width: {get: function(){return width;}, set: function(_){width=_;}}, + height: {get: function(){return height;}, set: function(_){height=_;}}, + showLegend: {get: function(){return showLegend;}, set: function(_){showLegend=_;}}, + brushExtent: {get: function(){return brushExtent;}, set: function(_){brushExtent=_;}}, + noData: {get: function(){return noData;}, set: function(_){noData=_;}}, + focusEnable: {get: function(){return focusEnable;}, set: function(_){focusEnable=_;}}, + focusHeight: {get: function(){return focusHeight;}, set: function(_){focusHeight=_;}}, + focusShowAxisX: {get: function(){return focusShowAxisX;}, set: function(_){focusShowAxisX=_;}}, + focusShowAxisY: {get: function(){return focusShowAxisY;}, set: function(_){focusShowAxisY=_;}}, + legendLeftAxisHint: {get: function(){return legendLeftAxisHint;}, set: function(_){legendLeftAxisHint=_;}}, + legendRightAxisHint: {get: function(){return legendRightAxisHint;}, set: function(_){legendRightAxisHint=_;}}, + + // deprecated options + tooltips: {get: function(){return tooltip.enabled();}, set: function(_){ + // deprecated after 1.7.1 + nv.deprecated('tooltips', 'use chart.tooltip.enabled() instead'); + tooltip.enabled(!!_); + }}, + tooltipContent: {get: function(){return tooltip.contentGenerator();}, set: function(_){ + // deprecated after 1.7.1 + nv.deprecated('tooltipContent', 'use chart.tooltip.contentGenerator() instead'); + tooltip.contentGenerator(_); + }}, + + // options that require extra logic in the setter + margin: {get: function(){return margin;}, set: function(_){ + margin.top = _.top !== undefined ? _.top : margin.top; + margin.right = _.right !== undefined ? _.right : margin.right; + margin.bottom = _.bottom !== undefined ? _.bottom : margin.bottom; + margin.left = _.left !== undefined ? _.left : margin.left; + }}, + duration: {get: function(){return transitionDuration;}, set: function(_){ + transitionDuration = _; + }}, + color: {get: function(){return color;}, set: function(_){ + color = nv.utils.getColor(_); + legend.color(color); + }}, + x: {get: function(){return getX;}, set: function(_){ + getX = _; + lines.x(_); + lines2.x(_); + bars.x(_); + bars2.x(_); + }}, + y: {get: function(){return getY;}, set: function(_){ + getY = _; + lines.y(_); + lines2.y(_); + bars.y(_); + bars2.y(_); + }} + }); + + nv.utils.inheritOptions(chart, lines); + nv.utils.initOptions(chart); + + return chart; +}; +nv.models.lineWithFocusChart = function() { + "use strict"; + + //============================================================ + // Public Variables with Default Settings + //------------------------------------------------------------ + + var lines = nv.models.line() + , lines2 = nv.models.line() + , xAxis = nv.models.axis() + , yAxis = nv.models.axis() + , x2Axis = nv.models.axis() + , y2Axis = nv.models.axis() + , legend = nv.models.legend() + , brush = d3.svg.brush() + , tooltip = nv.models.tooltip() + , interactiveLayer = nv.interactiveGuideline() + ; + + var margin = {top: 30, right: 30, bottom: 30, left: 60} + , margin2 = {top: 0, right: 30, bottom: 20, left: 60} + , color = nv.utils.defaultColor() + , width = null + , height = null + , height2 = 50 + , useInteractiveGuideline = false + , x + , y + , x2 + , y2 + , showLegend = true + , brushExtent = null + , noData = null + , dispatch = d3.dispatch('brush', 'stateChange', 'changeState') + , transitionDuration = 250 + , state = nv.utils.state() + , defaultState = null + ; + + lines.clipEdge(true).duration(0); + lines2.interactive(false); + xAxis.orient('bottom').tickPadding(5); + yAxis.orient('left'); + x2Axis.orient('bottom').tickPadding(5); + y2Axis.orient('left'); + + tooltip.valueFormatter(function(d, i) { + return yAxis.tickFormat()(d, i); + }).headerFormatter(function(d, i) { + return xAxis.tickFormat()(d, i); + }); + + //============================================================ + // Private Variables + //------------------------------------------------------------ + + var stateGetter = function(data) { + return function(){ + return { + active: data.map(function(d) { return !d.disabled }) + }; + } + }; + + var stateSetter = function(data) { + return function(state) { + if (state.active !== undefined) + data.forEach(function(series,i) { + series.disabled = !state.active[i]; + }); + } + }; + + function chart(selection) { + selection.each(function(data) { + var container = d3.select(this), + that = this; + nv.utils.initSVG(container); + var availableWidth = nv.utils.availableWidth(width, container, margin), + availableHeight1 = nv.utils.availableHeight(height, container, margin) - height2, + availableHeight2 = height2 - margin2.top - margin2.bottom; + + chart.update = function() { container.transition().duration(transitionDuration).call(chart) }; + chart.container = this; + + state + .setter(stateSetter(data), chart.update) + .getter(stateGetter(data)) + .update(); + + // DEPRECATED set state.disableddisabled + state.disabled = data.map(function(d) { return !!d.disabled }); + + if (!defaultState) { + var key; + defaultState = {}; + for (key in state) { + if (state[key] instanceof Array) + defaultState[key] = state[key].slice(0); + else + defaultState[key] = state[key]; + } + } + + // Display No Data message if there's nothing to show. + if (!data || !data.length || !data.filter(function(d) { return d.values.length }).length) { + nv.utils.noData(chart, container) + return chart; + } else { + container.selectAll('.nv-noData').remove(); + } + + // Setup Scales + x = lines.xScale(); + y = lines.yScale(); + x2 = lines2.xScale(); + y2 = lines2.yScale(); + + // Setup containers and skeleton of chart + var wrap = container.selectAll('g.nv-wrap.nv-lineWithFocusChart').data([data]); + var gEnter = wrap.enter().append('g').attr('class', 'nvd3 nv-wrap nv-lineWithFocusChart').append('g'); + var g = wrap.select('g'); + + gEnter.append('g').attr('class', 'nv-legendWrap'); + + var focusEnter = gEnter.append('g').attr('class', 'nv-focus'); + focusEnter.append('g').attr('class', 'nv-x nv-axis'); + focusEnter.append('g').attr('class', 'nv-y nv-axis'); + focusEnter.append('g').attr('class', 'nv-linesWrap'); + focusEnter.append('g').attr('class', 'nv-interactive'); + + var contextEnter = gEnter.append('g').attr('class', 'nv-context'); + contextEnter.append('g').attr('class', 'nv-x nv-axis'); + contextEnter.append('g').attr('class', 'nv-y nv-axis'); + contextEnter.append('g').attr('class', 'nv-linesWrap'); + contextEnter.append('g').attr('class', 'nv-brushBackground'); + contextEnter.append('g').attr('class', 'nv-x nv-brush'); + + // Legend + if (showLegend) { + legend.width(availableWidth); + + g.select('.nv-legendWrap') + .datum(data) + .call(legend); + + if ( margin.top != legend.height()) { + margin.top = legend.height(); + availableHeight1 = nv.utils.availableHeight(height, container, margin) - height2; + } + + g.select('.nv-legendWrap') + .attr('transform', 'translate(0,' + (-margin.top) +')') + } + + wrap.attr('transform', 'translate(' + margin.left + ',' + margin.top + ')'); + + + //Set up interactive layer + if (useInteractiveGuideline) { + interactiveLayer + .width(availableWidth) + .height(availableHeight1) + .margin({left:margin.left, top:margin.top}) + .svgContainer(container) + .xScale(x); + wrap.select(".nv-interactive").call(interactiveLayer); + } + + // Main Chart Component(s) + lines + .width(availableWidth) + .height(availableHeight1) + .color( + data + .map(function(d,i) { + return d.color || color(d, i); + }) + .filter(function(d,i) { + return !data[i].disabled; + }) + ); + + lines2 + .defined(lines.defined()) + .width(availableWidth) + .height(availableHeight2) + .color( + data + .map(function(d,i) { + return d.color || color(d, i); + }) + .filter(function(d,i) { + return !data[i].disabled; + }) + ); + + g.select('.nv-context') + .attr('transform', 'translate(0,' + ( availableHeight1 + margin.bottom + margin2.top) + ')') + + var contextLinesWrap = g.select('.nv-context .nv-linesWrap') + .datum(data.filter(function(d) { return !d.disabled })) + + d3.transition(contextLinesWrap).call(lines2); + + // Setup Main (Focus) Axes + xAxis + .scale(x) + ._ticks( nv.utils.calcTicksX(availableWidth/100, data) ) + .tickSize(-availableHeight1, 0); + + yAxis + .scale(y) + ._ticks( nv.utils.calcTicksY(availableHeight1/36, data) ) + .tickSize( -availableWidth, 0); + + g.select('.nv-focus .nv-x.nv-axis') + .attr('transform', 'translate(0,' + availableHeight1 + ')'); + + // Setup Brush + brush + .x(x2) + .on('brush', function() { + onBrush(); + }); + + if (brushExtent) brush.extent(brushExtent); + + var brushBG = g.select('.nv-brushBackground').selectAll('g') + .data([brushExtent || brush.extent()]) + + var brushBGenter = brushBG.enter() + .append('g'); + + brushBGenter.append('rect') + .attr('class', 'left') + .attr('x', 0) + .attr('y', 0) + .attr('height', availableHeight2); + + brushBGenter.append('rect') + .attr('class', 'right') + .attr('x', 0) + .attr('y', 0) + .attr('height', availableHeight2); + + var gBrush = g.select('.nv-x.nv-brush') + .call(brush); + gBrush.selectAll('rect') + .attr('height', availableHeight2); + gBrush.selectAll('.resize').append('path').attr('d', resizePath); + + onBrush(); + + // Setup Secondary (Context) Axes + x2Axis + .scale(x2) + ._ticks( nv.utils.calcTicksX(availableWidth/100, data) ) + .tickSize(-availableHeight2, 0); + + g.select('.nv-context .nv-x.nv-axis') + .attr('transform', 'translate(0,' + y2.range()[0] + ')'); + d3.transition(g.select('.nv-context .nv-x.nv-axis')) + .call(x2Axis); + + y2Axis + .scale(y2) + ._ticks( nv.utils.calcTicksY(availableHeight2/36, data) ) + .tickSize( -availableWidth, 0); + + d3.transition(g.select('.nv-context .nv-y.nv-axis')) + .call(y2Axis); + + g.select('.nv-context .nv-x.nv-axis') + .attr('transform', 'translate(0,' + y2.range()[0] + ')'); + + //============================================================ + // Event Handling/Dispatching (in chart's scope) + //------------------------------------------------------------ + + legend.dispatch.on('stateChange', function(newState) { + for (var key in newState) + state[key] = newState[key]; + dispatch.stateChange(state); + chart.update(); + }); + + interactiveLayer.dispatch.on('elementMousemove', function(e) { + lines.clearHighlights(); + var singlePoint, pointIndex, pointXLocation, allData = []; + data + .filter(function(series, i) { + series.seriesIndex = i; + return !series.disabled; + }) + .forEach(function(series,i) { + var extent = brush.empty() ? x2.domain() : brush.extent(); + var currentValues = series.values.filter(function(d,i) { + return lines.x()(d,i) >= extent[0] && lines.x()(d,i) <= extent[1]; + }); + + pointIndex = nv.interactiveBisect(currentValues, e.pointXValue, lines.x()); + var point = currentValues[pointIndex]; + var pointYValue = chart.y()(point, pointIndex); + if (pointYValue != null) { + lines.highlightPoint(i, pointIndex, true); + } + if (point === undefined) return; + if (singlePoint === undefined) singlePoint = point; + if (pointXLocation === undefined) pointXLocation = chart.xScale()(chart.x()(point,pointIndex)); + allData.push({ + key: series.key, + value: chart.y()(point, pointIndex), + color: color(series,series.seriesIndex) + }); + }); + //Highlight the tooltip entry based on which point the mouse is closest to. + if (allData.length > 2) { + var yValue = chart.yScale().invert(e.mouseY); + var domainExtent = Math.abs(chart.yScale().domain()[0] - chart.yScale().domain()[1]); + var threshold = 0.03 * domainExtent; + var indexToHighlight = nv.nearestValueIndex(allData.map(function(d){return d.value}),yValue,threshold); + if (indexToHighlight !== null) + allData[indexToHighlight].highlight = true; + } + + var xValue = xAxis.tickFormat()(chart.x()(singlePoint,pointIndex)); + interactiveLayer.tooltip + .position({left: e.mouseX + margin.left, top: e.mouseY + margin.top}) + .chartContainer(that.parentNode) + .valueFormatter(function(d,i) { + return d == null ? "N/A" : yAxis.tickFormat()(d); + }) + .data({ + value: xValue, + index: pointIndex, + series: allData + })(); + + interactiveLayer.renderGuideLine(pointXLocation); + + }); + + interactiveLayer.dispatch.on("elementMouseout",function(e) { + lines.clearHighlights(); + }); + + dispatch.on('changeState', function(e) { + if (typeof e.disabled !== 'undefined') { + data.forEach(function(series,i) { + series.disabled = e.disabled[i]; + }); + } + chart.update(); + }); + + //============================================================ + // Functions + //------------------------------------------------------------ + + // Taken from crossfilter (http://square.github.com/crossfilter/) + function resizePath(d) { + var e = +(d == 'e'), + x = e ? 1 : -1, + y = availableHeight2 / 3; + return 'M' + (.5 * x) + ',' + y + + 'A6,6 0 0 ' + e + ' ' + (6.5 * x) + ',' + (y + 6) + + 'V' + (2 * y - 6) + + 'A6,6 0 0 ' + e + ' ' + (.5 * x) + ',' + (2 * y) + + 'Z' + + 'M' + (2.5 * x) + ',' + (y + 8) + + 'V' + (2 * y - 8) + + 'M' + (4.5 * x) + ',' + (y + 8) + + 'V' + (2 * y - 8); + } + + + function updateBrushBG() { + if (!brush.empty()) brush.extent(brushExtent); + brushBG + .data([brush.empty() ? x2.domain() : brushExtent]) + .each(function(d,i) { + var leftWidth = x2(d[0]) - x.range()[0], + rightWidth = availableWidth - x2(d[1]); + d3.select(this).select('.left') + .attr('width', leftWidth < 0 ? 0 : leftWidth); + + d3.select(this).select('.right') + .attr('x', x2(d[1])) + .attr('width', rightWidth < 0 ? 0 : rightWidth); + }); + } + + + function onBrush() { + brushExtent = brush.empty() ? null : brush.extent(); + var extent = brush.empty() ? x2.domain() : brush.extent(); + + //The brush extent cannot be less than one. If it is, don't update the line chart. + if (Math.abs(extent[0] - extent[1]) <= 1) { + return; + } + + dispatch.brush({extent: extent, brush: brush}); + + + updateBrushBG(); + + // Update Main (Focus) + var focusLinesWrap = g.select('.nv-focus .nv-linesWrap') + .datum( + data + .filter(function(d) { return !d.disabled }) + .map(function(d,i) { + return { + key: d.key, + area: d.area, + values: d.values.filter(function(d,i) { + return lines.x()(d,i) >= extent[0] && lines.x()(d,i) <= extent[1]; + }) + } + }) + ); + focusLinesWrap.transition().duration(transitionDuration).call(lines); + + + // Update Main (Focus) Axes + g.select('.nv-focus .nv-x.nv-axis').transition().duration(transitionDuration) + .call(xAxis); + g.select('.nv-focus .nv-y.nv-axis').transition().duration(transitionDuration) + .call(yAxis); + } + }); + + return chart; + } + + //============================================================ + // Event Handling/Dispatching (out of chart's scope) + //------------------------------------------------------------ + + lines.dispatch.on('elementMouseover.tooltip', function(evt) { + tooltip.data(evt).position(evt.pos).hidden(false); + }); + + lines.dispatch.on('elementMouseout.tooltip', function(evt) { + tooltip.hidden(true) + }); + + //============================================================ + // Expose Public Variables + //------------------------------------------------------------ + + // expose chart's sub-components + chart.dispatch = dispatch; + chart.legend = legend; + chart.lines = lines; + chart.lines2 = lines2; + chart.xAxis = xAxis; + chart.yAxis = yAxis; + chart.x2Axis = x2Axis; + chart.y2Axis = y2Axis; + chart.interactiveLayer = interactiveLayer; + chart.tooltip = tooltip; + + chart.options = nv.utils.optionsFunc.bind(chart); + + chart._options = Object.create({}, { + // simple options, just get/set the necessary values + width: {get: function(){return width;}, set: function(_){width=_;}}, + height: {get: function(){return height;}, set: function(_){height=_;}}, + focusHeight: {get: function(){return height2;}, set: function(_){height2=_;}}, + showLegend: {get: function(){return showLegend;}, set: function(_){showLegend=_;}}, + brushExtent: {get: function(){return brushExtent;}, set: function(_){brushExtent=_;}}, + defaultState: {get: function(){return defaultState;}, set: function(_){defaultState=_;}}, + noData: {get: function(){return noData;}, set: function(_){noData=_;}}, + + // deprecated options + tooltips: {get: function(){return tooltip.enabled();}, set: function(_){ + // deprecated after 1.7.1 + nv.deprecated('tooltips', 'use chart.tooltip.enabled() instead'); + tooltip.enabled(!!_); + }}, + tooltipContent: {get: function(){return tooltip.contentGenerator();}, set: function(_){ + // deprecated after 1.7.1 + nv.deprecated('tooltipContent', 'use chart.tooltip.contentGenerator() instead'); + tooltip.contentGenerator(_); + }}, + + // options that require extra logic in the setter + margin: {get: function(){return margin;}, set: function(_){ + margin.top = _.top !== undefined ? _.top : margin.top; + margin.right = _.right !== undefined ? _.right : margin.right; + margin.bottom = _.bottom !== undefined ? _.bottom : margin.bottom; + margin.left = _.left !== undefined ? _.left : margin.left; + }}, + color: {get: function(){return color;}, set: function(_){ + color = nv.utils.getColor(_); + legend.color(color); + // line color is handled above? + }}, + interpolate: {get: function(){return lines.interpolate();}, set: function(_){ + lines.interpolate(_); + lines2.interpolate(_); + }}, + xTickFormat: {get: function(){return xAxis.tickFormat();}, set: function(_){ + xAxis.tickFormat(_); + x2Axis.tickFormat(_); + }}, + yTickFormat: {get: function(){return yAxis.tickFormat();}, set: function(_){ + yAxis.tickFormat(_); + y2Axis.tickFormat(_); + }}, + duration: {get: function(){return transitionDuration;}, set: function(_){ + transitionDuration=_; + yAxis.duration(transitionDuration); + y2Axis.duration(transitionDuration); + xAxis.duration(transitionDuration); + x2Axis.duration(transitionDuration); + }}, + x: {get: function(){return lines.x();}, set: function(_){ + lines.x(_); + lines2.x(_); + }}, + y: {get: function(){return lines.y();}, set: function(_){ + lines.y(_); + lines2.y(_); + }}, + useInteractiveGuideline: {get: function(){return useInteractiveGuideline;}, set: function(_){ + useInteractiveGuideline = _; + if (useInteractiveGuideline) { + lines.interactive(false); + lines.useVoronoi(false); + } + }} + }); + + nv.utils.inheritOptions(chart, lines); + nv.utils.initOptions(chart); + + return chart; +}; +nv.models.multiBar = function() { + "use strict"; + + //============================================================ + // Public Variables with Default Settings + //------------------------------------------------------------ + + var margin = {top: 0, right: 0, bottom: 0, left: 0} + , width = 960 + , height = 500 + , x = d3.scale.ordinal() + , y = d3.scale.linear() + , id = Math.floor(Math.random() * 10000) //Create semi-unique ID in case user doesn't select one + , container = null + , getX = function(d) { return d.x } + , getY = function(d) { return d.y } + , getYerr = function(d) { return d.yErr } + , forceY = [0] // 0 is forced by default.. this makes sense for the majority of bar graphs... user can always do chart.forceY([]) to remove + , clipEdge = true + , stacked = false + , stackOffset = 'zero' // options include 'silhouette', 'wiggle', 'expand', 'zero', or a custom function + , color = nv.utils.defaultColor() + , errorBarColor = nv.utils.defaultColor() + , hideable = false + , barColor = null // adding the ability to set the color for each rather than the whole group + , disabled // used in conjunction with barColor to communicate from multiBarHorizontalChart what series are disabled + , duration = 500 + , xDomain + , yDomain + , xRange + , yRange + , groupSpacing = 0.1 + , dispatch = d3.dispatch('chartClick', 'elementClick', 'elementDblClick', 'elementMouseover', 'elementMouseout', 'elementMousemove', 'renderEnd') + ; + + //============================================================ + // Private Variables + //------------------------------------------------------------ + + var x0, y0 //used to store previous scales + , renderWatch = nv.utils.renderWatch(dispatch, duration) + ; + + var last_datalength = 0; + + function chart(selection) { + renderWatch.reset(); + selection.each(function(data) { + var availableWidth = width - margin.left - margin.right, + availableHeight = height - margin.top - margin.bottom; + + container = d3.select(this); + nv.utils.initSVG(container); + var nonStackableCount = 0; + // This function defines the requirements for render complete + var endFn = function(d, i) { + if (d.series === data.length - 1 && i === data[0].values.length - 1) + return true; + return false; + }; + + if(hideable && data.length) hideable = [{ + values: data[0].values.map(function(d) { + return { + x: d.x, + y: 0, + series: d.series, + size: 0.01 + };} + )}]; + + if (stacked) { + var parsed = d3.layout.stack() + .offset(stackOffset) + .values(function(d){ return d.values }) + .y(getY) + (!data.length && hideable ? hideable : data); + + parsed.forEach(function(series, i){ + // if series is non-stackable, use un-parsed data + if (series.nonStackable) { + data[i].nonStackableSeries = nonStackableCount++; + parsed[i] = data[i]; + } else { + // don't stack this seires on top of the nonStackable seriees + if (i > 0 && parsed[i - 1].nonStackable){ + parsed[i].values.map(function(d,j){ + d.y0 -= parsed[i - 1].values[j].y; + d.y1 = d.y0 + d.y; + }); + } + } + }); + data = parsed; + } + //add series index and key to each data point for reference + data.forEach(function(series, i) { + series.values.forEach(function(point) { + point.series = i; + point.key = series.key; + }); + }); + + // HACK for negative value stacking + if (stacked) { + data[0].values.map(function(d,i) { + var posBase = 0, negBase = 0; + data.map(function(d, idx) { + if (!data[idx].nonStackable) { + var f = d.values[i] + f.size = Math.abs(f.y); + if (f.y<0) { + f.y1 = negBase; + negBase = negBase - f.size; + } else + { + f.y1 = f.size + posBase; + posBase = posBase + f.size; + } + } + + }); + }); + } + // Setup Scales + // remap and flatten the data for use in calculating the scales' domains + var seriesData = (xDomain && yDomain) ? [] : // if we know xDomain and yDomain, no need to calculate + data.map(function(d, idx) { + return d.values.map(function(d,i) { + return { x: getX(d,i), y: getY(d,i), y0: d.y0, y1: d.y1, idx:idx, yErr: getYerr(d,i)} + }) + }); + + x.domain(xDomain || d3.merge(seriesData).map(function(d) { return d.x })) + .rangeBands(xRange || [0, availableWidth], groupSpacing); + + y.domain(yDomain || d3.extent(d3.merge( + d3.merge(seriesData).map(function(d) { + var domain = d.y; + // increase the domain range if this series is stackable + if (stacked && !data[d.idx].nonStackable) { + if (d.y > 0){ + domain = d.y1 + } else { + domain = d.y1 + d.y + } + } + var yerr = d.yErr; + if (yerr) { + if (yerr.length) { + return [domain + yerr[0], domain + yerr[1]]; + } else { + yerr = Math.abs(yerr) + return [domain - yerr, domain + yerr]; + } + } else { + return [domain]; + } + })).concat(forceY))) + .range(yRange || [availableHeight, 0]); + + // If scale's domain don't have a range, slightly adjust to make one... so a chart can show a single data point + if (x.domain()[0] === x.domain()[1]) + x.domain()[0] ? + x.domain([x.domain()[0] - x.domain()[0] * 0.01, x.domain()[1] + x.domain()[1] * 0.01]) + : x.domain([-1,1]); + + if (y.domain()[0] === y.domain()[1]) + y.domain()[0] ? + y.domain([y.domain()[0] + y.domain()[0] * 0.01, y.domain()[1] - y.domain()[1] * 0.01]) + : y.domain([-1,1]); + + x0 = x0 || x; + y0 = y0 || y; + + // Setup containers and skeleton of chart + var wrap = container.selectAll('g.nv-wrap.nv-multibar').data([data]); + var wrapEnter = wrap.enter().append('g').attr('class', 'nvd3 nv-wrap nv-multibar'); + var defsEnter = wrapEnter.append('defs'); + var gEnter = wrapEnter.append('g'); + var g = wrap.select('g'); + + gEnter.append('g').attr('class', 'nv-groups'); + wrap.attr('transform', 'translate(' + margin.left + ',' + margin.top + ')'); + + defsEnter.append('clipPath') + .attr('id', 'nv-edge-clip-' + id) + .append('rect'); + wrap.select('#nv-edge-clip-' + id + ' rect') + .attr('width', availableWidth) + .attr('height', availableHeight); + + g.attr('clip-path', clipEdge ? 'url(#nv-edge-clip-' + id + ')' : ''); + + var groups = wrap.select('.nv-groups').selectAll('.nv-group') + .data(function(d) { return d }, function(d,i) { return i }); + groups.enter().append('g') + .style('stroke-opacity', 1e-6) + .style('fill-opacity', 1e-6); + + var exitTransition = renderWatch + .transition(groups.exit().selectAll('g.nv-bar'), 'multibarExit', Math.min(100, duration)) + .attr('y', function(d, i, j) { + var yVal = y0(0) || 0; + if (stacked) { + if (data[d.series] && !data[d.series].nonStackable) { + yVal = y0(d.y0); + } + } + return yVal; + }) + .attr('height', 0) + .remove(); + if (exitTransition.delay) + exitTransition.delay(function(d,i) { + var delay = i * (duration / (last_datalength + 1)) - i; + return delay; + }); + groups + .attr('class', function(d,i) { return 'nv-group nv-series-' + i }) + .classed('hover', function(d) { return d.hover }) + .style('fill', function(d,i){ return color(d, i) }) + .style('stroke', function(d,i){ return color(d, i) }); + groups + .style('stroke-opacity', 1) + .style('fill-opacity', 0.75); + + var bars = groups.selectAll('g.nv-bar') + .data(function(d) { return (hideable && !data.length) ? hideable.values : d.values }); + bars.exit().remove(); + + var barsEnter = bars.enter().append('g') + .attr('class', function(d,i) { return getY(d,i) < 0 ? 'nv-bar negative' : 'nv-bar positive'}) + .attr('transform', function(d,i,j) { + var _x = stacked && !data[j].nonStackable ? 0 : (j * x.rangeBand() / data.length ); + var _y = y0(stacked && !data[j].nonStackable ? d.y0 : 0) || 0; + return 'translate(' + _x + ',' + _y + ')'; + }) + ; + + barsEnter.append('rect') + .attr('height', 0) + .attr('width', function(d,i,j) { return x.rangeBand() / (stacked && !data[j].nonStackable ? 1 : data.length) }) + .style('fill', function(d,i,j){ return color(d, j, i); }) + .style('stroke', function(d,i,j){ return color(d, j, i); }) + ; + bars + .on('mouseover', function(d,i) { //TODO: figure out why j works above, but not here + d3.select(this).classed('hover', true); + dispatch.elementMouseover({ + data: d, + index: i, + color: d3.select(this).style("fill") + }); + }) + .on('mouseout', function(d,i) { + d3.select(this).classed('hover', false); + dispatch.elementMouseout({ + data: d, + index: i, + color: d3.select(this).style("fill") + }); + }) + .on('mousemove', function(d,i) { + dispatch.elementMousemove({ + data: d, + index: i, + color: d3.select(this).style("fill") + }); + }) + .on('click', function(d,i) { + dispatch.elementClick({ + data: d, + index: i, + color: d3.select(this).style("fill") + }); + d3.event.stopPropagation(); + }) + .on('dblclick', function(d,i) { + dispatch.elementDblClick({ + data: d, + index: i, + color: d3.select(this).style("fill") + }); + d3.event.stopPropagation(); + }); + + if (getYerr(data[0].values[0], 0)) { + barsEnter.append('polyline'); + + bars.select('polyline') + .attr('fill', 'none') + .attr('stroke', function(d, i, j) { return errorBarColor(d, j, i); }) + .attr('points', function(d,i) { + var yerr = getYerr(d,i) + , mid = 0.8 * x.rangeBand() / ((stacked ? 1 : data.length) * 2); + yerr = yerr.length ? yerr : [-Math.abs(yerr), Math.abs(yerr)]; + yerr = yerr.map(function(e) { return y(e) - y(0); }); + var a = [[-mid, yerr[0]], [mid, yerr[0]], [0, yerr[0]], [0, yerr[1]], [-mid, yerr[1]], [mid, yerr[1]]]; + return a.map(function (path) { return path.join(',') }).join(' '); + }) + .attr('transform', function(d, i) { + var xOffset = x.rangeBand() / ((stacked ? 1 : data.length) * 2); + var yOffset = getY(d,i) < 0 ? y(getY(d, i)) - y(0) : 0; + return 'translate(' + xOffset + ', ' + yOffset + ')'; + }) + } + + bars + .attr('class', function(d,i) { return getY(d,i) < 0 ? 'nv-bar negative' : 'nv-bar positive'}) + + if (barColor) { + if (!disabled) disabled = data.map(function() { return true }); + bars.select('rect') + .style('fill', function(d,i,j) { return d3.rgb(barColor(d,i)).darker( disabled.map(function(d,i) { return i }).filter(function(d,i){ return !disabled[i] })[j] ).toString(); }) + .style('stroke', function(d,i,j) { return d3.rgb(barColor(d,i)).darker( disabled.map(function(d,i) { return i }).filter(function(d,i){ return !disabled[i] })[j] ).toString(); }); + } + + var barSelection = + bars.watchTransition(renderWatch, 'multibar', Math.min(250, duration)) + .delay(function(d,i) { + return i * duration / data[0].values.length; + }); + if (stacked){ + barSelection + .attr('transform', function(d,i,j) { + var yVal = 0; + // if stackable, stack it on top of the previous series + if (!data[j].nonStackable) { + yVal = y(d.y1); + } else { + if (getY(d,i) < 0){ + yVal = y(0); + } else { + if (y(0) - y(getY(d,i)) < -1){ + yVal = y(0) - 1; + } else { + yVal = y(getY(d, i)) || 0; + } + } + } + var width = 0; + if (data[j].nonStackable) { + width = d.series * x.rangeBand() / data.length; + if (data.length !== nonStackableCount){ + width = data[j].nonStackableSeries * x.rangeBand()/(nonStackableCount*2); + } + } + var xVal = width + x(getX(d, i)); + return 'translate(' + xVal + ',' + yVal + ')'; + }) + .select('rect') + .attr('height', function(d,i,j) { + if (!data[j].nonStackable) { + return Math.max(Math.abs(y(d.y+d.y0) - y(d.y0)), 1); + } else { + return Math.max(Math.abs(y(getY(d,i)) - y(0)),1) || 0; + } + }) + .attr('width', function(d,i,j){ + if (!data[j].nonStackable) { + return x.rangeBand(); + } else { + // if all series are nonStacable, take the full width + var width = (x.rangeBand() / nonStackableCount); + // otherwise, nonStackable graph will be only taking the half-width + // of the x rangeBand + if (data.length !== nonStackableCount) { + width = x.rangeBand()/(nonStackableCount*2); + } + return width; + } + }); + } + else { + barSelection.attr('transform', function(d,i) { + var xVal = d.series * x.rangeBand() / data.length + x(getX(d, i)); + var yVal = getY(d,i) < 0 ? + y(0) : + y(0) - y(getY(d,i)) < 1 ? + y(0) - 1 : + y(getY(d,i)) || 0; + return 'translate(' + xVal + ',' + yVal + ')'; + }) + .select('rect') + .attr('width', x.rangeBand() / data.length) + .attr('height', function(d,i) { + return Math.max(Math.abs(y(getY(d,i)) - y(0)),1) || 0; + }); + } + + //store old scales for use in transitions on update + x0 = x.copy(); + y0 = y.copy(); + + // keep track of the last data value length for transition calculations + if (data[0] && data[0].values) { + last_datalength = data[0].values.length; + } + + }); + + renderWatch.renderEnd('multibar immediate'); + + return chart; + } + + //============================================================ + // Expose Public Variables + //------------------------------------------------------------ + + chart.dispatch = dispatch; + + chart.options = nv.utils.optionsFunc.bind(chart); + + chart._options = Object.create({}, { + // simple options, just get/set the necessary values + width: {get: function(){return width;}, set: function(_){width=_;}}, + height: {get: function(){return height;}, set: function(_){height=_;}}, + x: {get: function(){return getX;}, set: function(_){getX=_;}}, + y: {get: function(){return getY;}, set: function(_){getY=_;}}, + yErr: {get: function(){return getYerr;}, set: function(_){getYerr=_;}}, + xScale: {get: function(){return x;}, set: function(_){x=_;}}, + yScale: {get: function(){return y;}, set: function(_){y=_;}}, + xDomain: {get: function(){return xDomain;}, set: function(_){xDomain=_;}}, + yDomain: {get: function(){return yDomain;}, set: function(_){yDomain=_;}}, + xRange: {get: function(){return xRange;}, set: function(_){xRange=_;}}, + yRange: {get: function(){return yRange;}, set: function(_){yRange=_;}}, + forceY: {get: function(){return forceY;}, set: function(_){forceY=_;}}, + stacked: {get: function(){return stacked;}, set: function(_){stacked=_;}}, + stackOffset: {get: function(){return stackOffset;}, set: function(_){stackOffset=_;}}, + clipEdge: {get: function(){return clipEdge;}, set: function(_){clipEdge=_;}}, + disabled: {get: function(){return disabled;}, set: function(_){disabled=_;}}, + id: {get: function(){return id;}, set: function(_){id=_;}}, + hideable: {get: function(){return hideable;}, set: function(_){hideable=_;}}, + groupSpacing:{get: function(){return groupSpacing;}, set: function(_){groupSpacing=_;}}, + + // options that require extra logic in the setter + margin: {get: function(){return margin;}, set: function(_){ + margin.top = _.top !== undefined ? _.top : margin.top; + margin.right = _.right !== undefined ? _.right : margin.right; + margin.bottom = _.bottom !== undefined ? _.bottom : margin.bottom; + margin.left = _.left !== undefined ? _.left : margin.left; + }}, + duration: {get: function(){return duration;}, set: function(_){ + duration = _; + renderWatch.reset(duration); + }}, + color: {get: function(){return color;}, set: function(_){ + color = nv.utils.getColor(_); + }}, + barColor: {get: function(){return barColor;}, set: function(_){ + barColor = _ ? nv.utils.getColor(_) : null; + }}, + errorBarColor: {get: function(){return errorBarColor;}, set: function(_){ + errorBarColor = _ ? nv.utils.getColor(_) : null; + }} + }); + + nv.utils.initOptions(chart); + + return chart; +}; + +nv.models.multiBarChart = function() { + "use strict"; + + //============================================================ + // Public Variables with Default Settings + //------------------------------------------------------------ + + var multibar = nv.models.multiBar() + , xAxis = nv.models.axis() + , yAxis = nv.models.axis() + , legend = nv.models.legend() + , controls = nv.models.legend() + , tooltip = nv.models.tooltip() + ; + + var margin = {top: 30, right: 20, bottom: 50, left: 60} + , width = null + , height = null + , color = nv.utils.defaultColor() + , showControls = true + , controlLabels = {} + , showLegend = true + , showXAxis = true + , showYAxis = true + , rightAlignYAxis = false + , reduceXTicks = true // if false a tick will show for every data point + , staggerLabels = false + , rotateLabels = 0 + , x //can be accessed via chart.xScale() + , y //can be accessed via chart.yScale() + , state = nv.utils.state() + , defaultState = null + , noData = null + , dispatch = d3.dispatch('stateChange', 'changeState', 'renderEnd') + , controlWidth = function() { return showControls ? 180 : 0 } + , duration = 250 + ; + + state.stacked = false // DEPRECATED Maintained for backward compatibility + + multibar.stacked(false); + xAxis + .orient('bottom') + .tickPadding(7) + .showMaxMin(false) + .tickFormat(function(d) { return d }) + ; + yAxis + .orient((rightAlignYAxis) ? 'right' : 'left') + .tickFormat(d3.format(',.1f')) + ; + + tooltip + .duration(0) + .valueFormatter(function(d, i) { + return yAxis.tickFormat()(d, i); + }) + .headerFormatter(function(d, i) { + return xAxis.tickFormat()(d, i); + }); + + controls.updateState(false); + + //============================================================ + // Private Variables + //------------------------------------------------------------ + + var renderWatch = nv.utils.renderWatch(dispatch); + var stacked = false; + + var stateGetter = function(data) { + return function(){ + return { + active: data.map(function(d) { return !d.disabled }), + stacked: stacked + }; + } + }; + + var stateSetter = function(data) { + return function(state) { + if (state.stacked !== undefined) + stacked = state.stacked; + if (state.active !== undefined) + data.forEach(function(series,i) { + series.disabled = !state.active[i]; + }); + } + }; + + function chart(selection) { + renderWatch.reset(); + renderWatch.models(multibar); + if (showXAxis) renderWatch.models(xAxis); + if (showYAxis) renderWatch.models(yAxis); + + selection.each(function(data) { + var container = d3.select(this), + that = this; + nv.utils.initSVG(container); + var availableWidth = nv.utils.availableWidth(width, container, margin), + availableHeight = nv.utils.availableHeight(height, container, margin); + + chart.update = function() { + if (duration === 0) + container.call(chart); + else + container.transition() + .duration(duration) + .call(chart); + }; + chart.container = this; + + state + .setter(stateSetter(data), chart.update) + .getter(stateGetter(data)) + .update(); + + // DEPRECATED set state.disableddisabled + state.disabled = data.map(function(d) { return !!d.disabled }); + + if (!defaultState) { + var key; + defaultState = {}; + for (key in state) { + if (state[key] instanceof Array) + defaultState[key] = state[key].slice(0); + else + defaultState[key] = state[key]; + } + } + + // Display noData message if there's nothing to show. + if (!data || !data.length || !data.filter(function(d) { return d.values.length }).length) { + nv.utils.noData(chart, container) + return chart; + } else { + container.selectAll('.nv-noData').remove(); + } + + // Setup Scales + x = multibar.xScale(); + y = multibar.yScale(); + + // Setup containers and skeleton of chart + var wrap = container.selectAll('g.nv-wrap.nv-multiBarWithLegend').data([data]); + var gEnter = wrap.enter().append('g').attr('class', 'nvd3 nv-wrap nv-multiBarWithLegend').append('g'); + var g = wrap.select('g'); + + gEnter.append('g').attr('class', 'nv-x nv-axis'); + gEnter.append('g').attr('class', 'nv-y nv-axis'); + gEnter.append('g').attr('class', 'nv-barsWrap'); + gEnter.append('g').attr('class', 'nv-legendWrap'); + gEnter.append('g').attr('class', 'nv-controlsWrap'); + + // Legend + if (showLegend) { + legend.width(availableWidth - controlWidth()); + + g.select('.nv-legendWrap') + .datum(data) + .call(legend); + + if ( margin.top != legend.height()) { + margin.top = legend.height(); + availableHeight = nv.utils.availableHeight(height, container, margin); + } + + g.select('.nv-legendWrap') + .attr('transform', 'translate(' + controlWidth() + ',' + (-margin.top) +')'); + } + + // Controls + if (showControls) { + var controlsData = [ + { key: controlLabels.grouped || 'Grouped', disabled: multibar.stacked() }, + { key: controlLabels.stacked || 'Stacked', disabled: !multibar.stacked() } + ]; + + controls.width(controlWidth()).color(['#444', '#444', '#444']); + g.select('.nv-controlsWrap') + .datum(controlsData) + .attr('transform', 'translate(0,' + (-margin.top) +')') + .call(controls); + } + + wrap.attr('transform', 'translate(' + margin.left + ',' + margin.top + ')'); + if (rightAlignYAxis) { + g.select(".nv-y.nv-axis") + .attr("transform", "translate(" + availableWidth + ",0)"); + } + + // Main Chart Component(s) + multibar + .disabled(data.map(function(series) { return series.disabled })) + .width(availableWidth) + .height(availableHeight) + .color(data.map(function(d,i) { + return d.color || color(d, i); + }).filter(function(d,i) { return !data[i].disabled })); + + + var barsWrap = g.select('.nv-barsWrap') + .datum(data.filter(function(d) { return !d.disabled })); + + barsWrap.call(multibar); + + // Setup Axes + if (showXAxis) { + xAxis + .scale(x) + ._ticks( nv.utils.calcTicksX(availableWidth/100, data) ) + .tickSize(-availableHeight, 0); + + g.select('.nv-x.nv-axis') + .attr('transform', 'translate(0,' + y.range()[0] + ')'); + g.select('.nv-x.nv-axis') + .call(xAxis); + + var xTicks = g.select('.nv-x.nv-axis > g').selectAll('g'); + + xTicks + .selectAll('line, text') + .style('opacity', 1) + + if (staggerLabels) { + var getTranslate = function(x,y) { + return "translate(" + x + "," + y + ")"; + }; + + var staggerUp = 5, staggerDown = 17; //pixels to stagger by + // Issue #140 + xTicks + .selectAll("text") + .attr('transform', function(d,i,j) { + return getTranslate(0, (j % 2 == 0 ? staggerUp : staggerDown)); + }); + + var totalInBetweenTicks = d3.selectAll(".nv-x.nv-axis .nv-wrap g g text")[0].length; + g.selectAll(".nv-x.nv-axis .nv-axisMaxMin text") + .attr("transform", function(d,i) { + return getTranslate(0, (i === 0 || totalInBetweenTicks % 2 !== 0) ? staggerDown : staggerUp); + }); + } + + if (reduceXTicks) + xTicks + .filter(function(d,i) { + return i % Math.ceil(data[0].values.length / (availableWidth / 100)) !== 0; + }) + .selectAll('text, line') + .style('opacity', 0); + + if(rotateLabels) + xTicks + .selectAll('.tick text') + .attr('transform', 'rotate(' + rotateLabels + ' 0,0)') + .style('text-anchor', rotateLabels > 0 ? 'start' : 'end'); + + g.select('.nv-x.nv-axis').selectAll('g.nv-axisMaxMin text') + .style('opacity', 1); + } + + if (showYAxis) { + yAxis + .scale(y) + ._ticks( nv.utils.calcTicksY(availableHeight/36, data) ) + .tickSize( -availableWidth, 0); + + g.select('.nv-y.nv-axis') + .call(yAxis); + } + + //============================================================ + // Event Handling/Dispatching (in chart's scope) + //------------------------------------------------------------ + + legend.dispatch.on('stateChange', function(newState) { + for (var key in newState) + state[key] = newState[key]; + dispatch.stateChange(state); + chart.update(); + }); + + controls.dispatch.on('legendClick', function(d,i) { + if (!d.disabled) return; + controlsData = controlsData.map(function(s) { + s.disabled = true; + return s; + }); + d.disabled = false; + + switch (d.key) { + case 'Grouped': + case controlLabels.grouped: + multibar.stacked(false); + break; + case 'Stacked': + case controlLabels.stacked: + multibar.stacked(true); + break; + } + + state.stacked = multibar.stacked(); + dispatch.stateChange(state); + chart.update(); + }); + + // Update chart from a state object passed to event handler + dispatch.on('changeState', function(e) { + if (typeof e.disabled !== 'undefined') { + data.forEach(function(series,i) { + series.disabled = e.disabled[i]; + }); + state.disabled = e.disabled; + } + if (typeof e.stacked !== 'undefined') { + multibar.stacked(e.stacked); + state.stacked = e.stacked; + stacked = e.stacked; + } + chart.update(); + }); + }); + + renderWatch.renderEnd('multibarchart immediate'); + return chart; + } + + //============================================================ + // Event Handling/Dispatching (out of chart's scope) + //------------------------------------------------------------ + + multibar.dispatch.on('elementMouseover.tooltip', function(evt) { + evt.value = chart.x()(evt.data); + evt['series'] = { + key: evt.data.key, + value: chart.y()(evt.data), + color: evt.color + }; + tooltip.data(evt).hidden(false); + }); + + multibar.dispatch.on('elementMouseout.tooltip', function(evt) { + tooltip.hidden(true); + }); + + multibar.dispatch.on('elementMousemove.tooltip', function(evt) { + tooltip.position({top: d3.event.pageY, left: d3.event.pageX})(); + }); + + //============================================================ + // Expose Public Variables + //------------------------------------------------------------ + + // expose chart's sub-components + chart.dispatch = dispatch; + chart.multibar = multibar; + chart.legend = legend; + chart.controls = controls; + chart.xAxis = xAxis; + chart.yAxis = yAxis; + chart.state = state; + chart.tooltip = tooltip; + + chart.options = nv.utils.optionsFunc.bind(chart); + + chart._options = Object.create({}, { + // simple options, just get/set the necessary values + width: {get: function(){return width;}, set: function(_){width=_;}}, + height: {get: function(){return height;}, set: function(_){height=_;}}, + showLegend: {get: function(){return showLegend;}, set: function(_){showLegend=_;}}, + showControls: {get: function(){return showControls;}, set: function(_){showControls=_;}}, + controlLabels: {get: function(){return controlLabels;}, set: function(_){controlLabels=_;}}, + showXAxis: {get: function(){return showXAxis;}, set: function(_){showXAxis=_;}}, + showYAxis: {get: function(){return showYAxis;}, set: function(_){showYAxis=_;}}, + defaultState: {get: function(){return defaultState;}, set: function(_){defaultState=_;}}, + noData: {get: function(){return noData;}, set: function(_){noData=_;}}, + reduceXTicks: {get: function(){return reduceXTicks;}, set: function(_){reduceXTicks=_;}}, + rotateLabels: {get: function(){return rotateLabels;}, set: function(_){rotateLabels=_;}}, + staggerLabels: {get: function(){return staggerLabels;}, set: function(_){staggerLabels=_;}}, + + // deprecated options + tooltips: {get: function(){return tooltip.enabled();}, set: function(_){ + // deprecated after 1.7.1 + nv.deprecated('tooltips', 'use chart.tooltip.enabled() instead'); + tooltip.enabled(!!_); + }}, + tooltipContent: {get: function(){return tooltip.contentGenerator();}, set: function(_){ + // deprecated after 1.7.1 + nv.deprecated('tooltipContent', 'use chart.tooltip.contentGenerator() instead'); + tooltip.contentGenerator(_); + }}, + + // options that require extra logic in the setter + margin: {get: function(){return margin;}, set: function(_){ + margin.top = _.top !== undefined ? _.top : margin.top; + margin.right = _.right !== undefined ? _.right : margin.right; + margin.bottom = _.bottom !== undefined ? _.bottom : margin.bottom; + margin.left = _.left !== undefined ? _.left : margin.left; + }}, + duration: {get: function(){return duration;}, set: function(_){ + duration = _; + multibar.duration(duration); + xAxis.duration(duration); + yAxis.duration(duration); + renderWatch.reset(duration); + }}, + color: {get: function(){return color;}, set: function(_){ + color = nv.utils.getColor(_); + legend.color(color); + }}, + rightAlignYAxis: {get: function(){return rightAlignYAxis;}, set: function(_){ + rightAlignYAxis = _; + yAxis.orient( rightAlignYAxis ? 