def visualize(details):
#get accNum
acnum = details['acnum']
gtype = details['gtype']
#obtain a Data Object for the GEO accession number
try:
dataobj = Data(acnum)
except:
return None
#get pivoted dataset
dataset = dataobj.getDataTable()
if (gtype == "scatter"):
try:
return plotScatter(dataset, details['genes'])
except:
return "Error"
elif (gtype == "heatmap"):
return plotHeat(dataset)
elif (gtype == "box"):
return plotBox(dataset)
elif (gtype == "hist"):
return plotHist(dataset)
elif (gtype == "bar"):
return plotBar(dataset, details['sample'], details['number'])
else:
return None, None
def getMeta(details):
acnum = details['acnum']
try:
dataobj = Data(acnum)
except:
return None
#get samples list from pivoted table
dataset = dataobj.getDataTable()
#generate the csv file
csvWrite(dataset)
samples = list(dataobj.getDataTable().columns)
#prepare meta data
description = dataobj.getDescription()
return description, samples, dataset
def test_boxPlot(client):
dataset=Data('GSE6207').getDataTable()
rv = client.boxplot.plotBox(dataset)
assert rv!=None
def test_Histogram(client):
dataset=Data('GSE6207').getDataTable()
rv = client.histogram.plotHist(dataset)
assert rv!=None
def test_BarPlot(client):
dataset=Data('GSE6207').getDataTable()
sample='GSM143388'
number=[0,100]
rv = client.barplot.plotBar(dataset,sample,number)
assert rv!=None
def test_plotHeat(client):
dataset=Data('GSE6207').getDataTable()
rv = client.heatmap.plotHeat(dataset)
assert rv!=None
def test_plotScatter(client):
dataset=Data('GSE6207').getDataTable()
genes=['GSM143386','GSM143385']
rv = client.scatterplot.plotScatter(dataset,genes)
assert rv!=None