diff options
Diffstat (limited to 'wqflask')
| -rwxr-xr-x | wqflask/base/data_set.py | 35 | ||||
| -rw-r--r-- | wqflask/wqflask/correlation/show_corr_results.py | 7 | ||||
| -rw-r--r-- | wqflask/wqflask/views.py | 3 |
3 files changed, 43 insertions, 2 deletions
diff --git a/wqflask/base/data_set.py b/wqflask/base/data_set.py index 1668940c..f301cc05 100755 --- a/wqflask/base/data_set.py +++ b/wqflask/base/data_set.py @@ -167,8 +167,8 @@ class DatasetGroup(object): self.incparentsf1 = False self.allsamples = None - - + + def get_markers(self): #print("self.species is:", self.species) if self.species == "human": @@ -222,6 +222,37 @@ class DatasetGroup(object): self.samplelist = list(genotype.prgy) +class DataSets(object): + """Builds a list of DataSets""" + + def __init__(self): + self.datasets = list() + + type_dict = {'phenotype': 'PublishFreeze', + 'mrna_assay': 'ProbeSetFreeze', + 'genotype': 'GenoFreeze'} + + for dataset_type in type_dict: + query = "SELECT Name FROM {}".format(type_dict[dataset_type]) + for result in g.db.execute(query).fetchall(): + #The query at the beginning of this function isn't necessary here, but still would + #rather just reuse it + create_dataset(result.Name) + + + #query = """SELECT Name FROM ProbeSetFreeze + # UNION + # SELECT Name From PublishFreeze + # UNION + # SELECT Name From GenoFreeze""" + # + #for result in g.db.execute(query).fetchall(): + # dataset = DataSet(result.Name) + # self.datasets.append(dataset) + +#ds = DataSets() +#print("[orange] ds:", ds.datasets) + class DataSet(object): """ DataSet class defines a dataset in webqtl, can be either Microarray, diff --git a/wqflask/wqflask/correlation/show_corr_results.py b/wqflask/wqflask/correlation/show_corr_results.py index 1410ae0c..3b47e970 100644 --- a/wqflask/wqflask/correlation/show_corr_results.py +++ b/wqflask/wqflask/correlation/show_corr_results.py @@ -203,6 +203,13 @@ class CorrelationResults(object): # mb = trait_object.mb # ) + + + trait_list = self.getTissueCorrelationByList( primary_trait_symbol = self.this_trait.symbol, + corr_results = self.correlation_results, + TissueProbeSetFreezeId = 1, + method=1) + #XZ, 09/18/2008: get all information about the user selected database. #target_db_name = fd.corr_dataset #self.target_db_name = start_vars['corr_dataset'] diff --git a/wqflask/wqflask/views.py b/wqflask/wqflask/views.py index b9aa3acf..fcb34d31 100644 --- a/wqflask/wqflask/views.py +++ b/wqflask/wqflask/views.py @@ -27,6 +27,7 @@ from flask import render_template, request, make_response, Response, Flask, g, c from wqflask import search_results from base.data_set import DataSet # Used by YAML in marker_regression +from base.data_set import DataSets from wqflask.show_trait import show_trait from wqflask.show_trait import export_trait_data from wqflask.marker_regression import marker_regression @@ -53,6 +54,8 @@ def connect_db(): @app.route("/") def index_page(): print("Sending index_page") + ds = DataSets() + print("[orange] ds:", ds.datasets) return render_template("index_page.html") @app.route("/data_sharing") |