'right' : 'left'); + }}, + barColor: {get: function(){return multibar.barColor;}, set: function(_){ + multibar.barColor(_); + legend.color(function(d,i) {return d3.rgb('#ccc').darker(i * 1.5).toString();}) + }} + }); + + nv.utils.inheritOptions(chart, multibar); + nv.utils.initOptions(chart); + + return chart; +}; + +nv.models.multiBarHorizontal = function() { + "use strict"; + + //============================================================ + // Public Variables with Default Settings + //------------------------------------------------------------ + + var margin = {top: 0, right: 0, bottom: 0, left: 0} + , width = 960 + , height = 500 + , id = Math.floor(Math.random() * 10000) //Create semi-unique ID in case user doesn't select one + , container = null + , x = d3.scale.ordinal() + , y = d3.scale.linear() + , getX = function(d) { return d.x } + , getY = function(d) { return d.y } + , getYerr = function(d) { return d.yErr } + , forceY = [0] // 0 is forced by default.. this makes sense for the majority of bar graphs... user can always do chart.forceY([]) to remove + , color = nv.utils.defaultColor() + , barColor = null // adding the ability to set the color for each rather than the whole group + , errorBarColor = nv.utils.defaultColor() + , disabled // used in conjunction with barColor to communicate from multiBarHorizontalChart what series are disabled + , stacked = false + , showValues = false + , showBarLabels = false + , valuePadding = 60 + , groupSpacing = 0.1 + , valueFormat = d3.format(',.2f') + , delay = 1200 + , xDomain + , yDomain + , xRange + , yRange + , duration = 250 + , dispatch = d3.dispatch('chartClick', 'elementClick', 'elementDblClick', 'elementMouseover', 'elementMouseout', 'elementMousemove', 'renderEnd') + ; + + //============================================================ + // Private Variables + //------------------------------------------------------------ + + var x0, y0; //used to store previous scales + var renderWatch = nv.utils.renderWatch(dispatch, duration); + + function chart(selection) { + renderWatch.reset(); + selection.each(function(data) { + var availableWidth = width - margin.left - margin.right, + availableHeight = height - margin.top - margin.bottom; + + container = d3.select(this); + nv.utils.initSVG(container); + + if (stacked) + data = d3.layout.stack() + .offset('zero') + .values(function(d){ return d.values }) + .y(getY) + (data); + + //add series index and key to each data point for reference + data.forEach(function(series, i) { + series.values.forEach(function(point) { + point.series = i; + point.key = series.key; + }); + }); + + // HACK for negative value stacking + if (stacked) + data[0].values.map(function(d,i) { + var posBase = 0, negBase = 0; + data.map(function(d) { + var f = d.values[i] + f.size = Math.abs(f.y); + if (f.y<0) { + f.y1 = negBase - f.size; + negBase = negBase - f.size; + } else + { + f.y1 = posBase; + posBase = posBase + f.size; + } + }); + }); + + // Setup Scales + // remap and flatten the data for use in calculating the scales' domains + var seriesData = (xDomain && yDomain) ? [] : // if we know xDomain and yDomain, no need to calculate + data.map(function(d) { + return d.values.map(function(d,i) { + return { x: getX(d,i), y: getY(d,i), y0: d.y0, y1: d.y1, yErr: getYerr(d,i) } + }) + }); + + x.domain(xDomain || d3.merge(seriesData).map(function(d) { return d.x })) + .rangeBands(xRange || [0, availableHeight], groupSpacing); + + y.domain(yDomain || d3.extent(d3.merge( + d3.merge(seriesData).map(function(d) { + var domain = d.y; + if (stacked) { + if (d.y > 0){ + domain = d.y1 + d.y + } else { + domain = d.y1 + } + } + var yerr = d.yErr; + if (yerr) { + if (yerr.length) { + return [domain + yerr[0], domain + yerr[1]]; + } else { + yerr = Math.abs(yerr) + return [domain - yerr, domain + yerr]; + } + } else { + return [domain]; + } + })).concat(forceY))) + + if (showValues && !stacked) + y.range(yRange || [(y.domain()[0] < 0 ? valuePadding : 0), availableWidth - (y.domain()[1] > 0 ? valuePadding : 0) ]); + else + y.range(yRange || [0, availableWidth]); + + x0 = x0 || x; + y0 = y0 || d3.scale.linear().domain(y.domain()).range([y(0),y(0)]); + + // Setup containers and skeleton of chart + var wrap = d3.select(this).selectAll('g.nv-wrap.nv-multibarHorizontal').data([data]); + var wrapEnter = wrap.enter().append('g').attr('class', 'nvd3 nv-wrap nv-multibarHorizontal'); + var defsEnter = wrapEnter.append('defs'); + var gEnter = wrapEnter.append('g'); + var g = wrap.select('g'); + + gEnter.append('g').attr('class', 'nv-groups'); + wrap.attr('transform', 'translate(' + margin.left + ',' + margin.top + ')'); + + var groups = wrap.select('.nv-groups').selectAll('.nv-group') + .data(function(d) { return d }, function(d,i) { return i }); + groups.enter().append('g') + .style('stroke-opacity', 1e-6) + .style('fill-opacity', 1e-6); + groups.exit().watchTransition(renderWatch, 'multibarhorizontal: exit groups') + .style('stroke-opacity', 1e-6) + .style('fill-opacity', 1e-6) + .remove(); + groups + .attr('class', function(d,i) { return 'nv-group nv-series-' + i }) + .classed('hover', function(d) { return d.hover }) + .style('fill', function(d,i){ return color(d, i) }) + .style('stroke', function(d,i){ return color(d, i) }); + groups.watchTransition(renderWatch, 'multibarhorizontal: groups') + .style('stroke-opacity', 1) + .style('fill-opacity', .75); + + var bars = groups.selectAll('g.nv-bar') + .data(function(d) { return d.values }); + bars.exit().remove(); + + var barsEnter = bars.enter().append('g') + .attr('transform', function(d,i,j) { + return 'translate(' + y0(stacked ? d.y0 : 0) + ',' + (stacked ? 0 : (j * x.rangeBand() / data.length ) + x(getX(d,i))) + ')' + }); + + barsEnter.append('rect') + .attr('width', 0) + .attr('height', x.rangeBand() / (stacked ? 1 : data.length) ) + + bars + .on('mouseover', function(d,i) { //TODO: figure out why j works above, but not here + d3.select(this).classed('hover', true); + dispatch.elementMouseover({ + data: d, + index: i, + color: d3.select(this).style("fill") + }); + }) + .on('mouseout', function(d,i) { + d3.select(this).classed('hover', false); + dispatch.elementMouseout({ + data: d, + index: i, + color: d3.select(this).style("fill") + }); + }) + .on('mouseout', function(d,i) { + dispatch.elementMouseout({ + data: d, + index: i, + color: d3.select(this).style("fill") + }); + }) + .on('mousemove', function(d,i) { + dispatch.elementMousemove({ + data: d, + index: i, + color: d3.select(this).style("fill") + }); + }) + .on('click', function(d,i) { + dispatch.elementClick({ + data: d, + index: i, + color: d3.select(this).style("fill") + }); + d3.event.stopPropagation(); + }) + .on('dblclick', function(d,i) { + dispatch.elementDblClick({ + data: d, + index: i, + color: d3.select(this).style("fill") + }); + d3.event.stopPropagation(); + }); + + if (getYerr(data[0].values[0], 0)) { + barsEnter.append('polyline'); + + bars.select('polyline') + .attr('fill', 'none') + .attr('stroke', function(d,i,j) { return errorBarColor(d, j, i); }) + .attr('points', function(d,i) { + var xerr = getYerr(d,i) + , mid = 0.8 * x.rangeBand() / ((stacked ? 1 : data.length) * 2); + xerr = xerr.length ? xerr : [-Math.abs(xerr), Math.abs(xerr)]; + xerr = xerr.map(function(e) { return y(e) - y(0); }); + var a = [[xerr[0],-mid], [xerr[0],mid], [xerr[0],0], [xerr[1],0], [xerr[1],-mid], [xerr[1],mid]]; + return a.map(function (path) { return path.join(',') }).join(' '); + }) + .attr('transform', function(d,i) { + var mid = x.rangeBand() / ((stacked ? 1 : data.length) * 2); + return 'translate(' + (getY(d,i) < 0 ? 0 : y(getY(d,i)) - y(0)) + ', ' + mid + ')' + }); + } + + barsEnter.append('text'); + + if (showValues && !stacked) { + bars.select('text') + .attr('text-anchor', function(d,i) { return getY(d,i) < 0 ? 'end' : 'start' }) + .attr('y', x.rangeBand() / (data.length * 2)) + .attr('dy', '.32em') + .text(function(d,i) { + var t = valueFormat(getY(d,i)) + , yerr = getYerr(d,i); + if (yerr === undefined) + return t; + if (!yerr.length) + return t + '±' + valueFormat(Math.abs(yerr)); + return t + '+' + valueFormat(Math.abs(yerr[1])) + '-' + valueFormat(Math.abs(yerr[0])); + }); + bars.watchTransition(renderWatch, 'multibarhorizontal: bars') + .select('text') + .attr('x', function(d,i) { return getY(d,i) < 0 ? -4 : y(getY(d,i)) - y(0) + 4 }) + } else { + bars.selectAll('text').text(''); + } + + if (showBarLabels && !stacked) { + barsEnter.append('text').classed('nv-bar-label',true); + bars.select('text.nv-bar-label') + .attr('text-anchor', function(d,i) { return getY(d,i) < 0 ? 'start' : 'end' }) + .attr('y', x.rangeBand() / (data.length * 2)) + .attr('dy', '.32em') + .text(function(d,i) { return getX(d,i) }); + bars.watchTransition(renderWatch, 'multibarhorizontal: bars') + .select('text.nv-bar-label') + .attr('x', function(d,i) { return getY(d,i) < 0 ? y(0) - y(getY(d,i)) + 4 : -4 }); + } + else { + bars.selectAll('text.nv-bar-label').text(''); + } + + bars + .attr('class', function(d,i) { return getY(d,i) < 0 ? 'nv-bar negative' : 'nv-bar positive'}) + + if (barColor) { + if (!disabled) disabled = data.map(function() { return true }); + bars + .style('fill', function(d,i,j) { return d3.rgb(barColor(d,i)).darker( disabled.map(function(d,i) { return i }).filter(function(d,i){ return !disabled[i] })[j] ).toString(); }) + .style('stroke', function(d,i,j) { return d3.rgb(barColor(d,i)).darker( disabled.map(function(d,i) { return i }).filter(function(d,i){ return !disabled[i] })[j] ).toString(); }); + } + + if (stacked) + bars.watchTransition(renderWatch, 'multibarhorizontal: bars') + .attr('transform', function(d,i) { + return 'translate(' + y(d.y1) + ',' + x(getX(d,i)) + ')' + }) + .select('rect') + .attr('width', function(d,i) { + return Math.abs(y(getY(d,i) + d.y0) - y(d.y0)) + }) + .attr('height', x.rangeBand() ); + else + bars.watchTransition(renderWatch, 'multibarhorizontal: bars') + .attr('transform', function(d,i) { + //TODO: stacked must be all positive or all negative, not both? + return 'translate(' + + (getY(d,i) < 0 ? y(getY(d,i)) : y(0)) + + ',' + + (d.series * x.rangeBand() / data.length + + + x(getX(d,i)) ) + + ')' + }) + .select('rect') + .attr('height', x.rangeBand() / data.length ) + .attr('width', function(d,i) { + return Math.max(Math.abs(y(getY(d,i)) - y(0)),1) + }); + + //store old scales for use in transitions on update + x0 = x.copy(); + y0 = y.copy(); + + }); + + renderWatch.renderEnd('multibarHorizontal immediate'); + return chart; + } + + //============================================================ + // Expose Public Variables + //------------------------------------------------------------ + + chart.dispatch = dispatch; + + chart.options = nv.utils.optionsFunc.bind(chart); + + chart._options = Object.create({}, { + // simple options, just get/set the necessary values + width: {get: function(){return width;}, set: function(_){width=_;}}, + height: {get: function(){return height;}, set: function(_){height=_;}}, + x: {get: function(){return getX;}, set: function(_){getX=_;}}, + y: {get: function(){return getY;}, set: function(_){getY=_;}}, + yErr: {get: function(){return getYerr;}, set: function(_){getYerr=_;}}, + xScale: {get: function(){return x;}, set: function(_){x=_;}}, + yScale: {get: function(){return y;}, set: function(_){y=_;}}, + xDomain: {get: function(){return xDomain;}, set: function(_){xDomain=_;}}, + yDomain: {get: function(){return yDomain;}, set: function(_){yDomain=_;}}, + xRange: {get: function(){return xRange;}, set: function(_){xRange=_;}}, + yRange: {get: function(){return yRange;}, set: function(_){yRange=_;}}, + forceY: {get: function(){return forceY;}, set: function(_){forceY=_;}}, + stacked: {get: function(){return stacked;}, set: function(_){stacked=_;}}, + showValues: {get: function(){return showValues;}, set: function(_){showValues=_;}}, + // this shows the group name, seems pointless? + //showBarLabels: {get: function(){return showBarLabels;}, set: function(_){showBarLabels=_;}}, + disabled: {get: function(){return disabled;}, set: function(_){disabled=_;}}, + id: {get: function(){return id;}, set: function(_){id=_;}}, + valueFormat: {get: function(){return valueFormat;}, set: function(_){valueFormat=_;}}, + valuePadding: {get: function(){return valuePadding;}, set: function(_){valuePadding=_;}}, + groupSpacing:{get: function(){return groupSpacing;}, set: function(_){groupSpacing=_;}}, + + // options that require extra logic in the setter + margin: {get: function(){return margin;}, set: function(_){ + margin.top = _.top !== undefined ? _.top : margin.top; + margin.right = _.right !== undefined ? _.right : margin.right; + margin.bottom = _.bottom !== undefined ? _.bottom : margin.bottom; + margin.left = _.left !== undefined ? _.left : margin.left; + }}, + duration: {get: function(){return duration;}, set: function(_){ + duration = _; + renderWatch.reset(duration); + }}, + color: {get: function(){return color;}, set: function(_){ + color = nv.utils.getColor(_); + }}, + barColor: {get: function(){return barColor;}, set: function(_){ + barColor = _ ? nv.utils.getColor(_) : null; + }}, + errorBarColor: {get: function(){return errorBarColor;}, set: function(_){ + errorBarColor = _ ? nv.utils.getColor(_) : null; + }} + }); + + nv.utils.initOptions(chart); + + return chart; +}; + +nv.models.multiBarHorizontalChart = function() { + "use strict"; + + //============================================================ + // Public Variables with Default Settings + //------------------------------------------------------------ + + var multibar = nv.models.multiBarHorizontal() + , xAxis = nv.models.axis() + , yAxis = nv.models.axis() + , legend = nv.models.legend().height(30) + , controls = nv.models.legend().height(30) + , tooltip = nv.models.tooltip() + ; + + var margin = {top: 30, right: 20, bottom: 50, left: 60} + , width = null + , height = null + , color = nv.utils.defaultColor() + , showControls = true + , controlLabels = {} + , showLegend = true + , showXAxis = true + , showYAxis = true + , stacked = false + , x //can be accessed via chart.xScale() + , y //can be accessed via chart.yScale() + , state = nv.utils.state() + , defaultState = null + , noData = null + , dispatch = d3.dispatch('stateChange', 'changeState','renderEnd') + , controlWidth = function() { return showControls ? 180 : 0 } + , duration = 250 + ; + + state.stacked = false; // DEPRECATED Maintained for backward compatibility + + multibar.stacked(stacked); + + xAxis + .orient('left') + .tickPadding(5) + .showMaxMin(false) + .tickFormat(function(d) { return d }) + ; + yAxis + .orient('bottom') + .tickFormat(d3.format(',.1f')) + ; + + tooltip + .duration(0) + .valueFormatter(function(d, i) { + return yAxis.tickFormat()(d, i); + }) + .headerFormatter(function(d, i) { + return xAxis.tickFormat()(d, i); + }); + + controls.updateState(false); + + //============================================================ + // Private Variables + //------------------------------------------------------------ + + var stateGetter = function(data) { + return function(){ + return { + active: data.map(function(d) { return !d.disabled }), + stacked: stacked + }; + } + }; + + var stateSetter = function(data) { + return function(state) { + if (state.stacked !== undefined) + stacked = state.stacked; + if (state.active !== undefined) + data.forEach(function(series,i) { + series.disabled = !state.active[i]; + }); + } + }; + + var renderWatch = nv.utils.renderWatch(dispatch, duration); + + function chart(selection) { + renderWatch.reset(); + renderWatch.models(multibar); + if (showXAxis) renderWatch.models(xAxis); + if (showYAxis) renderWatch.models(yAxis); + + selection.each(function(data) { + var container = d3.select(this), + that = this; + nv.utils.initSVG(container); + var availableWidth = nv.utils.availableWidth(width, container, margin), + availableHeight = nv.utils.availableHeight(height, container, margin); + + chart.update = function() { container.transition().duration(duration).call(chart) }; + chart.container = this; + + stacked = multibar.stacked(); + + state + .setter(stateSetter(data), chart.update) + .getter(stateGetter(data)) + .update(); + + // DEPRECATED set state.disableddisabled + state.disabled = data.map(function(d) { return !!d.disabled }); + + if (!defaultState) { + var key; + defaultState = {}; + for (key in state) { + if (state[key] instanceof Array) + defaultState[key] = state[key].slice(0); + else + defaultState[key] = state[key]; + } + } + + // Display No Data message if there's nothing to show. + if (!data || !data.length || !data.filter(function(d) { return d.values.length }).length) { + nv.utils.noData(chart, container) + return chart; + } else { + container.selectAll('.nv-noData').remove(); + } + + // Setup Scales + x = multibar.xScale(); + y = multibar.yScale(); + + // Setup containers and skeleton of chart + var wrap = container.selectAll('g.nv-wrap.nv-multiBarHorizontalChart').data([data]); + var gEnter = wrap.enter().append('g').attr('class', 'nvd3 nv-wrap nv-multiBarHorizontalChart').append('g'); + var g = wrap.select('g'); + + gEnter.append('g').attr('class', 'nv-x nv-axis'); + gEnter.append('g').attr('class', 'nv-y nv-axis') + .append('g').attr('class', 'nv-zeroLine') + .append('line'); + gEnter.append('g').attr('class', 'nv-barsWrap'); + gEnter.append('g').attr('class', 'nv-legendWrap'); + gEnter.append('g').attr('class', 'nv-controlsWrap'); + + // Legend + if (showLegend) { + legend.width(availableWidth - controlWidth()); + + g.select('.nv-legendWrap') + .datum(data) + .call(legend); + + if ( margin.top != legend.height()) { + margin.top = legend.height(); + availableHeight = nv.utils.availableHeight(height, container, margin); + } + + g.select('.nv-legendWrap') + .attr('transform', 'translate(' + controlWidth() + ',' + (-margin.top) +')'); + } + + // Controls + if (showControls) { + var controlsData = [ + { key: controlLabels.grouped || 'Grouped', disabled: multibar.stacked() }, + { key: controlLabels.stacked || 'Stacked', disabled: !multibar.stacked() } + ]; + + controls.width(controlWidth()).color(['#444', '#444', '#444']); + g.select('.nv-controlsWrap') + .datum(controlsData) + .attr('transform', 'translate(0,' + (-margin.top) +')') + .call(controls); + } + + wrap.attr('transform', 'translate(' + margin.left + ',' + margin.top + ')'); + + // Main Chart Component(s) + multibar + .disabled(data.map(function(series) { return series.disabled })) + .width(availableWidth) + .height(availableHeight) + .color(data.map(function(d,i) { + return d.color || color(d, i); + }).filter(function(d,i) { return !data[i].disabled })); + + var barsWrap = g.select('.nv-barsWrap') + .datum(data.filter(function(d) { return !d.disabled })); + + barsWrap.transition().call(multibar); + + // Setup Axes + if (showXAxis) { + xAxis + .scale(x) + ._ticks( nv.utils.calcTicksY(availableHeight/24, data) ) + .tickSize(-availableWidth, 0); + + g.select('.nv-x.nv-axis').call(xAxis); + + var xTicks = g.select('.nv-x.nv-axis').selectAll('g'); + + xTicks + .selectAll('line, text'); + } + + if (showYAxis) { + yAxis + .scale(y) + ._ticks( nv.utils.calcTicksX(availableWidth/100, data) ) + .tickSize( -availableHeight, 0); + + g.select('.nv-y.nv-axis') + .attr('transform', 'translate(0,' + availableHeight + ')'); + g.select('.nv-y.nv-axis').call(yAxis); + } + + // Zero line + g.select(".nv-zeroLine line") + .attr("x1", y(0)) + .attr("x2", y(0)) + .attr("y1", 0) + .attr("y2", -availableHeight) + ; + + //============================================================ + // Event Handling/Dispatching (in chart's scope) + //------------------------------------------------------------ + + legend.dispatch.on('stateChange', function(newState) { + for (var key in newState) + state[key] = newState[key]; + dispatch.stateChange(state); + chart.update(); + }); + + controls.dispatch.on('legendClick', function(d,i) { + if (!d.disabled) return; + controlsData = controlsData.map(function(s) { + s.disabled = true; + return s; + }); + d.disabled = false; + + switch (d.key) { + case 'Grouped': + multibar.stacked(false); + break; + case 'Stacked': + multibar.stacked(true); + break; + } + + state.stacked = multibar.stacked(); + dispatch.stateChange(state); + stacked = multibar.stacked(); + + chart.update(); + }); + + // Update chart from a state object passed to event handler + dispatch.on('changeState', function(e) { + + if (typeof e.disabled !== 'undefined') { + data.forEach(function(series,i) { + series.disabled = e.disabled[i]; + }); + + state.disabled = e.disabled; + } + + if (typeof e.stacked !== 'undefined') { + multibar.stacked(e.stacked); + state.stacked = e.stacked; + stacked = e.stacked; + } + + chart.update(); + }); + }); + renderWatch.renderEnd('multibar horizontal chart immediate'); + return chart; + } + + //============================================================ + // Event Handling/Dispatching (out of chart's scope) + //------------------------------------------------------------ + + multibar.dispatch.on('elementMouseover.tooltip', function(evt) { + evt.value = chart.x()(evt.data); + evt['series'] = { + key: evt.data.key, + value: chart.y()(evt.data), + color: evt.color + }; + tooltip.data(evt).hidden(false); + }); + + multibar.dispatch.on('elementMouseout.tooltip', function(evt) { + tooltip.hidden(true); + }); + + multibar.dispatch.on('elementMousemove.tooltip', function(evt) { + tooltip.position({top: d3.event.pageY, left: d3.event.pageX})(); + }); + + //============================================================ + // Expose Public Variables + //------------------------------------------------------------ + + // expose chart's sub-components + chart.dispatch = dispatch; + chart.multibar = multibar; + chart.legend = legend; + chart.controls = controls; + chart.xAxis = xAxis; + chart.yAxis = yAxis; + chart.state = state; + chart.tooltip = tooltip; + + chart.options = nv.utils.optionsFunc.bind(chart); + + chart._options = Object.create({}, { + // simple options, just get/set the necessary values + width: {get: function(){return width;}, set: function(_){width=_;}}, + height: {get: function(){return height;}, set: function(_){height=_;}}, + showLegend: {get: function(){return showLegend;}, set: function(_){showLegend=_;}}, + showControls: {get: function(){return showControls;}, set: function(_){showControls=_;}}, + controlLabels: {get: function(){return controlLabels;}, set: function(_){controlLabels=_;}}, + showXAxis: {get: function(){return showXAxis;}, set: function(_){showXAxis=_;}}, + showYAxis: {get: function(){return showYAxis;}, set: function(_){showYAxis=_;}}, + defaultState: {get: function(){return defaultState;}, set: function(_){defaultState=_;}}, + noData: {get: function(){return noData;}, set: function(_){noData=_;}}, + + // deprecated options + tooltips: {get: function(){return tooltip.enabled();}, set: function(_){ + // deprecated after 1.7.1 + nv.deprecated('tooltips', 'use chart.tooltip.enabled() instead'); + tooltip.enabled(!!_); + }}, + tooltipContent: {get: function(){return tooltip.contentGenerator();}, set: function(_){ + // deprecated after 1.7.1 + nv.deprecated('tooltipContent', 'use chart.tooltip.contentGenerator() instead'); + tooltip.contentGenerator(_); + }}, + + // options that require extra logic in the setter + margin: {get: function(){return margin;}, set: function(_){ + margin.top = _.top !== undefined ? _.top : margin.top; + margin.right = _.right !== undefined ? _.right : margin.right; + margin.bottom = _.bottom !== undefined ? _.bottom : margin.bottom; + margin.left = _.left !== undefined ? _.left : margin.left; + }}, + duration: {get: function(){return duration;}, set: function(_){ + duration = _; + renderWatch.reset(duration); + multibar.duration(duration); + xAxis.duration(duration); + yAxis.duration(duration); + }}, + color: {get: function(){return color;}, set: function(_){ + color = nv.utils.getColor(_); + legend.color(color); + }}, + barColor: {get: function(){return multibar.barColor;}, set: function(_){ + multibar.barColor(_); + legend.color(function(d,i) {return d3.rgb('#ccc').darker(i * 1.5).toString();}) + }} + }); + + nv.utils.inheritOptions(chart, multibar); + nv.utils.initOptions(chart); + + return chart; +}; +nv.models.multiChart = function() { + "use strict"; + + //============================================================ + // Public Variables with Default Settings + //------------------------------------------------------------ + + var margin = {top: 30, right: 20, bottom: 50, left: 60}, + color = nv.utils.defaultColor(), + width = null, + height = null, + showLegend = true, + noData = null, + yDomain1, + yDomain2, + getX = function(d) { return d.x }, + getY = function(d) { return d.y}, + interpolate = 'monotone', + useVoronoi = true + ; + + //============================================================ + // Private Variables + //------------------------------------------------------------ + + var x = d3.scale.linear(), + yScale1 = d3.scale.linear(), + yScale2 = d3.scale.linear(), + + lines1 = nv.models.line().yScale(yScale1), + lines2 = nv.models.line().yScale(yScale2), + + bars1 = nv.models.multiBar().stacked(false).yScale(yScale1), + bars2 = nv.models.multiBar().stacked(false).yScale(yScale2), + + stack1 = nv.models.stackedArea().yScale(yScale1), + stack2 = nv.models.stackedArea().yScale(yScale2), + + xAxis = nv.models.axis().scale(x).orient('bottom').tickPadding(5), + yAxis1 = nv.models.axis().scale(yScale1).orient('left'), + yAxis2 = nv.models.axis().scale(yScale2).orient('right'), + + legend = nv.models.legend().height(30), + tooltip = nv.models.tooltip(), + dispatch = d3.dispatch(); + + function chart(selection) { + selection.each(function(data) { + var container = d3.select(this), + that = this; + nv.utils.initSVG(container); + + chart.update = function() { container.transition().call(chart); }; + chart.container = this; + + var availableWidth = nv.utils.availableWidth(width, container, margin), + availableHeight = nv.utils.availableHeight(height, container, margin); + + var dataLines1 = data.filter(function(d) {return d.type == 'line' && d.yAxis == 1}); + var dataLines2 = data.filter(function(d) {return d.type == 'line' && d.yAxis == 2}); + var dataBars1 = data.filter(function(d) {return d.type == 'bar' && d.yAxis == 1}); + var dataBars2 = data.filter(function(d) {return d.type == 'bar' && d.yAxis == 2}); + var dataStack1 = data.filter(function(d) {return d.type == 'area' && d.yAxis == 1}); + var dataStack2 = data.filter(function(d) {return d.type == 'area' && d.yAxis == 2}); + + // Display noData message if there's nothing to show. + if (!data || !data.length || !data.filter(function(d) { return d.values.length }).length) { + nv.utils.noData(chart, container); + return chart; + } else { + container.selectAll('.nv-noData').remove(); + } + + var series1 = data.filter(function(d) {return !d.disabled && d.yAxis == 1}) + .map(function(d) { + return d.values.map(function(d,i) { + return { x: d.x, y: d.y } + }) + }); + + var series2 = data.filter(function(d) {return !d.disabled && d.yAxis == 2}) + .map(function(d) { + return d.values.map(function(d,i) { + return { x: d.x, y: d.y } + }) + }); + + x .domain(d3.extent(d3.merge(series1.concat(series2)), function(d) { return d.x } )) + .range([0, availableWidth]); + + var wrap = container.selectAll('g.wrap.multiChart').data([data]); + var gEnter = wrap.enter().append('g').attr('class', 'wrap nvd3 multiChart').append('g'); + + gEnter.append('g').attr('class', 'nv-x nv-axis'); + gEnter.append('g').attr('class', 'nv-y1 nv-axis'); + gEnter.append('g').attr('class', 'nv-y2 nv-axis'); + gEnter.append('g').attr('class', 'lines1Wrap'); + gEnter.append('g').attr('class', 'lines2Wrap'); + gEnter.append('g').attr('class', 'bars1Wrap'); + gEnter.append('g').attr('class', 'bars2Wrap'); + gEnter.append('g').attr('class', 'stack1Wrap'); + gEnter.append('g').attr('class', 'stack2Wrap'); + gEnter.append('g').attr('class', 'legendWrap'); + + var g = wrap.select('g'); + + var color_array = data.map(function(d,i) { + return data[i].color || color(d, i); + }); + + if (showLegend) { + var legendWidth = legend.align() ? availableWidth / 2 : availableWidth; + var legendXPosition = legend.align() ? legendWidth : 0; + + legend.width(legendWidth); + legend.color(color_array); + + g.select('.legendWrap') + .datum(data.map(function(series) { + series.originalKey = series.originalKey === undefined ? series.key : series.originalKey; + series.key = series.originalKey + (series.yAxis == 1 ? '' : ' (right axis)'); + return series; + })) + .call(legend); + + if ( margin.top != legend.height()) { + margin.top = legend.height(); + availableHeight = nv.utils.availableHeight(height, container, margin); + } + + g.select('.legendWrap') + .attr('transform', 'translate(' + legendXPosition + ',' + (-margin.top) +')'); + } + + lines1 + .width(availableWidth) + .height(availableHeight) + .interpolate(interpolate) + .color(color_array.filter(function(d,i) { return !data[i].disabled && data[i].yAxis == 1 && data[i].type == 'line'})); + lines2 + .width(availableWidth) + .height(availableHeight) + .interpolate(interpolate) + .color(color_array.filter(function(d,i) { return !data[i].disabled && data[i].yAxis == 2 && data[i].type == 'line'})); + bars1 + .width(availableWidth) + .height(availableHeight) + .color(color_array.filter(function(d,i) { return !data[i].disabled && data[i].yAxis == 1 && data[i].type == 'bar'})); + bars2 + .width(availableWidth) + .height(availableHeight) + .color(color_array.filter(function(d,i) { return !data[i].disabled && data[i].yAxis == 2 && data[i].type == 'bar'})); + stack1 + .width(availableWidth) + .height(availableHeight) + .color(color_array.filter(function(d,i) { return !data[i].disabled && data[i].yAxis == 1 && data[i].type == 'area'})); + stack2 + .width(availableWidth) + .height(availableHeight) + .color(color_array.filter(function(d,i) { return !data[i].disabled && data[i].yAxis == 2 && data[i].type == 'area'})); + + g.attr('transform', 'translate(' + margin.left + ',' + margin.top + ')'); + + var lines1Wrap = g.select('.lines1Wrap') + .datum(dataLines1.filter(function(d){return !d.disabled})); + var bars1Wrap = g.select('.bars1Wrap') + .datum(dataBars1.filter(function(d){return !d.disabled})); + var stack1Wrap = g.select('.stack1Wrap') + .datum(dataStack1.filter(function(d){return !d.disabled})); + var lines2Wrap = g.select('.lines2Wrap') + .datum(dataLines2.filter(function(d){return !d.disabled})); + var bars2Wrap = g.select('.bars2Wrap') + .datum(dataBars2.filter(function(d){return !d.disabled})); + var stack2Wrap = g.select('.stack2Wrap') + .datum(dataStack2.filter(function(d){return !d.disabled})); + + var extraValue1 = dataStack1.length ? dataStack1.map(function(a){return a.values}).reduce(function(a,b){ + return a.map(function(aVal,i){return {x: aVal.x, y: aVal.y + b[i].y}}) + }).concat([{x:0, y:0}]) : []; + var extraValue2 = dataStack2.length ? dataStack2.map(function(a){return a.values}).reduce(function(a,b){ + return a.map(function(aVal,i){return {x: aVal.x, y: aVal.y + b[i].y}}) + }).concat([{x:0, y:0}]) : []; + + yScale1 .domain(yDomain1 || d3.extent(d3.merge(series1).concat(extraValue1), function(d) { return d.y } )) + .range([0, availableHeight]); + + yScale2 .domain(yDomain2 || d3.extent(d3.merge(series2).concat(extraValue2), function(d) { return d.y } )) + .range([0, availableHeight]); + + lines1.yDomain(yScale1.domain()); + bars1.yDomain(yScale1.domain()); + stack1.yDomain(yScale1.domain()); + + lines2.yDomain(yScale2.domain()); + bars2.yDomain(yScale2.domain()); + stack2.yDomain(yScale2.domain()); + + if(dataStack1.length){d3.transition(stack1Wrap).call(stack1);} + if(dataStack2.length){d3.transition(stack2Wrap).call(stack2);} + + if(dataBars1.length){d3.transition(bars1Wrap).call(bars1);} + if(dataBars2.length){d3.transition(bars2Wrap).call(bars2);} + + if(dataLines1.length){d3.transition(lines1Wrap).call(lines1);} + if(dataLines2.length){d3.transition(lines2Wrap).call(lines2);} + + xAxis + ._ticks( nv.utils.calcTicksX(availableWidth/100, data) ) + .tickSize(-availableHeight, 0); + + g.select('.nv-x.nv-axis') + .attr('transform', 'translate(0,' + availableHeight + ')'); + d3.transition(g.select('.nv-x.nv-axis')) + .call(xAxis); + + yAxis1 + ._ticks( nv.utils.calcTicksY(availableHeight/36, data) ) + .tickSize( -availableWidth, 0); + + + d3.transition(g.select('.nv-y1.nv-axis')) + .call(yAxis1); + + yAxis2 + ._ticks( nv.utils.calcTicksY(availableHeight/36, data) ) + .tickSize( -availableWidth, 0); + + d3.transition(g.select('.nv-y2.nv-axis')) + .call(yAxis2); + + g.select('.nv-y1.nv-axis') + .classed('nv-disabled', series1.length ? false : true) + .attr('transform', 'translate(' + x.range()[0] + ',0)'); + + g.select('.nv-y2.nv-axis') + .classed('nv-disabled', series2.length ? false : true) + .attr('transform', 'translate(' + x.range()[1] + ',0)'); + + legend.dispatch.on('stateChange', function(newState) { + chart.update(); + }); + + //============================================================ + // Event Handling/Dispatching + //------------------------------------------------------------ + + function mouseover_line(evt) { + var yaxis = data[evt.seriesIndex].yAxis === 2 ? yAxis2 : yAxis1; + evt.value = evt.point.x; + evt.series = { + value: evt.point.y, + color: evt.point.color + }; + tooltip + .duration(100) + .valueFormatter(function(d, i) { + return yaxis.tickFormat()(d, i); + }) + .data(evt) + .position(evt.pos) + .hidden(false); + } + + function mouseover_stack(evt) { + var yaxis = data[evt.seriesIndex].yAxis === 2 ? yAxis2 : yAxis1; + evt.point['x'] = stack1.x()(evt.point); + evt.point['y'] = stack1.y()(evt.point); + tooltip + .duration(100) + .valueFormatter(function(d, i) { + return yaxis.tickFormat()(d, i); + }) + .data(evt) + .position(evt.pos) + .hidden(false); + } + + function mouseover_bar(evt) { + var yaxis = data[evt.data.series].yAxis === 2 ? yAxis2 : yAxis1; + + evt.value = bars1.x()(evt.data); + evt['series'] = { + value: bars1.y()(evt.data), + color: evt.color + }; + tooltip + .duration(0) + .valueFormatter(function(d, i) { + return yaxis.tickFormat()(d, i); + }) + .data(evt) + .hidden(false); + } + + lines1.dispatch.on('elementMouseover.tooltip', mouseover_line); + lines2.dispatch.on('elementMouseover.tooltip', mouseover_line); + lines1.dispatch.on('elementMouseout.tooltip', function(evt) { + tooltip.hidden(true) + }); + lines2.dispatch.on('elementMouseout.tooltip', function(evt) { + tooltip.hidden(true) + }); + + stack1.dispatch.on('elementMouseover.tooltip', mouseover_stack); + stack2.dispatch.on('elementMouseover.tooltip', mouseover_stack); + stack1.dispatch.on('elementMouseout.tooltip', function(evt) { + tooltip.hidden(true) + }); + stack2.dispatch.on('elementMouseout.tooltip', function(evt) { + tooltip.hidden(true) + }); + + bars1.dispatch.on('elementMouseover.tooltip', mouseover_bar); + bars2.dispatch.on('elementMouseover.tooltip', mouseover_bar); + + bars1.dispatch.on('elementMouseout.tooltip', function(evt) { + tooltip.hidden(true); + }); + bars2.dispatch.on('elementMouseout.tooltip', function(evt) { + tooltip.hidden(true); + }); + bars1.dispatch.on('elementMousemove.tooltip', function(evt) { + tooltip.position({top: d3.event.pageY, left: d3.event.pageX})(); + }); + bars2.dispatch.on('elementMousemove.tooltip', function(evt) { + tooltip.position({top: d3.event.pageY, left: d3.event.pageX})(); + }); + + }); + + return chart; + } + + //============================================================ + // Global getters and setters + //------------------------------------------------------------ + + chart.dispatch = dispatch; + chart.lines1 = lines1; + chart.lines2 = lines2; + chart.bars1 = bars1; + chart.bars2 = bars2; + chart.stack1 = stack1; + chart.stack2 = stack2; + chart.xAxis = xAxis; + chart.yAxis1 = yAxis1; + chart.yAxis2 = yAxis2; + chart.tooltip = tooltip; + + chart.options = nv.utils.optionsFunc.bind(chart); + + chart._options = Object.create({}, { + // simple options, just get/set the necessary values + width: {get: function(){return width;}, set: function(_){width=_;}}, + height: {get: function(){return height;}, set: function(_){height=_;}}, + showLegend: {get: function(){return showLegend;}, set: function(_){showLegend=_;}}, + yDomain1: {get: function(){return yDomain1;}, set: function(_){yDomain1=_;}}, + yDomain2: {get: function(){return yDomain2;}, set: function(_){yDomain2=_;}}, + noData: {get: function(){return noData;}, set: function(_){noData=_;}}, + interpolate: {get: function(){return interpolate;}, set: function(_){interpolate=_;}}, + + // deprecated options + tooltips: {get: function(){return tooltip.enabled();}, set: function(_){ + // deprecated after 1.7.1 + nv.deprecated('tooltips', 'use chart.tooltip.enabled() instead'); + tooltip.enabled(!!_); + }}, + tooltipContent: {get: function(){return tooltip.contentGenerator();}, set: function(_){ + // deprecated after 1.7.1 + nv.deprecated('tooltipContent', 'use chart.tooltip.contentGenerator() instead'); + tooltip.contentGenerator(_); + }}, + + // options that require extra logic in the setter + margin: {get: function(){return margin;}, set: function(_){ + margin.top = _.top !== undefined ? _.top : margin.top; + margin.right = _.right !== undefined ? _.right : margin.right; + margin.bottom = _.bottom !== undefined ? _.bottom : margin.bottom; + margin.left = _.left !== undefined ? _.left : margin.left; + }}, + color: {get: function(){return color;}, set: function(_){ + color = nv.utils.getColor(_); + }}, + x: {get: function(){return getX;}, set: function(_){ + getX = _; + lines1.x(_); + lines2.x(_); + bars1.x(_); + bars2.x(_); + stack1.x(_); + stack2.x(_); + }}, + y: {get: function(){return getY;}, set: function(_){ + getY = _; + lines1.y(_); + lines2.y(_); + stack1.y(_); + stack2.y(_); + bars1.y(_); + bars2.y(_); + }}, + useVoronoi: {get: function(){return useVoronoi;}, set: function(_){ + useVoronoi=_; + lines1.useVoronoi(_); + lines2.useVoronoi(_); + stack1.useVoronoi(_); + stack2.useVoronoi(_); + }} + }); + + nv.utils.initOptions(chart); + + return chart; +}; + + +nv.models.ohlcBar = function() { + "use strict"; + + //============================================================ + // Public Variables with Default Settings + //------------------------------------------------------------ + + var margin = {top: 0, right: 0, bottom: 0, left: 0} + , width = null + , height = null + , id = Math.floor(Math.random() * 10000) //Create semi-unique ID in case user doesn't select one + , container = null + , x = d3.scale.linear() + , y = d3.scale.linear() + , getX = function(d) { return d.x } + , getY = function(d) { return d.y } + , getOpen = function(d) { return d.open } + , getClose = function(d) { return d.close } + , getHigh = function(d) { return d.high } + , getLow = function(d) { return d.low } + , forceX = [] + , forceY = [] + , padData = false // If true, adds half a data points width to front and back, for lining up a line chart with a bar chart + , clipEdge = true + , color = nv.utils.defaultColor() + , interactive = false + , xDomain + , yDomain + , xRange + , yRange + , dispatch = d3.dispatch('tooltipShow', 'tooltipHide', 'stateChange', 'changeState', 'renderEnd', 'chartClick', 'elementClick', 'elementDblClick', 'elementMouseover', 'elementMouseout', 'elementMousemove') + ; + + //============================================================ + // Private Variables + //------------------------------------------------------------ + + function chart(selection) { + selection.each(function(data) { + container = d3.select(this); + var availableWidth = nv.utils.availableWidth(width, container, margin), + availableHeight = nv.utils.availableHeight(height, container, margin); + + nv.utils.initSVG(container); + + // ohlc bar width. + var w = (availableWidth / data[0].values.length) * .9; + + // Setup Scales + x.domain(xDomain || d3.extent(data[0].values.map(getX).concat(forceX) )); + + if (padData) + x.range(xRange || [availableWidth * .5 / data[0].values.length, availableWidth * (data[0].values.length - .5) / data[0].values.length ]); + else + x.range(xRange || [5 + w/2, availableWidth - w/2 - 5]); + + y.domain(yDomain || [ + d3.min(data[0].values.map(getLow).concat(forceY)), + d3.max(data[0].values.map(getHigh).concat(forceY)) + ] + ).range(yRange || [availableHeight, 0]); + + // If scale's domain don't have a range, slightly adjust to make one... so a chart can show a single data point + if (x.domain()[0] === x.domain()[1]) + x.domain()[0] ? + x.domain([x.domain()[0] - x.domain()[0] * 0.01, x.domain()[1] + x.domain()[1] * 0.01]) + : x.domain([-1,1]); + + if (y.domain()[0] === y.domain()[1]) + y.domain()[0] ? + y.domain([y.domain()[0] + y.domain()[0] * 0.01, y.domain()[1] - y.domain()[1] * 0.01]) + : y.domain([-1,1]); + + // Setup containers and skeleton of chart + var wrap = d3.select(this).selectAll('g.nv-wrap.nv-ohlcBar').data([data[0].values]); + var wrapEnter = wrap.enter().append('g').attr('class', 'nvd3 nv-wrap nv-ohlcBar'); + var defsEnter = wrapEnter.append('defs'); + var gEnter = wrapEnter.append('g'); + var g = wrap.select('g'); + + gEnter.append('g').attr('class', 'nv-ticks'); + + wrap.attr('transform', 'translate(' + margin.left + ',' + margin.top + ')'); + + container + .on('click', function(d,i) { + dispatch.chartClick({ + data: d, + index: i, + pos: d3.event, + id: id + }); + }); + + defsEnter.append('clipPath') + .attr('id', 'nv-chart-clip-path-' + id) + .append('rect'); + + wrap.select('#nv-chart-clip-path-' + id + ' rect') + .attr('width', availableWidth) + .attr('height', availableHeight); + + g .attr('clip-path', clipEdge ? 'url(#nv-chart-clip-path-' + id + ')' : ''); + + var ticks = wrap.select('.nv-ticks').selectAll('.nv-tick') + .data(function(d) { return d }); + ticks.exit().remove(); + + ticks.enter().append('path') + .attr('class', function(d,i,j) { return (getOpen(d,i) > getClose(d,i) ? 'nv-tick negative' : 'nv-tick positive') + ' nv-tick-' + j + '-' + i }) + .attr('d', function(d,i) { + return 'm0,0l0,' + + (y(getOpen(d,i)) + - y(getHigh(d,i))) + + 'l' + + (-w/2) + + ',0l' + + (w/2) + + ',0l0,' + + (y(getLow(d,i)) - y(getOpen(d,i))) + + 'l0,' + + (y(getClose(d,i)) + - y(getLow(d,i))) + + 'l' + + (w/2) + + ',0l' + + (-w/2) + + ',0z'; + }) + .attr('transform', function(d,i) { return 'translate(' + x(getX(d,i)) + ',' + y(getHigh(d,i)) + ')'; }) + .attr('fill', function(d,i) { return color[0]; }) + .attr('stroke', function(d,i) { return color[0]; }) + .attr('x', 0 ) + .attr('y', function(d,i) { return y(Math.max(0, getY(d,i))) }) + .attr('height', function(d,i) { return Math.abs(y(getY(d,i)) - y(0)) }); + + // the bar colors are controlled by CSS currently + ticks.attr('class', function(d,i,j) { + return (getOpen(d,i) > getClose(d,i) ? 