diff options
Diffstat (limited to 'web/webqtl/basicStatistics/updatedBasicStatisticsPage.py')
| -rwxr-xr-x | web/webqtl/basicStatistics/updatedBasicStatisticsPage.py | 150 |
1 files changed, 0 insertions, 150 deletions
diff --git a/web/webqtl/basicStatistics/updatedBasicStatisticsPage.py b/web/webqtl/basicStatistics/updatedBasicStatisticsPage.py deleted file mode 100755 index ab7ed07d..00000000 --- a/web/webqtl/basicStatistics/updatedBasicStatisticsPage.py +++ /dev/null @@ -1,150 +0,0 @@ -from htmlgen import HTMLgen2 as HT - -from base.templatePage import templatePage -from dbFunction import webqtlDatabaseFunction -import BasicStatisticsFunctions - -#Window generated from the Trait Data and Analysis page (DataEditingPage.py) with updated stats figures; takes the page's values that can bed edited by the user -class updatedBasicStatisticsPage(templatePage): - - plotMinInformative = 4 - - def __init__(self, fd): - - templatePage.__init__(self, fd) - - if not fd.genotype: - fd.readGenotype() - this_strainlist = fd.strainlist - - if fd.allstrainlist: - this_strainlist = fd.allstrainlist - - fd.readData(this_strainlist) - - specialStrains = [] #This appears to be the "other/non-RISet strainlist" without parents/f1 strains; not sure what to name it - setStrains = [] - for item in this_strainlist: - if item not in fd.strainlist and item.find('F1') < 0: - specialStrains.append(item) - else: - continue - - specialStrains.sort() - if specialStrains: - specialStrains = fd.f1list+fd.parlist+specialStrains - - self.dict['title'] = 'Basic Statistics' - TD_LR = HT.TD(valign="top",width="100%",bgcolor="#fafafa") - - stats_row = HT.TR() - stats_cell = HT.TD() - stats_script = HT.Script(language="Javascript") - - #Get strain names, values, and variances - strain_names = fd.formdata.getvalue('strainNames').split(',') - strain_vals = fd.formdata.getvalue('strainVals').split(',') - strain_vars = fd.formdata.getvalue('strainVars').split(',') - - vals = [] - if (len(strain_names) > 0): - if (len(strain_names) > 3): - #Need to create "vals" object - for i in range(len(strain_names)): - try: - this_strain_val = float(strain_vals[i]) - except: - continue - try: - this_strain_var = float(strain_vars[i]) - except: - this_strain_var = None - - thisValFull = [strain_names[i], this_strain_val, this_strain_var] - vals.append(thisValFull) - - stats_tab_list = [HT.Href(text="Basic Table", url="#statstabs-1", Class="stats_tab"),HT.Href(text="Probability Plot", url="#statstabs-2", Class="stats_tab"), - HT.Href(text="Bar Graph (by name)", url="#statstabs-3", Class="stats_tab"), HT.Href(text="Bar Graph (by rank)", url="#statstabs-4", Class="stats_tab"), - HT.Href(text="Box Plot", url="#statstabs-5", Class="stats_tab")] - stats_tabs = HT.List(stats_tab_list) - - stats_container = HT.Div(id="stats_tabs", Class="ui-tabs") - stats_container.append(stats_tabs) - - stats_script_text = """$(function() { $("#stats_tabs").tabs();});""" #Javascript enabling tabs - - table_div = HT.Div(id="statstabs-1", style="height:320px;width:740px;overflow:scroll;") - table_container = HT.Paragraph() - - statsTable = HT.TableLite(cellspacing=0, cellpadding=0, width="100%") - this_trait_type = fd.formdata.getvalue('trait_type', None) - this_cellid = fd.formdata.getvalue('cellid', None) - statsTableCell = BasicStatisticsFunctions.basicStatsTable(vals=vals, trait_type=this_trait_type, cellid=this_cellid) - statsTable.append(HT.TR(HT.TD(statsTableCell))) - - table_container.append(statsTable) - table_div.append(table_container) - stats_container.append(table_div) - - normalplot_div = HT.Div(id="statstabs-2", style="height:540px;width:740px;overflow:scroll;") - normalplot_container = HT.Paragraph() - normalplot = HT.TableLite(cellspacing=0, cellpadding=0, width="100%") - plotTitle = fd.formdata.getvalue("normalPlotTitle","") - normalplot_img = BasicStatisticsFunctions.plotNormalProbability(vals=vals, RISet=fd.RISet, title=plotTitle, specialStrains=specialStrains) - normalplot.append(HT.TR(HT.TD(normalplot_img))) - normalplot.append(HT.TR(HT.TD(HT.BR(),HT.BR(),"This plot evaluates whether data are \ - normally distributed. Different symbols represent different groups.",HT.BR(),HT.BR(), - "More about ", HT.Href(url="http://en.wikipedia.org/wiki/Normal_probability_plot", - target="_blank", text="Normal Probability Plots"), " and more about interpreting these plots from the ", HT.Href(url="/glossary.html#normal_probability", target="_blank", text="glossary")))) - normalplot_container.append(normalplot) - normalplot_div.append(normalplot_container) - stats_container.append(normalplot_div) - - barName_div = HT.Div(id="statstabs-3", style="height:540px;width:740px;overflow:scroll;") - barName_container = HT.Paragraph() - barName = HT.TableLite(cellspacing=0, cellpadding=0, width="100%") - barName_img = BasicStatisticsFunctions.plotBarGraph(identification=fd.identification, RISet=fd.RISet, vals=vals, type="name") - barName.append(HT.TR(HT.TD(barName_img))) - barName_container.append(barName) - barName_div.append(barName_container) - stats_container.append(barName_div) - - barRank_div = HT.Div(id="statstabs-4", style="height:540px;width:740px;overflow:scroll;") - barRank_container = HT.Paragraph() - barRank = HT.TableLite(cellspacing=0, cellpadding=0, width="100%") - barRank_img = BasicStatisticsFunctions.plotBarGraph(identification=fd.identification, RISet=fd.RISet, vals=vals, type="rank") - barRank.append(HT.TR(HT.TD(barRank_img))) - barRank_container.append(barRank) - barRank_div.append(barRank_container) - stats_container.append(barRank_div) - - boxplot_div = HT.Div(id="statstabs-5", style="height:540px;width:740px;overflow:scroll;") - boxplot_container = HT.Paragraph() - boxplot = HT.TableLite(cellspacing=0, cellpadding=0, width="100%") - boxplot_img, boxplot_link = BasicStatisticsFunctions.plotBoxPlot(vals) - boxplot.append(HT.TR(HT.TD(boxplot_img, HT.P(), boxplot_link, align="left"))) - boxplot_container.append(boxplot) - boxplot_div.append(boxplot_container) - stats_container.append(boxplot_div) - - stats_cell.append(stats_container) - stats_script.append(stats_script_text) - - submitTable = HT.TableLite(cellspacing=0, cellpadding=0, width="100%") - stats_row.append(stats_cell) - - submitTable.append(stats_row) - submitTable.append(stats_script) - - TD_LR.append(submitTable) - self.dict['body'] = str(TD_LR) - else: - heading = "Basic Statistics" - detail = ['Fewer than %d case data were entered for %s data set. No statitical analysis has been attempted.' % (self.plotMinInformative, fd.RISet)] - self.error(heading=heading,detail=detail) - return - else: - heading = "Basic Statistics" - detail = ['Empty data set, please check your data.'] - self.error(heading=heading,detail=detail) - return
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