'nv-tick negative' : 'nv-tick positive') + ' nv-tick-' + j + '-' + i; + }); + + d3.transition(ticks) + .attr('transform', function(d,i) { return 'translate(' + x(getX(d,i)) + ',' + y(getHigh(d,i)) + ')'; }) + .attr('d', function(d,i) { + var w = (availableWidth / data[0].values.length) * .9; + return 'm0,0l0,' + + (y(getOpen(d,i)) + - y(getHigh(d,i))) + + 'l' + + (-w/2) + + ',0l' + + (w/2) + + ',0l0,' + + (y(getLow(d,i)) + - y(getOpen(d,i))) + + 'l0,' + + (y(getClose(d,i)) + - y(getLow(d,i))) + + 'l' + + (w/2) + + ',0l' + + (-w/2) + + ',0z'; + }); + }); + + return chart; + } + + + //Create methods to allow outside functions to highlight a specific bar. + chart.highlightPoint = function(pointIndex, isHoverOver) { + chart.clearHighlights(); + container.select(".nv-ohlcBar .nv-tick-0-" + pointIndex) + .classed("hover", isHoverOver) + ; + }; + + chart.clearHighlights = function() { + container.select(".nv-ohlcBar .nv-tick.hover") + .classed("hover", false) + ; + }; + + //============================================================ + // Expose Public Variables + //------------------------------------------------------------ + + chart.dispatch = dispatch; + chart.options = nv.utils.optionsFunc.bind(chart); + + chart._options = Object.create({}, { + // simple options, just get/set the necessary values + width: {get: function(){return width;}, set: function(_){width=_;}}, + height: {get: function(){return height;}, set: function(_){height=_;}}, + xScale: {get: function(){return x;}, set: function(_){x=_;}}, + yScale: {get: function(){return y;}, set: function(_){y=_;}}, + xDomain: {get: function(){return xDomain;}, set: function(_){xDomain=_;}}, + yDomain: {get: function(){return yDomain;}, set: function(_){yDomain=_;}}, + xRange: {get: function(){return xRange;}, set: function(_){xRange=_;}}, + yRange: {get: function(){return yRange;}, set: function(_){yRange=_;}}, + forceX: {get: function(){return forceX;}, set: function(_){forceX=_;}}, + forceY: {get: function(){return forceY;}, set: function(_){forceY=_;}}, + padData: {get: function(){return padData;}, set: function(_){padData=_;}}, + clipEdge: {get: function(){return clipEdge;}, set: function(_){clipEdge=_;}}, + id: {get: function(){return id;}, set: function(_){id=_;}}, + interactive: {get: function(){return interactive;}, set: function(_){interactive=_;}}, + + x: {get: function(){return getX;}, set: function(_){getX=_;}}, + y: {get: function(){return getY;}, set: function(_){getY=_;}}, + open: {get: function(){return getOpen();}, set: function(_){getOpen=_;}}, + close: {get: function(){return getClose();}, set: function(_){getClose=_;}}, + high: {get: function(){return getHigh;}, set: function(_){getHigh=_;}}, + low: {get: function(){return getLow;}, set: function(_){getLow=_;}}, + + // options that require extra logic in the setter + margin: {get: function(){return margin;}, set: function(_){ + margin.top = _.top != undefined ? _.top : margin.top; + margin.right = _.right != undefined ? _.right : margin.right; + margin.bottom = _.bottom != undefined ? _.bottom : margin.bottom; + margin.left = _.left != undefined ? _.left : margin.left; + }}, + color: {get: function(){return color;}, set: function(_){ + color = nv.utils.getColor(_); + }} + }); + + nv.utils.initOptions(chart); + return chart; +}; +// Code adapted from Jason Davies' "Parallel Coordinates" +// http://bl.ocks.org/jasondavies/1341281 +nv.models.parallelCoordinates = function() { + "use strict"; + + //============================================================ + // Public Variables with Default Settings + //------------------------------------------------------------ + + var margin = {top: 30, right: 0, bottom: 10, left: 0} + , width = null + , height = null + , x = d3.scale.ordinal() + , y = {} + , dimensionNames = [] + , dimensionFormats = [] + , color = nv.utils.defaultColor() + , filters = [] + , active = [] + , dragging = [] + , lineTension = 1 + , dispatch = d3.dispatch('brush', 'elementMouseover', 'elementMouseout') + ; + + //============================================================ + // Private Variables + //------------------------------------------------------------ + + function chart(selection) { + selection.each(function(data) { + var container = d3.select(this); + var availableWidth = nv.utils.availableWidth(width, container, margin), + availableHeight = nv.utils.availableHeight(height, container, margin); + + nv.utils.initSVG(container); + + active = data; //set all active before first brush call + + // Setup Scales + x.rangePoints([0, availableWidth], 1).domain(dimensionNames); + + //Set as true if all values on an axis are missing. + var onlyNanValues = {}; + // Extract the list of dimensions and create a scale for each. + dimensionNames.forEach(function(d) { + var extent = d3.extent(data, function(p) { return +p[d]; }); + onlyNanValues[d] = false; + //If there is no values to display on an axis, set the extent to 0 + if (extent[0] === undefined) { + onlyNanValues[d] = true; + extent[0] = 0; + extent[1] = 0; + } + //Scale axis if there is only one value + if (extent[0] === extent[1]) { + extent[0] = extent[0] - 1; + extent[1] = extent[1] + 1; + } + //Use 90% of (availableHeight - 12) for the axis range, 12 reprensenting the space necessary to display "undefined values" text. + //The remaining 10% are used to display the missingValue line. + y[d] = d3.scale.linear() + .domain(extent) + .range([(availableHeight - 12) * 0.9, 0]); + + y[d].brush = d3.svg.brush().y(y[d]).on('brush', brush); + + return d != 'name'; + }); + + // Setup containers and skeleton of chart + var wrap = container.selectAll('g.nv-wrap.nv-parallelCoordinates').data([data]); + var wrapEnter = wrap.enter().append('g').attr('class', 'nvd3 nv-wrap nv-parallelCoordinates'); + var gEnter = wrapEnter.append('g'); + var g = wrap.select('g'); + + gEnter.append('g').attr('class', 'nv-parallelCoordinates background'); + gEnter.append('g').attr('class', 'nv-parallelCoordinates foreground'); + gEnter.append('g').attr('class', 'nv-parallelCoordinates missingValuesline'); + + wrap.attr('transform', 'translate(' + margin.left + ',' + margin.top + ')'); + + var line = d3.svg.line().interpolate('cardinal').tension(lineTension), + axis = d3.svg.axis().orient('left'), + axisDrag = d3.behavior.drag() + .on('dragstart', dragStart) + .on('drag', dragMove) + .on('dragend', dragEnd); + + //Add missing value line at the bottom of the chart + var missingValuesline, missingValueslineText; + var step = x.range()[1] - x.range()[0]; + var axisWithMissingValues = []; + var lineData = [0 + step / 2, availableHeight - 12, availableWidth - step / 2, availableHeight - 12]; + missingValuesline = wrap.select('.missingValuesline').selectAll('line').data([lineData]); + missingValuesline.enter().append('line'); + missingValuesline.exit().remove(); + missingValuesline.attr("x1", function(d) { return d[0]; }) + .attr("y1", function(d) { return d[1]; }) + .attr("x2", function(d) { return d[2]; }) + .attr("y2", function(d) { return d[3]; }); + + //Add the text "undefined values" under the missing value line + missingValueslineText = wrap.select('.missingValuesline').selectAll('text').data(["undefined values"]); + missingValueslineText.append('text').data(["undefined values"]); + missingValueslineText.enter().append('text'); + missingValueslineText.exit().remove(); + missingValueslineText.attr("y", availableHeight) + //To have the text right align with the missingValues line, substract 92 representing the text size. + .attr("x", availableWidth - 92 - step / 2) + .text(function(d) { return d; }); + + // Add grey background lines for context. + var background = wrap.select('.background').selectAll('path').data(data); + background.enter().append('path'); + background.exit().remove(); + background.attr('d', path); + + // Add blue foreground lines for focus. + var foreground = wrap.select('.foreground').selectAll('path').data(data); + foreground.enter().append('path') + foreground.exit().remove(); + foreground.attr('d', path).attr('stroke', color); + foreground.on("mouseover", function (d, i) { + d3.select(this).classed('hover', true); + dispatch.elementMouseover({ + label: d.name, + data: d.data, + index: i, + pos: [d3.mouse(this.parentNode)[0], d3.mouse(this.parentNode)[1]] + }); + + }); + foreground.on("mouseout", function (d, i) { + d3.select(this).classed('hover', false); + dispatch.elementMouseout({ + label: d.name, + data: d.data, + index: i + }); + }); + + // Add a group element for each dimension. + var dimensions = g.selectAll('.dimension').data(dimensionNames); + var dimensionsEnter = dimensions.enter().append('g').attr('class', 'nv-parallelCoordinates dimension'); + dimensionsEnter.append('g').attr('class', 'nv-parallelCoordinates nv-axis'); + dimensionsEnter.append('g').attr('class', 'nv-parallelCoordinates-brush'); + dimensionsEnter.append('text').attr('class', 'nv-parallelCoordinates nv-label'); + + dimensions.attr('transform', function(d) { return 'translate(' + x(d) + ',0)'; }); + dimensions.exit().remove(); + + // Add an axis and title. + dimensions.select('.nv-label') + .style("cursor", "move") + .attr('dy', '-1em') + .attr('text-anchor', 'middle') + .text(String) + .on("mouseover", function(d, i) { + dispatch.elementMouseover({ + dim: d, + pos: [d3.mouse(this.parentNode.parentNode)[0], d3.mouse(this.parentNode.parentNode)[1]] + }); + }) + .on("mouseout", function(d, i) { + dispatch.elementMouseout({ + dim: d + }); + }) + .call(axisDrag); + + dimensions.select('.nv-axis') + .each(function (d, i) { + d3.select(this).call(axis.scale(y[d]).tickFormat(d3.format(dimensionFormats[i]))); + }); + + dimensions.select('.nv-parallelCoordinates-brush') + .each(function (d) { + d3.select(this).call(y[d].brush); + }) + .selectAll('rect') + .attr('x', -8) + .attr('width', 16); + + // Returns the path for a given data point. + function path(d) { + return line(dimensionNames.map(function (p) { + //If value if missing, put the value on the missing value line + if(isNaN(d[p]) || isNaN(parseFloat(d[p]))) { + var domain = y[p].domain(); + var range = y[p].range(); + var min = domain[0] - (domain[1] - domain[0]) / 9; + + //If it's not already the case, allow brush to select undefined values + if(axisWithMissingValues.indexOf(p) < 0) { + + var newscale = d3.scale.linear().domain([min, domain[1]]).range([availableHeight - 12, range[1]]); + y[p].brush.y(newscale); + axisWithMissingValues.push(p); + } + + return [x(p), y[p](min)]; + } + + //If parallelCoordinate contain missing values show the missing values line otherwise, hide it. + if(axisWithMissingValues.length > 0) { + missingValuesline.style("display", "inline"); + missingValueslineText.style("display", "inline"); + } else { + missingValuesline.style("display", "none"); + missingValueslineText.style("display", "none"); + } + + return [x(p), y[p](d[p])]; + })); + } + + // Handles a brush event, toggling the display of foreground lines. + function brush() { + var actives = dimensionNames.filter(function(p) { return !y[p].brush.empty(); }), + extents = actives.map(function(p) { return y[p].brush.extent(); }); + + filters = []; //erase current filters + actives.forEach(function(d,i) { + filters[i] = { + dimension: d, + extent: extents[i] + } + }); + + active = []; //erase current active list + foreground.style('display', function(d) { + var isActive = actives.every(function(p, i) { + if(isNaN(d[p]) && extents[i][0] == y[p].brush.y().domain()[0]) return true; + return extents[i][0] <= d[p] && d[p] <= extents[i][1]; + }); + if (isActive) active.push(d); + return isActive ? null : 'none'; + }); + + dispatch.brush({ + filters: filters, + active: active + }); + } + + function dragStart(d, i) { + dragging[d] = this.parentNode.__origin__ = x(d); + background.attr("visibility", "hidden"); + + } + + function dragMove(d, i) { + dragging[d] = Math.min(availableWidth, Math.max(0, this.parentNode.__origin__ += d3.event.x)); + foreground.attr("d", path); + dimensionNames.sort(function (a, b) { return position(a) - position(b); }); + x.domain(dimensionNames); + dimensions.attr("transform", function(d) { return "translate(" + position(d) + ")"; }); + } + + function dragEnd(d, i) { + delete this.parentNode.__origin__; + delete dragging[d]; + d3.select(this.parentNode).attr("transform", "translate(" + x(d) + ")"); + foreground + .attr("d", path); + background + .attr("d", path) + .attr("visibility", null); + + } + + function position(d) { + var v = dragging[d]; + return v == null ? x(d) : v; + } + }); + + return chart; + } + + //============================================================ + // Expose Public Variables + //------------------------------------------------------------ + + chart.dispatch = dispatch; + chart.options = nv.utils.optionsFunc.bind(chart); + + chart._options = Object.create({}, { + // simple options, just get/set the necessary values + width: {get: function(){return width;}, set: function(_){width= _;}}, + height: {get: function(){return height;}, set: function(_){height= _;}}, + dimensionNames: {get: function() { return dimensionNames;}, set: function(_){dimensionNames= _;}}, + dimensionFormats : {get: function(){return dimensionFormats;}, set: function (_){dimensionFormats=_;}}, + lineTension: {get: function(){return lineTension;}, set: function(_){lineTension = _;}}, + + // deprecated options + dimensions: {get: function (){return dimensionNames;}, set: function(_){ + // deprecated after 1.8.1 + nv.deprecated('dimensions', 'use dimensionNames instead'); + dimensionNames = _; + }}, + + // options that require extra logic in the setter + margin: {get: function(){return margin;}, set: function(_){ + margin.top = _.top !== undefined ? _.top : margin.top; + margin.right = _.right !== undefined ? _.right : margin.right; + margin.bottom = _.bottom !== undefined ? _.bottom : margin.bottom; + margin.left = _.left !== undefined ? _.left : margin.left; + }}, + color: {get: function(){return color;}, set: function(_){ + color = nv.utils.getColor(_); + }} + }); + + nv.utils.initOptions(chart); + return chart; +}; +nv.models.pie = function() { + "use strict"; + + //============================================================ + // Public Variables with Default Settings + //------------------------------------------------------------ + + var margin = {top: 0, right: 0, bottom: 0, left: 0} + , width = 500 + , height = 500 + , getX = function(d) { return d.x } + , getY = function(d) { return d.y } + , id = Math.floor(Math.random() * 10000) //Create semi-unique ID in case user doesn't select one + , container = null + , color = nv.utils.defaultColor() + , valueFormat = d3.format(',.2f') + , showLabels = true + , labelsOutside = false + , labelType = "key" + , labelThreshold = .02 //if slice percentage is under this, don't show label + , donut = false + , title = false + , growOnHover = true + , titleOffset = 0 + , labelSunbeamLayout = false + , startAngle = false + , padAngle = false + , endAngle = false + , cornerRadius = 0 + , donutRatio = 0.5 + , arcsRadius = [] + , dispatch = d3.dispatch('chartClick', 'elementClick', 'elementDblClick', 'elementMouseover', 'elementMouseout', 'elementMousemove', 'renderEnd') + ; + + var arcs = []; + var arcsOver = []; + + //============================================================ + // chart function + //------------------------------------------------------------ + + var renderWatch = nv.utils.renderWatch(dispatch); + + function chart(selection) { + renderWatch.reset(); + selection.each(function(data) { + var availableWidth = width - margin.left - margin.right + , availableHeight = height - margin.top - margin.bottom + , radius = Math.min(availableWidth, availableHeight) / 2 + , arcsRadiusOuter = [] + , arcsRadiusInner = [] + ; + + container = d3.select(this) + if (arcsRadius.length === 0) { + var outer = radius - radius / 5; + var inner = donutRatio * radius; + for (var i = 0; i < data[0].length; i++) { + arcsRadiusOuter.push(outer); + arcsRadiusInner.push(inner); + } + } else { + arcsRadiusOuter = arcsRadius.map(function (d) { return (d.outer - d.outer / 5) * radius; }); + arcsRadiusInner = arcsRadius.map(function (d) { return (d.inner - d.inner / 5) * radius; }); + donutRatio = d3.min(arcsRadius.map(function (d) { return (d.inner - d.inner / 5); })); + } + nv.utils.initSVG(container); + + // Setup containers and skeleton of chart + var wrap = container.selectAll('.nv-wrap.nv-pie').data(data); + var wrapEnter = wrap.enter().append('g').attr('class','nvd3 nv-wrap nv-pie nv-chart-' + id); + var gEnter = wrapEnter.append('g'); + var g = wrap.select('g'); + var g_pie = gEnter.append('g').attr('class', 'nv-pie'); + gEnter.append('g').attr('class', 'nv-pieLabels'); + + wrap.attr('transform', 'translate(' + margin.left + ',' + margin.top + ')'); + g.select('.nv-pie').attr('transform', 'translate(' + availableWidth / 2 + ',' + availableHeight / 2 + ')'); + g.select('.nv-pieLabels').attr('transform', 'translate(' + availableWidth / 2 + ',' + availableHeight / 2 + ')'); + + // + container.on('click', function(d,i) { + dispatch.chartClick({ + data: d, + index: i, + pos: d3.event, + id: id + }); + }); + + arcs = []; + arcsOver = []; + for (var i = 0; i < data[0].length; i++) { + + var arc = d3.svg.arc().outerRadius(arcsRadiusOuter[i]); + var arcOver = d3.svg.arc().outerRadius(arcsRadiusOuter[i] + 5); + + if (startAngle !== false) { + arc.startAngle(startAngle); + arcOver.startAngle(startAngle); + } + if (endAngle !== false) { + arc.endAngle(endAngle); + arcOver.endAngle(endAngle); + } + if (donut) { + arc.innerRadius(arcsRadiusInner[i]); + arcOver.innerRadius(arcsRadiusInner[i]); + } + + if (arc.cornerRadius && cornerRadius) { + arc.cornerRadius(cornerRadius); + arcOver.cornerRadius(cornerRadius); + } + + arcs.push(arc); + arcsOver.push(arcOver); + } + + // Setup the Pie chart and choose the data element + var pie = d3.layout.pie() + .sort(null) + .value(function(d) { return d.disabled ? 0 : getY(d) }); + + // padAngle added in d3 3.5 + if (pie.padAngle && padAngle) { + pie.padAngle(padAngle); + } + + // if title is specified and donut, put it in the middle + if (donut && title) { + g_pie.append("text").attr('class', 'nv-pie-title'); + + wrap.select('.nv-pie-title') + .style("text-anchor", "middle") + .text(function (d) { + return title; + }) + .style("font-size", (Math.min(availableWidth, availableHeight)) * donutRatio * 2 / (title.length + 2) + "px") + .attr("dy", "0.35em") // trick to vertically center text + .attr('transform', function(d, i) { + return 'translate(0, '+ titleOffset + ')'; + }); + } + + var slices = wrap.select('.nv-pie').selectAll('.nv-slice').data(pie); + var pieLabels = wrap.select('.nv-pieLabels').selectAll('.nv-label').data(pie); + + slices.exit().remove(); + pieLabels.exit().remove(); + + var ae = slices.enter().append('g'); + ae.attr('class', 'nv-slice'); + ae.on('mouseover', function(d, i) { + d3.select(this).classed('hover', true); + if (growOnHover) { + d3.select(this).select("path").transition() + .duration(70) + .attr("d", arcsOver[i]); + } + dispatch.elementMouseover({ + data: d.data, + index: i, + color: d3.select(this).style("fill") + }); + }); + ae.on('mouseout', function(d, i) { + d3.select(this).classed('hover', false); + if (growOnHover) { + d3.select(this).select("path").transition() + .duration(50) + .attr("d", arcs[i]); + } + dispatch.elementMouseout({data: d.data, index: i}); + }); + ae.on('mousemove', function(d, i) { + dispatch.elementMousemove({data: d.data, index: i}); + }); + ae.on('click', function(d, i) { + dispatch.elementClick({ + data: d.data, + index: i, + color: d3.select(this).style("fill") + }); + }); + ae.on('dblclick', function(d, i) { + dispatch.elementDblClick({ + data: d.data, + index: i, + color: d3.select(this).style("fill") + }); + }); + + slices.attr('fill', function(d,i) { return color(d.data, i); }); + slices.attr('stroke', function(d,i) { return color(d.data, i); }); + + var paths = ae.append('path').each(function(d) { + this._current = d; + }); + + slices.select('path') + .transition() + .attr('d', function (d, i) { return arcs[i](d); }) + .attrTween('d', arcTween); + + if (showLabels) { + // This does the normal label + var labelsArc = []; + for (var i = 0; i < data[0].length; i++) { + labelsArc.push(arcs[i]); + + if (labelsOutside) { + if (donut) { + labelsArc[i] = d3.svg.arc().outerRadius(arcs[i].outerRadius()); + if (startAngle !== false) labelsArc[i].startAngle(startAngle); + if (endAngle !== false) labelsArc[i].endAngle(endAngle); + } + } else if (!donut) { + labelsArc[i].innerRadius(0); + } + } + + pieLabels.enter().append("g").classed("nv-label",true).each(function(d,i) { + var group = d3.select(this); + + group.attr('transform', function (d, i) { + if (labelSunbeamLayout) { + d.outerRadius = arcsRadiusOuter[i] + 10; // Set Outer Coordinate + d.innerRadius = arcsRadiusOuter[i] + 15; // Set Inner Coordinate + var rotateAngle = (d.startAngle + d.endAngle) / 2 * (180 / Math.PI); + if ((d.startAngle + d.endAngle) / 2 < Math.PI) { + rotateAngle -= 90; + } else { + rotateAngle += 90; + } + return 'translate(' + labelsArc[i].centroid(d) + ') rotate(' + rotateAngle + ')'; + } else { + d.outerRadius = radius + 10; // Set Outer Coordinate + d.innerRadius = radius + 15; // Set Inner Coordinate + return 'translate(' + labelsArc[i].centroid(d) + ')' + } + }); + + group.append('rect') + .style('stroke', '#fff') + .style('fill', '#fff') + .attr("rx", 3) + .attr("ry", 3); + + group.append('text') + .style('text-anchor', labelSunbeamLayout ? ((d.startAngle + d.endAngle) / 2 < Math.PI ? 'start' : 'end') : 'middle') //center the text on it's origin or begin/end if orthogonal aligned + .style('fill', '#000') + }); + + var labelLocationHash = {}; + var avgHeight = 14; + var avgWidth = 140; + var createHashKey = function(coordinates) { + return Math.floor(coordinates[0]/avgWidth) * avgWidth + ',' + Math.floor(coordinates[1]/avgHeight) * avgHeight; + }; + + pieLabels.watchTransition(renderWatch, 'pie labels').attr('transform', function (d, i) { + if (labelSunbeamLayout) { + d.outerRadius = arcsRadiusOuter[i] + 10; // Set Outer Coordinate + d.innerRadius = arcsRadiusOuter[i] + 15; // Set Inner Coordinate + var rotateAngle = (d.startAngle + d.endAngle) / 2 * (180 / Math.PI); + if ((d.startAngle + d.endAngle) / 2 < Math.PI) { + rotateAngle -= 90; + } else { + rotateAngle += 90; + } + return 'translate(' + labelsArc[i].centroid(d) + ') rotate(' + rotateAngle + ')'; + } else { + d.outerRadius = radius + 10; // Set Outer Coordinate + d.innerRadius = radius + 15; // Set Inner Coordinate + + /* + Overlapping pie labels are not good. What this attempts to do is, prevent overlapping. + Each label location is hashed, and if a hash collision occurs, we assume an overlap. + Adjust the label's y-position to remove the overlap. + */ + var center = labelsArc[i].centroid(d); + if (d.value) { + var hashKey = createHashKey(center); + if (labelLocationHash[hashKey]) { + center[1] -= avgHeight; + } + labelLocationHash[createHashKey(center)] = true; + } + return 'translate(' + center + ')' + } + }); + + pieLabels.select(".nv-label text") + .style('text-anchor', function(d,i) { + //center the text on it's origin or begin/end if orthogonal aligned + return labelSunbeamLayout ? ((d.startAngle + d.endAngle) / 2 < Math.PI ? 'start' : 'end') : 'middle'; + }) + .text(function(d, i) { + var percent = (d.endAngle - d.startAngle) / (2 * Math.PI); + var label = ''; + if (!d.value || percent < labelThreshold) return ''; + + if(typeof labelType === 'function') { + label = labelType(d, i, { + 'key': getX(d.data), + 'value': getY(d.data), + 'percent': valueFormat(percent) + }); + } else { + switch (labelType) { + case 'key': + label = getX(d.data); + break; + case 'value': + label = valueFormat(getY(d.data)); + break; + case 'percent': + label = d3.format('%')(percent); + break; + } + } + return label; + }) + ; + } + + + // Computes the angle of an arc, converting from radians to degrees. + function angle(d) { + var a = (d.startAngle + d.endAngle) * 90 / Math.PI - 90; + return a > 90 ? a - 180 : a; + } + + function arcTween(a, idx) { + a.endAngle = isNaN(a.endAngle) ? 0 : a.endAngle; + a.startAngle = isNaN(a.startAngle) ? 0 : a.startAngle; + if (!donut) a.innerRadius = 0; + var i = d3.interpolate(this._current, a); + this._current = i(0); + return function (t) { + return arcs[idx](i(t)); + }; + } + }); + + renderWatch.renderEnd('pie immediate'); + return chart; + } + + //============================================================ + // Expose Public Variables + //------------------------------------------------------------ + + chart.dispatch = dispatch; + chart.options = nv.utils.optionsFunc.bind(chart); + + chart._options = Object.create({}, { + // simple options, just get/set the necessary values + arcsRadius: { get: function () { return arcsRadius; }, set: function (_) { arcsRadius = _; } }, + width: {get: function(){return width;}, set: function(_){width=_;}}, + height: {get: function(){return height;}, set: function(_){height=_;}}, + showLabels: {get: function(){return showLabels;}, set: function(_){showLabels=_;}}, + title: {get: function(){return title;}, set: function(_){title=_;}}, + titleOffset: {get: function(){return titleOffset;}, set: function(_){titleOffset=_;}}, + labelThreshold: {get: function(){return labelThreshold;}, set: function(_){labelThreshold=_;}}, + valueFormat: {get: function(){return valueFormat;}, set: function(_){valueFormat=_;}}, + x: {get: function(){return getX;}, set: function(_){getX=_;}}, + id: {get: function(){return id;}, set: function(_){id=_;}}, + endAngle: {get: function(){return endAngle;}, set: function(_){endAngle=_;}}, + startAngle: {get: function(){return startAngle;}, set: function(_){startAngle=_;}}, + padAngle: {get: function(){return padAngle;}, set: function(_){padAngle=_;}}, + cornerRadius: {get: function(){return cornerRadius;}, set: function(_){cornerRadius=_;}}, + donutRatio: {get: function(){return donutRatio;}, set: function(_){donutRatio=_;}}, + labelsOutside: {get: function(){return labelsOutside;}, set: function(_){labelsOutside=_;}}, + labelSunbeamLayout: {get: function(){return labelSunbeamLayout;}, set: function(_){labelSunbeamLayout=_;}}, + donut: {get: function(){return donut;}, set: function(_){donut=_;}}, + growOnHover: {get: function(){return growOnHover;}, set: function(_){growOnHover=_;}}, + + // depreciated after 1.7.1 + pieLabelsOutside: {get: function(){return labelsOutside;}, set: function(_){ + labelsOutside=_; + nv.deprecated('pieLabelsOutside', 'use labelsOutside instead'); + }}, + // depreciated after 1.7.1 + donutLabelsOutside: {get: function(){return labelsOutside;}, set: function(_){ + labelsOutside=_; + nv.deprecated('donutLabelsOutside', 'use labelsOutside instead'); + }}, + // deprecated after 1.7.1 + labelFormat: {get: function(){ return valueFormat;}, set: function(_) { + valueFormat=_; + nv.deprecated('labelFormat','use valueFormat instead'); + }}, + + // options that require extra logic in the setter + margin: {get: function(){return margin;}, set: function(_){ + margin.top = typeof _.top != 'undefined' ? _.top : margin.top; + margin.right = typeof _.right != 'undefined' ? _.right : margin.right; + margin.bottom = typeof _.bottom != 'undefined' ? _.bottom : margin.bottom; + margin.left = typeof _.left != 'undefined' ? _.left : margin.left; + }}, + y: {get: function(){return getY;}, set: function(_){ + getY=d3.functor(_); + }}, + color: {get: function(){return color;}, set: function(_){ + color=nv.utils.getColor(_); + }}, + labelType: {get: function(){return labelType;}, set: function(_){ + labelType= _ || 'key'; + }} + }); + + nv.utils.initOptions(chart); + return chart; +}; +nv.models.pieChart = function() { + "use strict"; + + //============================================================ + // Public Variables with Default Settings + //------------------------------------------------------------ + + var pie = nv.models.pie(); + var legend = nv.models.legend(); + var tooltip = nv.models.tooltip(); + + var margin = {top: 30, right: 20, bottom: 20, left: 20} + , width = null + , height = null + , showLegend = true + , legendPosition = "top" + , color = nv.utils.defaultColor() + , state = nv.utils.state() + , defaultState = null + , noData = null + , duration = 250 + , dispatch = d3.dispatch('tooltipShow', 'tooltipHide', 'stateChange', 'changeState','renderEnd') + ; + + tooltip + .headerEnabled(false) + .duration(0) + .valueFormatter(function(d, i) { + return pie.valueFormat()(d, i); + }); + + //============================================================ + // Private Variables + //------------------------------------------------------------ + + var renderWatch = nv.utils.renderWatch(dispatch); + + var stateGetter = function(data) { + return function(){ + return { + active: data.map(function(d) { return !d.disabled }) + }; + } + }; + + var stateSetter = function(data) { + return function(state) { + if (state.active !== undefined) { + data.forEach(function (series, i) { + series.disabled = !state.active[i]; + }); + } + } + }; + + //============================================================ + // Chart function + //------------------------------------------------------------ + + function chart(selection) { + renderWatch.reset(); + renderWatch.models(pie); + + selection.each(function(data) { + var container = d3.select(this); + nv.utils.initSVG(container); + + var that = this; + var availableWidth = nv.utils.availableWidth(width, container, margin), + availableHeight = nv.utils.availableHeight(height, container, margin); + + chart.update = function() { container.transition().call(chart); }; + chart.container = this; + + state.setter(stateSetter(data), chart.update) + .getter(stateGetter(data)) + .update(); + + //set state.disabled + state.disabled = data.map(function(d) { return !!d.disabled }); + + if (!defaultState) { + var key; + defaultState = {}; + for (key in state) { + if (state[key] instanceof Array) + defaultState[key] = state[key].slice(0); + else + defaultState[key] = state[key]; + } + } + + // Display No Data message if there's nothing to show. + if (!data || !data.length) { + nv.utils.noData(chart, container); + return chart; + } else { + container.selectAll('.nv-noData').remove(); + } + + // Setup containers and skeleton of chart + var wrap = container.selectAll('g.nv-wrap.nv-pieChart').data([data]); + var gEnter = wrap.enter().append('g').attr('class', 'nvd3 nv-wrap nv-pieChart').append('g'); + var g = wrap.select('g'); + + gEnter.append('g').attr('class', 'nv-pieWrap'); + gEnter.append('g').attr('class', 'nv-legendWrap'); + + // Legend + if (showLegend) { + if (legendPosition === "top") { + legend.width( availableWidth ).key(pie.x()); + + wrap.select('.nv-legendWrap') + .datum(data) + .call(legend); + + if ( margin.top != legend.height()) { + margin.top = legend.height(); + availableHeight = nv.utils.availableHeight(height, container, margin); + } + + wrap.select('.nv-legendWrap') + .attr('transform', 'translate(0,' + (-margin.top) +')'); + } else if (legendPosition === "right") { + var legendWidth = nv.models.legend().width(); + if (availableWidth / 2 < legendWidth) { + legendWidth = (availableWidth / 2) + } + legend.height(availableHeight).key(pie.x()); + legend.width(legendWidth); + availableWidth -= legend.width(); + + wrap.select('.nv-legendWrap') + .datum(data) + .call(legend) + .attr('transform', 'translate(' + (availableWidth) +',0)'); + } + } + wrap.attr('transform', 'translate(' + margin.left + ',' + margin.top + ')'); + + // Main Chart Component(s) + pie.width(availableWidth).height(availableHeight); + var pieWrap = g.select('.nv-pieWrap').datum([data]); + d3.transition(pieWrap).call(pie); + + //============================================================ + // Event Handling/Dispatching (in chart's scope) + //------------------------------------------------------------ + + legend.dispatch.on('stateChange', function(newState) { + for (var key in newState) { + state[key] = newState[key]; + } + dispatch.stateChange(state); + chart.update(); + }); + + // Update chart from a state object passed to event handler + dispatch.on('changeState', function(e) { + if (typeof e.disabled !== 'undefined') { + data.forEach(function(series,i) { + series.disabled = e.disabled[i]; + }); + state.disabled = e.disabled; + } + chart.update(); + }); + }); + + renderWatch.renderEnd('pieChart immediate'); + return chart; + } + + //============================================================ + // Event Handling/Dispatching (out of chart's scope) + //------------------------------------------------------------ + + pie.dispatch.on('elementMouseover.tooltip', function(evt) { + evt['series'] = { + key: chart.x()(evt.data), + value: chart.y()(evt.data), + color: evt.color + }; + tooltip.data(evt).hidden(false); + }); + + pie.dispatch.on('elementMouseout.tooltip', function(evt) { + tooltip.hidden(true); + }); + + pie.dispatch.on('elementMousemove.tooltip', function(evt) { + tooltip.position({top: d3.event.pageY, left: d3.event.pageX})(); + }); + + //============================================================ + // Expose Public Variables + //------------------------------------------------------------ + + // expose chart's sub-components + chart.legend = legend; + chart.dispatch = dispatch; + chart.pie = pie; + chart.tooltip = tooltip; + chart.options = nv.utils.optionsFunc.bind(chart); + + // use Object get/set functionality to map between vars and chart functions + chart._options = Object.create({}, { + // simple options, just get/set the necessary values + noData: {get: function(){return noData;}, set: function(_){noData=_;}}, + showLegend: {get: function(){return showLegend;}, set: function(_){showLegend=_;}}, + legendPosition: {get: function(){return legendPosition;}, set: function(_){legendPosition=_;}}, + defaultState: {get: function(){return defaultState;}, set: function(_){defaultState=_;}}, + + // deprecated options + tooltips: {get: function(){return tooltip.enabled();}, set: function(_){ + // deprecated after 1.7.1 + nv.deprecated('tooltips', 'use chart.tooltip.enabled() instead'); + tooltip.enabled(!!_); + }}, + tooltipContent: {get: function(){return tooltip.contentGenerator();}, set: function(_){ + // deprecated after 1.7.1 + nv.deprecated('tooltipContent', 'use chart.tooltip.contentGenerator() instead'); + tooltip.contentGenerator(_); + }}, + + // options that require extra logic in the setter + color: {get: function(){return color;}, set: function(_){ + color = _; + legend.color(color); + pie.color(color); + }}, + duration: {get: function(){return duration;}, set: function(_){ + duration = _; + renderWatch.reset(duration); + }}, + margin: {get: function(){return margin;}, set: function(_){ + margin.top = _.top !== undefined ? _.top : margin.top; + margin.right = _.right !== undefined ? _.right : margin.right; + margin.bottom = _.bottom !== undefined ? _.bottom : margin.bottom; + margin.left = _.left !== undefined ? _.left : margin.left; + }} + }); + nv.utils.inheritOptions(chart, pie); + nv.utils.initOptions(chart); + return chart; +}; + +nv.models.scatter = function() { + "use strict"; + + //============================================================ + // Public Variables with Default Settings + //------------------------------------------------------------ + + var margin = {top: 0, right: 0, bottom: 0, left: 0} + , width = null + , height = null + , color = nv.utils.defaultColor() // chooses color + , id = Math.floor(Math.random() * 100000) //Create semi-unique ID incase user doesn't select one + , container = null + , x = d3.scale.linear() + , y = d3.scale.linear() + , z = d3.scale.linear() //linear because d3.svg.shape.size is treated as area + , getX = function(d) { return d.x } // accessor to get the x value + , getY = function(d) { return d.y } // accessor to get the y value + , getSize = function(d) { return d.size || 1} // accessor to get the point size + , getShape = function(d) { return d.shape || 'circle' } // accessor to get point shape + , forceX = [] // List of numbers to Force into the X scale (ie. 0, or a max / min, etc.) + , forceY = [] // List of numbers to Force into the Y scale + , forceSize = [] // List of numbers to Force into the Size scale + , interactive = true // If true, plots a voronoi overlay for advanced point intersection + , pointActive = function(d) { return !d.notActive } // any points that return false will be filtered out + , padData = false // If true, adds half a data points width to front and back, for lining up a line chart with a bar chart + , padDataOuter = .1 //outerPadding to imitate ordinal scale outer padding + , clipEdge = false // if true, masks points within x and y scale + , clipVoronoi = true // if true, masks each point with a circle... can turn off to slightly increase performance + , showVoronoi = false // display the voronoi areas + , clipRadius = function() { return 25 } // function to get the radius for voronoi point clips + , xDomain = null // Override x domain (skips the calculation from data) + , yDomain = null // Override y domain + , xRange = null // Override x range + , yRange = null // Override y range + , sizeDomain = null // Override point size domain + , sizeRange = null + , singlePoint = false + , dispatch = d3.dispatch('elementClick', 'elementDblClick', 'elementMouseover', 'elementMouseout', 'renderEnd') + , useVoronoi = true + , duration = 250 + ; + + + //============================================================ + // Private Variables + //------------------------------------------------------------ + + var x0, y0, z0 // used to store previous scales + , timeoutID + , needsUpdate = false // Flag for when the points are visually updating, but the interactive layer is behind, to disable tooltips + , renderWatch = nv.utils.renderWatch(dispatch, duration) + , _sizeRange_def = [16, 256] + ; + + function chart(selection) { + renderWatch.reset(); + selection.each(function(data) { + container = d3.select(this); + var availableWidth = nv.utils.availableWidth(width, container, margin), + availableHeight = nv.utils.availableHeight(height, container, margin); + + nv.utils.initSVG(container); + + //add series index to each data point for reference + data.forEach(function(series, i) { + series.values.forEach(function(point) { + point.series = i; + }); + }); + + // Setup Scales + // remap and flatten the data for use in calculating the scales' domains + var seriesData = (xDomain && yDomain && sizeDomain) ? [] : // if we know xDomain and yDomain and sizeDomain, no need to calculate.... if Size is constant remember to set sizeDomain to speed up performance + d3.merge( + data.map(function(d) { + return d.values.map(function(d,i) { + return { x: getX(d,i), y: getY(d,i), size: getSize(d,i) } + }) + }) + ); + + x .domain(xDomain || d3.extent(seriesData.map(function(d) { return d.x; }).concat(forceX))) + + if (padData && data[0]) + x.range(xRange || [(availableWidth * padDataOuter + availableWidth) / (2 *data[0].values.length), availableWidth - availableWidth * (1 + padDataOuter) / (2 * data[0].values.length) ]); + //x.range([availableWidth * .5 / data[0].values.length, availableWidth * (data[0].values.length - .5) / data[0].values.length ]); + else + x.range(xRange || [0, availableWidth]); + + y .domain(yDomain || d3.extent(seriesData.map(function(d) { return d.y }).concat(forceY))) + .range(yRange || [availableHeight, 0]); + + z .domain(sizeDomain || d3.extent(seriesData.map(function(d) { return d.size }).concat(forceSize))) + .range(sizeRange || _sizeRange_def); + + // If scale's domain don't have a range, slightly adjust to make one... so a chart can show a single data point + singlePoint = x.domain()[0] === x.domain()[1] || y.domain()[0] === y.domain()[1]; + + if (x.domain()[0] === x.domain()[1]) + x.domain()[0] ? + x.domain([x.domain()[0] - x.domain()[0] * 0.01, x.domain()[1] + x.domain()[1] * 0.01]) + : x.domain([-1,1]); + + if (y.domain()[0] === y.domain()[1]) + y.domain()[0] ? + y.domain([y.domain()[0] - y.domain()[0] * 0.01, y.domain()[1] + y.domain()[1] * 0.01]) + : y.domain([-1,1]); + + if ( isNaN(x.domain()[0])) { + x.domain([-1,1]); + } + + if ( isNaN(y.domain()[0])) { + y.domain([-1,1]); + } + + x0 = x0 || x; + y0 = y0 || y; + z0 = z0 || z; + + // Setup containers and skeleton of chart + var wrap = container.selectAll('g.nv-wrap.nv-scatter').data([data]); + var wrapEnter = wrap.enter().append('g').attr('class', 'nvd3 nv-wrap nv-scatter nv-chart-' + id); + var defsEnter = wrapEnter.append('defs'); + var gEnter = wrapEnter.append('g'); + var g = wrap.select('g'); + + wrap.classed('nv-single-point', singlePoint); + gEnter.append('g').attr('class', 'nv-groups'); + gEnter.append('g').attr('class', 'nv-point-paths'); + wrapEnter.append('g').attr('class', 'nv-point-clips'); + + wrap.attr('transform', 'translate(' + margin.left + ',' + margin.top + ')'); + + defsEnter.append('clipPath') + .attr('id', 'nv-edge-clip-' + id) + .append('rect'); + + wrap.select('#nv-edge-clip-' + id + ' rect') + .attr('width', availableWidth) + .attr('height', (availableHeight > 0) ? availableHeight : 0); + + g.attr('clip-path', clipEdge ? 'url(#nv-edge-clip-' + id + ')' : ''); + + function updateInteractiveLayer() { + // Always clear needs-update flag regardless of whether or not + // we will actually do anything (avoids needless invocations). + needsUpdate = false; + + if (!interactive) return false; + + // inject series and point index for reference into voronoi + if (useVoronoi === true) { + var vertices = d3.merge(data.map(function(group, groupIndex) { + return group.values + .map(function(point, pointIndex) { + // *Adding noise to make duplicates very unlikely + // *Injecting series and point index for reference + /* *Adding a 'jitter' to the points, because there's an issue in d3.geom.voronoi. + */ + var pX = getX(point,pointIndex); + var pY = getY(point,pointIndex); + + return [x(pX)+ Math.random() * 1e-4, + y(pY)+ Math.random() * 1e-4, + groupIndex, + pointIndex, point]; //temp hack to add noise until I think of a better way so there are no duplicates + }) + .filter(function(pointArray, pointIndex) { + return pointActive(pointArray[4], pointIndex); // Issue #237.. move filter to after map, so pointIndex is correct! + }) + }) + ); + + if (vertices.length == 0) return false; // No active points, we're done + if (vertices.length < 3) { + // Issue #283 - Adding 2 dummy points to the voronoi b/c voronoi requires min 3 points to work + vertices.push([x.range()[0] - 20, y.range()[0] - 20, null, null]); + vertices.push([x.range()[1] + 20, y.range()[1] + 20, null, null]); + vertices.push([x.range()[0] - 20, y.range()[0] + 20, null, null]); + vertices.push([x.range()[1] + 20, y.range()[1] - 20, null, null]); + } + + // keep voronoi sections from going more than 10 outside of graph + // to avoid overlap with other things like legend etc + var bounds = d3.geom.polygon([ + [-10,-10], + [-10,height + 10], + [width + 10,height + 10], + [width + 10,-10] + ]); + + var voronoi = d3.geom.voronoi(vertices).map(function(d, i) { + return { + 'data': bounds.clip(d), + 'series': vertices[i][2], + 'point': vertices[i][3] + } + }); + + // nuke all voronoi paths on reload and recreate them + wrap.select('.nv-point-paths').selectAll('path').remove(); + var pointPaths = wrap.select('.nv-point-paths').selectAll('path').data(voronoi); + var vPointPaths = pointPaths + .enter().append("svg:path") + .attr("d", function(d) { + if (!d || !d.data || d.data.length === 0) + return 'M 0 0'; + else + return "M" + d.data.join(",") + "Z"; + }) + .attr("id", function(d,i) { + return "nv-path-"+i; }) + .attr("clip-path", function(d,i) { return "url(#nv-clip-"+i+")"; }) + ; + + // good for debugging point hover issues + if (showVoronoi) { + vPointPaths.style("fill", d3.rgb(230, 230, 230)) + .style('fill-opacity', 0.4) + .style('stroke-opacity', 1) + .style("stroke", d3.rgb(200,200,200)); + } + + if (clipVoronoi) { + // voronoi sections are already set to clip, + // just create the circles with the IDs they expect + wrap.select('.nv-point-clips').selectAll('clipPath').remove(); + wrap.select('.nv-point-clips').selectAll("clipPath") + .data(vertices) + .enter().append("svg:clipPath") + .attr("id", function(d, i) { return "nv-clip-"+i;}) + .append("svg:circle") + .attr('cx', function(d) { return d[0]; }) + .attr('cy', function(d) { return d[1]; }) + .attr('r', clipRadius); + } + + var mouseEventCallback = function(d, mDispatch) { + if (needsUpdate) return 0; + var series = data[d.series]; + if (series === undefined) return; + var point = series.values[d.point]; + point['color'] = color(series, d.series); + + // standardize attributes for tooltip. + point['x'] = getX(point); + point['y'] = getY(point); + + // can't just get box of event node since it's actually a voronoi polygon + var box = container.node().getBoundingClientRect(); + var scrollTop = window.pageYOffset || document.documentElement.scrollTop; + var scrollLeft = window.pageXOffset || document.documentElement.scrollLeft; + + var pos = { + left: x(getX(point, d.point)) + box.left + scrollLeft + margin.left + 10, + top: y(getY(point, d.point)) + box.top + scrollTop + margin.top + 10 + }; + + mDispatch({ + point: point, + series: series, + pos: pos, + seriesIndex: d.series, + pointIndex: d.point + }); + }; + + pointPaths + .on('click', function(d) { + mouseEventCallback(d, dispatch.elementClick); + }) + .on('dblclick', function(d) { + mouseEventCallback(d, dispatch.elementDblClick); + }) + .on('mouseover', function(d) { + mouseEventCallback(d, dispatch.elementMouseover); + }) + .on('mouseout', function(d, i) { + mouseEventCallback(d, dispatch.elementMouseout); + }); + + } else { + // add event handlers to points instead voronoi paths + wrap.select('.nv-groups').selectAll('.nv-group') + .selectAll('.nv-point') + //.data(dataWithPoints) + //.style('pointer-events', 'auto') // recativate events, disabled by css + .on('click', function(d,i) { + //nv.log('test', d, i); + if (needsUpdate || !data[d.series]) return 0; //check if this is a dummy point + var series = data[d.series], + point = series.values[i]; + + dispatch.elementClick({ + point: point, + series: series, + pos: [x(getX(point, i)) + margin.left, y(getY(point, i)) + margin.top], + seriesIndex: d.series, + pointIndex: i + }); + }) + .on('dblclick', function(d,i) { + if (needsUpdate || !data[d.series]) return 0; //check if this is a dummy point + var series = data[d.series], + point = series.values[i]; + + dispatch.elementDblClick({ + point: point, + series: series, + pos: [x(getX(point, i)) + margin.left, y(getY(point, i)) + margin.top], + seriesIndex: d.series, + pointIndex: i + }); + }) + .on('mouseover', function(d,i) { + if (needsUpdate || !data[d.series]) return 0; //check if this is a dummy point + var series = data[d.series], + point = series.values[i]; + + dispatch.elementMouseover({ + point: point, + series: series, + pos: [x(getX(point, i)) + margin.left, y(getY(point, i)) + margin.top], + seriesIndex: d.series, + pointIndex: i, + color: color(d, i) + }); + }) + .on('mouseout', function(d,i) { + if (needsUpdate || !data[d.series]) return 0; //check if this is a dummy point + var series = data[d.series], + point = series.values[i]; + + dispatch.elementMouseout({ + point: point, + series: series, + seriesIndex: d.series, + pointIndex: i, + color: color(d, i) + }); + }); + } + } + + needsUpdate = true; + var groups = wrap.select('.nv-groups').selectAll('.nv-group') + .data(function(d) { return d }, function(d) { return d.key }); + groups.enter().append('g') + .style('stroke-opacity', 1e-6) + .style('fill-opacity', 1e-6); + groups.exit() + .remove(); + groups + .attr('class', function(d,i) { return 'nv-group nv-series-' + i }) + .classed('hover', function(d) { return d.hover }); + groups.watchTransition(renderWatch, 'scatter: groups') + .style('fill', function(d,i) { return color(d, i) }) + .style('stroke', function(d,i) { return color(d, i) }) + .style('stroke-opacity', 1) + .style('fill-opacity', .5); + + // create the points, maintaining their IDs from the original data set + var points = groups.selectAll('path.nv-point') + .data(function(d) { + return d.values.map( + function (point, pointIndex) { + return [point, pointIndex] + }).filter( + function(pointArray, pointIndex) { + return pointActive(pointArray[0], pointIndex) + }) + }); + points.enter().append('path') + .style('fill', function (d) { return d.color }) + .style('stroke', function (d) { return d.color }) + .attr('transform', function(d) { + return 'translate(' + x0(getX(d[0],d[1])) + ',' + y0(getY(d[0],d[1])) + ')' + }) + .attr('d', + nv.utils.symbol() + .type(function(d) { return getShape(d[0]); }) + .size(function(d) { return z(getSize(d[0],d[1])) }) + ); + points.exit().remove(); + groups.exit().selectAll('path.nv-point') + .watchTransition(renderWatch, 'scatter exit') + .attr('transform', function(d) { + return 'translate(' + x(getX(d[0],d[1])) + ',' + y(getY(d[0],d[1])) + ')' + }) + .remove(); + points.each(function(d) { + d3.select(this) + .classed('nv-point', true) + .classed('nv-point-' + d[1], true) + .classed('nv-noninteractive', !interactive) + .classed('hover',false) + ; + }); + points + .watchTransition(renderWatch, 'scatter points') + .attr('transform', function(d) { + //nv.log(d, getX(d[0],d[1]), x(getX(d[0],d[1]))); + return 'translate(' + x(getX(d[0],d[1])) + ',' + y(getY(d[0],d[1])) + ')' + }) + .attr('d', + nv.utils.symbol() + .type(function(d) { return getShape(d[0]); }) + .size(function(d) { return z(getSize(d[0],d[1])) }) + ); + + // Delay updating the invisible interactive layer for smoother animation + clearTimeout(timeoutID); // stop repeat calls to updateInteractiveLayer + timeoutID = setTimeout(updateInteractiveLayer, 300); + //updateInteractiveLayer(); + + //store old scales for use in transitions on update + x0 = x.copy(); + y0 = y.copy(); + z0 = z.copy(); + + }); + renderWatch.renderEnd('scatter immediate'); + return chart; + } + + //============================================================ + // Expose Public Variables + //------------------------------------------------------------ + + chart.dispatch = dispatch; + chart.options = nv.utils.optionsFunc.bind(chart); + + // utility function calls provided by this chart + chart._calls = new function() { + this.clearHighlights = function () { + nv.dom.write(function() { + container.selectAll(".nv-point.hover").classed("hover", false); + }); + return null; + }; + this.highlightPoint = function (seriesIndex, pointIndex, isHoverOver) { + nv.dom.write(function() { + container.select(" .nv-series-" + seriesIndex + " .nv-point-" + pointIndex) + .classed("hover", isHoverOver); + }); + }; + }; + + // trigger calls from events too + dispatch.on('elementMouseover.point', function(d) { + if (interactive) chart._calls.highlightPoint(d.seriesIndex,d.pointIndex,true); + }); + + dispatch.on('elementMouseout.point', function(d) { + if (interactive) chart._calls.highlightPoint(d.seriesIndex,d.pointIndex,false); + }); + + chart._options = Object.create({}, { + // simple options, just get/set the necessary values + width: {get: function(){return width;}, set: function(_){width=_;}}, + height: {get: function(){return height;}, set: function(_){height=_;}}, + xScale: {get: function(){return x;}, set: function(_){x=_;}}, + yScale: {get: function(){return y;}, set: function(_){y=_;}}, + pointScale: {get: function(){return z;}, set: function(_){z=_;}}, + xDomain: {get: function(){return xDomain;}, set: function(_){xDomain=_;}}, + yDomain: {get: function(){return yDomain;}, set: function(_){yDomain=_;}}, + pointDomain: {get: function(){return sizeDomain;}, set: function(_){sizeDomain=_;}}, + xRange: {get: function(){return xRange;}, set: function(_){xRange=_;}}, + yRange: {get: function(){return yRange;}, set: function(_){yRange=_;}}, + pointRange: {get: function(){return sizeRange;}, set: function(_){sizeRange=_;}}, + forceX: {get: function(){return forceX;}, set: function(_){forceX=_;}}, + forceY: {get: function(){return forceY;}, set: function(_){forceY=_;}}, + forcePoint: {get: function(){return forceSize;}, set: function(_){forceSize=_;}}, + interactive: {get: function(){return interactive;}, set: function(_){interactive=_;}}, + pointActive: {get: function(){return pointActive;}, set: function(_){pointActive=_;}}, + padDataOuter: {get: function(){return padDataOuter;}, set: function(_){padDataOuter=_;}}, + padData: {get: function(){return padData;}, set: function(_){padData=_;}}, + clipEdge: {get: function(){return clipEdge;}, set: function(_){clipEdge=_;}}, + clipVoronoi: {get: function(){return clipVoronoi;}, set: function(_){clipVoronoi=_;}}, + clipRadius: {get: function(){return clipRadius;}, set: function(_){clipRadius=_;}}, + showVoronoi: {get: function(){return showVoronoi;}, set: function(_){showVoronoi=_;}}, + id: {get: function(){return id;}, set: function(_){id=_;}}, + + + // simple functor options + x: {get: function(){return getX;}, set: function(_){getX = d3.functor(_);}}, + y: {get: function(){return getY;}, set: function(_){getY = d3.functor(_);}}, + pointSize: {get: function(){return getSize;}, set: function(_){getSize = d3.functor(_);}}, + pointShape: {get: function(){return getShape;}, set: function(_){getShape = d3.functor(_);}}, + + // options that require extra logic in the setter + margin: {get: function(){return margin;}, set: function(_){ + margin.top = _.top !== undefined ? _.top : margin.top; + margin.right = _.right !== undefined ? _.right : margin.right; + margin.bottom = _.bottom !== undefined ? _.bottom : margin.bottom; + margin.left = _.left !== undefined ? _.left : margin.left; + }}, + duration: {get: function(){return duration;}, set: function(_){ + duration = _; + renderWatch.reset(duration); + }}, + color: {get: function(){return color;}, set: function(_){ + color = nv.utils.getColor(_); + }}, + useVoronoi: {get: function(){return useVoronoi;}, set: function(_){ + useVoronoi = _; + if (useVoronoi === false) { + clipVoronoi = false; + } + }} + }); + + nv.utils.initOptions(chart); + return chart; +}; + +nv.models.scatterChart = function() { + "use strict"; + + //============================================================ + // Public Variables with Default Settings + //------------------------------------------------------------ + + var scatter = nv.models.scatter() + , xAxis = nv.models.axis() + , yAxis = nv.models.axis() + , legend = nv.models.legend() + , distX = nv.models.distribution() + , distY = nv.models.distribution() + , tooltip = nv.models.tooltip() + ; + + var margin = {top: 30, right: 20, bottom: 50, left: 75} + , width = null + , height = null + , container = null + , color = nv.utils.defaultColor() + , x = scatter.xScale() + , y = scatter.yScale() + , showDistX = false + , showDistY = false + , showLegend = true + , showXAxis = true + , showYAxis = true + , rightAlignYAxis = false + , state = nv.utils.state() + , defaultState = null + , dispatch = d3.dispatch('stateChange', 'changeState', 'renderEnd') + , noData = null + , duration = 250 + ; + + scatter.xScale(x).yScale(y); + xAxis.orient('bottom').tickPadding(10); + yAxis + .orient((rightAlignYAxis) ? 'right' : 'left') + .tickPadding(10) + ; + distX.axis('x'); + distY.axis('y'); + tooltip + .headerFormatter(function(d, i) { + return xAxis.tickFormat()(d, i); + }) + .valueFormatter(function(d, i) { + return yAxis.tickFormat()(d, i); + }); + + //============================================================ + // Private Variables + //------------------------------------------------------------ + + var x0, y0 + , renderWatch = nv.utils.renderWatch(dispatch, duration); + + var stateGetter = function(data) { + return function(){ + return { + active: data.map(function(d) { return !d.disabled }) + }; + } + }; + + var stateSetter = function(data) { + return function(state) { + if (state.active !== undefined) + data.forEach(function(series,i) { + series.disabled = !state.active[i]; + }); + } + }; + + function chart(selection) { + renderWatch.reset(); + renderWatch.models(scatter); + if (showXAxis) renderWatch.models(xAxis); + if (showYAxis) renderWatch.models(yAxis); + if (showDistX) renderWatch.models(distX); + if (showDistY) renderWatch.models(distY); + + selection.each(function(data) { + var that = this; + + container = d3.select(this); + nv.utils.initSVG(container); + + var availableWidth = nv.utils.availableWidth(width, container, margin), + availableHeight = nv.utils.availableHeight(height, container, margin); + + chart.update = function() { + if (duration === 0) + container.call(chart); + else + container.transition().duration(duration).call(chart); + }; + chart.container = this; + + state + .setter(stateSetter(data), chart.update) + .getter(stateGetter(data)) + .update(); + + // DEPRECATED set state.disableddisabled + state.disabled = data.map(function(d) { return !!d.disabled }); + + if (!defaultState) { + var key; + defaultState = {}; + for (key in state) { + if (state[key] instanceof Array) + defaultState[key] = state[key].slice(0); + else + defaultState[key] = state[key]; + } + } + + // Display noData message if there's nothing to show. + if (!data || !data.length || !data.filter(function(d) { return d.values.length }).length) { + nv.utils.noData(chart, container); + renderWatch.renderEnd('scatter immediate'); + return chart; + } else { + container.selectAll('.nv-noData').remove(); + } + + // Setup Scales + x = scatter.xScale(); + y = scatter.yScale(); + + // Setup containers and skeleton of chart + var wrap = container.selectAll('g.nv-wrap.nv-scatterChart').data([data]); + var wrapEnter = wrap.enter().append('g').attr('class', 'nvd3 nv-wrap nv-scatterChart nv-chart-' + scatter.id()); + var gEnter = wrapEnter.append('g'); + var g = wrap.select('g'); + + // background for pointer events + gEnter.append('rect').attr('class', 'nvd3 nv-background').style("pointer-events","none"); + + gEnter.append('g').attr('class', 'nv-x nv-axis'); + gEnter.append('g').attr('class', 'nv-y nv-axis'); + gEnter.append('g').attr('class', 'nv-scatterWrap'); + gEnter.append('g').attr('class', 'nv-regressionLinesWrap'); + gEnter.append('g').attr('class', 'nv-distWrap'); + gEnter.append('g').attr('class', 'nv-legendWrap'); + + if (rightAlignYAxis) { + g.select(".nv-y.nv-axis") + .attr("transform", "translate(" + availableWidth + ",0)"); + } + + // Legend + if (showLegend) { + var legendWidth = availableWidth; + legend.width(legendWidth); + + wrap.select('.nv-legendWrap') + .datum(data) + .call(legend); + + if ( margin.top != legend.height()) { + margin.top = legend.height(); + availableHeight = nv.utils.availableHeight(height, container, margin); + } + + wrap.select('.nv-legendWrap') + .attr('transform', 'translate(0' + ',' + (-margin.top) +')'); + } + + wrap.attr('transform', 'translate(' + margin.left + ',' + margin.top + ')'); + + // Main Chart Component(s) + scatter + .width(availableWidth) + .height(availableHeight) + .color(data.map(function(d,i) { + return d.color || color(d, i); + }).filter(function(d,i) { return !data[i].disabled })); + + wrap.select('.nv-scatterWrap') + .datum(data.filter(function(d) { return !d.disabled })) + .call(scatter); + + + wrap.select('.nv-regressionLinesWrap') + .attr('clip-path', 'url(#nv-edge-clip-' + scatter.id() + ')'); + + var regWrap = wrap.select('.nv-regressionLinesWrap').selectAll('.nv-regLines') + .data(function (d) { + return d; + }); + + regWrap.enter().append('g').attr('class', 'nv-regLines'); + + var regLine = regWrap.selectAll('.nv-regLine') + .data(function (d) { + return [d] + }); + + regLine.enter() + .append('line').attr('class', 'nv-regLine') + .style('stroke-opacity', 0); + + // don't add lines unless we have slope and intercept to use + regLine.filter(function(d) { + return d.intercept && d.slope; + }) + .watchTransition(renderWatch, 'scatterPlusLineChart: regline') + .attr('x1', x.range()[0]) + .attr('x2', x.range()[1]) + .attr('y1', function (d, i) { + return y(x.domain()[0] * d.slope + d.intercept) + }) + .attr('y2', function (d, i) { + return y(x.domain()[1] * d.slope + d.intercept) + }) + .style('stroke', function (d, i, j) { + return color(d, j) + }) + .style('stroke-opacity', function (d, i) { + return (d.disabled || typeof d.slope === 'undefined' || typeof d.intercept === 'undefined') ? 0 : 1 + }); + + // Setup Axes + if (showXAxis) { + xAxis + .scale(x) + ._ticks( nv.utils.calcTicksX(availableWidth/100, data) ) + .tickSize( -availableHeight , 0); + + g.select('.nv-x.nv-axis') + .attr('transform', 'translate(0,' + y.range()[0] + ')') + .call(xAxis); + } + + if (showYAxis) { + yAxis + .scale(y) + ._ticks( nv.utils.calcTicksY(availableHeight/36, data) ) + .tickSize( -availableWidth, 0); + + g.select('.nv-y.nv-axis') + .call(yAxis); + } + + + if (showDistX) { + distX + .getData(scatter.x()) + .scale(x) + .width(availableWidth) + .color(data.map(function(d,i) { + return d.color || color(d, i); + }).filter(function(d,i) { return !data[i].disabled })); + gEnter.select('.nv-distWrap').append('g') + .attr('class', 'nv-distributionX'); + g.select('.nv-distributionX') + .attr('transform', 'translate(0,' + y.range()[0] + ')') + .datum(data.filter(function(d) { return !d.disabled })) + .call(distX); + } + + if (showDistY) { + distY + .getData(scatter.y()) + .scale(y) + .width(availableHeight) + .color(data.map(function(d,i) { + return d.color || color(d, i); + }).filter(function(d,i) { return !data[i].disabled })); + gEnter.select('.nv-distWrap').append('g') + .attr('class', 'nv-distributionY'); + g.select('.nv-distributionY') + .attr('transform', 'translate(' + (rightAlignYAxis ? availableWidth : -distY.size() ) + ',0)') + .datum(data.filter(function(d) { return !d.disabled })) + .call(distY); + } + + //============================================================ + // Event Handling/Dispatching (in chart's scope) + //------------------------------------------------------------ + + legend.dispatch.on('stateChange', function(newState) { + for (var key in newState) + state[key] = newState[key]; + dispatch.stateChange(state); + chart.update(); + }); + + // Update chart from a state object passed to event handler + dispatch.on('changeState', function(e) { + if (typeof e.disabled !== 'undefined') { + data.forEach(function(series,i) { + series.disabled = e.disabled[i]; + }); + state.disabled = e.disabled; + } + chart.update(); + }); + + // mouseover needs availableHeight so we just keep scatter mouse events inside the chart block + scatter.dispatch.on('elementMouseout.tooltip', function(evt) { + tooltip.hidden(true); + container.select('.nv-chart-' + scatter.id() + ' .nv-series-' + evt.seriesIndex + ' .nv-distx-' + evt.pointIndex) + .attr('y1', 0); + container.select('.nv-chart-' + scatter.id() + ' .nv-series-' + evt.seriesIndex + ' .nv-disty-' + evt.pointIndex) + .attr('x2', distY.size()); + }); + + scatter.dispatch.on('elementMouseover.tooltip', function(evt) { + container.select('.nv-series-' + evt.seriesIndex + ' .nv-distx-' + evt.pointIndex) + .attr('y1', evt.pos.top - availableHeight - margin.top); + container.select('.nv-series-' + evt.seriesIndex + ' .nv-disty-' + evt.pointIndex) + .attr('x2', evt.pos.left + distX.size() - margin.left); + tooltip.position(evt.pos).data(evt).hidden(false); + }); + + //store old scales for use in transitions on update + x0 = x.copy(); + y0 = y.copy(); + + }); + + renderWatch.renderEnd('scatter with line immediate'); + return chart; + } + + //============================================================ + // Expose Public Variables + //------------------------------------------------------------ + + // expose chart's sub-components + chart.dispatch = dispatch; + chart.scatter = scatter; + chart.legend = legend; + chart.xAxis = xAxis; + chart.yAxis = yAxis; + chart.distX = distX; + chart.distY = distY; + chart.tooltip = tooltip; + + chart.options = nv.utils.optionsFunc.bind(chart); + chart._options = Object.create({}, { + // simple options, just get/set the necessary values + width: {get: function(){return width;}, set: function(_){width=_;}}, + height: {get: function(){return height;}, set: function(_){height=_;}}, + container: {get: function(){return container;}, set: function(_){container=_;}}, + showDistX: {get: function(){return showDistX;}, set: function(_){showDistX=_;}}, + showDistY: {get: function(){return showDistY;}, set: function(_){showDistY=_;}}, + showLegend: {get: function(){return showLegend;}, set: function(_){showLegend=_;}}, + showXAxis: {get: function(){return showXAxis;}, set: function(_){showXAxis=_;}}, + showYAxis: {get: function(){return showYAxis;}, set: function(_){showYAxis=_;}}, + defaultState: {get: function(){return defaultState;}, set: function(_){defaultState=_;}}, + noData: {get: function(){return noData;}, set: function(_){noData=_;}}, + duration: {get: function(){return duration;}, set: function(_){duration=_;}}, + + // deprecated options + tooltips: {get: function(){return tooltip.enabled();}, set: function(_){ + // deprecated after 1.7.1 + nv.deprecated('tooltips', 'use chart.tooltip.enabled() instead'); + tooltip.enabled(!!_); + }}, + tooltipContent: {get: function(){return tooltip.contentGenerator();}, set: function(_){ + // deprecated after 1.7.1 + nv.deprecated('tooltipContent', 'use chart.tooltip.contentGenerator() instead'); + tooltip.contentGenerator(_); + }}, + tooltipXContent: {get: function(){return tooltip.contentGenerator();}, set: function(_){ + // deprecated after 1.7.1 + nv.deprecated('tooltipContent', 'This option is removed, put values into main tooltip.'); + }}, + tooltipYContent: {get: function(){return tooltip.contentGenerator();}, set: function(_){ + // deprecated after 1.7.1 + nv.deprecated('tooltipContent', 'This option is removed, put values into main tooltip.'); + }}, + + // options that require extra logic in the setter + margin: {get: function(){return margin;}, set: function(_){ + margin.top = _.top !== undefined ? _.top : margin.top; + margin.right = _.right !== undefined ? _.right : margin.right; + margin.bottom = _.bottom !== undefined ? _.bottom : margin.bottom; + margin.left = _.left !== undefined ? _.left : margin.left; + }}, + rightAlignYAxis: {get: function(){return rightAlignYAxis;}, set: function(_){ + rightAlignYAxis = _; + yAxis.orient( (_) ? 'right' : 'left'); + }}, + color: {get: function(){return color;}, set: function(_){ + color = nv.utils.getColor(_); + legend.color(color); + distX.color(color); + distY.color(color); + }} + }); + + nv.utils.inheritOptions(chart, scatter); + nv.utils.initOptions(chart); + return chart; +}; + +nv.models.sparkline = function() { + "use strict"; + + //============================================================ + // Public Variables with Default Settings + //------------------------------------------------------------ + + var margin = {top: 2, right: 0, bottom: 2, left: 0} + , width = 400 + , height = 32 + , container = null + , animate = true + , x = d3.scale.linear() + , y = d3.scale.linear() + , getX = function(d) { return d.x } + , getY = function(d) { return d.y } + , color = nv.utils.getColor(['#000']) + , xDomain + , yDomain + , xRange + , yRange + ; + + function chart(selection) { + selection.each(function(data) { + var availableWidth = width - margin.left - margin.right, + availableHeight = height - margin.top - margin.bottom; + + container = d3.select(this); + nv.utils.initSVG(container); + + // Setup Scales + x .domain(xDomain || d3.extent(data, getX )) + .range(xRange || [0, availableWidth]); + + y .domain(yDomain || d3.extent(data, getY )) + .range(yRange || [availableHeight, 0]); + + // Setup containers and skeleton of chart + var wrap = container.selectAll('g.nv-wrap.nv-sparkline').data([data]); + var wrapEnter = wrap.enter().append('g').attr('class', 'nvd3 nv-wrap nv-sparkline'); + var gEnter = wrapEnter.append('g'); + var g = wrap.select('g'); + + wrap.attr('transform', 'translate(' + margin.left + ',' + margin.top + ')') + + var paths = wrap.selectAll('path') + .data(function(d) { return [d] }); + paths.enter().append('path'); + paths.exit().remove(); + paths + .style('stroke', function(d,i) { return d.color || color(d, i) }) + .attr('d', d3.svg.line() + .x(function(d,i) { return x(getX(d,i)) }) + .y(function(d,i) { return y(getY(d,i)) }) + ); + + // TODO: Add CURRENT data point (Need Min, Mac, Current / Most recent) + var points = wrap.selectAll('circle.nv-point') + .data(function(data) { + var yValues = data.map(function(d, i) { return getY(d,i); }); + function pointIndex(index) { + if (index != -1) { + var result = data[index]; + result.pointIndex = index; + return result; + } else { + return null; + } + } + var maxPoint = pointIndex(yValues.lastIndexOf(y.domain()[1])), + minPoint = pointIndex(yValues.indexOf(y.domain()[0])), + currentPoint = pointIndex(yValues.length - 1); + return [minPoint, maxPoint, currentPoint].filter(function (d) {return d != null;}); + }); + points.enter().append('circle'); + points.exit().remove(); + points + .attr('cx', function(d,i) { return x(getX(d,d.pointIndex)) }) + .attr('cy', function(d,i) { return y(getY(d,d.pointIndex)) }) + .attr('r', 2) + .attr('class', function(d,i) { + return getX(d, d.pointIndex) == x.domain()[1] ? 'nv-point nv-currentValue' : + getY(d, d.pointIndex) == y.domain()[0] ? 'nv-point nv-minValue' : 'nv-point nv-maxValue' + }); + }); + + return chart; + } + + //============================================================ + // Expose Public Variables + //------------------------------------------------------------ + + chart.options = nv.utils.optionsFunc.bind(chart); + + chart._options = Object.create({}, { + // simple options, just get/set the necessary values + width: {get: function(){return width;}, set: function(_){width=_;}}, + height: {get: function(){return height;}, set: function(_){height=_;}}, + xDomain: {get: function(){return xDomain;}, set: function(_){xDomain=_;}}, + yDomain: {get: function(){return yDomain;}, set: function(_){yDomain=_;}}, + xRange: {get: function(){return xRange;}, set: function(_){xRange=_;}}, + yRange: {get: function(){return yRange;}, set: function(_){yRange=_;}}, + xScale: {get: function(){return x;}, set: function(_){x=_;}}, + yScale: {get: function(){return y;}, set: function(_){y=_;}}, + animate: {get: function(){return animate;}, set: function(_){animate=_;}}, + + //functor options + x: {get: function(){return getX;}, set: function(_){getX=d3.functor(_);}}, + y: {get: function(){return getY;}, set: function(_){getY=d3.functor(_);}}, + + // options that require extra logic in the setter + margin: {get: function(){return margin;}, set: function(_){ + margin.top = _.top !== undefined ? _.top : margin.top; + margin.right = _.right !== undefined ? _.right : margin.right; + margin.bottom = _.bottom !== undefined ? _.bottom : margin.bottom; + margin.left = _.left !== undefined ? _.left : margin.left; + }}, + color: {get: function(){return color;}, set: function(_){ + color = nv.utils.getColor(_); + }} + }); + + nv.utils.initOptions(chart); + return chart; +}; + +nv.models.sparklinePlus = function() { + "use strict"; + + //============================================================ + // Public Variables with Default Settings + //------------------------------------------------------------ + + var sparkline = nv.models.sparkline(); + + var margin = {top: 15, right: 100, bottom: 10, left: 50} + , width = null + , height = null + , x + , y + , index = [] + , paused = false + , xTickFormat = d3.format(',r') + , yTickFormat = d3.format(',.2f') + , showLastValue = true + , alignValue = true + , rightAlignValue = false + , noData = null + ; + + function chart(selection) { + selection.each(function(data) { + var container = d3.select(this); + nv.utils.initSVG(container); + + var availableWidth = nv.utils.availableWidth(width, container, margin), + availableHeight = nv.utils.availableHeight(height, container, margin); + + chart.update = function() { chart(selection) }; + chart.container = this; + + // Display No Data message if there's nothing to show. + if (!data || !data.length) { + nv.utils.noData(chart, container) + return chart; + } else { + container.selectAll('.nv-noData').remove(); + } + + var currentValue = sparkline.y()(data[data.length-1], data.length-1); + + // Setup Scales + x = sparkline.xScale(); + y = sparkline.yScale(); + + // Setup containers and skeleton of chart + var wrap = container.selectAll('g.nv-wrap.nv-sparklineplus').data([data]); + var wrapEnter = wrap.enter().append('g').attr('class', 'nvd3 nv-wrap nv-sparklineplus'); + var gEnter = wrapEnter.append('g'); + var g = wrap.select('g'); + + gEnter.append('g').attr('class', 'nv-sparklineWrap'); + gEnter.append('g').attr('class', 'nv-valueWrap'); + gEnter.append('g').attr('class', 'nv-hoverArea'); + + wrap.attr('transform', 'translate(' + margin.left + ',' + margin.top + ')'); + + // Main Chart Component(s) + var sparklineWrap = g.select('.nv-sparklineWrap'); + + sparkline.width(availableWidth).height(availableHeight); + sparklineWrap.call(sparkline); + + if (showLastValue) { + var valueWrap = g.select('.nv-valueWrap'); + var value = valueWrap.selectAll('.nv-currentValue') + .data([currentValue]); + + value.enter().append('text').attr('class', 'nv-currentValue') + .attr('dx', rightAlignValue ? -8 : 8) + .attr('dy', '.9em') + .style('text-anchor', rightAlignValue ? 'end' : 'start'); + + value + .attr('x', availableWidth + (rightAlignValue ? margin.right : 0)) + .attr('y', alignValue ? function (d) { + return y(d) + } : 0) + .style('fill', sparkline.color()(data[data.length - 1], data.length - 1)) + .text(yTickFormat(currentValue)); + } + + gEnter.select('.nv-hoverArea').append('rect') + .on('mousemove', sparklineHover) + .on('click', function() { paused = !paused }) + .on('mouseout', function() { index = []; updateValueLine(); }); + + g.select('.nv-hoverArea rect') + .attr('transform', function(d) { return 'translate(' + -margin.left + ',' + -margin.top + ')' }) + .attr('width', availableWidth + margin.left + margin.right) + .attr('height', availableHeight + margin.top); + + //index is currently global (within the chart), may or may not keep it that way + function updateValueLine() { + if (paused) return; + + var hoverValue = g.selectAll('.nv-hoverValue').data(index); + + var hoverEnter = hoverValue.enter() + .append('g').attr('class', 'nv-hoverValue') + .style('stroke-opacity', 0) + .style('fill-opacity', 0); + + hoverValue.exit() + .transition().duration(250) + .style('stroke-opacity', 0) + .style('fill-opacity', 0) + .remove(); + + hoverValue + .attr('transform', function(d) { return 'translate(' + x(sparkline.x()(data[d],d)) + ',0)' }) + .transition().duration(250) + .style('stroke-opacity', 1) + .style('fill-opacity', 1); + + if (!index.length) return; + + hoverEnter.append('line') + .attr('x1', 0) + .attr('y1', -margin.top) + .attr('x2', 0) + .attr('y2', availableHeight); + + hoverEnter.append('text').attr('class', 'nv-xValue') + .attr('x', -6) + .attr('y', -margin.top) + .attr('text-anchor', 'end') + .attr('dy', '.9em'); + + g.select('.nv-hoverValue .nv-xValue') + .text(xTickFormat(sparkline.x()(data[index[0]], index[0]))); + + hoverEnter.append('text').attr('class', 'nv-yValue') + .attr('x', 6) + .attr('y', -margin.top) + .attr('text-anchor', 'start') + .attr('dy', '.9em'); + + g.select('.nv-hoverValue .nv-yValue') + .text(yTickFormat(sparkline.y()(data[index[0]], index[0]))); + } + + function sparklineHover() { + if (paused) return; + + var pos = d3.mouse(this)[0] - margin.left; + + function getClosestIndex(data, x) { + var distance = Math.abs(sparkline.x()(data[0], 0) - x); + var closestIndex = 0; + for (var i = 0; i < data.length; i++){ + if (Math.abs(sparkline.x()(data[i], i) - x) < distance) { + distance = Math.abs(sparkline.x()(data[i], i) - x); + closestIndex = i; + } + } + return closestIndex; + } + + index = [getClosestIndex(data, Math.round(x.invert(pos)))]; + updateValueLine(); + } + + }); + + return chart; + } + + //============================================================ + // Expose Public Variables + //------------------------------------------------------------ + + // expose chart's sub-components + chart.sparkline = sparkline; + + chart.options = nv.utils.optionsFunc.bind(chart); + + chart._options = Object.create({}, { + // simple options, just get/set the necessary values + width: {get: function(){return width;}, set: function(_){width=_;}}, + height: {get: function(){return height;}, set: function(_){height=_;}}, + xTickFormat: {get: function(){return xTickFormat;}, set: function(_){xTickFormat=_;}}, + yTickFormat: {get: function(){return yTickFormat;}, set: function(_){yTickFormat=_;}}, + showLastValue: {get: function(){return showLastValue;}, set: function(_){showLastValue=_;}}, + alignValue: {get: function(){return alignValue;}, set: function(_){alignValue=_;}}, + rightAlignValue: {get: function(){return rightAlignValue;}, set: function(_){rightAlignValue=_;}}, + noData: {get: function(){return noData;}, set: function(_){noData=_;}}, + + // options that require extra logic in the setter + margin: {get: function(){return margin;}, set: function(_){ + margin.top = _.top !== undefined ? _.top : margin.top; + margin.right = _.right !== undefined ? _.right : margin.right; + margin.bottom = _.bottom !== undefined ? _.bottom : margin.bottom; + margin.left = _.left !== undefined ? _.left : margin.left; + }} + }); + + nv.utils.inheritOptions(chart, sparkline); + nv.utils.initOptions(chart); + + return chart; +}; + +nv.models.stackedArea = function() { + "use strict"; + + //============================================================ + // Public Variables with Default Settings + //------------------------------------------------------------ + + var margin = {top: 0, right: 0, bottom: 0, left: 0} + , width = 960 + , height = 500 + , color = nv.utils.defaultColor() // a function that computes the color + , id = Math.floor(Math.random() * 100000) //Create semi-unique ID incase user doesn't selet one + , container = null + , getX = function(d) { return d.x } // accessor to get the x value from a data point + , getY = function(d) { return d.y } // accessor to get the y value from a data point + , style = 'stack' + , offset = 'zero' + , order = 'default' + , interpolate = 'linear' // controls the line interpolation + , clipEdge = false // if true, masks lines within x and y scale + , x //can be accessed via chart.xScale() + , y //can be accessed via chart.yScale() + , scatter = nv.models.scatter() + , duration = 250 + , dispatch = d3.dispatch('areaClick', 'areaMouseover', 'areaMouseout','renderEnd', 'elementClick', 'elementMouseover', 'elementMouseout') + ; + + scatter + .pointSize(2.2) // default size + .pointDomain([2.2, 2.2]) // all the same size by default + ; + + /************************************ + * offset: + * 'wiggle' (stream) + * 'zero' (stacked) + * 'expand' (normalize to 100%) + * 'silhouette' (simple centered) + * + * order: + * 'inside-out' (stream) + * 'default' (input order) + ************************************/ + + var renderWatch = nv.utils.renderWatch(dispatch, duration); + + function chart(selection) { + renderWatch.reset(); + renderWatch.models(scatter); + selection.each(function(data) { + var availableWidth = width - margin.left - margin.right, + availableHeight = height - margin.top - margin.bottom; + + container = d3.select(this); + nv.utils.initSVG(container); + + // Setup Scales + x = scatter.xScale(); + y = scatter.yScale(); + + var dataRaw = data; + // Injecting point index into each point because d3.layout.stack().out does not give index + data.forEach(function(aseries, i) { + aseries.seriesIndex = i; + aseries.values = aseries.values.map(function(d, j) { + d.index = j; + d.seriesIndex = i; + return d; + }); + }); + + var dataFiltered = data.filter(function(series) { + return !series.disabled; + }); + + data = d3.layout.stack() + .order(order) + .offset(offset) + .values(function(d) { return d.values }) //TODO: make values customizeable in EVERY model in this fashion + .x(getX) + .y(getY) + .out(function(d, y0, y) { + d.display = { + y: y, + y0: y0 + }; + }) + (dataFiltered); + + // Setup containers and skeleton of chart + var wrap = container.selectAll('g.nv-wrap.nv-stackedarea').data([data]); + var wrapEnter = wrap.enter().append('g').attr('class', 'nvd3 nv-wrap nv-stackedarea'); + var defsEnter = wrapEnter.append('defs'); + var gEnter = wrapEnter.append('g'); + var g = wrap.select('g'); + + gEnter.append('g').attr('class', 'nv-areaWrap'); + gEnter.append('g').attr('class', 'nv-scatterWrap'); + + wrap.attr('transform', 'translate(' + margin.left + ',' + margin.top + ')'); + + // If the user has not specified forceY, make sure 0 is included in the domain + // Otherwise, use user-specified values for forceY + if (scatter.forceY().length == 0) { + scatter.forceY().push(0); + } + + scatter + .width(availableWidth) + .height(availableHeight) + .x(getX) + .y(function(d) { return d.display.y + d.display.y0 }) + .forceY([0]) + .color(data.map(function(d,i) { + return d.color || color(d, d.seriesIndex); + })); + + var scatterWrap = g.select('.nv-scatterWrap') + .datum(data); + + scatterWrap.call(scatter); + + defsEnter.append('clipPath') + .attr('id', 'nv-edge-clip-' + id) + .append('rect'); + + wrap.select('#nv-edge-clip-' + id + ' rect') + .attr('width', availableWidth) + .attr('height', availableHeight); + + g.attr('clip-path', clipEdge ? 'url(#nv-edge-clip-' + id + ')' : ''); + + var area = d3.svg.area() + .x(function(d,i) { return x(getX(d,i)) }) + .y0(function(d) { + return y(d.display.y0) + }) + .y1(function(d) { + return y(d.display.y + d.display.y0) + }) + .interpolate(interpolate); + + var zeroArea = d3.svg.area() + .x(function(d,i) { return x(getX(d,i)) }) + .y0(function(d) { return y(d.display.y0) }) + .y1(function(d) { return y(d.display.y0) }); + + var path = g.select('.nv-areaWrap').selectAll('path.nv-area') + .data(function(d) { return d }); + + path.enter().append('path').attr('class', function(d,i) { return 'nv-area nv-area-' + i }) + .attr('d', function(d,i){ + return zeroArea(d.values, d.seriesIndex); + }) + .on('mouseover', function(d,i) { + d3.select(this).classed('hover', true); + dispatch.areaMouseover({ + point: d, + series: d.key, + pos: [d3.event.pageX, d3.event.pageY], + seriesIndex: d.seriesIndex + }); + }) + .on('mouseout', function(d,i) { + d3.select(this).classed('hover', false); + dispatch.areaMouseout({ + point: d, + series: d.key, + pos: [d3.event.pageX, d3.event.pageY], + seriesIndex: d.seriesIndex + }); + }) + .on('click', function(d,i) { + d3.select(this).classed('hover', false); + dispatch.areaClick({ + point: d, + series: d.key, + pos: [d3.event.pageX, d3.event.pageY], + seriesIndex: d.seriesIndex + }); + }); + + path.exit().remove(); + path.style('fill', function(d,i){ + return d.color || color(d, d.seriesIndex) + }) + .style('stroke', function(d,i){ return d.color || color(d, d.seriesIndex) }); + path.watchTransition(renderWatch,'stackedArea path') + .attr('d', function(d,i) { + return area(d.values,i) + }); + + //============================================================ + // Event Handling/Dispatching (in chart's scope) + //------------------------------------------------------------ + + scatter.dispatch.on('elementMouseover.area', function(e) { + g.select('.nv-chart-' + id + ' .nv-area-' + e.seriesIndex).classed('hover', true); + }); + scatter.dispatch.on('elementMouseout.area', function(e) { + g.select('.nv-chart-' + id + ' .nv-area-' + e.seriesIndex).classed('hover', false); + }); + + //Special offset functions + chart.d3_stackedOffset_stackPercent = function(stackData) { + var n = stackData.length, //How many series + m = stackData[0].length, //how many points per series + i, + j, + o, + y0 = []; + + for (j = 0; j < m; ++j) { //Looping through all points + for (i = 0, o = 0; i < dataRaw.length; i++) { //looping through all series + o += getY(dataRaw[i].values[j]); //total y value of all series at a certian point in time. + } + + if (o) for (i = 0; i < n; i++) { //(total y value of all series at point in time i) != 0 + stackData[i][j][1] /= o; + } else { //(total y value of all series at point in time i) == 0 + for (i = 0; i < n; i++) { + stackData[i][j][1] = 0; + } + } + } + for (j = 0; j < m; ++j) y0[j] = 0; + return y0; + }; + + }); + + renderWatch.renderEnd('stackedArea immediate'); + return chart; + } + + //============================================================ + // Global getters and setters + //------------------------------------------------------------ + + chart.dispatch = dispatch; + chart.scatter = scatter; + + scatter.dispatch.on('elementClick', function(){ dispatch.elementClick.apply(this, arguments); }); + scatter.dispatch.on('elementMouseover', function(){ dispatch.elementMouseover.apply(this, arguments); }); + scatter.dispatch.on('elementMouseout', function(){ dispatch.elementMouseout.apply(this, arguments); }); + + chart.interpolate = function(_) { + if (!arguments.length) return interpolate; + interpolate = _; + return chart; + }; + + chart.duration = function(_) { + if (!arguments.length) return duration; + duration = _; + renderWatch.reset(duration); + scatter.duration(duration); + return chart; + }; + + chart.dispatch = dispatch; + chart.scatter = scatter; + chart.options = nv.utils.optionsFunc.bind(chart); + + chart._options = Object.create({}, { + // simple options, just get/set the necessary values + width: {get: function(){return width;}, set: function(_){width=_;}}, + height: {get: function(){return height;}, set: function(_){height=_;}}, + clipEdge: {get: function(){return clipEdge;}, set: function(_){clipEdge=_;}}, + offset: {get: function(){return offset;}, set: function(_){offset=_;}}, + order: {get: function(){return order;}, set: function(_){order=_;}}, + interpolate: {get: function(){return interpolate;}, set: function(_){interpolate=_;}}, + + // simple functor options + x: {get: function(){return getX;}, set: function(_){getX = d3.functor(_);}}, + y: {get: function(){return getY;}, set: function(_){getY = d3.functor(_);}}, + + // options that require extra logic in the setter + margin: {get: function(){return margin;}, set: function(_){ + margin.top = _.top !== undefined ? _.top : margin.top; + margin.right = _.right !== undefined ? _.right : margin.right; + margin.bottom = _.bottom !== undefined ? _.bottom : margin.bottom; + margin.left = _.left !== undefined ? _.left : margin.left; + }}, + color: {get: function(){return color;}, set: function(_){ + color = nv.utils.getColor(_); + }}, + style: {get: function(){return style;}, set: function(_){ + style = _; + switch (style) { + case 'stack': + chart.offset('zero'); + chart.order('default'); + break; + case 'stream': + chart.offset('wiggle'); + chart.order('inside-out'); + break; + case 'stream-center': + chart.offset('silhouette'); + chart.order('inside-out'); + break; + case 'expand': + chart.offset('expand'); + chart.order('default'); + break; + case 'stack_percent': + chart.offset(chart.d3_stackedOffset_stackPercent); + chart.order('default'); + break; + } + }}, + duration: {get: function(){return duration;}, set: function(_){ + duration = _; + renderWatch.reset(duration); + scatter.duration(duration); + }} + }); + + nv.utils.inheritOptions(chart, scatter); + nv.utils.initOptions(chart); + + return chart; +}; + +nv.models.stackedAreaChart = function() { + "use strict"; + + //============================================================ + // Public Variables with Default Settings + //------------------------------------------------------------ + + var stacked = nv.models.stackedArea() + , xAxis = nv.models.axis() + , yAxis = nv.models.axis() + , legend = nv.models.legend() + , controls = nv.models.legend() + , interactiveLayer = nv.interactiveGuideline() + , tooltip = nv.models.tooltip() + ; + + var margin = {top: 30, right: 25, bottom: 50, left: 60} + , width = null + , height = null + , color = nv.utils.defaultColor() + , showControls = true + , showLegend = true + , showXAxis = true + , showYAxis = true + , rightAlignYAxis = false + , useInteractiveGuideline = false + , x //can be accessed via chart.xScale() + , y //can be accessed via chart.yScale() + , state = nv.utils.state() + , defaultState = null + , noData = null + , dispatch = d3.dispatch('stateChange', 'changeState','renderEnd') + , controlWidth = 250 + , controlOptions = ['Stacked','Stream','Expanded'] + , controlLabels = {} + , duration = 250 + ; + + state.style = stacked.style(); + xAxis.orient('bottom').tickPadding(7); + yAxis.orient((rightAlignYAxis) ? 'right' : 'left'); + + tooltip + .headerFormatter(function(d, i) { + return xAxis.tickFormat()(d, i); + }) + .valueFormatter(function(d, i) { + return yAxis.tickFormat()(d, i); + }); + + interactiveLayer.tooltip + .headerFormatter(function(d, i) { + return xAxis.tickFormat()(d, i); + }) + .valueFormatter(function(d, i) { + return yAxis.tickFormat()(d, i); + }); + + var oldYTickFormat = null, + oldValueFormatter = null; + + controls.updateState(false); + + //============================================================ + // Private Variables + //------------------------------------------------------------ + + var renderWatch = nv.utils.renderWatch(dispatch); + var style = stacked.style(); + + var stateGetter = function(data) { + return function(){ + return { + active: data.map(function(d) { return !d.disabled }), + style: stacked.style() + }; + } + }; + + var stateSetter = function(data) { + return function(state) { + if (state.style !== undefined) + style = state.style; + if (state.active !== undefined) + data.forEach(function(series,i) { + series.disabled = !state.active[i]; + }); + } + }; + + var percentFormatter = d3.format('%'); + + function chart(selection) { + renderWatch.reset(); + renderWatch.models(stacked); + if (showXAxis) renderWatch.models(xAxis); + if (showYAxis) renderWatch.models(yAxis); + + selection.each(function(data) { + var container = d3.select(this), + that = this; + nv.utils.initSVG(container); + + var availableWidth = nv.utils.availableWidth(width, container, margin), + availableHeight = nv.utils.availableHeight(height, container, margin); + + chart.update = function() { container.transition().duration(duration).call(chart); }; + chart.container = this; + + state + .setter(stateSetter(data), chart.update) + .getter(stateGetter(data)) + .update(); + + // DEPRECATED set state.disabled + state.disabled = data.map(function(d) { return !!d.disabled }); + + if (!defaultState) { + var key; + defaultState = {}; + for (key in state) { + if (state[key] instanceof Array) + defaultState[key] = state[key].slice(0); + else + defaultState[key] = state[key]; + } + } + + // Display No Data message if there's nothing to show. + if (!data || !data.length || !data.filter(function(d) { return d.values.length }).length) { + nv.utils.noData(chart, container) + return chart; + } else { + container.selectAll('.nv-noData').remove(); + } + + // Setup Scales + x = stacked.xScale(); + y = stacked.yScale(); + + // Setup containers and skeleton of chart + var wrap = container.selectAll('g.nv-wrap.nv-stackedAreaChart').data([data]); + var gEnter = wrap.enter().append('g').attr('class', 'nvd3 nv-wrap nv-stackedAreaChart').append('g'); + var g = wrap.select('g'); + + gEnter.append("rect").style("opacity",0); + gEnter.append('g').attr('class', 'nv-x nv-axis'); + gEnter.append('g').attr('class', 'nv-y nv-axis'); + gEnter.append('g').attr('class', 'nv-stackedWrap'); + gEnter.append('g').attr('class', 'nv-legendWrap'); + gEnter.append('g').attr('class', 'nv-controlsWrap'); + gEnter.append('g').attr('class', 'nv-interactive'); + + g.select("rect").attr("width",availableWidth).attr("height",availableHeight); + + // Legend + if (showLegend) { + var legendWidth = (showControls) ? availableWidth - controlWidth : availableWidth; + + legend.width(legendWidth); + g.select('.nv-legendWrap').datum(data).call(legend); + + if ( margin.top != legend.height()) { + margin.top = legend.height(); + availableHeight = nv.utils.availableHeight(height, container, margin); + } + + g.select('.nv-legendWrap') + .attr('transform', 'translate(' + (availableWidth-legendWidth) + ',' + (-margin.top) +')'); + } + + // Controls + if (showControls) { + var controlsData = [ + { + key: controlLabels.stacked || 'Stacked', + metaKey: 'Stacked', + disabled: stacked.style() != 'stack', + style: 'stack' + }, + { + key: controlLabels.stream || 'Stream', + metaKey: 'Stream', + disabled: stacked.style() != 'stream', + style: 'stream' + }, + { + key: controlLabels.expanded || 'Expanded', + metaKey: 'Expanded', + disabled: stacked.style() != 'expand', + style: 'expand' + }, + { + key: controlLabels.stack_percent || 'Stack %', + metaKey: 'Stack_Percent', + disabled: stacked.style() != 'stack_percent', + style: 'stack_percent' + } + ]; + + controlWidth = (controlOptions.length/3) * 260; + controlsData = controlsData.filter(function(d) { + return controlOptions.indexOf(d.metaKey) !== -1; + }); + + controls + .width( controlWidth ) + .color(['#444', '#444', '#444']); + + g.select('.nv-controlsWrap') + .datum(controlsData) + .call(controls); + + if ( margin.top != Math.max(controls.height(), legend.height()) ) { + margin.top = Math.max(controls.height(), legend.height()); + availableHeight = nv.utils.availableHeight(height, container, margin); + } + + g.select('.nv-controlsWrap') + .attr('transform', 'translate(0,' + (-margin.top) +')'); + } + + wrap.attr('transform', 'translate(' + margin.left + ',' + margin.top + ')'); + + if (rightAlignYAxis) { + g.select(".nv-y.nv-axis") + .attr("transform", "translate(" + availableWidth + ",0)"); + } + + //Set up interactive layer + if (useInteractiveGuideline) { + interactiveLayer + .width(availableWidth) + .height(availableHeight) + .margin({left: margin.left, top: margin.top}) + .svgContainer(container) + .xScale(x); + wrap.select(".nv-interactive").call(interactiveLayer); + } + + stacked + .width(availableWidth) + .height(availableHeight); + + var stackedWrap = g.select('.nv-stackedWrap') + .datum(data); + + stackedWrap.transition().call(stacked); + + // Setup Axes + if (showXAxis) { + xAxis.scale(x) + ._ticks( nv.utils.calcTicksX(availableWidth/100, data) ) + .tickSize( -availableHeight, 0); + + g.select('.nv-x.nv-axis') + .attr('transform', 'translate(0,' + availableHeight + ')'); + + g.select('.nv-x.nv-axis') + .transition().duration(0) + .call(xAxis); + } + + if (showYAxis) { + var ticks; + if (stacked.offset() === 'wiggle') { + ticks = 0; + } + else { + ticks = nv.utils.calcTicksY(availableHeight/36, data); + } + yAxis.scale(y) + ._ticks(ticks) + .tickSize(-availableWidth, 0); + + if (stacked.style() === 'expand' || stacked.style() === 'stack_percent') { + var currentFormat = yAxis.tickFormat(); + + if ( !oldYTickFormat || currentFormat !== percentFormatter ) + oldYTickFormat = currentFormat; + + //Forces the yAxis to use percentage in 'expand' mode. + yAxis.tickFormat(percentFormatter); + } + else { + if (oldYTickFormat) { + yAxis.tickFormat(oldYTickFormat); + oldYTickFormat = null; + } + } + + g.select('.nv-y.nv-axis') + .transition().duration(0) + .call(yAxis); + } + + //============================================================ + // Event Handling/Dispatching (in chart's scope) + //------------------------------------------------------------ + + stacked.dispatch.on('areaClick.toggle', function(e) { + if (data.filter(function(d) { return !d.disabled }).length === 1) + data.forEach(function(d) { + d.disabled = false; + }); + else + data.forEach(function(d,i) { + d.disabled = (i != e.seriesIndex); + }); + + state.disabled = data.map(function(d) { return !!d.disabled }); + dispatch.stateChange(state); + + chart.update(); + }); + + legend.dispatch.on('stateChange', function(newState) { + for (var key in newState) + state[key] = newState[key]; + dispatch.stateChange(state); + chart.update(); + }); + + controls.dispatch.on('legendClick', function(d,i) { + if (!d.disabled) return; + + controlsData = controlsData.map(function(s) { + s.disabled = true; + return s; + }); + d.disabled = false; + + stacked.style(d.style); + + + state.style = stacked.style(); + dispatch.stateChange(state); + + chart.update(); + }); + + interactiveLayer.dispatch.on('elementMousemove', function(e) { + stacked.clearHighlights(); + var singlePoint, pointIndex, pointXLocation, allData = []; + data + .filter(function(series, i) { + series.seriesIndex = i; + return !series.disabled; + }) + .forEach(function(series,i) { + pointIndex = nv.interactiveBisect(series.values, e.pointXValue, chart.x()); + var point = series.values[pointIndex]; + var pointYValue = chart.y()(point, pointIndex); + if (pointYValue != null) { + stacked.highlightPoint(i, pointIndex, true); + } + if (typeof point === 'undefined') return; + if (typeof singlePoint === 'undefined') singlePoint = point; + if (typeof pointXLocation === 'undefined') pointXLocation = chart.xScale()(chart.x()(point,pointIndex)); + + //If we are in 'expand' mode, use the stacked percent value instead of raw value. + var tooltipValue = (stacked.style() == 'expand') ? point.display.y : chart.y()(point,pointIndex); + allData.push({ + key: series.key, + value: tooltipValue, + color: color(series,series.seriesIndex), + stackedValue: point.display + }); + }); + + allData.reverse(); + + //Highlight the tooltip entry based on which stack the mouse is closest to. + if (allData.length > 2) { + var yValue = chart.yScale().invert(e.mouseY); + var yDistMax = Infinity, indexToHighlight = null; + allData.forEach(function(series,i) { + + //To handle situation where the stacked area chart is negative, we need to use absolute values + //when checking if the mouse Y value is within the stack area. + yValue = Math.abs(yValue); + var stackedY0 = Math.abs(series.stackedValue.y0); + var stackedY = Math.abs(series.stackedValue.y); + if ( yValue >= stackedY0 && yValue <= (stackedY + stackedY0)) + { + indexToHighlight = i; + return; + } + }); + if (indexToHighlight != null) + allData[indexToHighlight].highlight = true; + } + + var xValue = xAxis.tickFormat()(chart.x()(singlePoint,pointIndex)); + + var valueFormatter = interactiveLayer.tooltip.valueFormatter(); + // Keeps track of the tooltip valueFormatter if the chart changes to expanded view + if (stacked.style() === 'expand' || stacked.style() === 'stack_percent') { + if ( !oldValueFormatter ) { + oldValueFormatter = valueFormatter; + } + //Forces the tooltip to use percentage in 'expand' mode. + valueFormatter = d3.format(".1%"); + } + else { + if (oldValueFormatter) { + valueFormatter = oldValueFormatter; + oldValueFormatter = null; + } + } + + interactiveLayer.tooltip + .position({left: pointXLocation + margin.left, top: e.mouseY + margin.top}) + .chartContainer(that.parentNode) + .valueFormatter(valueFormatter) + .data( + { + value: xValue, + series: allData + } + )(); + + interactiveLayer.renderGuideLine(pointXLocation); + + }); + + interactiveLayer.dispatch.on("elementMouseout",function(e) { + stacked.clearHighlights(); + }); + + // Update chart from a state object passed to event handler + dispatch.on('changeState', function(e) { + + if (typeof e.disabled !== 'undefined' && data.length === e.disabled.length) { + data.forEach(function(series,i) { + series.disabled = e.disabled[i]; + }); + + state.disabled = e.disabled; + } + + if (typeof e.style !== 'undefined') { + stacked.style(e.style); + style = e.style; + } + + chart.update(); + }); + + }); + + renderWatch.renderEnd('stacked Area chart immediate'); + return chart; + } + + //============================================================ + // Event Handling/Dispatching (out of chart's scope) + //------------------------------------------------------------ + + stacked.dispatch.on('elementMouseover.tooltip', function(evt) { + evt.point['x'] = stacked.x()(evt.point); + evt.point['y'] = stacked.y()(evt.point); + tooltip.data(evt).position(evt.pos).hidden(false); + }); + + stacked.dispatch.on('elementMouseout.tooltip', function(evt) { + tooltip.hidden(true) + }); + + //============================================================ + // Expose Public Variables + //------------------------------------------------------------ + + // expose chart's sub-components + chart.dispatch = dispatch; + chart.stacked = stacked; + chart.legend = legend; + chart.controls = controls; + chart.xAxis = xAxis; + chart.yAxis = yAxis; + chart.interactiveLayer = interactiveLayer; + chart.tooltip = tooltip; + + chart.dispatch = dispatch; + chart.options = nv.utils.optionsFunc.bind(chart); + + chart._options = Object.create({}, { + // simple options, just get/set the necessary values + width: {get: function(){return width;}, set: function(_){width=_;}}, + height: {get: function(){return height;}, set: function(_){height=_;}}, + showLegend: {get: function(){return showLegend;}, set: function(_){showLegend=_;}}, + showXAxis: {get: function(){return showXAxis;}, set: function(_){showXAxis=_;}}, + showYAxis: {get: function(){return showYAxis;}, set: function(_){showYAxis=_;}}, + defaultState: {get: function(){return defaultState;}, set: function(_){defaultState=_;}}, + noData: {get: function(){return noData;}, set: function(_){noData=_;}}, + showControls: {get: function(){return showControls;}, set: function(_){showControls=_;}}, + controlLabels: {get: function(){return controlLabels;}, set: function(_){controlLabels=_;}}, + controlOptions: {get: function(){return controlOptions;}, set: function(_){controlOptions=_;}}, + + // deprecated options + tooltips: {get: function(){return tooltip.enabled();}, set: function(_){ + // deprecated after 1.7.1 + nv.deprecated('tooltips', 'use chart.tooltip.enabled() instead'); + tooltip.enabled(!!_); + }}, + tooltipContent: {get: function(){return tooltip.contentGenerator();}, set: function(_){ + // deprecated after 1.7.1 + nv.deprecated('tooltipContent', 'use chart.tooltip.contentGenerator() instead'); + tooltip.contentGenerator(_); + }}, + + // options that require extra logic in the setter + margin: {get: function(){return margin;}, set: function(_){ + margin.top = _.top !== undefined ? _.top : margin.top; + margin.right = _.right !== undefined ? _.right : margin.right; + margin.bottom = _.bottom !== undefined ? _.bottom : margin.bottom; + margin.left = _.left !== undefined ? _.left : margin.left; + }}, + duration: {get: function(){return duration;}, set: function(_){ + duration = _; + renderWatch.reset(duration); + stacked.duration(duration); + xAxis.duration(duration); + yAxis.duration(duration); + }}, + color: {get: function(){return color;}, set: function(_){ + color = nv.utils.getColor(_); + legend.color(color); + stacked.color(color); + }}, + rightAlignYAxis: {get: function(){return rightAlignYAxis;}, set: function(_){ + rightAlignYAxis = _; + yAxis.orient( rightAlignYAxis ? 'right' : 'left'); + }}, + useInteractiveGuideline: {get: function(){return useInteractiveGuideline;}, set: function(_){ + useInteractiveGuideline = !!_; + chart.interactive(!_); + chart.useVoronoi(!_); + stacked.scatter.interactive(!_); + }} + }); + + nv.utils.inheritOptions(chart, stacked); + nv.utils.initOptions(chart); + + return chart; +}; +// based on http://bl.ocks.org/kerryrodden/477c1bfb081b783f80ad +nv.models.sunburst = function() { + "use strict"; + + //============================================================ + // Public Variables with Default Settings + //------------------------------------------------------------ + + var margin = {top: 0, right: 0, bottom: 0, left: 0} + , width = null + , height = null + , mode = "count" + , modes = {count: function(d) { return 1; }, size: function(d) { return d.size }} + , id = Math.floor(Math.random() * 10000) //Create semi-unique ID in case user doesn't select one + , container = null + , color = nv.utils.defaultColor() + , duration = 500 + , dispatch = d3.dispatch('chartClick', 'elementClick', 'elementDblClick', 'elementMousemove', 'elementMouseover', 'elementMouseout', 'renderEnd') + ; + + var x = d3.scale.linear().range([0, 2 * Math.PI]); + var y = d3.scale.sqrt(); + + var partition = d3.layout.partition() + .sort(null) + .value(function(d) { return 1; }); + + var arc = d3.svg.arc() + .startAngle(function(d) { return Math.max(0, Math.min(2 * Math.PI, x(d.x))); }) + .endAngle(function(d) { return Math.max(0, Math.min(2 * Math.PI, x(d.x + d.dx))); }) + .innerRadius(function(d) { return Math.max(0, y(d.y)); }) + .outerRadius(function(d) { return Math.max(0, y(d.y + d.dy)); }); + + // Keep track of the current and previous node being displayed as the root. + var node, prevNode; + // Keep track of the root node + var rootNode; + + //============================================================ + // chart function + //------------------------------------------------------------ + + var renderWatch = nv.utils.renderWatch(dispatch); + + function chart(selection) { + renderWatch.reset(); + selection.each(function(data) { + container = d3.select(this); + var availableWidth = nv.utils.availableWidth(width, container, margin); + var availableHeight = nv.utils.availableHeight(height, container, margin); + var radius = Math.min(availableWidth, availableHeight) / 2; + var path; + + nv.utils.initSVG(container); + + // Setup containers and skeleton of chart + var wrap = container.selectAll('.nv-wrap.nv-sunburst').data(data); + var wrapEnter = wrap.enter().append('g').attr('class', 'nvd3 nv-wrap nv-sunburst nv-chart-' + id); + + var g = wrapEnter.selectAll('nv-sunburst'); + + wrap.attr('transform', 'translate(' + availableWidth / 2 + ',' + availableHeight / 2 + ')'); + + container.on('click', function (d, i) { + dispatch.chartClick({ + data: d, + index: i, + pos: d3.event, + id: id + }); + }); + + y.range([0, radius]); + + node = node || data; + rootNode = data[0]; + partition.value(modes[mode] || modes["count"]); + path = g.data(partition.nodes).enter() + .append("path") + .attr("d", arc) + .style("fill", function (d) { + return color((d.children ? d : d.parent).name); + }) + .style("stroke", "#FFF") + .on("click", function(d) { + if (prevNode !== node && node !== d) prevNode = node; + node = d; + path.transition() + .duration(duration) + .attrTween("d", arcTweenZoom(d)); + }) + .each(stash) + .on("dblclick", function(d) { + if (prevNode.parent == d) { + path.transition() + .duration(duration) + .attrTween("d", arcTweenZoom(rootNode)); + } + }) + .each(stash) + .on('mouseover', function(d,i){ + d3.select(this).classed('hover', true).style('opacity', 0.8); + dispatch.elementMouseover({ + data: d, + color: d3.select(this).style("fill") + }); + }) + .on('mouseout', function(d,i){ + d3.select(this).classed('hover', false).style('opacity', 1); + dispatch.elementMouseout({ + data: d + }); + }) + .on('mousemove', function(d,i){ + dispatch.elementMousemove({ + data: d + }); + }); + + + + // Setup for switching data: stash the old values for transition. + function stash(d) { + d.x0 = d.x; + d.dx0 = d.dx; + } + + // When switching data: interpolate the arcs in data space. + function arcTweenData(a, i) { + var oi = d3.interpolate({x: a.x0, dx: a.dx0}, a); + + function tween(t) { + var b = oi(t); + a.x0 = b.x; + a.dx0 = b.dx; + return arc(b); + } + + if (i == 0) { + // If we are on the first arc, adjust the x domain to match the root node + // at the current zoom level. (We only need to do this once.) + var xd = d3.interpolate(x.domain(), [node.x, node.x + node.dx]); + return function (t) { + x.domain(xd(t)); + return tween(t); + }; + } else { + return tween; + } + } + + // When zooming: interpolate the scales. + function arcTweenZoom(d) { + var xd = d3.interpolate(x.domain(), [d.x, d.x + d.dx]), + yd = d3.interpolate(y.domain(), [d.y, 1]), + yr = d3.interpolate(y.range(), [d.y ? 20 : 0, radius]); + return function (d, i) { + return i + ? function (t) { + return arc(d); + } + : function (t) { + x.domain(xd(t)); + y.domain(yd(t)).range(yr(t)); + return arc(d); + }; + }; + } + + }); + + renderWatch.renderEnd('sunburst immediate'); + return chart; + } + + //============================================================ + // Expose Public Variables + //------------------------------------------------------------ + + chart.dispatch = dispatch; + chart.options = nv.utils.optionsFunc.bind(chart); + + chart._options = Object.create({}, { + // simple options, just get/set the necessary values + width: {get: function(){return width;}, set: function(_){width=_;}}, + height: {get: function(){return height;}, set: function(_){height=_;}}, + mode: {get: function(){return mode;}, set: function(_){mode=_;}}, + id: {get: function(){return id;}, set: function(_){id=_;}}, + duration: {get: function(){return duration;}, set: function(_){duration=_;}}, + + // options that require extra logic in the setter + margin: {get: function(){return margin;}, set: function(_){ + margin.top = _.top != undefined ? _.top : margin.top; + margin.right = _.right != undefined ? _.right : margin.right; + margin.bottom = _.bottom != undefined ? _.bottom : margin.bottom; + margin.left = _.left != undefined ? _.left : margin.left; + }}, + color: {get: function(){return color;}, set: function(_){ + color=nv.utils.getColor(_); + }} + }); + + nv.utils.initOptions(chart); + return chart; +}; +nv.models.sunburstChart = function() { + "use strict"; + + //============================================================ + // Public Variables with Default Settings + //------------------------------------------------------------ + + var sunburst = nv.models.sunburst(); + var tooltip = nv.models.tooltip(); + + var margin = {top: 30, right: 20, bottom: 20, left: 20} + , width = null + , height = null + , color = nv.utils.defaultColor() + , id = Math.round(Math.random() * 100000) + , defaultState = null + , noData = null + , duration = 250 + , dispatch = d3.dispatch('tooltipShow', 'tooltipHide', 'stateChange', 'changeState','renderEnd') + ; + + //============================================================ + // Private Variables + //------------------------------------------------------------ + + var renderWatch = nv.utils.renderWatch(dispatch); + tooltip.headerEnabled(false).duration(0).valueFormatter(function(d, i) { + return d; + }); + + //============================================================ + // Chart function + //------------------------------------------------------------ + + function chart(selection) { + renderWatch.reset(); + renderWatch.models(sunburst); + + selection.each(function(data) { + var container = d3.select(this); + nv.utils.initSVG(container); + + var that = this; + var availableWidth = nv.utils.availableWidth(width, container, margin), + availableHeight = nv.utils.availableHeight(height, container, margin); + + chart.update = function() { + if (duration === 0) + container.call(chart); + else + container.transition().duration(duration).call(chart) + }; + chart.container = this; + + // Display No Data message if there's nothing to show. + if (!data || !data.length) { + nv.utils.noData(chart, container); + return chart; + } else { + container.selectAll('.nv-noData').remove(); + } + + // Setup containers and skeleton of chart + var wrap = container.selectAll('g.nv-wrap.nv-sunburstChart').data(data); + var gEnter = wrap.enter().append('g').attr('class', 'nvd3 nv-wrap nv-sunburstChart').append('g'); + var g = wrap.select('g'); + + gEnter.append('g').attr('class', 'nv-sunburstWrap'); + + wrap.attr('transform', 'translate(' + margin.left + ',' + margin.top + ')'); + + // Main Chart Component(s) + sunburst.width(availableWidth).height(availableHeight); + var sunWrap = g.select('.nv-sunburstWrap').datum(data); + d3.transition(sunWrap).call(sunburst); + + }); + + renderWatch.renderEnd('sunburstChart immediate'); + return chart; + } + + //============================================================ + // Event Handling/Dispatching (out of chart's scope) + //------------------------------------------------------------ + + sunburst.dispatch.on('elementMouseover.tooltip', function(evt) { + evt['series'] = { + key: evt.data.name, + value: evt.data.size, + color: evt.color + }; + tooltip.data(evt).hidden(false); + }); + + sunburst.dispatch.on('elementMouseout.tooltip', function(evt) { + tooltip.hidden(true); + }); + + sunburst.dispatch.on('elementMousemove.tooltip', function(evt) { + tooltip.position({top: d3.event.pageY, left: d3.event.pageX})(); + }); + + //============================================================ + // Expose Public Variables + //------------------------------------------------------------ + + // expose chart's sub-components + chart.dispatch = dispatch; + chart.sunburst = sunburst; + chart.tooltip = tooltip; + chart.options = nv.utils.optionsFunc.bind(chart); + + // use Object get/set functionality to map between vars and chart functions + chart._options = Object.create({}, { + // simple options, just get/set the necessary values + noData: {get: function(){return noData;}, set: function(_){noData=_;}}, + defaultState: {get: function(){return defaultState;}, set: function(_){defaultState=_;}}, + + // options that require extra logic in the setter + color: {get: function(){return color;}, set: function(_){ + color = _; + sunburst.color(color); + }}, + duration: {get: function(){return duration;}, set: function(_){ + duration = _; + renderWatch.reset(duration); + sunburst.duration(duration); + }}, + margin: {get: function(){return margin;}, set: function(_){ + margin.top = _.top !== undefined ? _.top : margin.top; + margin.right = _.right !== undefined ? _.right : margin.right; + margin.bottom = _.bottom !== undefined ? _.bottom : margin.bottom; + margin.left = _.left !== undefined ? _.left : margin.left; + }} + }); + nv.utils.inheritOptions(chart, sunburst); + nv.utils.initOptions(chart); + return chart; +}; + +nv.version = "1.8.1"; +})();
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O=v.select(".nv-legend-bg");O.transition().duration(300).attr("x",-x).attr("width",C+x-12).attr("height",e+10).attr("y",-c.top-10).attr("opacity",m?1:0)}w.style("fill",r).style("fill-opacity",s).style("stroke",r)}),b}var c={top:5,right:0,bottom:5,left:0},d=400,e=20,f=function(a){return a.key},g=a.utils.getColor(),h=!0,i=32,j=!0,k=!0,l=!1,m=!1,n=d3.dispatch("legendClick","legendDblclick","legendMouseover","legendMouseout","stateChange"),o="classic";return b.dispatch=n,b.options=a.utils.optionsFunc.bind(b),b._options=Object.create({},{width:{get:function(){return d},set:function(a){d=a}},height:{get:function(){return e},set:function(a){e=a}},key:{get:function(){return f},set:function(a){f=a}},align:{get:function(){return h},set:function(a){h=a}},rightAlign:{get:function(){return j},set:function(a){j=a}},padding:{get:function(){return i},set:function(a){i=a}},updateState:{get:function(){return k},set:function(a){k=a}},radioButtonMode:{get:function(){return 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f=[[-e,d[0]],[e,d[0]],[0,d[0]],[0,d[1]],[-e,d[1]],[e,d[1]]];return f.map(function(a){return a.join(",")}).join(" ")}).attr("transform",function(a,c){var d=m.rangeBand()/(2*(v?1:b.length)),e=r(a,c)<0?n(r(a,c))-n(0):0;return"translate("+d+", "+e+")"})),S.attr("class",function(a,b){return r(a,b)<0?"nv-bar negative":"nv-bar positive"}),A&&(c||(c=b.map(function(){return!0})),S.select("rect").style("fill",function(a,b,d){return d3.rgb(A(a,b)).darker(c.map(function(a,b){return b}).filter(function(a,b){return!c[b]})[d]).toString()}).style("stroke",function(a,b,d){return d3.rgb(A(a,b)).darker(c.map(function(a,b){return b}).filter(function(a,b){return!c[b]})[d]).toString()}));var U=S.watchTransition(E,"multibar",Math.min(250,B)).delay(function(a,c){return c*B/b[0].values.length});v?U.attr("transform",function(a,c,d){var e=0;e=b[d].nonStackable?r(a,c)<0?n(0):n(0)-n(r(a,c))<-1?n(0)-1:n(r(a,c))||0:n(a.y1);var 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J=z.selectAll("g.nv-wrap.nv-multiBarWithLegend").data([j]),K=J.enter().append("g").attr("class","nvd3 nv-wrap nv-multiBarWithLegend").append("g"),L=J.select("g");if(K.append("g").attr("class","nv-x nv-axis"),K.append("g").attr("class","nv-y nv-axis"),K.append("g").attr("class","nv-barsWrap"),K.append("g").attr("class","nv-legendWrap"),K.append("g").attr("class","nv-controlsWrap"),q&&(h.width(D-B()),L.select(".nv-legendWrap").datum(j).call(h),k.top!=h.height()&&(k.top=h.height(),H=a.utils.availableHeight(m,z,k)),L.select(".nv-legendWrap").attr("transform","translate("+B()+","+-k.top+")")),o){var M=[{key:p.grouped||"Grouped",disabled:e.stacked()},{key:p.stacked||"Stacked",disabled:!e.stacked()}];i.width(B()).color(["#444","#444","#444"]),L.select(".nv-controlsWrap").datum(M).attr("transform","translate(0,"+-k.top+")").call(i)}J.attr("transform","translate("+k.left+","+k.top+")"),t&&L.select(".nv-y.nv-axis").attr("transform","translate("+D+",0)"),e.disabled(j.map(function(a){return 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c.dispatch.on("elementMouseover.tooltip",function(a){a.series={key:b.x()(a.data),value:b.y()(a.data),color:a.color},e.data(a).hidden(!1)}),c.dispatch.on("elementMouseout.tooltip",function(a){e.hidden(!0)}),c.dispatch.on("elementMousemove.tooltip",function(a){e.position({top:d3.event.pageY,left:d3.event.pageX})()}),b.legend=d,b.dispatch=p,b.pie=c,b.tooltip=e,b.options=a.utils.optionsFunc.bind(b),b._options=Object.create({},{noData:{get:function(){return n},set:function(a){n=a}},showLegend:{get:function(){return i},set:function(a){i=a}},legendPosition:{get:function(){return j},set:function(a){j=a}},defaultState:{get:function(){return m},set:function(a){m=a}},tooltips:{get:function(){return e.enabled()},set:function(b){a.deprecated("tooltips","use chart.tooltip.enabled() instead"),e.enabled(!!b)}},tooltipContent:{get:function(){return e.contentGenerator()},set:function(b){a.deprecated("tooltipContent","use chart.tooltip.contentGenerator() 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k.each(function(b){var k=h-g.left-g.right,q=i-g.top-g.bottom;j=d3.select(this),a.utils.initSVG(j),l.domain(c||d3.extent(b,n)).range(e||[0,k]),m.domain(d||d3.extent(b,o)).range(f||[q,0]);var r=j.selectAll("g.nv-wrap.nv-sparkline").data([b]),s=r.enter().append("g").attr("class","nvd3 nv-wrap nv-sparkline");s.append("g"),r.select("g");r.attr("transform","translate("+g.left+","+g.top+")");var t=r.selectAll("path").data(function(a){return[a]});t.enter().append("path"),t.exit().remove(),t.style("stroke",function(a,b){return a.color||p(a,b)}).attr("d",d3.svg.line().x(function(a,b){return l(n(a,b))}).y(function(a,b){return m(o(a,b))}));var u=r.selectAll("circle.nv-point").data(function(a){function b(b){if(-1!=b){var c=a[b];return c.pointIndex=b,c}return null}var c=a.map(function(a,b){return o(a,b)}),d=b(c.lastIndexOf(m.domain()[1])),e=b(c.indexOf(m.domain()[0])),f=b(c.length-1);return[e,d,f].filter(function(a){return 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T;if(T="wiggle"===e.offset()?0:a.utils.calcTicksY(L/36,k),g.scale(d)._ticks(T).tickSize(-K,0),"expand"===e.style()||"stack_percent"===e.style()){var U=g.tickFormat();D&&U===J||(D=U),g.tickFormat(J)}else D&&(g.tickFormat(D),D=null);P.select(".nv-y.nv-axis").transition().duration(0).call(g)}e.dispatch.on("areaClick.toggle",function(a){1===k.filter(function(a){return!a.disabled}).length?k.forEach(function(a){a.disabled=!1}):k.forEach(function(b,c){b.disabled=c!=a.seriesIndex}),v.disabled=k.map(function(a){return!!a.disabled}),y.stateChange(v),b.update()}),h.dispatch.on("stateChange",function(a){for(var c in a)v[c]=a[c];y.stateChange(v),b.update()}),i.dispatch.on("legendClick",function(a,c){a.disabled&&(R=R.map(function(a){return a.disabled=!0,a}),a.disabled=!1,e.style(a.style),v.style=e.style(),y.stateChange(v),b.update())}),j.dispatch.on("elementMousemove",function(c){e.clearHighlights();var d,g,h,i=[];if(k.filter(function(a,b){return 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c,d,e,f={top:0,right:0,bottom:0,left:0},g=null,h=null,i="count",j={count:function(a){return 1},size:function(a){return a.size}},k=Math.floor(1e4*Math.random()),l=null,m=a.utils.defaultColor(),n=500,o=d3.dispatch("chartClick","elementClick","elementDblClick","elementMousemove","elementMouseover","elementMouseout","renderEnd"),p=d3.scale.linear().range([0,2*Math.PI]),q=d3.scale.sqrt(),r=d3.layout.partition().sort(null).value(function(a){return 1}),s=d3.svg.arc().startAngle(function(a){return Math.max(0,Math.min(2*Math.PI,p(a.x)))}).endAngle(function(a){return Math.max(0,Math.min(2*Math.PI,p(a.x+a.dx)))}).innerRadius(function(a){return Math.max(0,q(a.y))}).outerRadius(function(a){return Math.max(0,q(a.y+a.dy))}),t=a.utils.renderWatch(o);return b.dispatch=o,b.options=a.utils.optionsFunc.bind(b),b._options=Object.create({},{width:{get:function(){return g},set:function(a){g=a}},height:{get:function(){return h},set:function(a){h=a}},mode:{get:function(){return 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a}),c.dispatch.on("elementMouseover.tooltip",function(a){a.series={key:a.data.name,value:a.data.size,color:a.color},d.data(a).hidden(!1)}),c.dispatch.on("elementMouseout.tooltip",function(a){d.hidden(!0)}),c.dispatch.on("elementMousemove.tooltip",function(a){d.position({top:d3.event.pageY,left:d3.event.pageX})()}),b.dispatch=l,b.sunburst=c,b.tooltip=d,b.options=a.utils.optionsFunc.bind(b),b._options=Object.create({},{noData:{get:function(){return j},set:function(a){j=a}},defaultState:{get:function(){return i},set:function(a){i=a}},color:{get:function(){return h},set:function(a){h=a,c.color(h)}},duration:{get:function(){return k},set:function(a){k=a,m.reset(k),c.duration(k)}},margin:{get:function(){return e},set:function(a){e.top=void 0!==a.top?a.top:e.top,e.right=void 0!==a.right?a.right:e.right,e.bottom=void 0!==a.bottom?a.bottom:e.bottom,e.left=void 0!==a.left?a.left:e.left}}}),a.utils.inheritOptions(b,c),a.utils.initOptions(b),b},a.version="1.8.1"}();
\ No newline at end of file diff --git a/wqflask/wqflask/static/packages/TableTools/media/css/TableTools.css b/wqflask/wqflask/static/packages/TableTools/media/css/TableTools.css index 705008b0..ffa2af34 100755 --- a/wqflask/wqflask/static/packages/TableTools/media/css/TableTools.css +++ b/wqflask/wqflask/static/packages/TableTools/media/css/TableTools.css @@ -319,3 +319,8 @@ div.DTTT_collection a.DTTT_button { line-height: 20px; } +.no-sort::after { display: none!important; } +.no-sort { pointer-events: none!important; + cursor: default!important; +} + diff --git a/wqflask/wqflask/static/packages/bootstrap/css/bootstrap.css b/wqflask/wqflask/static/packages/bootstrap/css/bootstrap.css index 8326e83f..461fd089 100755 --- a/wqflask/wqflask/static/packages/bootstrap/css/bootstrap.css +++ b/wqflask/wqflask/static/packages/bootstrap/css/bootstrap.css @@ -903,7 +903,7 @@ body { font-family: "Helvetica Neue", Helvetica, Arial, sans-serif; font-size: 14px; line-height: 1.42857143; - color: #333; + color: #000; background-color: #fff; } input, @@ -1215,7 +1215,7 @@ a.bg-danger:hover { } .page-header { padding-bottom: 9px; - margin: 20px 0 20px; + margin: 10px 0 10px; border-bottom: 1px solid #eee; } ul, @@ -2072,8 +2072,8 @@ th { text-align: left; } .table { - width: 100%; - max-width: 100%; + //width: 100%; + //max-width: 100%; margin-bottom: 20px; } .table > thead > tr > th, @@ -2365,7 +2365,7 @@ output { padding: 6px 12px; font-size: 14px; line-height: 1.42857143; - color: #555; + color: #000; background-color: #fff; background-image: none; border: 1px solid #ccc; @@ -4674,7 +4674,7 @@ a.list-group-item.active > .badge, margin-left: 3px; } .jumbotron { - margin-bottom: 30px; + margin-bottom: 10px; color: inherit; background-color: #eee; } @@ -5133,6 +5133,7 @@ a.list-group-item-danger.active:focus { border-bottom: 1px solid transparent; border-top-left-radius: 3px; border-top-right-radius: 3px; + cursor: pointer; } .panel-heading > .dropdown .dropdown-toggle { color: inherit; diff --git a/wqflask/wqflask/templates/base.html b/wqflask/wqflask/templates/base.html index 462a59a2..4d44642b 100755 --- a/wqflask/wqflask/templates/base.html +++ b/wqflask/wqflask/templates/base.html @@ -1,3 +1,4 @@ +{% from "base_macro.html" import header, flash_me, timeago %} <!DOCTYPE HTML> <html lang="en"> <html xmlns="http://www.w3.org/1999/xhtml"> @@ -10,12 +11,6 @@ <link REL="stylesheet" TYPE="text/css" href="/static/packages/bootstrap/css/bootstrap.css" /> <link REL="stylesheet" TYPE="text/css" href="/static/packages/bootstrap/css/non-responsive.css" /> <link REL="stylesheet" TYPE="text/css" href="/static/packages/bootstrap/css/docs.css" /> - - <!-- HTML5 shim, for IE6-8 support of HTML5 elements --> - <!--[if lt IE 9]> - <script src="http://html5shim.googlecode.com/svn/trunk/html5.js"></script> - <![endif]--> - <link rel="stylesheet" type="text/css" href="/static/packages/colorbox/example4/colorbox.css" /> <link rel="stylesheet" type="text/css" href="/static/new/css/main.css" /> <link rel="stylesheet" type="text/css" href="/static/new/css/parsley.css" /> @@ -25,37 +20,6 @@ </head> -{% macro header(main, second) %} - <header class="jumbotron subhead" id="overview" > - <div class="container"> - <h1>{{ main }}</h1> - <p class="lead"> - {{ second }} - </p> - </div> - </header> - - {{ flash_me() }} -{% endmacro %} - - -{% macro flash_me() -%} - {% with messages = get_flashed_messages(with_categories=true) %} - {% if messages %} - <div class="container"> - {% for category, message in messages %} - <div class="alert {{ category }}">{{ message }}</div> - {% endfor %} - </div> - {% endif %} - {% endwith %} -{% endmacro %} - -{% macro timeago(timestamp) %} -<time class="timeago" datetime="{{ timestamp }}">{{ timestamp }}</time> -{% endmacro %} - - <body style="width: 1500px !important;"> <!-- Navbar ================================================== --> @@ -105,10 +69,27 @@ <a id="login_in" href="/n/login">Sign in</a> {% endif %} </li> + <li style="margin-left: 20px;"> + <a href="http://www.genenetwork.org" style="font-weight: bold;" >Use GeneNetwork 1</a> + </li </ul> </div> </div> </div> + + <div class="container-fluid" style="background-color: #d5d5d5; height: 95px;"> + + <form method="get" action="/gsearch"> + <div class="row"> + <select class="form-control col-xs-2" style="width: 170px; margin-top: 15px; margin-left: 10px;" name="type"> + <option value="gene">Genes / Molecules</option> + <option value="phenotype" {% if type=="phenotype" %}selected{% endif %}>Phenotypes</option> + </select> + <input class="btn btn-primary form-control col-xs-2" style="width: 100px; margin-top: 15px; margin-left: 10px;" type="submit" value="Search All"> + <input class="form-control col-xs-6" style="width: 600px; margin-top: 15px; margin-left: 10px;" type="text" name="terms" required> + </div> + </form> + </div> {% block content %}{% endblock %} diff --git a/wqflask/wqflask/templates/base_macro.html b/wqflask/wqflask/templates/base_macro.html new file mode 100644 index 00000000..c2905ebe --- /dev/null +++ b/wqflask/wqflask/templates/base_macro.html @@ -0,0 +1,28 @@ +{% macro flash_me() -%} + {% with messages = get_flashed_messages(with_categories=true) %} + {% if messages %} + <div class="container"> + {% for category, message in messages %} + <div class="alert {{ category }}">{{ message }}</div> + {% endfor %} + </div> + {% endif %} + {% endwith %} +{% endmacro %} + +{% macro header(main, second) %} + <header class="jumbotron subhead" id="overview" > + <div class="container"> + <h1>{{ main }}</h1> + <p class="lead"> + {{ second }} + </p> + </div> + </header> + + {{ flash_me() }} +{% endmacro %} + +{% macro timeago(timestamp) %} +<time class="timeago" datetime="{{ timestamp }}">{{ timestamp }}</time> +{% endmacro %} diff --git a/wqflask/wqflask/templates/collections/add.html b/wqflask/wqflask/templates/collections/add.html index faee4f78..07fcba22 100755 --- a/wqflask/wqflask/templates/collections/add.html +++ b/wqflask/wqflask/templates/collections/add.html @@ -1,11 +1,12 @@ <div id="myModal"> <div class="modal-header"> <h3>Add to collection</h3> - <p>You have three choices: Use your default collection, create a new named collection, + <p>You have two choices: Create and name a collection, or add the traits to an existing collection.</p> </div> <div class="modal-body"> <form action="/collections/new" data-validate="parsley" id="add_form"> +<!-- <fieldset> <legend>Use your default collection</legend> <span class="help-block">Choose this if you're in a hurry or don't plan on using the collection again.</span> @@ -13,11 +14,12 @@ <button type="submit" name="Default" class="btn">Continue</button> </fieldset> <hr /> +--> <input type="hidden" name="traits" value="{{ traits }}" /> <fieldset> - <legend>Or create a new named collection</legend> + <legend>Create a new named collection</legend> <label>New collection name</label> <input type="text" name="new_collection" placeholder="Name of new collection..." data-trigger="change" data-minlength="5" data-maxlength="50"> diff --git a/wqflask/wqflask/templates/collections/list.html b/wqflask/wqflask/templates/collections/list.html index 354723d0..52106eae 100755 --- a/wqflask/wqflask/templates/collections/list.html +++ b/wqflask/wqflask/templates/collections/list.html @@ -1,5 +1,10 @@ {% extends "base.html" %} {% block title %}Your Collections{% endblock %} +{% block css %} + <link rel="stylesheet" type="text/css" href="/static/new/packages/DataTables/css/jquery.dataTables.css" /> + <link rel="stylesheet" type="text/css" href="/static/packages/DT_bootstrap/DT_bootstrap.css" /> + <link rel="stylesheet" type="text/css" href="/static/packages/TableTools/media/css/TableTools.css" /> +{% endblock %} {% block content %} <!-- Start of body --> {{ header("Your Collections", @@ -11,10 +16,11 @@ <h1>Collections owned by {{ g.user_session.user_ob.full_name }}</h1> </div> - <div class="bs-docs-example" id="collections_list"> - <table class="table table-hover" id='trait_table'> + <div id="collections_list"> + <table class="table table-hover table-striped" id='trait_table'> <thead> <tr> + <th>Index</th> <th>Name</th> <th>Created</th> <th>Last Changed</th> @@ -25,6 +31,7 @@ <tbody> {% for uc in user_collections %} <tr class="collection_line"> + <td>{{ loop.index }} <td><a class="collection_name" href="{{ url_for('view_collection', uc_id=uc.id) }}">{{ uc.name }}</a></td> <td>{{ timeago(uc.created_timestamp.isoformat() + "Z") }}</td> <td>{{ timeago(uc.changed_timestamp.isoformat() + "Z") }}</td> @@ -35,7 +42,7 @@ </table> {# if "color_by_trait" in params #} -<!-- <script type="text/javascript" src="/static/new/javascript/get_traits_from_collection.js"></script>--> + <script type="text/javascript" src="/static/new/javascript/get_traits_from_collection.js"></script> {# endif #} </div> @@ -47,7 +54,23 @@ {% block js %} <script type="text/javascript" src="/static/packages/smart-time-ago/lib/timeago.js"></script> + <script language="javascript" type="text/javascript" src="/static/new/packages/DataTables/js/jquery.dataTables.min.js"></script> + <script language="javascript" type="text/javascript" src="/static/new/packages/DataTables/js/dataTables.naturalSort.js"></script> + <script language="javascript" type="text/javascript" src="/static/new/packages/DataTables/extensions/dataTables.colResize.js"></script> + <script language="javascript" type="text/javascript" src="/static/new/packages/DataTables/extensions/dataTables.colReorder.js"></script> + <script language="javascript" type="text/javascript" src="/static/packages/DT_bootstrap/DT_bootstrap.js"></script> + <script language="javascript" type="text/javascript" src="/static/packages/TableTools/media/js/TableTools.min.js"></script> <script> - $('body').timeago(); + $('#trait_table').dataTable( { + "sDom": "RZtir", + "iDisplayLength": -1, + "autoWidth": true, + "bDeferRender": true, + "bSortClasses": false, + "scrollY": "600px", + "scrollCollapse": true, + "paging": false + } ); + </script> {% endblock %} diff --git a/wqflask/wqflask/templates/collections/view.html b/wqflask/wqflask/templates/collections/view.html index fc1edf2a..5450f903 100755 --- a/wqflask/wqflask/templates/collections/view.html +++ b/wqflask/wqflask/templates/collections/view.html @@ -38,6 +38,18 @@ <input type="submit" class="btn btn-primary" value="Correlation Matrix" /> </div> </form> + <form action="/wgcna_setup" method="post"> + {% if uc %} + <input type="hidden" name="uc_id" id="uc_id" value="{{ uc.id }}" /> + {% endif %} + <input type="hidden" name="trait_list" id="trait_list" value= " + {% for this_trait in trait_obs %} + {{ this_trait.name }}:{{ this_trait.dataset.name }}, + {% endfor %}" > + <div class="col-xs-2 controls"> + <input type="submit" class="btn btn-primary" value="WGCNA Analysis" /> + </div> + </form> <form action="/heatmap" method="post"> {% if uc %} <input type="hidden" name="uc_id" id="uc_id" value="{{ uc.id }}" /> @@ -59,12 +71,15 @@ <button class="btn btn-default" id="select_all"><span class="glyphicon glyphicon-ok"></span> Select All</button> <button class="btn btn-default" id="deselect_all"><span class="glyphicon glyphicon-remove"></span> Deselect All</button> <button class="btn btn-default" id="invert"><span class="glyphicon glyphicon-resize-vertical"></span> Invert</button> + <button class="btn" id="add" disabled="disabled"><i class="icon-plus-sign"></i> Add Record to Other Collection</button> + <button class="btn" id="remove" disabled="disabled"><i class="icon-minus-sign"></i> Remove Record</button> + <button class="btn btn-primary pull-right"><i class="icon-download icon-white"></i> Download Table</button> <br /> <br /> <table class="table table-hover table-striped" id='trait_table'> <thead> <tr> - <th></th> + <th>Index</th> <th>Record</th> <th>Description</th> <th>Location</th> @@ -78,7 +93,7 @@ <tbody> {% for this_trait in trait_obs %} <TR id="trait:{{ this_trait.name }}:{{ this_trait.dataset.name }}"> - <TD> + <TD>{{ loop.index }} <INPUT TYPE="checkbox" NAME="searchResult" class="checkbox trait_checkbox" VALUE="{{ data_hmac('{}:{}'.format(this_trait.name, this_trait.dataset.name)) }}"> </TD> @@ -99,7 +114,7 @@ <TD>{{ this_trait.additive }}</TD> </TR> - {% endfor %} + {% endfor %} </tbody> </table> @@ -115,8 +130,12 @@ <script type="text/javascript" src="/static/new/javascript/search_results.js"></script> <script language="javascript" type="text/javascript" src="/static/new/packages/DataTables/js/jquery.dataTables.min.js"></script> <script language="javascript" type="text/javascript" src="/static/new/packages/DataTables/js/dataTables.naturalSort.js"></script> + <script language="javascript" type="text/javascript" src="/static/new/packages/DataTables/extensions/dataTables.colResize.js"></script> + <script language="javascript" type="text/javascript" src="/static/new/packages/DataTables/extensions/dataTables.colReorder.js"></script> <script language="javascript" type="text/javascript" src="/static/packages/DT_bootstrap/DT_bootstrap.js"></script> <script language="javascript" type="text/javascript" src="/static/packages/TableTools/media/js/TableTools.min.js"></script> + + <script language="javascript" type="text/javascript"> $(document).ready( function () { @@ -128,36 +147,31 @@ console.time("Creating table"); $('#trait_table').dataTable( { - "aoColumns": [ - { "bSortable": false }, - { "sType": "natural" }, - { "sType": "natural", - "sWidth": "35%" }, - { "sType": "natural", - "sWidth": "15%" }, - { "sType": "cust-txt" }, - { "sType": "natural", - "sWidth": "12%" }, - { "sType": "natural", - "sWidth": "15%" }, - { "sType": "cust-txt" } - ], "columns": [ - { "width": "50%" }, - null, - null, - null, - null, - null + { "type": "natural" }, + { "type": "natural" }, + { "type": "natural", + "width": "35%" }, + { "type": "natural", + "width": "15%" }, + { "type": "cust-txt" }, + { "type": "natural", + "width": "12%" }, + { "type": "natural", + "width": "15%" }, + { "type": "natural" } ], - "sDom": "tir", + "sDom": "ZRtir", "iDisplayLength": -1, "autoWidth": true, - "bLengthChange": true, "bDeferRender": true, - "bSortClasses": false + "bSortClasses": false, + "scrollY": "600px", + "scrollCollapse": true, + "paging": false } ); console.timeEnd("Creating table"); + }); </script> diff --git a/wqflask/wqflask/templates/correlation_matrix.html b/wqflask/wqflask/templates/correlation_matrix.html index 403d2a98..c822b8bc 100755 --- a/wqflask/wqflask/templates/correlation_matrix.html +++ b/wqflask/wqflask/templates/correlation_matrix.html @@ -1,76 +1,71 @@ -{% extends "base.html" %}
-{% block css %}
- <link rel="stylesheet" type="text/css" href="/static/packages/jqplot/jquery.jqplot.min.css" />
- <link rel="stylesheet" type="text/css" href="/static/new/packages/DataTables/css/jquery.dataTables.css" />
- <link rel="stylesheet" type="text/css" href="/static/packages/DT_bootstrap/DT_bootstrap.css" />
- <link rel="stylesheet" type="text/css" href="/static/packages/TableTools/media/css/TableTools.css" />
- <link rel="stylesheet" type="text/css" href="/static/new/css/corr_matrix.css" />
- <link rel="stylesheet" type="text/css" href="/static/new/css/panelutil.css" />
- <link rel="stylesheet" type="text/css" href="/static/new/css/d3-tip.min.css" />
-{% endblock %}
-{% block content %}
-
- {{ header("Correlation Matrix") }}
-
- <div class="container">
- <div id="chart"></div>
-<!-- <div class="row-fluid show-grid">
- <div class="col-md-12"> Pearon's R </div>
- </div>
- <div class="row-fluid show-grid">
- <div class="col-md-1 col-md-pull-11">
- Spearman's Rho
- </div>
- <div class="col-md-11 col-md-push-1">
-
- <div class="table-responsive">
- <table class="table">
- <th>
- {% for key in corr_results %}
- <td>
- <b>{{ key }}</b>
- </td>
- {% endfor %}
- </th>
- {% for key in corr_results %}
- <tr>
- <td><b>{{ key }}</b></td>
- {% for trait in corr_results[key] %}
- {% if corr_results[key][trait].sample_r != 1 %}
- <td><a target="_blank" href="corr_scatter_plot?dataset_1={{corr_results[key][trait].this_db}}&dataset_2={{corr_results[key][trait].target_db}}&trait_1={{corr_results[key][trait].this_trait}}&trait_2={{corr_results[key][trait].target_trait}}">{{ corr_results[key][trait].sample_r }}</a>
- <br>
- {{ corr_results[key][trait].num_overlap }}</td>
-
- {% else %}
- <td bgcolor="#E6E6E6"> 1 </td>
- {% endif %}
- {% endfor %}
- {% endfor %}
- </tr>
- </table>
- </div>
-
- </div>
- </div>-->
- </div>
-
-{% endblock %}
-
-{% block js %}
-
- <script>
- js_data = {{ js_data | safe }}
- </script>
-
- <script type="text/javascript" src="http://d3js.org/d3.v3.min.js"></script>
- <script type="text/javascript" src="/static/new/js_external/d3-tip.min.js"></script>
- <script language="javascript" type="text/javascript" src="/static/new/packages/DataTables/js/jquery.js"></script>
- <script language="javascript" type="text/javascript" src="/static/new/packages/DataTables/js/jquery.dataTables.min.js"></script>
- <script language="javascript" type="text/javascript" src="/static/packages/DT_bootstrap/DT_bootstrap.js"></script>
- <script language="javascript" type="text/javascript" src="/static/packages/TableTools/media/js/TableTools.min.js"></script>
- <script language="javascript" type="text/javascript" src="/static/packages/underscore/underscore-min.js"></script>
- <script type="text/javascript" src="/static/new/javascript/panelutil.js"></script>
- <script language="javascript" type="text/javascript" src="/static/new/javascript/corr_matrix.js"></script>
- <script language="javascript" type="text/javascript" src="/static/new/javascript/create_corr_matrix.js"></script>
-
-{% endblock %}
+{% extends "base.html" %} +{% block css %} + <link rel="stylesheet" type="text/css" href="/static/packages/jqplot/jquery.jqplot.min.css" /> + <link rel="stylesheet" type="text/css" href="/static/new/packages/DataTables/css/jquery.dataTables.css" /> + <link rel="stylesheet" type="text/css" href="/static/packages/DT_bootstrap/DT_bootstrap.css" /> + <link rel="stylesheet" type="text/css" href="/static/packages/TableTools/media/css/TableTools.css" /> + <link rel="stylesheet" type="text/css" href="/static/new/css/corr_matrix.css" /> + <link rel="stylesheet" type="text/css" href="/static/new/css/panelutil.css" /> + <link rel="stylesheet" type="text/css" href="/static/new/css/d3-tip.min.css" /> +{% endblock %} +{% block content %} + + {{ header("Correlation Matrix") }} + + + +<table class="matrix" border="1" cellpadding="5" cellspacing="1" style="margin: 20px;" width="80%"> + <tbody> + <tr> + <td style="background-color: royalblue;" ></td> + <td align="center" colspan="{{traits|length + 1 }}" style="font-weight: Bold; border: 1px solid #999999; padding: 3px; color: #fff; background-color: royalblue;">Spearman Rank Correlation (rho)</td> + </tr> + <tr> + <td align="center" rowspan="{{traits|length + 1 }}" width="10" style="font-weight: Bold; border: 1px solid #999999; padding: 3px; color: #fff; background-color: royalblue;">P e a r s o n r</td> + <td width="300"></td> + {% for trait in traits %} + <td align="center"><a href="/show_trait?trait_id={{ trait.name }}&dataset={{ trait.dataset.name }}" style="font-weight: Bold;">Trait{{ loop.index }}</a></td> + {% endfor %} + </tr> + {% for trait in traits %} + <tr> + <td><a href="/show_trait?trait_id={{ trait.name }}&dataset={{ trait.dataset.name }}" style="font-weight: Bold;">Trait {{ loop.index }}: {{ trait.dataset.name }}::{{ trait.name }}</a><div id="shortName_0" style="display:none">Symbol: {{ trait.symbol }} </div><div id="verboseName_0" style="display:none">{{ trait_symbol }} on Chr {{ trait.chr }} @ {{ trait.mb }} Mb</div><div id="verboseName2_0" style="display:none">{{ trait.description }}</div><div id="verboseName3_0" style="display:none">{{ trait.probe_target_description }}</div></td> + {% for result in corr_results[loop.index-1] %} + {% if result[0].name == trait.name %} + <td nowrap="ON" align="center" bgcolor="#cccccc"><a href="/show_trait?trait_id={{ trait.name }}&dataset={{ trait.dataset.name }}"><font style="font-size: 11px; color: #000000;" ><em>n</em><br>{{ result[2] }}</font></a></td> + {% else %} + <td nowrap="ON" align="middle" class="corr_cell"><a href="/corr_scatter_plot?dataset_1={{ trait.dataset.name }}&dataset_2={{ result[0].dataset.name }}&trait_1={{ trait.name }}&trait_2={{ result[0].name }}"><font style="font-size: 11px; color: #000000;" ><span class="corr_value">{{ '%0.3f' % result[1] }}</span><br>{{ result[2] }}</font></a></td> + {% endif %} + {% endfor %} + </tr> + {% endfor %} + </tbody> +</table> + +<!-- +<div class="container"> + <div id="chart"></div> +</div> +--> + +{% endblock %} + +{% block js %} + + <script> + js_data = {{ js_data | safe }} + </script> + + <script type="text/javascript" src="http://d3js.org/d3.v3.min.js"></script> + <script type="text/javascript" src="/static/new/js_external/d3-tip.min.js"></script> + <script language="javascript" type="text/javascript" src="/static/new/packages/DataTables/js/jquery.js"></script> + <script language="javascript" type="text/javascript" src="/static/new/packages/DataTables/js/jquery.dataTables.min.js"></script> + <script language="javascript" type="text/javascript" src="/static/packages/DT_bootstrap/DT_bootstrap.js"></script> + <script language="javascript" type="text/javascript" src="/static/packages/TableTools/media/js/TableTools.min.js"></script> + <script language="javascript" type="text/javascript" src="/static/packages/underscore/underscore-min.js"></script> + <script type="text/javascript" src="/static/new/javascript/panelutil.js"></script> + <script language="javascript" type="text/javascript" src="/static/new/js_external/chroma.js"></script> + <script language="javascript" type="text/javascript" src="/static/new/javascript/corr_matrix.js"></script> + <script language="javascript" type="text/javascript" src="/static/new/javascript/create_corr_matrix.js"></script> + +{% endblock %} diff --git a/wqflask/wqflask/templates/correlation_page.html b/wqflask/wqflask/templates/correlation_page.html index 169371be..b2d17b62 100755 --- a/wqflask/wqflask/templates/correlation_page.html +++ b/wqflask/wqflask/templates/correlation_page.html @@ -3,6 +3,8 @@ <link rel="stylesheet" type="text/css" href="/static/new/packages/DataTables/css/jquery.dataTables.css" /> <link rel="stylesheet" type="text/css" href="/static/packages/DT_bootstrap/DT_bootstrap.css" /> <link rel="stylesheet" type="text/css" href="/static/packages/TableTools/media/css/TableTools.css" /> + <link href="//cdn.datatables.net/fixedheader/2.1.2/css/dataTables.fixedHeader.css" rel="stylesheet"> + <link href="//cdn.datatables.net/fixedcolumns/3.0.4/css/dataTables.fixedColumns.css" rel="stylesheet"> {% endblock %} {% block content %} @@ -20,18 +22,32 @@ and analysis page. </p> + <br /> + <button class="btn btn-default" id="select_all"><span class="glyphicon glyphicon-ok"></span> Select All</button> + <button class="btn btn-default" id="deselect_all"><span class="glyphicon glyphicon-remove"></span> Deselect All</button> + <button class="btn btn-default" id="invert"><span class="glyphicon glyphicon-resize-vertical"></span> Invert</button> + <button class="btn btn-default" id="add" disabled><span class="glyphicon glyphicon-plus-sign"></span> Add</button> + <button id="redraw" class="btn btn-default">Reset Columns</button> + <input type="text" id="searchbox" class="form-control" style="width: 200px; display: inline;" placeholder="Search This Table For ..."> + <input type="text" id="select_top" class="form-control" style="width: 200px; display: inline;" placeholder="Select Top ..."> + <br /> + <br /> + <div> - <table id="corr_results" class="table table-hover table-striped table-bordered"> + <table id="trait_table" class="table table-hover table-striped"> <thead> <tr> - {% if target_dataset.type == 'ProbeSet' %} - <th>Trait</th> - <th>Symbol</th> - <th>Description</th> - <th>Location</th> - <th>Mean Expr</th> - <th>Max LRS</th> - <th>Max LRS Location</th> + <th style="width: 30px;"></th> + {% for header in target_dataset.header_fields %} + {% if header == 'Max LRS' %} + <th style="text-align: right;">Max <br>LRS<a href="http://genenetwork.org//glossary.html#L" target="_blank"><sup style="color:#f00"> ?</sup></a></th> + {% elif header == 'Additive Effect' %} + <th style="text-align: right;">Additive<br>Effect<a href="http://genenetwork.org//glossary.html#A" target="_blank"><sup style="color:#f00"> ?</sup></a></th> + {% else %} + <th>{{header}}</th> + {% endif %} + {% endfor %} + {% if target_dataset.type == "ProbeSet" %} {% if corr_method == 'pearson' %} <th>Sample r</th> <th>N Cases</th> @@ -48,10 +64,6 @@ <th>Tissue p(rho)</th> {% endif %} {% elif target_dataset.type == "Publish" %} - <th>Record ID</th> - <th>Phenotype</th> - <th>Authors</th> - <th>Year</th> {% if corr_method == 'pearson' %} <th>Sample r</th> <th>N Cases</th> @@ -62,8 +74,6 @@ <th>Sample p(rho)</th> {% endif %} {% elif target_dataset.type == "Geno" %} - <th>Record ID</th> - <th>Location</th> {% if corr_method == 'pearson' %} <th>Sample r</th> <th>N Cases</th> @@ -76,38 +86,63 @@ {% endif %} </tr> </thead> + <tbody> {% for trait in correlation_results %} <tr> - {% if target_dataset.type == 'ProbeSet' %} - <td><a href="/show_trait?trait_id={{trait.name}}&dataset={{trait.dataset.name}}">{{ trait.name }}</a></td> - <td>{{ trait.symbol }}</td> - <td>{{ trait.description }} <br><br> <b>Aliases</b>: {{ trait.alias }}</td> - <td>Chr{{ trait.chr }}: {{'%0.6f'|format(trait.mb) if trait.mb != None }}</td> - <td>{{'%0.3f'|format(trait.mean)}}</td> - <td>{{'%0.3f'|format(trait.lrs)}}</td> - <td>Chr{{ trait.locus_chr }}: {{'%0.3f'|format(trait.locus_mb) }}</td> - <td><a target="_blank" href="corr_scatter_plot?dataset_1={{dataset.name}}&dataset_2={{trait.dataset.name}}&trait_1={{this_trait.name}}&trait_2={{trait.name}}">{{'%0.3f'|format(trait.sample_r)}}</a></td> - <td>{{ trait.num_overlap }}</td> - <td>{{'%0.3e'|format(trait.sample_p)}}</td> - <td>{{'%0.3f'|format(trait.lit_corr)}}</td> - <td>{{'%0.3f'|format(trait.tissue_corr)}}</td> - <td>{{'%0.3e'|format(trait.tissue_pvalue)}}</td> - {% elif target_dataset.type == "Publish" %} - <td><a href="/show_trait?trait_id={{trait.name}}&dataset={{trait.dataset.name}}">{{ trait.name }}</a></td> - <td>{{ trait.post_publication_description }}</td> - <td>{{ trait.authors }}</td> - <td>{{ trait.year }}</td> - <td><a target="_blank" href="corr_scatter_plot?dataset_1={{dataset.name}}&dataset_2={{trait.dataset.name}}&trait_1={{this_trait.name}}&trait_2={{trait.name}}">{{'%0.3f'|format(trait.sample_r)}}</a></td> - <td>{{ trait.num_overlap }}</td> - <td>{{'%0.3e'|format(trait.sample_p)}}</td> - {% elif target_dataset.type == "Geno" %} - <td><a href="/show_trait?trait_id={{trait.name}}&dataset={{trait.dataset.name}}">{{ trait.name }}</a></td> - <td>Chr{{ trait.chr }}: {{'%0.6f'|format(trait.mb) }}</td> - <td><a target="_blank" href="corr_scatter_plot?dataset_1={{dataset.name}}&dataset_2={{trait.dataset.name}}&trait_1={{this_trait.name}}&trait_2={{trait.name}}">{{'%0.3f'|format(trait.sample_r)}}</a></td> - <td>{{ trait.num_overlap }}</td> - <td>{{'%0.3e'|format(trait.sample_p)}}</td> - {% endif %} + <TD><INPUT TYPE="checkbox" NAME="searchResult" class="checkbox trait_checkbox" style="transform: scale(1.5);" VALUE="{{ data_hmac('{}:{}'.format(trait.name, trait.dataset.name)) }}"> + </TD> + <TD align="right">{{ loop.index }}</TD> + <TD> + <a href="{{ url_for('show_trait_page', + trait_id = trait.name, + dataset = dataset.name + )}}"> + {{ trait.name }} + </a> + </TD> + {% if target_dataset.type == 'ProbeSet' %} + <TD>{{ trait.symbol }}</TD> + <TD>{{ trait.description_display }}</TD> + <TD style="white-space: nowrap;">{{ trait.location_repr }}</TD> + <TD align="right">{{ '%0.3f' % trait.mean|float }}</TD> + <TD align="right">{{ '%0.3f' % trait.LRS_score_repr|float }}</TD> + <TD style="white-space: nowrap;">{{ trait.LRS_location_repr }}</TD> + <TD align="right">{{ '%0.3f' % trait.additive|float }}</TD> + <TD><a target="_blank" href="corr_scatter_plot?dataset_1={{dataset.name}}&dataset_2={{trait.dataset.name}}&trait_1={{this_trait.name}}&trait_2={{trait.name}}">{{'%0.3f'|format(trait.sample_r)}}</a></TD> + <TD>{{ trait.num_overlap }}</TD> + <TD>{{'%0.3e'|format(trait.sample_p)}}</TD> + {% if trait.lit_corr == "" or trait.lit_corr == 0.000 %} + <TD>--</TD> + {% else %} + <TD>{{'%0.3f'|format(trait.lit_corr)}}</TD> + {% endif %} + {% if trait.tissue_corr == "" or trait.tissue_corr == 0.000 %} + <TD>--</TD> + {% else %} + <TD>{{'%0.3f'|format(trait.tissue_corr)}}</TD> + {% endif %} + <TD>{{'%0.3e'|format(trait.tissue_pvalue)}}</TD> + {% elif target_dataset.type == "Publish" %} + <TD>{{ trait.description_display }}</TD> + <TD>{{ trait.authors }}</TD> + <TD> + <a href="{{ trait.pubmed_link }}"> + {{ trait.pubmed_text }} + </a> + </TD> + <TD>{{ trait.LRS_score_repr }}</TD> + <TD>{{ trait.LRS_location_repr }}</TD> + <TD>{{ '%0.3f' % trait.additive|float }}</TD> + <TD><a target="_blank" href="corr_scatter_plot?dataset_1={{dataset.name}}&dataset_2={{trait.dataset.name}}&trait_1={{this_trait.name}}&trait_2={{trait.name}}">{{'%0.3f'|format(trait.sample_r)}}</a></TD> + <TD>{{ trait.num_overlap }}</TD> + <TD>{{'%0.3e'|format(trait.sample_p)}}</TD> + {% elif target_dataset.type == "Geno" %} + <TD>{{ trait.location_repr }}</TD> + <TD><a target="_blank" href="corr_scatter_plot?dataset_1={{dataset.name}}&dataset_2={{trait.dataset.name}}&trait_1={{this_trait.name}}&trait_2={{trait.name}}">{{'%0.3f'|format(trait.sample_r)}}</a></TD> + <TD>{{ trait.num_overlap }}</TD> + <TD>{{'%0.3e'|format(trait.sample_p)}}</TD> + {% endif %} </tr> {% endfor %} </tbody> @@ -117,35 +152,168 @@ {% endblock %} {% block js %} - <script language="javascript" type="text/javascript" src="/static/new/packages/DataTables/js/jquery.js"></script> - <script language="javascript" type="text/javascript" src="/static/new/packages/DataTables/js/jquery.dataTables.min.js"></script> + <script type="text/javascript" src="/static/new/javascript/search_results.js"></script> + + <script language="javascript" type="text/javascript" src="/static/new/packages/DataTables/js/jquery.dataTables.js"></script> + <script language="javascript" type="text/javascript" src="/static/new/packages/DataTables/js/dataTables.naturalSort.js"></script> + <script language="javascript" type="text/javascript" src="/static/new/packages/DataTables/extensions/dataTables.colResize.js"></script> + <script language="javascript" type="text/javascript" src="/static/new/packages/DataTables/extensions/dataTables.colReorder.js"></script> <script language="javascript" type="text/javascript" src="/static/packages/DT_bootstrap/DT_bootstrap.js"></script> <script language="javascript" type="text/javascript" src="/static/packages/TableTools/media/js/TableTools.min.js"></script> + <script language="javascript" type="text/javascript" src="//cdn.datatables.net/fixedheader/2.1.2/js/dataTables.fixedHeader.min.js"></script> + <script language="javascript" type="text/javascript" src="//cdn.datatables.net/fixedcolumns/3.0.4/js/dataTables.fixedColumns.min.js"></script> <script language="javascript" type="text/javascript" src="/static/packages/underscore/underscore-min.js"></script> <script type="text/javascript" charset="utf-8"> + function getValue(x) { + if (x.indexOf('input') >= 0) { + if ($(x).val() == 'x') { + return 0; + } + else { + return parseFloat($(x).val()); + } + } + else if (isNaN(x)) { + return x; + } + return parseFloat(x); + } + + jQuery.fn.dataTableExt.oSort['numeric-html-asc'] = function(a,b) { + a = Math.abs(parseFloat($(a).text())); + b = Math.abs(parseFloat($(b).text())); + return ((a < b) ? -1 : ((a > b) ? 1 : 0)); + }; + + jQuery.fn.dataTableExt.oSort['numeric-html-desc'] = function(a,b) { + a = Math.abs(parseFloat($(a).text())); + b = Math.abs(parseFloat($(b).text())); + return ((a < b) ? 1 : ((a > b) ? -1 : 0)); + }; + + jQuery.fn.dataTableExt.oSort['cust-txt-asc'] = function (a, b) { + var x = getValue(a); + var y = getValue(b); + + if (x == 'N/A' || x == '') { + return 1; + } + else if (y == 'N/A' || y == '') { + return -1; + } + else { + return ((x < y) ? -1 : ((x > y) ? 1 : 0)); + } + }; + + jQuery.fn.dataTableExt.oSort['cust-txt-desc'] = function (a, b) { + var x = getValue(a); + var y = getValue(b); + return ((x < y) ? 1 : ((x > y) ? -1 : 0)); + }; + + $(document).ready( function () { + + $('#trait_table tr').click(function(event) { + if (event.target.type !== 'checkbox') { + $(':checkbox', this).trigger('click'); + } + }); + console.time("Creating table"); - $('#corr_results').dataTable( { - //"sDom": "<<'span3'l><'span3'T><'span4'f>'row-fluid'r>t<'row-fluid'<'span6'i><'span6'p>>", - "sDom": "lTftipr", - "oTableTools": { - "aButtons": [ - "copy", - "print", - { - "sExtends": "collection", - "sButtonText": 'Save <span class="caret" />', - "aButtons": [ "csv", "xls", "pdf" ] - } - ], - "sSwfPath": "/static/packages/TableTools/media/swf/copy_csv_xls_pdf.swf" + + {% if target_dataset.type == "ProbeSet" %} + + + $('#trait_table').dataTable( { + "columns": [ + { "type": "natural" }, + { "type": "natural" }, + { "type": "natural" }, + { "type": "natural" }, + { "type": "natural" }, + { "type": "natural" }, + { "type": "natural" }, + { "type": "natural" }, + { "type": "natural" }, + { "type": "natural" }, + { "type": "numeric-html" }, + { "type": "natural" }, + { "type": "natural" }, + { "type": "natural" }, + { "type": "natural" }, + { "type": "natural" } + ], + "sDom": "RZtir", + "iDisplayLength": -1, + "bDeferRender": true, + "bSortClasses": false, + //"scrollY": "700px", + //"scrollCollapse": false, + "paging": false + } ); + + var table = $('#trait_table').DataTable(); + new $.fn.dataTable.FixedHeader( table ); + + {% elif target_dataset.type == "Publish" %} + $('#trait_table').dataTable( { + "columns": [ + { "type": "natural" }, + { "type": "natural" }, + { "type": "natural" }, + { "type": "natural" }, + { "type": "natural" }, + { "type": "natural" }, + { "type": "natural" }, + { "type": "natural" }, + { "type": "natural" }, + { "type": "numeric-html" }, + { "type": "natural" }, + { "type": "natural" } + ], + "sDom": "RZtir", + "iDisplayLength": -1, + "autoWidth": true, + "bLengthChange": true, + "bDeferRender": true, + "bSortClasses": false, + "scrollY": "700px", + "scrollCollapse": false, + "colResize": { + "tableWidthFixed": false }, - "iDisplayLength": 50, + "paging": false + } ); + {% elif target_dataset.type == "Geno" %} + $('#trait_table').dataTable( { + "columns": [ + { "type": "natural" }, + { "type": "natural" }, + { "type": "natural" }, + { "type": "natural" }, + { "type": "numeric-html" }, + { "type": "natural" }, + { "type": "natural" } + ], + "sDom": "RZtir", + "iDisplayLength": -1, + "autoWidth": true, "bLengthChange": true, "bDeferRender": true, - "bSortClasses": false + "bSortClasses": false, + "scrollY": "700px", + "scrollCollapse": false, + "colResize": { + "tableWidthFixed": false + }, + "paging": false } ); + {% endif %} console.timeEnd("Creating table"); + + }); </script> {% endblock %} diff --git a/wqflask/wqflask/templates/empty_collection.html b/wqflask/wqflask/templates/empty_collection.html new file mode 100644 index 00000000..3f2b3786 --- /dev/null +++ b/wqflask/wqflask/templates/empty_collection.html @@ -0,0 +1,15 @@ +{% extends "base.html" %} +{% block title %}{{ tool }}{% endblock %} +{% block content %} +<!-- Start of body --> + {{ header("Error") }} + + <div class="container"> + <input type="hidden" name="uc_id" id="uc_id" value="{{ uc_id }}"> + <p>You must select at least one trait to use the {{ tool }}.</p> + </div> + + +<!-- End of body --> + +{% endblock %} diff --git a/wqflask/wqflask/templates/gsearch_gene.html b/wqflask/wqflask/templates/gsearch_gene.html new file mode 100755 index 00000000..0a1839a1 --- /dev/null +++ b/wqflask/wqflask/templates/gsearch_gene.html @@ -0,0 +1,188 @@ +{% extends "base.html" %} +{% block title %}Search Results{% endblock %} +{% block css %} + <link rel="stylesheet" type="text/css" href="/static/new/packages/DataTables/css/jquery.dataTables.css" /> + <link rel="stylesheet" type="text/css" href="/static/packages/DT_bootstrap/DT_bootstrap.css" /> + <link rel="stylesheet" type="text/css" href="/static/packages/TableTools/media/css/TableTools.css" /> + <link rel="stylesheet" type="text/css" href="/static/new/packages/DataTables/extensions/dataTables.fixedHeader.css" > + <link rel="stylesheet" type="text/css" href="//cdn.datatables.net/fixedcolumns/3.0.4/css/dataTables.fixedColumns.css"> +{% endblock %} +{% block content %} +<!-- Start of body --> + + <div class="container"> + + <p>To study a record, click on its ID below.<br />Check records below and click Add button to add to selection.</p> + + <div> + <br /> + <button class="btn btn-default" id="select_all"><span class="glyphicon glyphicon-ok"></span> Select All</button> + <button class="btn btn-default" id="deselect_all"><span class="glyphicon glyphicon-remove"></span> Deselect All</button> + <button class="btn btn-default" id="invert"><span class="glyphicon glyphicon-resize-vertical"></span> Invert</button> + <button class="btn btn-default" id="add" disabled ><span class="glyphicon glyphicon-plus-sign"></span> Add</button> + <button class="btn btn-primary pull-right"><span class="glyphicon glyphicon-download"></span> Download Table</button> + <input type="text" id="searchbox" class="form-control" style="width: 180px; display: inline;" placeholder="Search This Table For ..."> + <input type="text" id="select_top" class="form-control" style="width: 120px; display: inline;" placeholder="Select Top ..."> + + <br /> + <br /> + <table width="2000px" class="table table-hover table-striped" id="trait_table"> + <thead> + <tr> + <th style="width: 30px;"></th> + <th>Index</th> + <th>Species</th> + <th>Group</th> + <th>Tissue</th> + <th>Dataset</th> + <th>Record</th> + <th>Symbol</th> + <th>Description</th> + <th>Location</th> + <th>Mean</th> + <th style="text-align: right;">Max <br>LRS<a href="http://genenetwork.org//glossary.html#L" target="_blank"><sup style="color:#f00"> ?</sup></a></th> + <th>Max LRS Location</th> + <th style="text-align: right;">Additive<br>Effect<a href="http://genenetwork.org//glossary.html#A" target="_blank"><sup style="color:#f00"> ?</sup></a></th> + </tr> + </thead> + <tbody> + {% for this_trait in trait_list %} + <TR id="trait:{{ this_trait.name }}:{{ this_trait.dataset.name }}"> + <TD><INPUT TYPE="checkbox" NAME="searchResult" class="checkbox trait_checkbox" style="transform: scale(1.5);" VALUE="{{ data_hmac('{}:{}'.format(this_trait.name, this_trait.dataset.name)) }}"></TD> + <TD>{{ loop.index }}</TD> + <TD>{{ this_trait.dataset.group.species }}</TD> + <TD>{{ this_trait.dataset.group.name }}</TD> + <TD>{{ this_trait.dataset.tissue }}</TD> + <TD>{{ this_trait.dataset.fullname }}</TD> + <TD><a href="{{ url_for('show_trait_page', trait_id = this_trait.name, dataset = this_trait.dataset.name)}}">{{ this_trait.name }}</a></TD> + <TD>{{ this_trait.symbol }}</TD> + <TD>{{ this_trait.description_display }}</TD> + <TD>{{ this_trait.location_repr }}</TD> + <TD align="right">{{ '%0.3f' % this_trait.mean|float }}</TD> + <TD align="right">{{ '%0.3f' % this_trait.LRS_score_repr|float }}</TD> + <TD>{{ this_trait.LRS_location_repr }}</TD> + <TD align="right">{{ '%0.3f' % this_trait.additive|float }}</TD> + </TR> + {% endfor %} + </tbody> + </table> + </div> + </div> + +<!-- End of body --> + +{% endblock %} + +{% block js %} + <script language="javascript" type="text/javascript" src="/static/new/javascript/search_results.js"></script> + + <script language="javascript" type="text/javascript" src="/static/new/packages/DataTables/js/jquery.dataTables.min.js"></script> + <script language="javascript" type="text/javascript" src="/static/new/packages/DataTables/js/dataTables.naturalSort.js"></script> + <script language="javascript" type="text/javascript" src="/static/new/packages/DataTables/extensions/dataTables.colReorder.js"></script> + <script language="javascript" type="text/javascript" src="/static/new/packages/DataTables/extensions/dataTables.colResize.js"></script> + <script language="javascript" type="text/javascript" src="/static/packages/DT_bootstrap/DT_bootstrap.js"></script> + <script language="javascript" type="text/javascript" src="/static/packages/TableTools/media/js/TableTools.min.js"></script> + + <script type="text/javascript" charset="utf-8"> + function getValue(x) { + if (x.indexOf('input') >= 0) { + if ($(x).val() == 'x') { + return 0; + } + else { + return parseFloat($(x).val()); + } + } + else if (isNaN(x)) { + return x; + } + return parseFloat(x); + } + + jQuery.fn.dataTableExt.oSort['cust-txt-asc'] = function (a, b) { + var x = getValue(a); + var y = getValue(b); + + if (x == 'N/A' || x == '') { + return 1; + } + else if (y == 'N/A' || y == '') { + return -1; + } + else { + return ((x < y) ? -1 : ((x > y) ? 1 : 0)); + } + }; + + jQuery.fn.dataTableExt.oSort['cust-txt-asc'] = function (a, b) { + var x = getValue(a); + var y = getValue(b); + + if (x == 'N/A' || x == '') { + return 1; + } + else if (y == 'N/A' || y == '') { + return -1; + } + else { + return ((x < y) ? -1 : ((x > y) ? 1 : 0)); + } + }; + + jQuery.fn.dataTableExt.oSort['cust-txt-desc'] = function (a, b) { + var x = getValue(a); + var y = getValue(b); + return ((x < y) ? 1 : ((x > y) ? -1 : 0)); + }; + + $.fn.dataTable.ext.order['dom-checkbox'] = function ( settings, col ) + { + return this.api().column( col, {order:'index'} ).nodes().map( function ( td, i ) { + return $('input', td).prop('checked') ? '1' : '0'; + } ); + } + + $(document).ready( function () { + + $('#trait_table tr').click(function(event) { + if (event.target.type !== 'checkbox') { + $(':checkbox', this).trigger('click'); + } + }); + + console.time("Creating table"); + $('#trait_table').DataTable( { + "columns": [ + { "type": "natural" }, + { "type": "natural" }, + { "type": "natural" }, + { "type": "cust-txt" }, + { "type": "natural" }, + { "type": "natural" }, + { "type": "natural" }, + { "type": "natural" }, + { "type": "natural", "width": "15%" }, + { "type": "natural" }, + { "type": "natural" }, + { "type": "natural" }, + { "type": "natural" }, + { "type": "cust-txt" } + ], + "order": [[ 1, "asc" ]], + "sDom": "RZtir", + "autoWidth": false, + "bLengthChange": true, + "bDeferRender": true, + "scrollCollapse": false, + "colResize": { + "tableWidthFixed": false, + }, + "paging": false + } ); + + console.timeEnd("Creating table"); + + }); + + </script> +{% endblock %} diff --git a/wqflask/wqflask/templates/gsearch_pheno.html b/wqflask/wqflask/templates/gsearch_pheno.html new file mode 100755 index 00000000..2527bebf --- /dev/null +++ b/wqflask/wqflask/templates/gsearch_pheno.html @@ -0,0 +1,154 @@ +{% extends "base.html" %} +{% block title %}Search Results{% endblock %} +{% block css %} + <link rel="stylesheet" type="text/css" href="/static/new/packages/DataTables/css/jquery.dataTables.css" /> + <link rel="stylesheet" type="text/css" href="/static/packages/DT_bootstrap/DT_bootstrap.css" /> + <link rel="stylesheet" type="text/css" href="/static/packages/TableTools/media/css/TableTools.css" /> + <link rel="stylesheet" type="text/css" href="/static/new/packages/DataTables/extensions/dataTables.fixedHeader.css" > + <link rel="stylesheet" type="text/css" href="//cdn.datatables.net/fixedcolumns/3.0.4/css/dataTables.fixedColumns.css"> +{% endblock %} +{% block content %} +<!-- Start of body --> + + <div class="container"> + + <p>To study a record, click on its ID below.<br />Check records below and click Add button to add to selection.</p> + + <div> + <br /> + <button class="btn btn-default" id="select_all"><span class="glyphicon glyphicon-ok"></span> Select All</button> + <button class="btn btn-default" id="deselect_all"><span class="glyphicon glyphicon-remove"></span> Deselect All</button> + <button class="btn btn-default" id="invert"><span class="glyphicon glyphicon-resize-vertical"></span> Invert</button> + <button class="btn btn-default" id="add" disabled ><span class="glyphicon glyphicon-plus-sign"></span> Add</button> + <button class="btn btn-primary pull-right"><span class="glyphicon glyphicon-download"></span> Download Table</button> + <input type="text" id="searchbox" class="form-control" style="width: 200px; display: inline;" placeholder="Search This Table For ..."> + <input type="text" id="select_top" class="form-control" style="width: 200px; display: inline;" placeholder="Select Top ..."> + <br /> + <br /> + <table class="table table-hover table-striped" id='trait_table' style="float: left;"> + <thead> + <tr> + <th style="width: 30px;"></th> + <th>Index</th> + <th>Species</th> + <th>Group</th> + <th>Record</th> + <th>Description</th> + <th>Authors</th> + <th>Year</th> + <th style="text-align: right;">Max <br>LRS<a href="http://genenetwork.org//glossary.html#L" target="_blank"><sup style="color:#f00"> ?</sup></a></th> + <th>Max LRS Location</th> + <th style="text-align: right;">Additive<br>Effect<a href="http://genenetwork.org//glossary.html#A" target="_blank"><sup style="color:#f00"> ?</sup></a></th> + </tr> + </thead> + <tbody> + {% for this_trait in trait_list %} + <TR id="trait:{{ this_trait.name }}:{{ this_trait.dataset.name }}"> + <TD><INPUT TYPE="checkbox" NAME="searchResult" class="checkbox trait_checkbox" style="transform: scale(1.5);" VALUE="{{ data_hmac('{}:{}'.format(this_trait.name, this_trait.dataset.name)) }}"></TD> + <TD>{{ loop.index }}</TD> + <TD>{{ this_trait.dataset.group.species }}</TD> + <TD>{{ this_trait.dataset.group.name }}</TD> + <TD><a href="{{ url_for('show_trait_page', trait_id = this_trait.name, dataset = this_trait.dataset.name)}}">{{ this_trait.name }}</a></TD> + <TD>{{ this_trait.description_display }}</TD> + <TD>{{ this_trait.authors }}</TD> + <TD><a href="{{ this_trait.pubmed_link }}">{{ this_trait.pubmed_text }}</a></TD> + <TD>{{ this_trait.LRS_score_repr }}</TD> + <TD>{{ this_trait.LRS_location_repr }}</TD> + <TD>{{ '%0.3f' % this_trait.additive|float }}</TD> + </TR> + {% endfor %} + </tbody> + </table> + </div> + </div> + +<!-- End of body --> + +{% endblock %} + +{% block js %} + <script language="javascript" type="text/javascript" src="/static/new/javascript/search_results.js"></script> + + <script language="javascript" type="text/javascript" src="/static/new/packages/DataTables/js/jquery.dataTables.min.js"></script> + <script language="javascript" type="text/javascript" src="/static/new/packages/DataTables/js/dataTables.naturalSort.js"></script> + <script language="javascript" type="text/javascript" src="/static/new/packages/DataTables/extensions/dataTables.colReorder.js"></script> + <script language="javascript" type="text/javascript" src="/static/new/packages/DataTables/extensions/dataTables.colResize.js"></script> + <script language="javascript" type="text/javascript" src="/static/packages/DT_bootstrap/DT_bootstrap.js"></script> + <script language="javascript" type="text/javascript" src="/static/packages/TableTools/media/js/TableTools.min.js"></script> + + <script type="text/javascript" charset="utf-8"> + function getValue(x) { + if (x.indexOf('input') >= 0) { + if ($(x).val() == 'x') { + return 0; + } + else { + return parseFloat($(x).val()); + } + } + else if (isNaN(x)) { + return x; + } + return parseFloat(x); + } + + jQuery.fn.dataTableExt.oSort['cust-txt-asc'] = function (a, b) { + var x = getValue(a); + var y = getValue(b); + + if (x == 'N/A' || x == '') { + return 1; + } + else if (y == 'N/A' || y == '') { + return -1; + } + else { + return ((x < y) ? -1 : ((x > y) ? 1 : 0)); + } + }; + + jQuery.fn.dataTableExt.oSort['cust-txt-desc'] = function (a, b) { + var x = getValue(a); + var y = getValue(b); + return ((x < y) ? 1 : ((x > y) ? -1 : 0)); + }; + + $(document).ready( function () { + + $('#trait_table tr').click(function(event) { + if (event.target.type !== 'checkbox') { + $(':checkbox', this).trigger('click'); + } + }); + + console.time("Creating table"); + $('#trait_table').DataTable( { + "columns": [ + { "bSortClasses": false }, + { "type": "natural" }, + { "type": "natural" }, + { "type": "natural" }, + { "type": "natural" }, + { "type": "natural", "width": "20%"}, + { "type": "natural" }, + { "type": "natural" }, + { "type": "natural" }, + { "type": "natural" }, + { "type": "natural" } + ], + "order": [[ 1, "asc" ]], + "sDom": "RZtir", + "autoWidth": false, + "bLengthChange": true, + "bDeferRender": true, + "scrollCollapse": false, + "colResize": { + "tableWidthFixed": false, + }, + "paging": false + } ); + console.timeEnd("Creating table"); + }); + + </script> +{% endblock %} diff --git a/wqflask/wqflask/templates/index_page.html b/wqflask/wqflask/templates/index_page.html index 5e0a92e3..6c630344 100755 --- a/wqflask/wqflask/templates/index_page.html +++ b/wqflask/wqflask/templates/index_page.html @@ -31,10 +31,10 @@ <label for="species" class="col-xs-1 control-label" style="width: 65px !important;">Species:</label> <div class="col-xs-10 controls input-append" style="padding-right: 0px;"> <div class="col-xs-8"> - <select name="species" id="species" class="form-control selectpicker span3" style="width: 280px !important;"></select> + <select name="species" id="species" class="form-control span3" style="width: 280px !important;"></select> </div> <div class="col-xs-4"> - <input id="make_default" class="btn btn-primary form-control" value="Make Default"> + <button type="button" id="make_default" class="btn btn-primary form-control">Make Default</button> </div> </div> </div> @@ -43,7 +43,7 @@ <label for="group" class="col-xs-1 control-label" style="width: 65px !important;">Group:</label> <div class="col-xs-10 controls input-append"> <div class="col-xs-8"> - <select name="group" id="group" class="form-control selectpicker span3" style="width: 280px !important;"></select> + <select name="group" id="group" class="form-control span3" style="width: 280px !important;"></select> <i class="icon-question-sign"></i> </div> </div> @@ -53,7 +53,7 @@ <label for="tissue" class="col-xs-1 control-label" style="width: 65px !important;">Type:</label> <div class="col-xs-10 controls"> <div class="col-xs-8"> - <select name="type" id="type" class="form-control selectpicker span3" style="width: 280px !important;"></select> + <select name="type" id="type" class="form-control span3" style="width: 280px !important;"></select> </div> </div> </div> @@ -62,7 +62,7 @@ <label for="dataset" class="col-xs-1 control-label" style="width: 65px !important;">Dataset:</label> <div class="col-xs-10 controls input-append"> <div class="col-xs-8"> - <select name="dataset" id="dataset" class="form-control selectpicker span5" style="width: 450px !important;"></select> + <select name="dataset" id="dataset" class="form-control span5" style="width: 450px !important;"></select> <i class="icon-question-sign"></i> </div> </div> @@ -76,10 +76,10 @@ <!-- GET ANY SEARCH --> <div class="form-group"> - <label for="tfor" class="col-xs-1 control-label" style="padding-left: 0px; padding-right: 0px; width: 65px !important;">Search for:</label> + <label for="or_search" class="col-xs-1 control-label" style="padding-left: 0px; padding-right: 0px; width: 65px !important;">Get Any:</label> <div class="col-xs-10 controls"> <div class="col-xs-8"> - <textarea name="search_terms" rows="2" class="form-control search-query" style="max-width: 550px; width: 450px !important;" id="tfor"></textarea> + <textarea onkeydown="pressed(event)" name="search_terms_or" rows="1" class="form-control search-query" style="max-width: 550px; width: 450px !important;" id="or_search"></textarea> </div> </div> </div> @@ -87,19 +87,33 @@ <!-- GET ANY HELP --> <div class="form-group"> <label for="btsearch" class="col-xs-1 control-label" style="width: 65px !important;"></label> + <div class="col-xs-10 controls"> + <div class="col-xs-12 controls"> + Enter terms, genes, ID numbers in the <b>Search</b> field.<br> + Use <b>*</b> or <b>?</b> wildcards (Cyp*a?, synap*).<br> + Use <b>quotes</b> for terms such as <i>"tyrosine kinase"</i>. + </div> + </div> + </div> + + <div class="form-group"> + <label for="and_search" class="col-xs-1 control-label" style="padding-left: 0px; padding-right: 0px; width: 65px !important;">Combined:</label> + <div class="col-xs-10 controls"> + <div class="col-xs-8"> + <textarea onkeydown="pressed(event)" name="search_terms_and" rows="1" class="form-control search-query" style="max-width: 550px; width: 450px !important;" id="and_search"></textarea> + </div> + </div> + </div> + + <div class="form-group"> + <label for="btsearch" class="col-xs-1 control-label" style="width: 65px !important;"></label> <div class="col-xs-10 controls"> <div class="col-xs-2 controls" style="width: 100px !important;"> <input id="btsearch" type="submit" class="btn btn-primary form-control" value="Search"> </div> - <div class="col-xs-9 controls"> - Enter terms, genes, ID numbers in the <b>Search</b> field - Use <b>*</b> or <b>?</b> wildcards (Cyp*a?, synap*) - Use <b>quotes</b> for terms such as <i>"tyrosine kinase"</i> - </div> </div> </div> - <!-- SEARCH, MAKE DEFAULT --> <div class="form-group"> @@ -116,21 +130,15 @@ <h2>Advanced commands</h2> </div> - <p>GeneNetwork supports a variety of advanced searches.</p> - - <p>To try them out copy these examples into the search field:</p> + <p>You can also use advanced commands. Copy these simple examples into the Get Any or Combined search fields:</p> <ul> - <!--<li><b>POSITION=(chr1 25 30)</b> finds genes, markers, or transcripts on + <li><b>POSITION=(chr1 25 30)</b> finds genes, markers, or transcripts on chromosome 1 between 25 and 30 Mb.</li> <li><b>MEAN=(15 16) LRS=(23 46)</b> in the <b>Combined</b> field finds highly expressed genes (15 to 16 log2 units) AND with peak <a href="http://www.genenetwork.org/glossary.html#L" target="_blank">LRS</a> - linkage between 23 and 46.</li>--> - - <li><b>MEAN=(15 16)</b> finds highly expressed genes (15 to 16 log2 units).</li> - - <li><b>LRS=(23 46)</b> finds genes with peak <a href="http://www.genenetwork.org/glossary.html#L" target="_blank">LRS</a> linkage between 23 and 46.</li> + linkage between 23 and 46.</li> <li><b>RIF=mitochondrial</b> searches RNA databases for <a href="http://www.ncbi.nlm.nih.gov/projects/GeneRIF/GeneRIFhelp.html" target="_blank"> GeneRIF</a> links.</li> @@ -139,7 +147,7 @@ GeneWiki</a> for genes that you or other users have annotated with the word <i>nicotine</i>.</li> - <!--<li><b>GO:0045202</b> searches for synapse-associated genes listed in the + <li><b>GO:0045202</b> searches for synapse-associated genes listed in the <a href="http://www.godatabase.org/cgi-bin/amigo/go.cgi" target="_blank"> Gene Ontology</a>.</li> @@ -151,7 +159,7 @@ <li><b>RIF=diabetes LRS=(9 999 Chr2 100 105) transLRS=(9 999 10)</b> finds diabetes-associated transcripts with peak <a href="http://www.genenetwork.org/glossary.html#E" target="_blank"> trans eQTLs</a> on Chr 2 between 100 and 105 Mb with LRS - scores between 9 and 999.</li>--> + scores between 9 and 999.</li> </ul> </section> </div> @@ -206,12 +214,9 @@ <h3>GN1 Mirror and development sites</h3> <ul> - <li><a href="http://www.genenetwork.org/" target="_blank" style="font-size:12px;font-family:verdana;color:blue">Main GN1 site at UTHSC</a> (main site)</li> - <li><a href="http://www.genenetwork.waimr.uwa.edu.au/" target="_blank" style="font-size:12px;font-family:verdana;color:blue">Australia at the UWA</a></li> - <li><a href="http://gn.genetics.ucla.edu/" target="_blank" style="font-size:12px;font-family:verdana;color:blue">California at UCLA</a></li> - <li><a href="http://genenetwork.helmholtz-hzi.de/" target="_blank" style="font-size:12px;font-family:verdana;color:blue">Germany at the HZI</a></li> - <li><a href="http://genenetwork.memphis.edu/" target="_blank" style="font-size:12px;font-family:verdana;color:blue">Memphis at the U of M</a></li> - <li><a href="http://genenetwork.epfl.ch/" target="_blank" style="font-size:12px;font-family:verdana;color:blue">Switzerland at the EPFL</a></li> + <li><a href="http://www.genenetwork.org/" target="_blank">Main GN1 site at UTHSC</a> (main site)</li> + <li><a href="http://genenetwork.helmholtz-hzi.de/" target="_blank">Germany at the HZI</a></li> + <li><a href="http://genenetwork.memphis.edu/" target="_blank">Memphis at the U of M</a></li> </ul> </section> @@ -260,4 +265,15 @@ {% block js %} <script src="/static/new/javascript/dataset_select_menu.js"></script> + + <script> + function pressed(e) { + // Has the enter key been pressed? + if ( (window.event ? event.keyCode : e.which) == 13) { + // If it has been so, manually submit the <form> + document.forms[1].submit(); + } + } + </script> + {% endblock %}
\ No newline at end of file diff --git a/wqflask/wqflask/templates/interval_mapping.html b/wqflask/wqflask/templates/interval_mapping.html deleted file mode 100755 index 82a96ba1..00000000 --- a/wqflask/wqflask/templates/interval_mapping.html +++ /dev/null @@ -1,116 +0,0 @@ -{% block css %} -<!-- <link rel="stylesheet" type="text/css" href="/static/new/css/interval_mapping.css" />--> - <link rel="stylesheet" type="text/css" href="/static/new/packages/DataTables/css/jquery.dataTables.css" /> - <link rel="stylesheet" type="text/css" href="/static/packages/DT_bootstrap/DT_bootstrap.css" /> - <link rel="stylesheet" type="text/css" href="/static/packages/TableTools/media/css/TableTools.css" /> - <link rel="stylesheet" type="text/css" href="/static/new/css/d3-tip.min.css" /> - <link rel="stylesheet" type="text/css" href="/static/new/css/panelutil.css" /> -{% endblock %} -{% block content %} <!-- Start of body --> - - - <div id="mapping_results" class="container"> - <div> - <h2> - Whole Genome Mapping - </h2> - <form style ='float: left; padding: 5px;' id="exportform" action="export" method="post"> - <input type="hidden" id="data" name="data" value=""> - <input type="hidden" id="filename" name="filename" value=""> - <input type="submit" id="export" value="Download SVG"> - </form> - <form style ='float: left; padding: 5px;' id="exportpdfform" action="export_pdf" method="post"> - <input type="hidden" id="data" name="data" value=""> - <input type="hidden" id="filename" name="filename" value=""> - <input type="submit" id="export_pdf" value="Download PDF"> - </form> - </div> - <div id="chart_container"> - <div class="qtlcharts" id="topchart"> - - </div> - </div> - <div> - <h2> - Results - </h2> - </div> - <table cellpadding="0" cellspacing="0" border="0" id="qtl_results" class="table table-hover table-striped table-bordered"> - <thead> - <tr> - <td>Index</td> - <td>LRS Score</td> - <td>Chr</td> - <td>Mb</td> - <td>Locus</td> - <td>Additive Effect</td> - </tr> - </thead> - <tbody> - {% for marker in qtl_results %} - <tr> - <td>{{ loop.index }}</td> - <td>{{ marker.lrs_value|float }}</td> - <td>{{ marker.chr|int }}</td> - <td>{{ marker.Mb|float }}</td> - <td>{{ marker.name }}</td> - <td>{{ marker.additive|float }}</td> - </tr> - {% endfor %} - </tbody> - </table> - - </div> - - <!-- End of body --> - -{% endblock %} - -{% block js %} - <script> - js_data = {{ js_data | safe }} - </script> - - <!--[if lt IE 9]> -<!-- <script language="javascript" type="text/javascript" src="/static/packages/jqplot/excanvas.js"></script>--> - <![endif]--> - <script language="javascript" type="text/javascript" src="http://d3js.org/d3.v3.min.js"></script> - <script language="javascript" type="text/javascript" src="/static/new/js_external/d3-tip.min.js"></script> - <script language="javascript" type="text/javascript" src="/static/new/javascript/panelutil.js"></script> - <script language="javascript" type="text/javascript" src="/static/new/javascript/chr_interval_map.js"></script> - <script language="javascript" type="text/javascript" src="/static/new/javascript/lod_chart.js"></script> - <script language="javascript" type="text/javascript" src="/static/new/javascript/create_lodchart.js"></script> - <script language="javascript" type="text/javascript" src="/static/new/packages/DataTables/js/jquery.js"></script> - <script language="javascript" type="text/javascript" src="/static/new/packages/DataTables/js/jquery.dataTables.min.js"></script> - <script language="javascript" type="text/javascript" src="/static/new/packages/DataTables/js/dataTables.scientific.js"></script> - <script language="javascript" type="text/javascript" src="/static/packages/DT_bootstrap/DT_bootstrap.js"></script> - <script language="javascript" type="text/javascript" src="/static/packages/TableTools/media/js/TableTools.min.js"></script> - <script language="javascript" type="text/javascript" src="/static/packages/underscore/underscore-min.js"></script> - - <script type="text/javascript" charset="utf-8"> - $(document).ready( function () { - console.time("Creating table"); - $('#qtl_results').dataTable( { - //"sDom": "<<'span3'l><'span3'T><'span4'f>'row-fluid'r>t<'row-fluid'<'span6'i><'span6'p>>", - "sDom": "lTftipr", - "oTableTools": { - "aButtons": [ - "copy", - "print", - { - "sExtends": "collection", - "sButtonText": 'Save <span class="caret" />', - "aButtons": [ "csv", "xls", "pdf" ] - } - ], - "sSwfPath": "/static/packages/TableTools/media/swf/copy_csv_xls_pdf.swf" - }, - "iDisplayLength": 50, - "bLengthChange": true, - "bDeferRender": true, - "bSortClasses": false - } ); - console.timeEnd("Creating table"); - }); - </script> -{% endblock %}
\ No newline at end of file diff --git a/wqflask/wqflask/templates/marker_regression.html b/wqflask/wqflask/templates/marker_regression.html index 6aed69d5..2d0b6256 100755 --- a/wqflask/wqflask/templates/marker_regression.html +++ b/wqflask/wqflask/templates/marker_regression.html @@ -1,15 +1,5 @@ -{% extends "base.html" %} -{% block title %}Interval Mapping{% endblock %} -{% block css %} -<!-- <link rel="stylesheet" type="text/css" href="/static/new/css/interval_mapping.css" />--> - <link rel="stylesheet" type="text/css" href="/static/new/packages/DataTables/css/jquery.dataTables.css" /> - <link rel="stylesheet" type="text/css" href="/static/packages/DT_bootstrap/DT_bootstrap.css" /> - <link rel="stylesheet" type="text/css" href="/static/packages/TableTools/media/css/TableTools.css" /> - <link rel="stylesheet" type="text/css" href="/static/new/css/d3-tip.min.css" /> - <link rel="stylesheet" type="text/css" href="/static/new/css/panelutil.css" /> -{% endblock %} -{% block content %} <!-- Start of body --> - +{% from "base_macro.html" import header %} +{% block content %} {{ header("Mapping", '{}: {}'.format(this_trait.name, this_trait.description_fmt)) }} @@ -28,35 +18,46 @@ <input type="hidden" id="filename" name="filename" value=""> <input type="submit" id="export_pdf" value="Download PDF"> </form> -<!-- <button id="export_pdf" class="btn">Export PDF</button>--> + <button id="return_to_full_view" class="btn" style="display:none">Return to full view</button> </div> <div id="chart_container"> <div class="qtlcharts" id="topchart"> </div> </div> - <div> + <div style="width:60%;"> <h2> Results </h2> - <table cellpadding="0" cellspacing="0" border="0" id="qtl_results" class="table table-hover table-striped table-bordered"> + <table id="qtl_results" class="table table-hover table-striped"> <thead> <tr> - <td>Index</td> - <td>LOD Score</td> - <td>Chr</td> - <td>Mb</td> - <td>Locus</td> + <th></th> + <th>Index</th> + <th>{{ score_type }}</th> + <th>Chr</th> + <th>Mb</th> + <th>Locus</th> </tr> </thead> <tbody> - {% for marker in filtered_markers %} - {% if marker.lod_score > lod_cutoff %} + {% for marker in qtl_results %} + {% if (score_type == "LOD" and marker.lod_score > cutoff) or + (score_type == "LRS" and marker.lrs_value > cutoff) %} <tr> - <td>{{loop.index}}</td> - <td>{{marker.lod_score}}</td> + <td> + <input type="checkbox" name="selectCheck" + class="checkbox edit_sample_checkbox" + value="{{ marker.name }}" checked="checked"> + </td> + <Td align="right">{{ loop.index }}</Td> + {% if score_type == "LOD" %} + <td>{{ '%0.2f' | format(marker.lod_score|float) }}</td> + {% else %} + <td>{{ '%0.2f' | format(marker.lrs_value|float) }}</td> + {% endif %} <td>{{marker.chr}}</td> - <td>{{marker.Mb}}</td> + <td>{{ '%0.6f' | format(marker.Mb|float) }}</td> <td>{{marker.name}}</td> </tr> {% endif %} @@ -75,52 +76,32 @@ js_data = {{ js_data | safe }} </script> - <!--[if lt IE 9]> -<!-- <script language="javascript" type="text/javascript" src="/static/packages/jqplot/excanvas.js"></script>--> - <![endif]--> - <script language="javascript" type="text/javascript" src="http://d3js.org/d3.v3.min.js"></script> - <script language="javascript" type="text/javascript" src="/static/new/js_external/d3-tip.min.js"></script> -<!-- <script language="javascript" type="text/javascript" src="/static/new/packages/jsPDF/jspdf.js"></script> - <script language="javascript" type="text/javascript" src="/static/new/packages/jsPDF/libs/FileSaver.js/FileSaver.js"></script> - <script language="javascript" type="text/javascript" src="/static/new/packages/jsPDF/libs/Blob.js/BlobBuilder.js"></script> - <script language="javascript" type="text/javascript" src="/static/new/packages/jsPDF/jspdf.plugin.standard_fonts_metrics.js"></script> - <script language="javascript" type="text/javascript" src="/static/new/packages/jsPDF/jspdf.plugin.from_html.js"></script>--> - <script language="javascript" type="text/javascript" src="/static/new/javascript/panelutil.js"></script> - <script language="javascript" type="text/javascript" src="/static/new/javascript/chr_lod_chart.js"></script> -<!-- <script language="javascript" type="text/javascript" src="/static/new/javascript/manhattan_plot.js"></script>--> - <script language="javascript" type="text/javascript" src="/static/new/javascript/lod_chart.js"></script> - <script language="javascript" type="text/javascript" src="/static/new/javascript/create_lodchart.js"></script> - <script language="javascript" type="text/javascript" src="/static/new/packages/DataTables/js/jquery.js"></script> - <script language="javascript" type="text/javascript" src="/static/new/packages/DataTables/js/jquery.dataTables.min.js"></script> - <script language="javascript" type="text/javascript" src="/static/new/packages/DataTables/js/dataTables.scientific.js"></script> - <script language="javascript" type="text/javascript" src="/static/packages/DT_bootstrap/DT_bootstrap.js"></script> - <script language="javascript" type="text/javascript" src="/static/packages/TableTools/media/js/TableTools.min.js"></script> - <script language="javascript" type="text/javascript" src="/static/packages/underscore/underscore-min.js"></script> - <script type="text/javascript" charset="utf-8"> $(document).ready( function () { console.time("Creating table"); $('#qtl_results').dataTable( { - //"sDom": "<<'span3'l><'span3'T><'span4'f>'row-fluid'r>t<'row-fluid'<'span6'i><'span6'p>>", - "sDom": "lTftipr", - "oTableTools": { - "aButtons": [ - "copy", - "print", - { - "sExtends": "collection", - "sButtonText": 'Save <span class="caret" />', - "aButtons": [ "csv", "xls", "pdf" ] - } + "columns": [ + { "type": "natural", "bSortable": false }, + { "type": "natural" }, + { "type": "natural" }, + { "type": "natural" }, + { "type": "natural" }, + { "type": "natural" } ], - "sSwfPath": "/static/packages/TableTools/media/swf/copy_csv_xls_pdf.swf" - }, - "iDisplayLength": 50, - "bLengthChange": true, + "buttons": [ + 'csv' + ], + "sDom": "RZBtir", + "iDisplayLength": -1, + "autoWidth": true, "bDeferRender": true, - "bSortClasses": false + "bSortClasses": false, + "scrollY": "700px", + "scrollCollapse": true, + "paging": false } ); console.timeEnd("Creating table"); + }); </script> -{% endblock %}
\ No newline at end of file +{% endblock %} diff --git a/wqflask/wqflask/templates/new_security/login_user.html b/wqflask/wqflask/templates/new_security/login_user.html index 81e8b53a..a66a85d6 100755 --- a/wqflask/wqflask/templates/new_security/login_user.html +++ b/wqflask/wqflask/templates/new_security/login_user.html @@ -24,18 +24,18 @@ <h4>Already have an account? Sign in here.</h4> - <form class="form-horizontal" action="/n/login" method="POST" name="login_user_form"> + <form class="form-horizontal" action="/n/login" method="POST" name="login_user_form" id="loginUserForm"> <fieldset> <div class="form-group"> <label style="text-align:left;" class="col-xs-1 control-label" for="email_address">Email Address</label> - <div style="margin-left:20px;" class="col-xs-10"> + <div style="margin-left:20px;" class="col-xs-4"> <input id="email_address" class="focused" name="email_address" type="text" value=""> </div> </div> <div class="form-group"> <label style="text-align:left;" class="col-xs-1 control-label" for="password">Password</label> - <div style="margin-left:20px;" class="col-xs-3 controls"> + <div style="margin-left:20px;" class="col-xs-4 controls"> <input id="password" name="password" type="password" value=""> <br /> <a href="/n/forgot_password">Forgot your password?</a><br/> @@ -45,14 +45,14 @@ <div class="form-group"> <label class="col-xs-1 control-label" for="remember"></label> - <div style="margin-left:20px;" class="col-xs-3 controls"> + <div style="margin-left:20px;" class="col-xs-4 controls"> <input id="remember" name="remember" type="checkbox" value="y"> <b>Remember me</b> </div> </div> <div class="form-group"> <label class="col-xs-1 control-label" for="submit"></label> - <div style="margin-left:20px;" class="col-xs-3 controls"> + <div style="margin-left:20px;" class="col-xs-4 controls"> <input id="next" name="next" type="hidden" value=""> <input class="btn btn-primary" id="submit" name="submit" type="submit" value="Sign in"> </div> @@ -66,9 +66,42 @@ {% endblock %} +{% block css %} +<style type="text/css"> +input.error{ + border:1px solid #FF0000 !important; +} + +label.error,div.error{ + font-weight:normal; + color:#FF0000 !important; +} +</style> +{% endblock %} + {% block js %} <!--<script src="https://ajax.googleapis.com/ajax/libs/jquery/1.8.3/jquery.min.js"></script>--> + <script type="text/javascript" src="/static/new/packages/ValidationPlugin/dist/jquery.validate.min.js"></script> + <script> + $(document).ready(function () { + $("#loginUserForm").validate({ + onkeyup: false, + onsubmit: true, + onfocusout: function(element) { $(element).valid(); }, + rules: { + email_address: { + required: true, + email: true + }, + password: { + required: true + } + } + }); + }); + </script> + {% include "new_security/_scripts.html" %} {% endblock %} diff --git a/wqflask/wqflask/templates/old_index_page.html b/wqflask/wqflask/templates/old_index_page.html deleted file mode 100755 index db0b2d9e..00000000 --- a/wqflask/wqflask/templates/old_index_page.html +++ /dev/null @@ -1,320 +0,0 @@ -{% extends "base.html" %} -{% block title %}GeneNetwork{% endblock %} -{% block content %} - <!-- Start of body --> - <tr> - <td bgcolor="#EEEEEE" class="solidBorder"> - <table width="100%" cellspacing="0" cellpadding="5"> - <tr> - <td valign="top" width="40%" align="left" height="10" bgcolor="#EEEEEE"> - <p style="font-size:18px;font-family:verdana;color:black"><b>Select and - Search</b></p> - - <form method="get" action="/search" class="form-search" name="SEARCHFORM"> - <table width="100%"> - <!-- SPECIES SELECTION --> - - <tr> - <td align="right" height="35" style= - "font-size:14px;font-family:verdana;color:black" width="16%"> - <b>Species:</b></td> - - <td width="3%"></td> - - <td nowrap width="85%" align="left"> - <div id="menu0"> - <select name="species" size="1" id="species" onchange= - "fillOptions('species');"> - </select> - </div> - </td> - </tr><!-- GROUP SELECTION --> - - <tr> - <td align="right" height="35" style= - "font-size:14px;font-family:verdana;color:black"><b>Group:</b></td> - - <td width="3%"></td> - - <td nowrap width="85%" align="left"> - <div id="menu1"> - <select name="cross" size="1" id="cross" onchange="fillOptions('cross');"> - </select> <input type="button" class="btn" value="Info" onclick= - "javascript:crossinfo();"> - </div> - </td> - </tr><!-- TYPE SELECTION --> - - <tr> - <td align="right" height="35" style= - "font-size:14px;font-family:verdana;color:black"><b>Type:</b></td> - - <td width="3%"></td> - - <td nowrap width="85%" align="left"> - <div id="menu2"> - <select name="tissue" size="1" id="tissue" onchange= - "fillOptions('tissue');"> - </select> - </div> - </td> - </tr><!-- DATABASE SELECTION --> - - <tr> - <td align="right" height="35" style= - "font-size:14px;font-family:verdana;color:black"><b>Database:</b></td> - - <td width="3%"></td> - - <td nowrap width="85%" align="left"> - <div id="menu3"> - <select name="database" size="1" id="database"> - </select> <input type="submit" class="btn" value="Info" name= - "info_database"> - </div> - </td> - </tr><!-- USER HELP --> - - <tr> - <td align="right" height="20" width="10%"></td> - - <td width="3%"></td> - - <td align="left" width="85%"> - <p class="fs12"> Databases marked with <b>**</b> - suffix are not public yet.<br> - Access requires <a href="/account.html" target= - "_blank" class="fs14"><small>user login</small></a>.</p> - </td> - </tr><!-- GET ANY SEARCH --> - - <tr> - <td align="right" height="35" nowrap="on" style= - "font-size:14px;font-family:verdana;color:black" width="10%"> - <b>Search:</b></td> - - <td width="3%"></td> - - <td nowrap width="85%" align="left"><input class="input-medium search-query" - id="tfor" name="search_terms" style= - "width:420px; background-color:white; font-family:verdana; font-size:14px" - type="text" maxlength="500"></td> - </tr><!-- GET ANY HELP --> - - <tr> - <td align="right" height="20" width="10%"></td> - - <td width="3%"></td> - - <td width="85%" align="left"> - <p class="fs12"> Enter terms, genes, ID numbers in the - <b>Search</b> field.<br> - Use <b>*</b> or <b>?</b> wildcards (Cyp*a?, - synap*).<br> - Use <b>quotes</b> for terms such as <i>"tyrosine - kinase"</i>.</p> - </td> - </tr><!-- SEARCH, MAKE DEFAULT, ADVANCED SEARCH --> - - <tr align="center"> - <td width="3%"></td> - - <td width="3%"></td> - - <td align="left" height="40" colspan="3"><input id="btsearch" type="submit" - class="btn btn-primary" value="Search"> <input type= - "button" class="btn" value="Make Default" onclick= - "setDefault(this.form);"> <input type="button" class= - "btn" value="Advanced Search" onclick= - "javascript:window.open('/index3.html', '_self');"></td> - </tr> - </table><input type="hidden" name="FormID" value="searchResult"> <input type= - "hidden" name="RISet" value="BXD"> <script src="/javascript/selectDatasetMenu.js" - type="text/javascript"> -</script> - </form><!-- QUICK HELP --> - - <p> ______________________________________________________</p> - - <p style="font-size:13px;font-family:verdana;color:black"><b> Quick HELP - Examples and</b> <a href="http://www.genenetwork.org/index4.html" target="_blank" - class="fs14"><b>User's Guide</b></a></p> You can also use advanced - commands. Copy these simple examples<br> - into the <b>Get Any</b> or <b>Combined</b> search fields: - - <ul style="font-size:12px;font-family:verdana;color:black"> - <li><b><i>POSITION=(chr1 25 30)</i></b> finds genes, markers, or transcripts on - chromosome 1 between 25 and 30 Mb.</li> - - <li><b><i>MEAN=(15 16) LRS=(23 46)</i></b> in the <b>Combined</b> field finds - highly expressed genes (15 to 16 log2 units) AND with peak <a href= - "http://www.genenetwork.org/glossary.html#L" target="_blank" class= - "fs14"><small>LRS</small></a> linkage between 23 and 46.</li> - - <li><b><i>RIF=mitochondrial</i></b> searches RNA databases for <a href= - "http://www.ncbi.nlm.nih.gov/projects/GeneRIF/GeneRIFhelp.html" target="_blank" - class="fs14"><small>GeneRIF</small></a> links.</li> - - <li><b><i>WIKI=nicotine</i></b> searches <a href= - "http://www.genenetwork.org/webqtl/main.py?FormID=geneWiki" target="_blank" class= - "fs14"><small>GeneWiki</small></a> for genes that you or other users have annotated - with the word <i>nicotine</i>.</li> - - <li><b><i>GO:0045202</i></b> searches for synapse-associated genes listed in the - <a href="http://www.godatabase.org/cgi-bin/amigo/go.cgi" target="_blank" class= - "fs14"><small>Gene Ontology</small></a>.</li> - - <li><b><i>GO:0045202 LRS=(9 99 Chr4 122 155) cisLRS=(9 999 10)</i></b><br> - in <b>Combined</b> finds synapse-associated genes with <a href= - "http://www.genenetwork.org/glossary.html#E" target="_blank" class= - "fs14"><small>cis eQTL</small></a> on Chr 4 from 122 and 155 Mb with LRS scores - between 9 and 999.</li> - - <li><b><i>RIF=diabetes LRS=(9 999 Chr2 100 105) transLRS=(9 999 10)</i></b><br> - in <b>Combined</b> finds diabetes-associated transcripts with peak <a href= - "http://www.genenetwork.org/glossary.html#E" target="_blank" class= - "fs14"><small>trans eQTLs</small></a> on Chr 2 between 100 and 105 Mb with LRS - scores between 9 and 999.</li> - </ul> - </td><!-- END OF FIND SELECTOR PULL-DOWN PANEL (LEFT SIDE) --> - <!-- START OF TOP RIGHT PANEL --> - - <td valign="top" width="40%" bgcolor="#FFFFFF"> - <p style="font-size:15px;font-family:verdana;color:black"><b>Websites Affiliated with - GeneNetwork</b></p> - - <p style="font-size:12px;font-family:verdana;color:black"></p> - - <ul> - <li><a href="http://ucscbrowser.genenetwork.org/" target="_blank">Genome - Browser</a> at UTHSC</li> - - <li><a href="http://galaxy.genenetwork.org/" target="_blank">Galaxy</a> at - UTHSC</li> - - <li>GeneNetwork at <a href="http://ec2.genenetwork.org/" target="_blank">Amazon - Cloud (EC2)</a></li> - - <li>GeneNetwork Source Codes at <a href= - "http://sourceforge.net/projects/genenetwork/" target="_blank">SourceForge</a></li> - - <li>GeneNetwork Source Codes at <a href= - "https://github.com/genenetwork/genenetwork" target="_blank">GitHub</a></li> - </ul> - - <p>____________________________</p> - - <p style="font-size:15px;font-family:verdana;color:black"><b>Getting Started</b> - </p> - - <ol style="font-size:12px;font-family:verdana;color:black"> - <li>Select <b>Species</b> (or select All)</li> - - <li>Select <b>Group</b> (a specific sample)</li> - - <li>Select <b>Type</b> of data: - - <ul> - <li>Phenotype (traits)</li> - - <li>Genotype (markers)</li> - - <li>Expression (mRNAs)</li> - </ul> - </li> - - <li>Select a <b>Database</b></li> - - <li>Enter search terms in the <b>Get Any</b> or <b>Combined</b> field: words, - genes, ID numbers, probes, advanced search commands</li> - - <li>Click on the <b>Search</b> button</li> - - <li>Optional: Use the <b>Make Default</b> button to save your preferences</li> - </ol> - - <p>____________________________</p> - - <p style="font-size:14px;font-family:verdana;color:black"><b>How to Use - GeneNetwork</b></p> - - <blockquote> - <p style="font-size:12px;font-family:verdana;color:black">Take a 20-40 minute - GeneNetwork <a href="http://www.genenetwork.org/tutorial/WebQTLTour/" target= - "_blank" class="fs14"><small>Tour</small></a> that includes screen shots and - typical steps in the analysis.</p> - </blockquote> - - <blockquote> - <p style="font-size:12px;font-family:verdana;color:black">For information about - resources and methods, select the <img src= - "http://www.genenetwork.org/images/upload/Info.png" alt="INFO" border="0" valign= - "middle"> buttons.</p> - - <p style="font-size:12px;font-family:verdana;color:black">Try the <a href= - "http://alexandria.uthsc.edu/" target="_blank" class= - "fs14"><small>Workstation</small></a> site to explore data and features that are - being implemented.</p> - - <p style="font-size:12px;font-family:verdana;color:black">Review the <a href= - "/conditionsofUse.html" target="_blank" class="fs14"><small>Conditions</small></a> - and <a href="/statusandContact.html" target="_blank" class= - "fs14"><small>Contacts</small></a> pages for information on the status of data sets - and advice on their use and citation.</p> - </blockquote> - - <p style="font-size:14px;font-family:verdana;color:black"><b>Mirror and Development - Sites</b></p> - - <ul> - <li><a href="http://www.genenetwork.org/" target="_blank" style= - "font-size:12px;font-family:verdana;color:blue">Main GN site at UTHSC</a> (main - site)</li> - - <li><a href="http://www.genenetwork.waimr.uwa.edu.au/" target="_blank" style= - "font-size:12px;font-family:verdana;color:blue">Australia at the UWA</a></li> - - <li><a href="http://gn.genetics.ucla.edu/" target="_blank" style= - "font-size:12px;font-family:verdana;color:blue">California at UCLA</a></li> - - <li><a href="http://genenetwork.helmholtz-hzi.de/" target="_blank" style= - "font-size:12px;font-family:verdana;color:blue">Germany at the HZI</a></li> - - <li><a href="https://genenetwork.hubrecht.eu/" target="_blank" style= - "font-size:12px;font-family:verdana;color:blue">Netherlands at the Hubrecht</a> - (Development)</li> - - <li><a href="http://genenetwork.memphis.edu/" target="_blank" style= - "font-size:12px;font-family:verdana;color:blue">Memphis at the U of M</a></li> - - <li><a href="http://webqtl.bic.nus.edu.sg/" target="_blank" style= - "font-size:12px;font-family:verdana;color:blue">Singapore at the NUS</a></li> - - <li><a href="http://genenetwork.epfl.ch/" target="_blank" style= - "font-size:12px;font-family:verdana;color:blue">Switzerland at the EPFL</a></li> - </ul> - - <p style="font-size:14px;font-family:verdana;color:black"><b>History and - Archive</b></p> - - <blockquote> - <p style="font-size:12px;font-family:verdana;color:black">GeneNetwork's <a href= - "http://artemis.uthsc.edu" target="_blank" class="fs14"><small>Time - Machine</small></a> links to earlier versions that correspond to specific - publication dates.</p> - </blockquote> - </td> - </tr> - </table> - </td> - </tr> - <!-- End of body --> - <script src="/javascript/searchtip.js" type="text/javascript"> - </script> - <script type="text/javascript"> - $(document).ready(function () { - initialDatasetSelection(); - }); - </script> -{% endblock %} - diff --git a/wqflask/wqflask/templates/pair_scan_results.html b/wqflask/wqflask/templates/pair_scan_results.html index 869dabed..ab4a36bb 100644 --- a/wqflask/wqflask/templates/pair_scan_results.html +++ b/wqflask/wqflask/templates/pair_scan_results.html @@ -33,6 +33,28 @@ <h2> Results </h2> + <table cellpadding="0" cellspacing="0" border="0" id="pair_scan_results" class="table table-hover table-striped table-bordered"> + <thead> + <tr> + <td>Index</td> + <td>Locus</td> + <td>Chr 1</td> + <td>Mb</td> + <td>Chr 2</td> + </tr> + </thead> + <tbody> + {% for marker in filtered_markers %} + <tr> + <td>{{loop.index}}</td> + <td>{{marker.name}}</td> + <td>{{marker.chr1}}</td> + <td>{{marker.Mb}}</td> + <td>{{marker.chr2}}</td> + </tr> + {% endfor %} + </tbody> + </table> </div> </div> diff --git a/wqflask/wqflask/templates/search_error.html b/wqflask/wqflask/templates/search_error.html new file mode 100644 index 00000000..22416580 --- /dev/null +++ b/wqflask/wqflask/templates/search_error.html @@ -0,0 +1,21 @@ +{% extends "base.html" %} +{% block title %}Search Results{% endblock %} +{% block css %} + <link rel="stylesheet" type="text/css" href="/static/new/packages/DataTables/css/jquery.dataTables.css" /> + <link rel="stylesheet" type="text/css" href="/static/packages/DT_bootstrap/DT_bootstrap.css" /> + <link rel="stylesheet" type="text/css" href="/static/packages/TableTools/media/css/TableTools.css" /> +{% endblock %} +{% block content %} +<!-- Start of body --> + {{ header("Error") }} + + <div class="container"> + <input type="hidden" name="uc_id" id="uc_id" value="{{ uc_id }}"> + <p>You entered at least one incorrect search command.</p> + </div> + + <div id="myModal"></div> + +<!-- End of body --> + +{% endblock %} diff --git a/wqflask/wqflask/templates/search_result_page.html b/wqflask/wqflask/templates/search_result_page.html index 731f6fbd..f29b907d 100755 --- a/wqflask/wqflask/templates/search_result_page.html +++ b/wqflask/wqflask/templates/search_result_page.html @@ -2,8 +2,9 @@ {% block title %}Search Results{% endblock %} {% block css %} <link rel="stylesheet" type="text/css" href="/static/new/packages/DataTables/css/jquery.dataTables.css" /> - <link rel="stylesheet" type="text/css" href="/static/packages/DT_bootstrap/DT_bootstrap.css" /> - <link rel="stylesheet" type="text/css" href="/static/packages/TableTools/media/css/TableTools.css" /> + <link rel="stylesheet" type="text/css" href="/static/new/packages/DataTables/extensions/dataTables.fixedHeader.css" > + <link rel="stylesheet" type="text/css" href="//cdn.datatables.net/fixedcolumns/3.0.4/css/dataTables.fixedColumns.css"> + <link rel="stylesheet" type="text/css" href="/static/new/packages/DataTables/extensions/buttons.bootstrap.css" /> {% endblock %} {% block content %} <!-- Start of body --> @@ -37,22 +38,38 @@ <p>To study a record, click on its ID below. Check records below and click Add button to add to selection.</p> <div> - <br /> - <button class="btn btn-default" id="select_all"><span class="glyphicon glyphicon-ok"></span> Select All</button> - <button class="btn btn-default" id="deselect_all"><span class="glyphicon glyphicon-remove"></span> Deselect All</button> - <button class="btn btn-default" id="invert"><span class="glyphicon glyphicon-resize-vertical"></span> Invert</button> - <button class="btn btn-default" id="add"><span class="glyphicon glyphicon-plus-sign"></span> Add</button> - <button class="btn btn-primary pull-right"><span class="glyphicon glyphicon-download"></span> Download Table</button> - <br /> - <br /> - <table class="table table-hover table-striped" id='trait_table'> + <br /> + <button class="btn btn-default" id="select_all"><span class="glyphicon glyphicon-ok"></span> Select All</button> + <button class="btn btn-default" id="deselect_all"><span class="glyphicon glyphicon-remove"></span> Deselect All</button> + <button class="btn btn-default" id="invert"><span class="glyphicon glyphicon-resize-vertical"></span> Invert</button> + <button class="btn btn-default" id="add" disabled><span class="glyphicon glyphicon-plus-sign"></span> Add</button> + <!--<button class="btn btn-default"><span class="glyphicon glyphicon-download"></span> Download Table</button>--> + <button id="redraw" class="btn btn-default">Reset Columns</button> + <input type="text" id="searchbox" class="form-control" style="width: 200px; display: inline;" placeholder="Search This Table For ..."> + <input type="text" id="select_top" class="form-control" style="width: 200px; display: inline;" placeholder="Select Top ..."> + <br /> + <br /> + {% if dataset.type == 'ProbeSet' %} + <button class="btn btn-default" id="open_options">Open Extra Options</button> + <br /> + <br /> + <div id="extra_options" style="display:none;"> + Min LRS <input type="text" id="min" class="form-control" style="width: 60px; display: inline;"> + Max LRS <input type="text" id="max" class="form-control" style="width: 60px; display: inline;"> + </div> + <br /> + <br /> + {% endif %} + <div id="table_container"> + <table class="table table-hover table-striped" id='trait_table' {% if dataset.type == 'Geno' %}width="400px"{% endif %} style="float: left;"> <thead> <tr> + <th style="width: 30px;"></th> {% for header in header_fields %} {% if header == 'Max LRS' %} - <th>{{header}}<a href="http://genenetwork.org//glossary.html#L" target="_blank"><sup style="color:#f00"> ?</sup></a></th> + <th style="text-align: right;">Max <br>LRS</th> {% elif header == 'Additive Effect' %} - <th>{{header}}<a href="http://genenetwork.org//glossary.html#A" target="_blank"><sup style="color:#f00"> ?</sup></a></th> + <th style="text-align: right;">Additive<br>Effect<a href="http://genenetwork.org//glossary.html#A" target="_blank"><sup style="color:#f00"> ?</sup></a></th> {% else %} <th>{{header}}</th> {% endif %} @@ -63,10 +80,9 @@ <tbody> {% for this_trait in trait_list %} <TR id="trait:{{ this_trait.name }}:{{ this_trait.dataset.name }}"> - <TD> - <INPUT TYPE="checkbox" NAME="searchResult" class="checkbox trait_checkbox" - VALUE="{{ data_hmac('{}:{}'.format(this_trait.name, this_trait.dataset.name)) }}"> + <TD><INPUT TYPE="checkbox" NAME="searchResult" class="checkbox trait_checkbox" style="transform: scale(1.5);" VALUE="{{ data_hmac('{}:{}'.format(this_trait.name, this_trait.dataset.name)) }}"> </TD> + <TD align="right">{{ loop.index }}</TD> <TD> <a href="{{ url_for('show_trait_page', trait_id = this_trait.name, @@ -79,10 +95,10 @@ <TD>{{ this_trait.symbol }}</TD> <TD>{{ this_trait.description_display }}</TD> <TD>{{ this_trait.location_repr }}</TD> - <TD>{{ this_trait.mean }}</TD> - <TD align="right">{{ this_trait.LRS_score_repr }}</TD> + <TD align="right">{{ '%0.3f' % this_trait.mean|float }}</TD> + <TD align="right">{{ '%0.3f' % this_trait.LRS_score_repr|float }}</TD> <TD>{{ this_trait.LRS_location_repr }}</TD> - <TD>{{ this_trait.additive }}</TD> + <TD align="right">{{ '%0.3f' % this_trait.additive|float }}</TD> {% elif dataset.type == 'Publish' %} <TD>{{ this_trait.description_display }}</TD> <TD>{{ this_trait.authors }}</TD> @@ -93,7 +109,7 @@ </TD> <TD>{{ this_trait.LRS_score_repr }}</TD> <TD>{{ this_trait.LRS_location_repr }}</TD> - <TD>{{ this_trait.additive }}</TD> + <TD>{{ '%0.3f' % this_trait.additive|float }}</TD> {% elif dataset.type == 'Geno' %} <TD>{{ this_trait.location_repr }}</TD> {% endif %} @@ -102,6 +118,7 @@ </tbody> </table> + </div> </div> </div> @@ -114,27 +131,80 @@ {% block js %} <script type="text/javascript" src="/static/new/javascript/search_results.js"></script> - <script language="javascript" type="text/javascript" src="/static/new/packages/DataTables/js/jquery.dataTables.min.js"></script> + <script language="javascript" type="text/javascript" src="https://cdn.datatables.net/1.10.8/js/jquery.dataTables.min.js"></script> + <script language="javascript" type="text/javascript" src="https://cdn.datatables.net/buttons/1.0.0/js/dataTables.buttons.min.js"></script> + <script language="javascript" type="text/javascript" src="https://cdn.datatables.net/buttons/1.0.0/js/buttons.html5.min.js"></script> + <script language="javascript" type="text/javascript" src="https://cdn.datatables.net/buttons/1.0.0/js/buttons.bootstrap.min.js"></script> + <script language="javascript" type="text/javascript" src="/static/new/js_external/jszip.min.js"></script> <script language="javascript" type="text/javascript" src="/static/new/packages/DataTables/js/dataTables.naturalSort.js"></script> - <script language="javascript" type="text/javascript" src="/static/packages/DT_bootstrap/DT_bootstrap.js"></script> - <script language="javascript" type="text/javascript" src="/static/packages/TableTools/media/js/TableTools.min.js"></script> + <script language="javascript" type="text/javascript" src="/static/new/packages/DataTables/extensions/dataTables.colResize.js"></script> + <script language="javascript" type="text/javascript" src="/static/new/packages/DataTables/extensions/dataTables.colReorder.js"></script> + <script language="javascript" type="text/javascript" src="/static/new/packages/DataTables/extensions/dataTables.fixedHeader.js"></script> + <script language="javascript" type="text/javascript" src="//cdn.datatables.net/fixedcolumns/3.0.4/js/dataTables.fixedColumns.min.js"></script> + <script type="text/javascript" charset="utf-8"> function getValue(x) { if (x.indexOf('input') >= 0) { if ($(x).val() == 'x') { - return 0 + return 0; } else { return parseFloat($(x).val()); } } + else if (isNaN(x)) { + return x; + } return parseFloat(x); } - + + + function filtering( oSettings, aData, iDataIndex, column) { + var iColumn = column; + if (document.getElementById('min').value){ + var iMin = document.getElementById('min').value * 1; + } else { + var iMin = 0 + } + if (document.getElementById('max').value){ + var iMax = document.getElementById('max').value * 1; + } else { + var iMax = 10000 + } + + var iVersion = aData[iColumn] == "-" ? 0 : aData[iColumn]*1; + if ( iMin === "" && iMax === "" ) + { + return true; + } + else if ( iMin === "" && iVersion < iMax ) + { + return true; + } + else if ( iMin < iVersion && "" === iMax ) + { + return true; + } + else if ( iMin < iVersion && iVersion < iMax ) + { + return true; + } + return false; + } + jQuery.fn.dataTableExt.oSort['cust-txt-asc'] = function (a, b) { var x = getValue(a); - var y = getValue(b); - return ((x < y) ? -1 : ((x > y) ? 1 : 0)); + var y = getValue(b); + + if (x == 'N/A' || x == '') { + return 1; + } + else if (y == 'N/A' || y == '') { + return -1; + } + else { + return ((x < y) ? -1 : ((x > y) ? 1 : 0)); + } }; jQuery.fn.dataTableExt.oSort['cust-txt-desc'] = function (a, b) { @@ -154,74 +224,95 @@ console.time("Creating table"); {% if dataset.type == 'ProbeSet' %} - $('#trait_table').dataTable( { - //"sDom": "<<'span3'l><'span3'T><'span4'f>'row-fluid'r>t<'row-fluid'<'span6'i><'span6'p>>", - "aoColumns": [ - { "bSortable": false }, - { "sType": "natural" }, - { "sType": "natural" }, - { "sType": "natural", - "sWidth": "35%" }, - { "sType": "natural", - "sWidth": "15%" }, - { "sType": "cust-txt" }, - { "sType": "natural", - "sWidth": "12%" }, - { "sType": "natural", - "sWidth": "15%" }, - { "sType": "cust-txt" } - ], + $('#trait_table').DataTable( { "columns": [ - { "width": "50%" }, - null, - null, - null, - null, - null, - null + { "type": "natural" }, + { "type": "natural" }, + { "type": "natural" }, + { "type": "natural" }, + { "type": "natural", "width": "40%" }, + { "type": "natural", "width": "15%" }, + { "type": "natural" }, + { "type": "natural" }, + { "type": "natural", "width": "15%" }, + { "type": "natural" } + ], + "order": [[1, "asc" ]], + "buttons": [ + 'csv' ], - "sDom": "tir", + "sDom": "RZBtir", "iDisplayLength": -1, - "autoWidth": true, - "bLengthChange": true, "bDeferRender": true, - "bSortClasses": false + "bSortClasses": false, + "scrollY": "700px", + "scrollCollapse": false, + "paging": false } ); {% elif dataset.type == 'Publish' %} - $('#trait_table').dataTable( { - //"sDom": "<<'span3'l><'span3'T><'span4'f>'row-fluid'r>t<'row-fluid'<'span6'i><'span6'p>>", - "aoColumns": [ - { "bSortable": false }, - { "sType": "natural" }, - { "sType": "natural", - "sWidth": "35%" }, - { "sType": "natural", - "sWidth": "20%" }, - { "sType": "natural" }, - { "sType": "cust-txt" }, - { "sType": "natural" } + $('#trait_table').DataTable( { + "columns": [ + { "type": "natural" }, + { "type": "natural" }, + { "type": "natural" }, + { "type": "natural" }, + { "type": "natural" }, + { "type": "natural" }, + { "type": "natural" }, + { "type": "natural", "width": "15%"}, + { "type": "natural" } ], + "order": [[1, "asc" ]], + "buttons": [ + 'csv' + ], + "sDom": "RZBtir", + "iDisplayLength": -1, + "autoWidth": false, + "bDeferRender": true, + "bSortClasses": false, + "scrollY": "700px", + "scrollCollapse": false, + "paging": false + } ); + {% elif dataset.type == 'Geno' %} + $('#trait_table').DataTable( { "columns": [ - { "width": "50%" }, - null, - null, - null, - null, - null, - null + { "type": "natural" }, + { "type": "natural" }, + { "type": "natural" }, + { "type": "natural", "width": "40%"} ], - "sDom": "tir", + "order": [[1, "asc" ]], + "buttons": [ + 'csv' + ], + "sDom": "RZBtir", "iDisplayLength": -1, "autoWidth": true, - "bLengthChange": true, "bDeferRender": true, - "bSortClasses": false + "bSortClasses": false, + "scrollY": "700px", + "scrollCollapse": false, + "paging": false } ); {% endif %} console.timeEnd("Creating table"); + + var table = $('#trait_table').DataTable(); + $('#redraw').click(function() { + var table = $('#trait_table').DataTable(); + table.colReorder.reset() + }); + + $('#min').keyup( function() { table.draw(); } ); + $('#max').keyup( function() { table.draw(); } ); + + $('#open_options').click( function () { + $('#extra_options').toggle(); + }); + }); - </script> - {% endblock %} diff --git a/wqflask/wqflask/templates/show_trait.html b/wqflask/wqflask/templates/show_trait.html index a1723ef8..a86a149d 100755 --- a/wqflask/wqflask/templates/show_trait.html +++ b/wqflask/wqflask/templates/show_trait.html @@ -5,21 +5,32 @@ <link rel="stylesheet" type="text/css" href="/static/new/css/show_trait.css" /> <link rel="stylesheet" type="text/css" href="/static/new/css/bar_chart.css" /> <link rel="stylesheet" type="text/css" href="/static/new/css/box_plot.css" /> + <link rel="stylesheet" type="text/css" href="/static/new/css/prob_plot.css" /> <link rel="stylesheet" type="text/css" href="/static/new/css/panelutil.css" /> <link rel="stylesheet" type="text/css" href="/static/new/css/scatter-matrix.css" /> <link rel="stylesheet" type="text/css" href="/static/new/css/d3-tip.min.css" /> + <link rel="stylesheet" type="text/css" href="/static/new/packages/nvd3/nv.d3.min.css" /> <link rel="stylesheet" type="text/css" href="/static/new/packages/DataTables/css/jquery.dataTables.css" /> + <link rel="stylesheet" type="text/css" href="/static/new/packages/DataTables/extensions/buttons.bootstrap.css" /> + <link rel="stylesheet" type="text/css" href="/static/new/packages/noUiSlider/nouislider.css" /> + <link rel="stylesheet" type="text/css" href="/static/new/packages/noUiSlider/nouislider.pips.css" /> <link rel="stylesheet" type="text/css" href="/static/packages/DT_bootstrap/DT_bootstrap.css" /> + {% endblock %} {% block content %} <!-- Start of body --> - {{ header("{}".format(this_trait.symbol), - '{}: {}'.format(this_trait.name, this_trait.description_fmt)) }} + {% if this_trait.dataset.type != 'Geno' %} + {{ header("{}".format(this_trait.name_header_fmt), + '{}: {}'.format(this_trait.name, this_trait.description_fmt)) }} + {% else %} + {{ header("{}".format(this_trait.name_header_fmt)) }} + {% endif %} <form method="post" action="/corr_compute" name="trait_page" id="trait_data_form" class="form-horizontal"> <div id="hidden_inputs"> + <input type="hidden" name="trait_hmac" value="{{ data_hmac('{}:{}'.format(this_trait.name, dataset.name)) }}"> {% for key in hddn %} <input type="hidden" name="{{ key }}" value="{{ hddn[key] }}"> {% endfor %} @@ -28,21 +39,13 @@ <input type="hidden" name="temp_uuid" id="temp_uuid" value="{{ temp_uuid }}"> <div class="container"> - <div class="page-header"> - <h1>{{ dataset.group.species.capitalize() }} - - {{ dataset.group.name }} - - {{ this_trait.symbol }} - </h1> - </div> {% include 'show_trait_details.html' %} <div class="panel-group" id="accordion"> <div class="panel panel-default"> - <div class="panel-heading"> + <div class="panel-heading" data-toggle="collapse" data-parent="#accordion" data-target="#collapseOne"> <h3 class="panel-title"> - <a data-toggle="collapse" data-parent="#accordion" href="#collapseOne"> - <span class="glyphicon glyphicon-chevron-down"></span> Statistics - </a> + <span class="glyphicon glyphicon-chevron-down"></span> Statistics </h3> </div> <div id="collapseOne" class="panel-collapse collapse in"> @@ -52,11 +55,9 @@ </div> </div> <div class="panel panel-default"> - <div class="panel-heading"> + <div class="panel-heading" data-toggle="collapse" data-parent="#accordion" data-target="#collapseTwo"> <h3 class="panel-title"> - <a data-toggle="collapse" data-parent="#accordion" href="#collapseTwo"> - <span class="glyphicon glyphicon-chevron-down"></span> Calculate Correlations - </a> + <span class="glyphicon glyphicon-chevron-down"></span> Calculate Correlations </h3> </div> <div id="collapseTwo" class="panel-collapse collapse in"> @@ -66,25 +67,22 @@ </div> </div> <div class="panel panel-default"> - <div class="panel-heading"> + <div class="panel-heading" data-toggle="collapse" data-parent="#accordion" data-target="#collapseThree"> <h3 class="panel-title"> - <a data-toggle="collapse" data-parent="#accordion" href="#collapseThree"> - <span class="glyphicon glyphicon-chevron-down"></span> Mapping Tools - </a> + <span class="glyphicon glyphicon-chevron-down"></span> Mapping Tools </h3> </div> <div id="collapseThree" class="panel-collapse collapse in"> <div class="panel-body"> {% include 'show_trait_mapping_tools.html' %} </div> + <div id="alert_placeholder"></div> </div> </div> <div class="panel panel-default"> - <div class="panel-heading"> + <div class="panel-heading" data-toggle="collapse" data-parent="#accordion" data-target="#collapseFour" aria-expanded="true"> <h3 class="panel-title"> - <a data-toggle="collapse" data-parent="#accordion" href="#collapseFour" aria-expanded="true"> - <span class="glyphicon glyphicon-chevron-up"></span> Review and Edit Data - </a> + <span class="glyphicon glyphicon-chevron-up"></span> Review and Edit Data </h3> </div> <div id="collapseFour" class="panel-collapse collapse" aria-expanded="true"> @@ -110,9 +108,12 @@ </script> <script type="text/javascript" src="http://d3js.org/d3.v3.min.js"></script> + <script type="text/javascript" src="/static/new/packages/nvd3/nv.d3.js"></script> <script type="text/javascript" src="/static/new/js_external/underscore-min.js"></script> <script type="text/javascript" src="/static/new/js_external/underscore.string.min.js"></script> <script type="text/javascript" src="/static/new/js_external/d3-tip.min.js"></script> + <script type="text/javascript" src="/static/new/js_external/jstat.min.js"></script> + <script type="text/javascript" src="/static/new/js_external/shapiro-wilk.js"></script> <script type="text/javascript" src="/static/new/javascript/colorbrewer.js"></script> <script type="text/javascript" src="/static/new/packages/ValidationPlugin/dist/jquery.validate.min.js"></script> <script type="text/javascript" src="/static/new/javascript/panelutil.js"></script> @@ -131,18 +132,30 @@ <script type="text/javascript" src="/static/new/javascript/show_trait.js"></script> <script type="text/javascript" src="/static/new/javascript/get_traits_from_collection.js"></script> <script type="text/javascript" src="/static/new/javascript/validation.js"></script> - - <script language="javascript" type="text/javascript" src="/static/packages/bootstrap/js/bootstrap.min.js"></script> - <script language="javascript" type="text/javascript" src="/static/new/packages/DataTables/js/jquery.dataTables.min.js"></script> + <script language="javascript" type="text/javascript" src="/static/new/packages/jsPDF/libs/FileSaver.js/FileSaver.js"></script> + <script language="javascript" type="text/javascript" src="/static/new/packages/jsPDF/libs/Blob.js/BlobBuilder.js"></script> + <script language="javascript" type="text/javascript" src="/static/new/packages/jsPDF/jspdf.plugin.standard_fonts_metrics.js"></script> + <script language="javascript" type="text/javascript" src="/static/new/packages/jsPDF/jspdf.plugin.from_html.js"></script> + <script language="javascript" type="text/javascript" src="/static/new/javascript/chr_lod_chart.js"></script> + <script language="javascript" type="text/javascript" src="/static/new/javascript/create_lodchart.js"></script> + <script language="javascript" type="text/javascript" src="/static/new/javascript/lod_chart.js"></script> + + <script language="javascript" type="text/javascript" src="/static/new/packages/DataTables/js/jquery.dataTables.js"></script> + <script language="javascript" type="text/javascript" src="https://cdn.datatables.net/buttons/1.0.0/js/dataTables.buttons.min.js"></script> + <script language="javascript" type="text/javascript" src="https://cdn.datatables.net/buttons/1.0.0/js/buttons.html5.min.js"></script> + <script language="javascript" type="text/javascript" src="https://cdn.datatables.net/buttons/1.0.0/js/buttons.bootstrap.min.js"></script> + <script language="javascript" type="text/javascript" src="/static/new/js_external/jszip.min.js"></script> + <script language="javascript" type="text/javascript" src="/static/new/packages/DataTables/js/dataTables.scientific.js"></script> <script language="javascript" type="text/javascript" src="/static/new/packages/DataTables/js/dataTables.naturalSort.js"></script> - <script language="javascript" type="text/javascript" src="/static/packages/DT_bootstrap/DT_bootstrap.js"></script> - <script language="javascript" type="text/javascript" src="/static/packages/TableTools/media/js/TableTools.min.js"></script> + <script language="javascript" type="text/javascript" src="/static/new/packages/DataTables/extensions/dataTables.colResize.js"></script> + <script language="javascript" type="text/javascript" src="/static/new/packages/DataTables/extensions/dataTables.colReorder.js"></script> + <script language="javascript" type="text/javascript" src="/static/new/packages/noUiSlider/nouislider.js"></script> <script type="text/javascript" charset="utf-8"> function getValue(x) { if (x.indexOf('input') >= 0) { if ($(x).val() == 'x') { - return 0 + return 'x' } else { return parseFloat($(x).val()); @@ -160,12 +173,21 @@ jQuery.fn.dataTableExt.oSort['cust-txt-desc'] = function (a, b) { var x = getValue(a); var y = getValue(b); - return ((x < y) ? 1 : ((x > y) ? -1 : 0)); + + if (x == 'x') { + return 1; + } + else if (y == 'x') { + return -1; + } + else { + return ((x < y) ? 1 : ((x > y) ? -1 : 0)); + } }; $(document).ready( function () { - $('.panel-heading').find('a').click(function () { + $('.panel-heading').click(function () { if ($(this).hasClass('collapsed')){ $(this).find('.glyphicon-chevron-down').removeClass('glyphicon-chevron-down').addClass('glyphicon-chevron-up'); } @@ -175,70 +197,127 @@ }); console.time("Creating table"); - - {% if sample_groups[0].se_exists() %} - $('#samples_primary, #samples_other').find("tr.outlier").css('background-color', 'yellow') - $('#samples_primary, #samples_other').dataTable( { - //"sDom": "<<'span3'l><'span3'T><'span4'f>'row-fluid'r>t<'row-fluid'<'span6'i><'span6'p>>", - "aoColumns": [ - { "sType": "natural" }, - null, - { "sType": "cust-txt" }, - { "bSortable": false }, - { "sType": "cust-txt" } + + $('#samples_primary, #samples_other').find("tr.outlier").css('background-color', 'yellow') + {% if sample_groups[0].se_exists() %} + $('#samples_primary, #samples_other').DataTable( { + "columns": [ + { "bSortable": false }, + { "type": "natural" }, + { "type": "natural" }, + { "type": "cust-txt" }, + { "bSortable": false }, + { "type": "cust-txt" } ], - "sDom": "ftr", - "oTableTools": { - "aButtons": [ - "copy", - "print", - { - "sExtends": "collection", - "sButtonText": 'Save <span class="caret" />', - "aButtons": [ "csv", "xls", "pdf" ] - } - ], - "sSwfPath": "/static/packages/TableTools/media/swf/copy_csv_xls_pdf.swf" - }, - "bPaginate": false, - "bLengthChange": true, - "bDeferRender": true, - "bSortClasses": false - } ); - console.timeEnd("Creating table"); + "buttons": [ + 'csv' + ], + "sDom": "RZBtr", + "iDisplayLength": -1, + "autoWidth": false, + "bLengthChange": true, + "bDeferRender": true, + "bSortClasses": false, + "scrollY": "600px", + "scrollCollapse": false, + "colResize": { + "tableWidthFixed": false + }, + "paging": false + } ); + console.timeEnd("Creating table"); {% else %} - - - console.time("Creating table"); + console.time("Creating table"); - $('#samples_primary, #samples_other').dataTable( { - //"sDom": "<<'span3'l><'span3'T><'span4'f>'row-fluid'r>t<'row-fluid'<'span6'i><'span6'p>>", - "aoColumns": [ - { "sType": "natural" }, - null, - { "sType": "cust-txt" } + $('#samples_primary, #samples_other').DataTable( { + "columns": [ + { "bSortable": false }, + { "type": "natural" }, + null, + { "type": "cust-txt" } + ], + "buttons": [ + 'csv' + ], + "sDom": "RZBtr", + "iDisplayLength": -1, + "autoWidth": false, + "bLengthChange": true, + "bDeferRender": true, + "bSortClasses": false, + "scrollY": "600px", + "scrollCollapse": false, + "colResize": { + "tableWidthFixed": false + }, + "paging": false + } ); + {% endif %} + + console.log("SAMPLE GROUP TYPES:", js_data.sample_group_types) + if (Object.keys(js_data.sample_group_types).length > 1) { + $('#stats_table').DataTable( { + "columns": [ + { "bSortable": false }, + { "bSortable": false }, + { "bSortable": false }, + { "bSortable": false } ], - "sDom": "ftr", - "oTableTools": { - "aButtons": [ - "copy", - "print", - { - "sExtends": "collection", - "sButtonText": 'Save <span class="caret" />', - "aButtons": [ "csv", "xls", "pdf" ] - } - ], - "sSwfPath": "/static/packages/TableTools/media/swf/copy_csv_xls_pdf.swf" + "sDom": "RZtr", + "iDisplayLength": -1, + "autoWidth": false, + "bLengthChange": true, + "bDeferRender": true, + "bSortClasses": false, + "colResize": { + "tableWidthFixed": false }, - "bPaginate": false, + "paging": false + } ); + } + else { + $('#stats_table').DataTable( { + "columns": [ + { "bSortable": false }, + { "bSortable": false } + ], + "sDom": "RZtr", + "iDisplayLength": -1, + "autoWidth": false, "bLengthChange": true, "bDeferRender": true, - "bSortClasses": false + "bSortClasses": false, + "colResize": { + "tableWidthFixed": false + }, + "paging": false } ); - console.timeEnd("Creating table"); - {% endif %} + + } + + var slider = document.getElementById('p_range_slider'); + noUiSlider.create(slider, { + start: [-1.0, 1.0], + range: { + 'min': [-1.0], + 'max': [1.0] + } + }); + + var slider_display = [ + document.getElementById('p_range_lower'), + document.getElementById('p_range_upper') + ]; + var slider_values = [ + $('input[name=p_range_lower]'), + $('input[name=p_range_upper]') + ]; + + slider.noUiSlider.on('update', function( values, handle ) { + slider_display[handle].innerHTML = values[handle]; + slider_values[handle].val(values[handle]); + }); }); </script> diff --git a/wqflask/wqflask/templates/show_trait_calculate_correlations.html b/wqflask/wqflask/templates/show_trait_calculate_correlations.html index f02d1705..68cc8b18 100755 --- a/wqflask/wqflask/templates/show_trait_calculate_correlations.html +++ b/wqflask/wqflask/templates/show_trait_calculate_correlations.html @@ -72,6 +72,34 @@ </select> </div> </div> + {% if this_trait.dataset.type == 'ProbeSet' %} + <div class="form-group"> + <label class="col-xs-1 control-label">Min Expr</label> + <div class="col-xs-2 controls"> + <input name="min_expr" value="" type="text" class="form-control" style="width: 50px;"> + </div> + </div> + <div class="form-group"> + <label class="col-xs-1 control-label">Location</label> + <div class="col-xs-4 controls"> + <span> + Chr: <input name="loc_chr" value="" type="text" class="form-control" style="width: 50px; display: inline;"> + Mb: <input name="min_loc_mb" value="" type="text" class="form-control" style="width: 50px; display: inline;"> to <input name="max_loc_mb" value="" type="text" class="form-control" style="width: 50px; display: inline;"> + </span> + <br> + </div> + </div> + {% endif %} + <div class="form-group"> + <label class="col-xs-1 control-label">Range</label> + <div class="col-xs-3 controls"> + <input name="p_range_lower" value="" type="hidden"> + <input name="p_range_upper" value="" type="hidden"> + <div id="p_range_slider" ></div> + <span style="font: 400 12px Arial; color: #888; display: block; margin: 15px 0;" id="p_range_lower"></span> + <span style="font: 400 12px Arial; color: #888; display: block; margin: 15px 0;" id="p_range_upper"></span> + </div> + </div> <div class="form-group"> <label for="corr_sample_method" class="col-xs-1 control-label"></label> diff --git a/wqflask/wqflask/templates/show_trait_details.html b/wqflask/wqflask/templates/show_trait_details.html index 0afac1f7..cdaa919e 100755 --- a/wqflask/wqflask/templates/show_trait_details.html +++ b/wqflask/wqflask/templates/show_trait_details.html @@ -1,9 +1,19 @@ <dl class="dl-horizontal"> + <dt>Species</dt> + <dd>{{ this_trait.dataset.group.species }}</dd> + <dt>Group</dt> + <dd>{{ this_trait.dataset.group.name }}</dd> + <dt>Tissue</dt> + <dd>{{ this_trait.dataset.tissue }}</dd> + {% if this_trait.dataset.type == 'ProbeSet' %} <dt>Aliases</dt> <dd>{{ this_trait.alias_fmt }}</dd> + {% endif %} + {% if this_trait.dataset.type != 'Publish' %} <dt>Location</dt> <dd>{{ this_trait.location_fmt }}</dd> + {% endif %} <dt>Database</dt> <dd> @@ -16,7 +26,7 @@ <dt> <a href="/blatInfo.html" target="_blank" title="Values higher than 2 for the specificity are good"> - BLAT Specifity + BLAT Specificity </a> </dt> <dd>{{ "%0.3f" | format(this_trait.probe_set_specificity|float) }}</dd> @@ -25,42 +35,87 @@ <dt>BLAT Score</dt> <dd>{{ "%0.3f" | format(this_trait.probe_set_blat_score|float) }}</dd> {% endif %} + <dt>Resource Links</dt> + {% if this_trait.dataset.type == 'ProbeSet' %} + <dd> + {% if this_trait.geneid != None %} + <a href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=gene&cmd=Retrieve&dopt=Graphics&list_uids={{ this_trait.geneid }}" target="_blank" title="Info from NCBI Entrez Gene"> + Gene + </a> + + {% endif %} + {% if this_trait.omim != None %} + <a href="http://www.ncbi.nlm.nih.gov/omim/{{ this_trait.omim }}" target="_blank" title="Summary from On Mendelion Inheritance in Man"> + OMIM + </a> + + {% endif %} + {% if this_trait.genbankid != None %} + <a href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=Nucleotide&cmd=search&doptcmdl=DocSum&term={{ this_trait.genbankid }}" target="_blank" title="Find the original GenBank sequence used to design the probes"> + GenBank + </a> + + {% endif %} + {% if this_trait.symbol != None %} + <a href="http://www.genotation.org/Getd2g.pl?gene_list={{ this_trait.symbol }}" target="_blank" title="Related descriptive, genomic, clinical, functional and drug-therapy information"> + Genotation + </a> + + {% endif %} + </dd> + {% endif %} </dl> - -<!--<div class="btn-toolbar"> +<div style="margin-bottom:15px;" class="btn-toolbar"> <div class="btn-group"> - <button class="btn btn-primary" title="Add to collection"> + <a href="#redirect"> + <button type="button" id="add_to_collection" class="btn btn-primary" title="Add to collection"> <i class="icon-plus-sign icon-white"></i> Add </button> - - <button class="btn" title="Find similar expression data"> + </a> + {% if this_trait.dataset.type == 'ProbeSet' %} + {% if this_trait.symbol != None %} + <a href="#redirect" onclick="window.open('http://www.genenetwork.org/webqtl/main.py?cmd=sch&gene={{ this_trait.symbol }}&alias=1&species={{ species_name }}')"> + <button type="button" class="btn btn-default" title="Find similar expression data"> <i class="icon-search"></i> Find </button> - - <button class="btn" title="Check probe locations at UCSC"> + </a> + {% endif %} + {% if UCSC_BLAT_URL != "" %} + <a href="#redirect" onclick="window.open('{{ UCSC_BLAT_URL }}')"> + <button type="button" class="btn btn-default" title="Check probe locations at UCSC"> <i class="icon-ok"></i> Verify </button> - </div> - - <div class="btn-group"> - - <button class="btn" title="Write or review comments about this gene"> + </a> + {% endif %} + {% if this_trait.symbol != None %} + <a href="#redirect" onclick="window.open('http://genenetwork.org/webqtl/main.py?FormID=geneWiki&symbol={{ this_trait.symbol }}')"> + <button type="button" class="btn btn-default" title="Write or review comments about this gene"> <i class="icon-edit"></i> GeneWiki </button> - - <button class="btn" title="View SNPs and Indels"> + </a> + <a href="#redirect" onclick="window.open('http://genenetwork.org/webqtl/main.py?FormID=SnpBrowserResultPage&submitStatus=1&diffAlleles=True&customStrain=True&geneName={{ this_trait.symbol }}')"> + <button type="button" class="btn btn-default" title="View SNPs and Indels"> <i class="icon-road"></i> SNPs </button> - - <button class="btn" title="View probes, SNPs, and RNA-seq at UTHSC"> + </a> + {% endif %} + {% if UTHSC_BLAT_URL != "" %} + <a href="#redirect" onclick="window.open('{{ UTHSC_BLAT_URL }}')"> + <button type="button" class="btn btn-default" title="View probes, SNPs, and RNA-seq at UTHSC"> <i class="icon-eye-close"></i> RNA-seq </button> - - <button class="btn" title="Check sequence of probes"> + </a> + {% endif %} + {% if show_probes == "True" %} + <a href="#redirect" onclick="window.open('http://genenetwork.org/webqtl/main.py?FormID=showProbeInfo&database={{ this_trait.dataset.name }}&ProbeSetID={{ this_trait.name }}&CellID={{ this_trait.cellid }}&RISet={{ dataset.group.name }}&incparentsf1=ON')"> + <button type="button" class="btn btn-default" title="Check sequence of probes"> <i class="icon-list"></i> Probes </button> - + </a> + {% endif %} + {% endif %} </div> -</div>--> +</div> + diff --git a/wqflask/wqflask/templates/show_trait_edit_data.html b/wqflask/wqflask/templates/show_trait_edit_data.html index 12a6a48e..d39df976 100755 --- a/wqflask/wqflask/templates/show_trait_edit_data.html +++ b/wqflask/wqflask/templates/show_trait_edit_data.html @@ -14,10 +14,10 @@ <input type="text" id="remove_samples_field"> <select id="block_group" size="1"> <option value="primary"> - {{ sample_group_types['primary_only'] }} + {{ sample_group_types['samples_primary'] }} </option> <option value="other"> - {{ sample_group_types['other_only'] }} + {{ sample_group_types['samples_other'] }} </option> </select> <input type="button" id="block_by_index" class="btn" value="Block"> @@ -44,11 +44,11 @@ {% endif %} <br> <div> - <input type="button" id="hide_no_value" class="btn" value="Hide No Value"> - <input type="button" id="block_outliers" class="btn" value="Block Outliers"> - <input type="button" id="reset" class="btn btn-inverse" value="Reset"> + <input type="button" id="hide_no_value" class="btn btn-default" value="Hide No Value"> + <input type="button" id="block_outliers" class="btn btn-default" value="Block Outliers"> + <input type="button" id="reset" class="btn btn-primary" value="Reset"> <span class="input-append"> - <input type="button" id="export" class="btn" value="Export"> + <input type="button" id="export" class="btn btn-default" value="Export"> <select id="export_format" class="select optional span2"> <option value="excel">Excel</option> <option value="csv">CSV</option> @@ -73,39 +73,35 @@ <br> - <div id="edit_sample_lists"> + <!--<div id="edit_sample_lists">--> {% for sample_type in sample_groups %} - <div> + <div class="sample_group" style="width:50%;"> <h3>{{ sample_type.header }}</h3> - <table cellpadding="0" cellspacing="0" border="0" class="table table-hover table-striped table-bordered" - id="samples_{{ sample_type.sample_group_type }}"> + <table class="table-hover table-striped" id="samples_{{ sample_type.sample_group_type }}" style="float: left;"> <thead> <tr> - <td>Index</td> - <td>Sample</td> - <td>Value</td> + <th></th> + <th>Index</th> + <th>Sample</th> + <th>Value</th> {% if sample_type.se_exists() %} - <td> </td> - <td>SE</td> + <th> </th> + <th>SE</th> {% endif %} {% for attribute in sample_type.attributes|sort() %} - <td> + <th> {{ sample_type.attributes[attribute].name }} - </td> + </th> {% endfor %} </tr> </thead> <tbody> {% for sample in sample_type.sample_list %} <tr class="{{ sample.class_outlier }} value_se" id="{{ sample.this_id }}"> - <td class="column_name-Index"> - {{ loop.index }} - <input type="checkbox" name="selectCheck" - class="checkbox edit_sample_checkbox" - value="{{ sample.name }}" checked="checked"> + <td class="column_name-"><input type="checkbox" name="selectCheck" class="checkbox edit_sample_checkbox" style="transform: scale(1.5);" value="{{ sample.name }}" checked="checked"> </td> - + <td class="column_name-Index" align="right">{{ loop.index }}</td> <td class="column_name-Sample"> <span class="edit_sample_sample_name"> {{ sample.name }} @@ -150,7 +146,7 @@ </table> </div> {% endfor %} - </div> + <!--</div>--> <input type="hidden" name="Default_Name"> diff --git a/wqflask/wqflask/templates/show_trait_mapping_tools.html b/wqflask/wqflask/templates/show_trait_mapping_tools.html index 426a5c5d..de25f4ee 100755 --- a/wqflask/wqflask/templates/show_trait_mapping_tools.html +++ b/wqflask/wqflask/templates/show_trait_mapping_tools.html @@ -1,18 +1,21 @@ <div> - <div class="col-xs-6"> + {% if (use_pylmm_rqtl and dataset.group.species != "human") or use_plink_gemma %} + <div class="col-xs-4"> <div class="tabbable"> <!-- Only required for left/right tabs --> <ul class="nav nav-pills"> + {% if use_pylmm_rqtl and not use_plink_gemma and dataset.group.species != "human" %} <li class="active"> - <a href="#interval_mapping" data-toggle="tab">Interval Mapping</a> + <a href="#pylmm" data-toggle="tab">pyLMM</a> </li> <li> - <a href="#pylmm" data-toggle="tab">pyLMM</a> + <a href="#rqtl_geno" data-toggle="tab">R/qtl</a> </li> <li> - <a href="#rqtl_geno" data-toggle="tab">rqtl</a> + <a href="#interval_mapping" data-toggle="tab">Interval Mapping</a> </li> - {% if dataset.group.species == 'human' %} + {% endif %} + {% if use_plink_gemma %} <li> <a href="#plink" data-toggle="tab">PLINK</a> </li> @@ -26,81 +29,38 @@ </ul> <div class="tab-content"> - <div class="tab-pane active" id="interval_mapping"> - <div style="padding: 20px" class="form-horizontal"> - <div class="mapping_method_fields form-group"> - <label for="mapping_permutations" class="col-xs-2 control-label">Permutations</label> - <div style="margin-left: 20px;" class="col-xs-4 controls"> - <input name="num_perm_reaper" value="2000" type="text" class="form-control"> - </div> - </div> - - <div class="mapping_method_fields form-group"> - <label for="mapping_bootstraps" class="col-xs-2 control-label" title="Bootstrapping Resamples">Bootstrap</label> - <div style="margin-left: 20px;" class="col-xs-4 controls"> - <input name="mapping_bootstraps" value="2000" type="text" class="form-control"> - </div> - </div> - - <div class="mapping_method_fields form-group"> - <label style="text-align:left;" class="col-xs-12 control-label">Display Additive Effect</label> - <div class="col-xs-12 controls" id="display_additive_effect"> - <label class="radio-inline"> - <input type="radio" name="display_additive" id="display_additive" value="yes" checked=""> - Yes - </label> - <label class="radio-inline"> - <input type="radio" name="display_additive" id="display_additive" value="no"> - No - </label> - </div> - </div> - + {% if use_pylmm_rqtl and not use_plink_gemma and dataset.group.species != "human" %} + <div class="tab-pane active" id="pylmm"> + <div style="margin-top: 20px" class="form-horizontal"> <div class="mapping_method_fields form-group"> - <label style="text-align:left;" class="col-xs-12 control-label">Manhattan Plot</label> - <div class="col-xs-12 controls"> - <label class="radio-inline"> - <input type="radio" name="manhattan_plot_reaper" value="true"> - Yes - </label> - <label class="radio-inline"> - <input type="radio" name="manhattan_plot_reaper" value="false" checked=""> - No - </label> - </div> - </div> - <div class="form-group"> - <div style="padding-left:15px;" class="controls"> - <button id="interval_mapping_compute" class="btn submit_special btn-primary" data-url="/interval_mapping" title="Compute Interval Mapping"> - <i class="icon-ok-circle icon-white"></i> Open Mapping Tool - </button> - </div> - </div> - </div> - </div> - - <div class="tab-pane" id="pylmm"> - - <div style="padding: 20px" class="form-horizontal"> - <div class="mapping_method_fields form-group"> - <label for="mapping_permutations" class="col-xs-2 control-label">Permutations</label> + <label for="mapping_permutations" class="col-xs-3 control-label">Permutations</label> <div style="margin-left: 20px;" class="col-xs-4 controls"> - <input name="num_pylmm" value="2000" type="text" class="form-control"> + <input name="num_perm_pylmm" value="" type="text" class="form-control"> </div> </div> <div id="permutations_alert" class="alert alert-error alert-warning" style="display:none;"> Please be aware that permutations can take a very long time (~20 minutes for 500 permutations) </div> +<!-- <div class="mapping_method_fields form-group"> - <label for="control_for" class="col-xs-2 control-label">Control for</label> + <label for="control_for" class="col-xs-3 control-label">Control for</label> <div style="margin-left: 20px;" class="col-xs-4 controls"> {% if dataset.type == 'ProbeSet' and this_trait.locus_chr != "" %} - <input name="control_pylmm" value="{{ nearest_marker1+","+nearest_marker2 }}" type="text" /> + <input name="control_pylmm" value="{{ nearest_marker }}" type="text" /> {% else %} <input name="control_pylmm" value="" type="text" /> {% endif %} + <label class="radio-inline"> + <input type="radio" name="do_control_pylmm" value="true"> + Yes + </label> + <label class="radio-inline"> + <input type="radio" name="do_control_pylmm" value="false" checked=""> + No + </label> </div> </div> +--> <div class="mapping_method_fields form-group"> <label style="text-align:left;" class="col-xs-12 control-label">Manhattan Plot</label> @@ -117,8 +77,8 @@ </div> <div class="form-group"> <div style="padding-left:15px;" class="controls"> - <button id="pylmm_compute" class="btn submit_special btn-primary" data-url="/marker_regression" title="Compute Marker Regression"> - <i class="icon-ok-circle icon-white"></i> Open Mapping Tool + <button id="pylmm_compute" class="btn submit_special btn-primary" title="Compute Marker Regression"> + <i class="icon-ok-circle icon-white"></i> Compute </button> </div> </div> @@ -126,29 +86,37 @@ </div> <div class="tab-pane" id="rqtl_geno"> - <div style="padding: 20px" class="form-horizontal"> + <div style="margin-top: 20px" class="form-horizontal"> <div class="mapping_method_fields form-group"> - <label for="mapping_permutations" class="col-xs-2 control-label">Permutations</label> + <label for="mapping_permutations" class="col-xs-3 control-label">Permutations</label> <div style="margin-left: 20px;" class="col-xs-4 controls"> - <input name="num_perm_rqtl_geno" value="2000" type="text" class="form-control"> + <input name="num_perm_rqtl_geno" value="" type="text" class="form-control"> </div> </div> <div id="permutations_alert" class="alert alert-error alert-warning" style="display:none;"> Please be aware that permutations can take a very long time (~20 minutes for 500 permutations) </div> <div class="mapping_method_fields form-group"> - <label for="control_for" class="col-xs-2 control-label">Control for</label> + <label for="control_for" class="col-xs-3 control-label">Control for</label> <div style="margin-left: 20px;" class="col-xs-4 controls"> {% if dataset.type == 'ProbeSet' and this_trait.locus_chr != "" %} - <input name="control_rqtl_geno" value="{{ nearest_marker1+","+nearest_marker2 }}" type="text" style="width: 160px;" class="form-control" /> + <input name="control_rqtl_geno" value="{{ nearest_marker }}" type="text" style="width: 160px;" class="form-control" /> {% else %} <input name="control_rqtl_geno" value="" type="text" class="form-control" /> {% endif %} + <label class="radio-inline"> + <input type="radio" name="do_control_rqtl" value="true"> + Yes + </label> + <label class="radio-inline"> + <input type="radio" name="do_control_rqtl" value="false" checked=""> + No + </label> </div> </div> <div class="mapping_method_fields form-group"> - <label for="mapmethod_rqtl_geno" style="text-align:left;" class="col-xs-2 control-label">Method</label> + <label for="mapmethod_rqtl_geno" style="text-align:left;" class="col-xs-3 control-label">Method</label> <div class="col-xs-4 controls"> <select name="mapmethod_rqtl_geno" class="form-control"> <option value="em">em</option> @@ -163,7 +131,7 @@ </div> <div class="mapping_method_fields form-group"> - <label for="mapmodel_rqtl_geno" style="text-align:left;" class="col-xs-2 control-label">Model</label> + <label for="mapmodel_rqtl_geno" style="text-align:left;" class="col-xs-3 control-label">Model</label> <div class="col-xs-4 controls"> <select name="mapmodel_rqtl_geno" class="form-control"> <option value="normal">normal</option> @@ -205,28 +173,82 @@ <div class="form-group"> <div style="padding-left:15px;" class="controls"> <button id="rqtl_geno_compute" class="btn submit_special btn-primary" data-url="/marker_regression" title="Compute Marker Regression"> - <i class="icon-ok-circle icon-white"></i> Open Mapping Tool + <i class="icon-ok-circle icon-white"></i> Compute </button> </div> </div> </div> </div> - - {% if dataset.group.species == 'human' %} + <div class="tab-pane" id="interval_mapping"> + <div style="margin-top: 20px" class="form-horizontal"> + <div class="mapping_method_fields form-group"> + <label for="mapping_permutations" class="col-xs-3 control-label">Permutations</label> + <div style="margin-left: 20px;" class="col-xs-4 controls"> + <input name="num_perm_reaper" value="2000" type="text" class="form-control"> + </div> + </div> +<!-- + <div class="mapping_method_fields form-group"> + <label for="mapping_bootstraps" class="col-xs-3 control-label" title="Bootstrapping Resamples">Bootstrap</label> + <div style="margin-left: 20px;" class="col-xs-4 controls"> + <input name="mapping_bootstraps" value="2000" type="text" class="form-control"> + </div> + </div> + + <div class="mapping_method_fields form-group"> + <label style="text-align:left;" class="col-xs-12 control-label">Display Additive Effect</label> + <div class="col-xs-12 controls" id="display_additive_effect"> + <label class="radio-inline"> + <input type="radio" name="display_additive" id="display_additive" value="yes" checked=""> + Yes + </label> + <label class="radio-inline"> + <input type="radio" name="display_additive" id="display_additive" value="no"> + No + </label> + </div> + </div> +--> + + <div class="mapping_method_fields form-group"> + <label style="text-align:left;" class="col-xs-12 control-label">Manhattan Plot</label> + <div class="col-xs-12 controls"> + <label class="radio-inline"> + <input type="radio" name="manhattan_plot_reaper" value="true"> + Yes + </label> + <label class="radio-inline"> + <input type="radio" name="manhattan_plot_reaper" value="false" checked=""> + No + </label> + </div> + </div> + <div class="form-group"> + <div style="padding-left:15px;" class="controls"> + <button id="interval_mapping_compute" class="btn submit_special btn-primary" data-url="/interval_mapping" title="Compute Interval Mapping"> + <i class="icon-ok-circle icon-white"></i> Compute + </button> + </div> + </div> + <!--<div id="alert_placeholder"></div>--> + </div> + </div> + {% endif %} + {% if use_plink_gemma %} <div class="tab-pane" id="plink"> <div style="padding: 20px" class="form-horizontal"> <div class="mapping_method_fields form-group"> <label for="maf_plink" class="col-xs-2 control-label">Minor allele threshold</label> - <div style="margin-left: 20px;" class="col-xs-1 controls"> + <div style="margin-left: 20px;" class="col-xs-2 controls"> <input name="maf_plink" value="0.01" type="text" class="form-control"> </div> </div> </div> <div class="form-group"> - <label for="gemma_compute" class="col-xs-1 control-label"></label> + <label for="plink_compute" class="col-xs-1 control-label"></label> <div style="margin-left:20px;" class="col-xs-4 controls"> - <button id="gemma_compute" class="btn submit_special btn-primary" data-url="/marker_regression" title="Compute Marker Regression"> + <button id="plink_compute" class="btn submit_special btn-primary" data-url="/marker_regression" title="Compute Marker Regression"> Compute </button> </div> @@ -237,16 +259,16 @@ <div style="padding: 20px" class="form-horizontal"> <div class="mapping_method_fields form-group"> <label for="maf_gemma" class="col-xs-2 control-label">Minor allele threshold</label> - <div style="margin-left: 20px;" class="col-xs-1 controls"> + <div style="margin-left: 20px;" class="col-xs-2 controls"> <input name="maf_gemma" value="0.01" type="text" class="form-control"> </div> </div> </div> <div class="form-group"> - <label for="plink_compute" class="col-xs-1 control-label"></label> + <label for="gemma_compute" class="col-xs-1 control-label"></label> <div style="margin-left:20px;" class="col-xs-4 controls"> - <button id="plink_compute" class="btn submit_special btn-primary" data-url="/marker_regression" title="Compute Marker Regression"> + <button id="gemma_compute" class="btn submit_special btn-primary" data-url="/marker_regression" title="Compute Marker Regression"> Compute </button> </div> @@ -266,8 +288,10 @@ <dd>R/qtl is an extensible, interactive environment for mapping quantitative trait loci (QTL) in experimental crosses.</dd> </dl> </div> - <div id="alert_placeholder"></div> <div id="mapping_result_holder_wrapper" style="display:none;"> <div id="mapping_result_holder"></div> </div> + {% else %} + Mapping options are disabled for data not matched with genotypes. + {% endif %} </div> diff --git a/wqflask/wqflask/templates/show_trait_progress_bar.html b/wqflask/wqflask/templates/show_trait_progress_bar.html index 99906338..f9a34070 100755 --- a/wqflask/wqflask/templates/show_trait_progress_bar.html +++ b/wqflask/wqflask/templates/show_trait_progress_bar.html @@ -32,17 +32,4 @@ </div> </div> </div> -</div> - -<!--<div id="static_progress_bar_container" class="modal hide fade" tabindex="-1" role="dialog" aria-labelledby="progress_bar" aria-hidden="true"> - <div class="modal-header"> - <h3 id="progress_bar">Loading... (Estimated time ~10-15m)</h3> - </div> - <div class="modal-body"> - <div class="progress progress-striped active"> - <div id="marker_regression_progress" class="bar" style="width: 100%"></div> - </div> - <div id="time_remaining"> - </div> - </div> -</div>-->
\ No newline at end of file +</div>
\ No newline at end of file diff --git a/wqflask/wqflask/templates/show_trait_statistics_new.html b/wqflask/wqflask/templates/show_trait_statistics_new.html index f2ebbbef..1932d968 100755 --- a/wqflask/wqflask/templates/show_trait_statistics_new.html +++ b/wqflask/wqflask/templates/show_trait_statistics_new.html @@ -24,15 +24,13 @@ <div class="tab-content"> <div class="tab-pane active" id="stats_tab"> <div style="padding: 20px" class="form-horizontal"> - <div class="well"> - <h3>Stats</h3> - <table id="stats_table" class="table table-hover"></table> - </div> + <table id="stats_table" style="width: 300px; float: left;" class="table table-hover table-striped"></table> + </div> </div> <div class="tab-pane" id="histogram_tab"> <div style="padding: 20px" class="form-horizontal"> - {% if sample_groups|length == 1 %} + {% if sample_groups|length != 1 %} <select class="histogram_samples_group"> {% for group, pretty_group in sample_group_types.items() %} <option value="{{ group }}">{{ pretty_group }}</option> @@ -47,7 +45,7 @@ </div> <div class="tab-pane" id="bar_chart_tab"> <div style="padding: 20px" class="form-horizontal"> - {% if sample_groups|length == 1 %} + {% if sample_groups|length != 1 %} <select class="bar_chart_samples_group"> {% for group, pretty_group in sample_group_types.items() %} <option value="{{ group }}">{{ pretty_group }}</option> @@ -73,38 +71,48 @@ <i class="icon-signal"></i> Sort By Value </button> </div> + {% if g.user_session.user_ob %} <div class="btn-group"> <button type="button" class="btn btn-default" id="color_by_trait"> <i class="icon-tint"></i> Color by Trait </button> </div> + {% endif %} </div> - <div class="row" style="height: 0px"> - <div id="bar_chart_legend" style="margin-left: 900px; margin-top:50px; positive: relative;"> + <div class="row" style="position:relative"> + <div id="bar_chart_legend" style="margin-left: 150px; margin-top:20px; position: absolute;"> <span id="legend-left"></span> - <span id="legend-colors"> - <!-- - <svg height="10" width="90"> - <rect x="0" width="15" height="10" style="fill: rgb(0, 0, 0);"></rect> - <rect x="15" width="15" height="10" style="fill: rgb(50, 0, 0);"></rect> - <rect x="30" width="15" height="10" style="fill: rgb(100, 0, 0);"></rect> - <rect x="45" width="15" height="10" style="fill: rgb(150, 0, 0);"></rect> - <rect x="60" width="15" height="10" style="fill: rgb(200, 0, 0);"></rect> - <rect x="75" width="15" height="10" style="fill: rgb(255, 0, 0);"></rect> - </svg> - --> - </span> + <span id="legend-colors"></span> <span id="legend-right"></span> </div> </div> <div style="margin-left: 20px; margin-right: 20px;" class="row" id="bar_chart_container"> - <div id="bar_chart" class="barchart"></div> + <svg></svg> </div> </div> <div class="tab-pane" id="probability_plot"> - <div id="probability_plot_container"> - <div id="prob_plot" class="qtlcharts"></div> + <div style="padding: 20px" class="form-horizontal"> + {% if sample_groups|length != 1 %} + <select class="prob_plot_samples_group"> + {% for group, pretty_group in sample_group_types.items() %} + <option value="{{ group }}">{{ pretty_group }}</option> + {% endfor %} + </select> + <br><br> + {% endif %} + + <div id="prob_plot_container"> + <div id="prob_plot_title"></div> + <svg></svg> + </div> + + <div> + More about <a href="http://en.wikipedia.org/wiki/Normal_probability_plot" target="_blank">Normal Probability Plots</a> and more + about interpreting these plots from the <a href="/glossary.html#normal_probability" target="_blank">glossary</a></td> + </div> + </div> + </div> <!-- <div class="tab-pane" id="box_plot_tab"> {% if sample_groups|length > 1 %} @@ -140,4 +148,4 @@ <div id="collections_holder"></div> </div> -</div>
\ No newline at end of file +</div> diff --git a/wqflask/wqflask/templates/wgcna_results.html b/wqflask/wqflask/templates/wgcna_results.html new file mode 100644 index 00000000..0dc030b1 --- /dev/null +++ b/wqflask/wqflask/templates/wgcna_results.html @@ -0,0 +1,76 @@ +{% extends "base.html" %} +{% block title %}WCGNA results{% endblock %} + +{% block content %} <!-- Start of body --> + <div class="container"> + <h1>WGCNA Results</h1> + Analysis found {{results['nmod']}} modules when scanning {{results['nphe']}} phenotypes, measured on {{results['nstr']}} strains.<br> + Additional parameters settings: + <ul> + <li>Soft thresholds checked = {{results['requestform']['SoftThresholds']}}</li> + <li>Power used for this analysis = {{results['Power']}}</li> + <li>TomType = {{results['requestform']['TOMtype']}}</li> + <li>Minimum module size = {{results['requestform']['MinModuleSize'] }}</li> + <li>mergeCutHeight = {{results['requestform']['mergeCutHeight'] }}</li> + </ul> + + <h3>Soft threshold table</h3> + <table width="80%"> + <tr><th>Power</th><th>SFT.R.sq</th><th>slope</th><th>truncated.R.sq</th><th>mean.k</th><th>median.k</th><th>max.k</th><th>Analysis</th></tr> + {% for r in range(powers[0][0]|length) %} + {% if powers[0][1][r] > 0.85 %} + <tr style="color: #00ff00;"> + {% elif powers[0][1][r] > 0.75 %} + <tr style="color: #aaaa00;"> + {% else %} + <tr style="color: #ff0000;"> + {% endif %} + {% for c in range(powers[0]|length) %} + <td>{{powers[0][c][r]|round(3)}}</td> + {% endfor %} + <td style="color: #000000;"> + {% if powers[0][1][r] > 0.75 %} + <input type="submit" value="Redo use power = {{powers[0][0][r]}}" /></td> + {% endif %} + </tr> + {% endfor %} + </table> + <h3>WGCNA module plot</h3> + <a href="/tmp/{{ results['imgurl'] }}"> + <img alt="Embedded Image" src="data:image/png;base64, + {% for elem in results['imgdata'] -%} + {% print("%c"|format(elem)) %} + {%- endfor %} + " /></a> + + + <h3>Phenotype / Module table</h3> + <table width="80%"> + <tr><th>Phenotype</th><th>Module</th></tr> + {% for r in range(results['nphe']) %} + <tr> + <td>{{results['phenotypes'][r][0]}}</td> + <td>{{results['network'][0][r]}}</td> + </tr> + {% endfor %} + </table> + + <h3>Module eigen genes</h3> + <table width="80%"> + <tr><th>Phenotype</th> + {% for m in range(results['nmod']) %} + <th><input type="submit" value="Add module {{m}} to collection" /></th> + {% endfor %} + </tr> + {% for r in range(results['nstr']) %} + <tr> + <td>{{results['strains'][r][0]}}</td> + {% for m in range(results['nmod']) %} + <td>{{results['network'][2][m][r]}}</td> + {% endfor %} + </tr> + {% endfor %} + </table> + </div> +{% endblock %} + diff --git a/wqflask/wqflask/templates/wgcna_setup.html b/wqflask/wqflask/templates/wgcna_setup.html new file mode 100644 index 00000000..49181938 --- /dev/null +++ b/wqflask/wqflask/templates/wgcna_setup.html @@ -0,0 +1,28 @@ +{% extends "base.html" %} +{% block title %}WCGNA analysis{% endblock %} + +{% block content %} <!-- Start of body --> +<form action="/wgcna_results" method="post"> + <div class="container"> + + <h1>WGCNA analysis parameters</h1> + {% if request.form['trait_list'].split(",")|length <= 4 %} + + <h2 style="color: #ff0000;">ERROR: Too few phenotypes as input</h2> + Please make sure you select enough phenotypes / genes to perform WGCNA, + your collection needs to contain at least 4 different phenotypes. You provided {{request.form['trait_list'].split(',')|length}} phenotypes as input + + {% else %} + <input type="hidden" name="trait_list" id="trait_list" value= "{{request.form['trait_list']}}"> + <table> + <tr><td>Soft threshold:</td><td><input type="text" class="form-inline" name="SoftThresholds" id="SoftThresholds" value="1,2,3,4,5,6,7,8,9"></td></tr> + <tr><td>Minimum module size:</td><td><input type="text" class="form-inline" name="MinModuleSize" id="MinModuleSize" value="30"></td></tr> + <tr><td>TOMtype:</td><td><input type="text" class="form-inline" name="TOMtype" id="TOMtype" value="unsigned"></td></tr> + <tr><td>mergeCutHeight:</td><td><input type="text" class="form-inline" name="mergeCutHeight" id="mergeCutHeight" value="0.25"></td></tr> + </table> + <input type="submit" class="btn btn-primary" value="Run WGCNA using these settings" /> + {% endif %} + </div> +</form> +{% endblock %} + diff --git a/wqflask/wqflask/views.py b/wqflask/wqflask/views.py index 39004f07..dc199ab2 100755 --- a/wqflask/wqflask/views.py +++ b/wqflask/wqflask/views.py @@ -5,6 +5,7 @@ import sys print("sys.path is:", sys.path) import csv +import xlsxwriter import StringIO # Todo: Use cStringIO? import gc @@ -32,6 +33,7 @@ from flask import (render_template, request, make_response, Response, Flask, g, config, jsonify, redirect, url_for) from wqflask import search_results +from wqflask import gsearch from wqflask import docs from wqflask import news from base.data_set import DataSet # Used by YAML in marker_regression @@ -44,6 +46,9 @@ from wqflask.interval_mapping import interval_mapping from wqflask.correlation import show_corr_results from wqflask.correlation_matrix import show_corr_matrix from wqflask.correlation import corr_scatter_plot + +from wqflask.wgcna import wgcna_analysis + from utility import temp_data from base import webqtlFormData @@ -91,7 +96,7 @@ def tmp_page(img_path): print("img_path:", img_path) initial_start_vars = request.form print("initial_start_vars:", initial_start_vars) - imgfile = open('/home/zas1024/tmp/' + img_path, 'rb') + imgfile = open(webqtlConfig.TMPDIR + img_path, 'rb') imgdata = imgfile.read() imgB64 = imgdata.encode("base64") bytesarray = array.array('B', imgB64) @@ -127,7 +132,7 @@ def search_page(): else: return render_template("data_sharing.html", **template_vars.__dict__) else: - key = "search_results:v1:" + json.dumps(request.args, sort_keys=True) + key = "search_results:v2:" + json.dumps(request.args, sort_keys=True) print("key is:", pf(key)) with Bench("Loading cache"): result = Redis.get(key) @@ -148,9 +153,20 @@ def search_page(): if result['quick']: return render_template("quick_search.html", **result) - else: + elif result['search_term_exists']: return render_template("search_result_page.html", **result) - + else: + return render_template("search_error.html") + +@app.route("/gsearch", methods=('GET',)) +def gsearchact(): + result = gsearch.GSearch(request.args).__dict__ + type = request.args['type'] + if type == "gene": + return render_template("gsearch_gene.html", **result) + elif type == "phenotype": + return render_template("gsearch_pheno.html", **result) + @app.route("/docedit") def docedit(): doc = docs.Docs(request.args['entry']) @@ -161,6 +177,20 @@ def help(): doc = docs.Docs("help") return render_template("docs.html", **doc.__dict__) +@app.route("/wgcna_setup", methods=('POST',)) +def wcgna_setup(): + print("In wgcna, request.form is:", request.form) # We are going to get additional user input for the analysis + return render_template("wgcna_setup.html", **request.form) # Display them using the template + +@app.route("/wgcna_results", methods=('POST',)) +def wcgna_results(): + print("In wgcna, request.form is:", request.form) + wgcna = wgcna_analysis.WGCNA() # Start R, load the package and pointers and create the analysis + wgcnaA = wgcna.run_analysis(request.form) # Start the analysis, a wgcnaA object should be a separate long running thread + result = wgcna.process_results(wgcnaA) # After the analysis is finished store the result + return render_template("wgcna_results.html", **result) # Display them using the template + + @app.route("/news") def news_route(): newsobject = news.News() @@ -186,7 +216,7 @@ def environments(): doc = docs.Docs("environments") return render_template("docs.html", **doc.__dict__) -@app.route('/export_trait_csv', methods=('POST',)) +@app.route('/export_trait_excel', methods=('POST',)) def export_trait_excel(): """Excel file consisting of the sample data from the trait data and analysis page""" print("In export_trait_excel") @@ -196,15 +226,18 @@ def export_trait_excel(): print("sample_data - type: %s -- size: %s" % (type(sample_data), len(sample_data))) buff = StringIO.StringIO() - writer = csv.writer(buff) - for row in sample_data: - writer.writerow(row) - csv_data = buff.getvalue() + workbook = xlsxwriter.Workbook(buff, {'in_memory': True}) + worksheet = workbook.add_worksheet() + for i, row in enumerate(sample_data): + worksheet.write(i, 0, row[0]) + worksheet.write(i, 1, row[1]) + workbook.close() + excel_data = buff.getvalue() buff.close() - return Response(csv_data, - mimetype='text/csv', - headers={"Content-Disposition":"attachment;filename=test.csv"}) + return Response(excel_data, + mimetype='application/vnd.ms-excel', + headers={"Content-Disposition":"attachment;filename=test.xlsx"}) @app.route('/export_trait_csv', methods=('POST',)) def export_trait_csv(): @@ -250,40 +283,49 @@ def heatmap_page(): start_vars = request.form temp_uuid = uuid.uuid4() - version = "v5" - key = "heatmap:{}:".format(version) + json.dumps(start_vars, sort_keys=True) - print("key is:", pf(key)) - with Bench("Loading cache"): - result = Redis.get(key) + traits = [trait.strip() for trait in start_vars['trait_list'].split(',')] + if traits[0] != "": + version = "v5" + key = "heatmap:{}:".format(version) + json.dumps(start_vars, sort_keys=True) + print("key is:", pf(key)) + with Bench("Loading cache"): + result = Redis.get(key) - if result: - print("Cache hit!!!") - with Bench("Loading results"): - result = pickle.loads(result) + if result: + print("Cache hit!!!") + with Bench("Loading results"): + result = pickle.loads(result) - else: - print("Cache miss!!!") + else: + print("Cache miss!!!") - template_vars = heatmap.Heatmap(request.form, temp_uuid) - template_vars.js_data = json.dumps(template_vars.js_data, - default=json_default_handler, - indent=" ") + template_vars = heatmap.Heatmap(request.form, temp_uuid) + template_vars.js_data = json.dumps(template_vars.js_data, + default=json_default_handler, + indent=" ") - result = template_vars.__dict__ - - for item in template_vars.__dict__.keys(): - print(" ---**--- {}: {}".format(type(template_vars.__dict__[item]), item)) - - pickled_result = pickle.dumps(result, pickle.HIGHEST_PROTOCOL) - print("pickled result length:", len(pickled_result)) - Redis.set(key, pickled_result) - Redis.expire(key, 60*60) + result = template_vars.__dict__ + + for item in template_vars.__dict__.keys(): + print(" ---**--- {}: {}".format(type(template_vars.__dict__[item]), item)) - with Bench("Rendering template"): - rendered_template = render_template("heatmap.html", **result) + pickled_result = pickle.dumps(result, pickle.HIGHEST_PROTOCOL) + print("pickled result length:", len(pickled_result)) + Redis.set(key, pickled_result) + Redis.expire(key, 60*60) + with Bench("Rendering template"): + rendered_template = render_template("heatmap.html", **result) + + else: + rendered_template = render_template("empty_collection.html", **{'tool':'Heatmap'}) + return rendered_template +@app.route("/mapping_results_container") +def mapping_results_container_page(): + return render_template("mapping_results_container.html") + @app.route("/marker_regression", methods=('POST',)) def marker_regression_page(): initial_start_vars = request.form @@ -298,17 +340,18 @@ def marker_regression_page(): 'manhattan_plot', 'control_marker', 'control_marker_db', + 'do_control', 'pair_scan', 'mapmethod_rqtl_geno', 'mapmodel_rqtl_geno' ) - print("Random Print too see if it is running:", initial_start_vars) + print("Marker regression called with initial_start_vars:", initial_start_vars) start_vars = {} for key, value in initial_start_vars.iteritems(): if key in wanted or key.startswith(('value:')): start_vars[key] = value - version = "v4" + version = "v3" key = "marker_regression:{}:".format(version) + json.dumps(start_vars, sort_keys=True) print("key is:", pf(key)) with Bench("Loading cache"): @@ -369,7 +412,7 @@ def export(): svg_xml = request.form.get("data", "Invalid data") filename = request.form.get("filename", "manhattan_plot_snp") response = Response(svg_xml, mimetype="image/svg+xml") - response.headers["Content-Disposition"] = "attchment; filename=%s"%filename + response.headers["Content-Disposition"] = "attachment; filename=%s"%filename return response @app.route("/export_pdf", methods = ('POST',)) @@ -382,7 +425,7 @@ def export_pdf(): filepath = "/home/zas1024/gene/wqflask/output/"+filename pdf_file = cairosvg.svg2pdf(bytestring=svg_xml) response = Response(pdf_file, mimetype="application/pdf") - response.headers["Content-Disposition"] = "attchment; filename=%s"%filename + response.headers["Content-Disposition"] = "attachment; filename=%s"%filename return response @app.route("/interval_mapping", methods=('POST',)) @@ -435,7 +478,7 @@ def interval_mapping_page(): Redis.expire(key, 60*60) with Bench("Rendering template"): - rendered_template = render_template("interval_mapping.html", **result) + rendered_template = render_template("marker_regression.html", **result) return rendered_template @@ -449,12 +492,18 @@ def corr_compute_page(): @app.route("/corr_matrix", methods=('POST',)) def corr_matrix_page(): print("In corr_matrix, request.form is:", pf(request.form)) - template_vars = show_corr_matrix.CorrelationMatrix(request.form) - template_vars.js_data = json.dumps(template_vars.js_data, - default=json_default_handler, - indent=" ") + + start_vars = request.form + traits = [trait.strip() for trait in start_vars['trait_list'].split(',')] + if traits[0] != "": + template_vars = show_corr_matrix.CorrelationMatrix(start_vars) + template_vars.js_data = json.dumps(template_vars.js_data, + default=json_default_handler, + indent=" ") - return render_template("correlation_matrix.html", **template_vars.__dict__) + return render_template("correlation_matrix.html", **template_vars.__dict__) + else: + return render_template("empty_collection.html", **{'tool':'Correlation Matrix'}) @app.route("/corr_scatter_plot") def corr_scatter_plot_page(): diff --git a/wqflask/wqflask/wgcna/__init__.py b/wqflask/wqflask/wgcna/__init__.py new file mode 100755 index 00000000..e69de29b --- /dev/null +++ b/wqflask/wqflask/wgcna/__init__.py diff --git a/wqflask/wqflask/wgcna/wgcna_analysis.py b/wqflask/wqflask/wgcna/wgcna_analysis.py new file mode 100644 index 00000000..f23b1417 --- /dev/null +++ b/wqflask/wqflask/wgcna/wgcna_analysis.py @@ -0,0 +1,156 @@ +# WGCNA analysis for GN2 +# Author / Maintainer: Danny Arends <Danny.Arends@gmail.com> +import sys +from numpy import * +import scipy as sp # SciPy +import rpy2.robjects as ro # R Objects +import rpy2.rinterface as ri + +from base import webqtlConfig # For paths and stuff +from utility import webqtlUtil # Random number for the image + +import base64 +import array + +from utility import helper_functions + +from rpy2.robjects.packages import importr +utils = importr("utils") + +## Get pointers to some common R functions +r_library = ro.r["library"] # Map the library function +r_options = ro.r["options"] # Map the options function +r_read_csv = ro.r["read.csv"] # Map the read.csv function +r_dim = ro.r["dim"] # Map the dim function +r_c = ro.r["c"] # Map the c function +r_cat = ro.r["cat"] # Map the cat function +r_paste = ro.r["paste"] # Map the paste function +r_unlist = ro.r["unlist"] # Map the unlist function +r_unique = ro.r["unique"] # Map the unique function +r_length = ro.r["length"] # Map the length function +r_unlist = ro.r["unlist"] # Map the unlist function +r_list = ro.r.list # Map the list function +r_matrix = ro.r.matrix # Map the matrix function +r_seq = ro.r["seq"] # Map the seq function +r_table = ro.r["table"] # Map the table function +r_names = ro.r["names"] # Map the names function +r_sink = ro.r["sink"] # Map the sink function +r_is_NA = ro.r["is.na"] # Map the is.na function +r_file = ro.r["file"] # Map the file function +r_png = ro.r["png"] # Map the png function for plotting +r_dev_off = ro.r["dev.off"] # Map the dev.off function + +class WGCNA(object): + def __init__(self): + print("Initialization of WGCNA") + #log = r_file("/tmp/genenetwork_wcgna.log", open = "wt") + #r_sink(log) # Uncomment the r_sink() commands to log output from stdout/stderr to a file + #r_sink(log, type = "message") + r_library("WGCNA") # Load WGCNA - Should only be done once, since it is quite expensive + r_options(stringsAsFactors = False) + print("Initialization of WGCNA done, package loaded in R session") + self.r_enableWGCNAThreads = ro.r["enableWGCNAThreads"] # Map the enableWGCNAThreads function + self.r_pickSoftThreshold = ro.r["pickSoftThreshold"] # Map the pickSoftThreshold function + self.r_blockwiseModules = ro.r["blockwiseModules"] # Map the blockwiseModules function + self.r_labels2colors = ro.r["labels2colors"] # Map the labels2colors function + self.r_plotDendroAndColors = ro.r["plotDendroAndColors"] # Map the plotDendroAndColors function + print("Obtained pointers to WGCNA functions") + + def run_analysis(self, requestform): + print("Starting WGCNA analysis on dataset") + self.r_enableWGCNAThreads() # Enable multi threading + self.trait_db_list = [trait.strip() for trait in requestform['trait_list'].split(',')] + print("Retrieved phenotype data from database", requestform['trait_list']) + helper_functions.get_trait_db_obs(self, self.trait_db_list) + + self.input = {} # self.input contains the phenotype values we need to send to R + strains = [] # All the strains we have data for (contains duplicates) + traits = [] # All the traits we have data for (should not contain duplicates) + for trait in self.trait_list: + traits.append(trait[0].name) + self.input[trait[0].name] = {} + for strain in trait[0].data: + strains.append(strain) + self.input[trait[0].name][strain] = trait[0].data[strain].value + + # Transfer the load data from python to R + uStrainsR = r_unique(ro.Vector(strains)) # Unique strains in R vector + uTraitsR = r_unique(ro.Vector(traits)) # Unique traits in R vector + + r_cat("The number of unique strains:", r_length(uStrainsR), "\n") + r_cat("The number of unique traits:", r_length(uTraitsR), "\n") + + # rM is the datamatrix holding all the data in R /rows = strains columns = traits + rM = ro.r.matrix(ri.NA_Real, nrow=r_length(uStrainsR), ncol=r_length(uTraitsR), dimnames = r_list(uStrainsR, uTraitsR)) + for t in uTraitsR: + trait = t[0] # R uses vectors every single element is a vector + for s in uStrainsR: + strain = s[0] # R uses vectors every single element is a vector + rM.rx[strain, trait] = self.input[trait].get(strain) # Update the matrix location + #DEBUG: print(trait, strain, " in python: ", self.input[trait].get(strain), "in R:", rM.rx(strain,trait)[0]) + sys.stdout.flush() + + self.results = {} + self.results['nphe'] = r_length(uTraitsR)[0] # Number of phenotypes/traits + self.results['nstr'] = r_length(uStrainsR)[0] # Number of strains + self.results['phenotypes'] = uTraitsR # Traits used + self.results['strains'] = uStrainsR # Strains used in the analysis + self.results['requestform'] = requestform # Store the user specified parameters for the output page + + # Calculate soft threshold if the user specified the SoftThreshold variable + if requestform.get('SoftThresholds') is not None: + powers = [int(threshold.strip()) for threshold in requestform['SoftThresholds'].rstrip().split(",")] + rpow = r_unlist(r_c(powers)) + print "SoftThresholds: {} == {}".format(powers, rpow) + self.sft = self.r_pickSoftThreshold(rM, powerVector = rpow, verbose = 5) + + print "PowerEstimate: {}".format(self.sft[0]) + self.results['PowerEstimate'] = self.sft[0] + if self.sft[0][0] is ri.NA_Integer: + print "No power is suitable for the analysis, just use 1" + self.results['Power'] = 1 # No power could be estimated + else: + self.results['Power'] = self.sft[0][0] # Use the estimated power + else: + # The user clicked a button, so no soft threshold selection + self.results['Power'] = requestform.get('Power') # Use the power value the user gives + + # Create the block wise modules using WGCNA + network = self.r_blockwiseModules(rM, power = self.results['Power'], TOMType = requestform['TOMtype'], minModuleSize = requestform['MinModuleSize'], verbose = 3) + + # Save the network for the GUI + self.results['network'] = network + + # How many modules and how many gene per module ? + print "WGCNA found {} modules".format(r_table(network[1])) + self.results['nmod'] = r_length(r_table(network[1]))[0] + + # The iconic WCGNA plot of the modules in the hanging tree + self.results['imgurl'] = webqtlUtil.genRandStr("WGCNAoutput_") + ".png" + self.results['imgloc'] = webqtlConfig.TMPDIR + self.results['imgurl'] + r_png(self.results['imgloc'], width=1000, height=600) + mergedColors = self.r_labels2colors(network[1]) + self.r_plotDendroAndColors(network[5][0], mergedColors, "Module colors", dendroLabels = False, hang = 0.03, addGuide = True, guideHang = 0.05) + r_dev_off() + sys.stdout.flush() + + def render_image(self, results): + print("pre-loading imgage results:", self.results['imgloc']) + imgfile = open(self.results['imgloc'], 'rb') + imgdata = imgfile.read() + imgB64 = imgdata.encode("base64") + bytesarray = array.array('B', imgB64) + self.results['imgdata'] = bytesarray + + def process_results(self, results): + print("Processing WGCNA output") + template_vars = {} + template_vars["input"] = self.input + template_vars["powers"] = self.sft[1:] # Results from the soft threshold analysis + template_vars["results"] = self.results + self.render_image(results) + sys.stdout.flush() + #r_sink(type = "message") # This restores R output to the stdout/stderr + #r_sink() # We should end the Rpy session more or less + return(dict(template_vars)) + |