def CreateAdmix(self, FI, admixPath, famPath, phenPath, Name, PheCol, nb):
"""Creates Admix using imported data."""
#Create File Manager
FM = FI.CreateFileManager(Name)
#Get the data from the path
#Create File To Store Data
#Get Data From File
AdmixData = FI.GetFileData(admixPath)
FamData = FI.GetFileData(famPath)
FI.CreateFile('Admix IS THE NAME', AdmixData, 'Admix', FM)
FI.CreateFile('Fam IS THE NAME', FamData, 'Fam', FM)
DataAdmix = FI.GetFileManager(Name).GetAdmixFile().GetData()
DataFam = FI.GetFileManager(Name).GetFamFile().GetData()
#Get the data from the path if there is one
#Create File To Store Data
#Get Data From File
PheData = FI.GetFileData(phenPath)
#Checks for phe data
if (PheData != None):
FI.CreateFile('Phen IS THE NAME', PheData, 'Phen', FM)
DataAdmixPhen = FI.GetFileManager(Name).GetPhenFile().GetData()
else:
DataAdmixPhen = None
GraphCreate.CreateAdmix(DataAdmix, DataFam, DataAdmixPhen, PheCol, nb,
Name)
def setUp(self):
self.PcaData = GetFileData('..\\Data\\comm-SYMCL.pca.evec')
self.PhenData = GetFileData("..\\Data\\comm.phe")
self.filePath = "..\\Data\\Test.gpf"
self.filePath2 = "..\\Data\\Name.gpf"
self._Test = GraphCreate.CreatePca(self.PhenData, self.PcaData, 1, 2,
3, "Test", None)
def CreatePca(self, FI, pcaPath, phenPath, Name, pcaColoumnOne,
PcaColoumnTwo, PhenColoumn, panel):
"""Creates PCA using imported data."""
#Create File Manager
FM = FI.CreateFileManager(Name)
#Get the data from the path
#Create File To Store Data
#Get Data From File
_PcaData = FI.GetFileData(pcaPath)
FI.CreateFile('PCA IS THE NAME', _PcaData, 'Pca', FM)
DataPca = FI.GetFileManager(Name).GetPcaFile().GetData()
#Get the data from the path if there is one
#Create File To Store Data
#Get Data From File
_PhenData = FI.GetFileData(phenPath)
if (_PhenData != None):
FI.CreateFile('Phen IS THE NAME', _PhenData, 'Phen', FM)
DataPhen = FI.GetFileManager(Name).GetPhenFile().GetData()
#checks if there is phen Data
else:
DataPhen = None
GraphCreate.CreatePca(DataPhen, DataPca, pcaColoumnOne, PcaColoumnTwo,
PhenColoumn, Name, panel)
def test_CompleteWithPhen(self):
PcaData = GetFileData('..\\Data\\comm-SYMCL.pca.evec')
PhenData = GetFileData("..\\Data\\comm.phe")
_Test =GraphCreate.CreatePca(PhenData,PcaData,1,2,3,"Test",None)
self.assertTrue(_Test)
def test_InCompleteWithoutPhen(self):
PcaData = GetFileData('..\\Data\\comm-SYMCL.pca.evec')
_Test =GraphCreate.CreatePca(None,None,1,2,3,"Test",None)
print("HI")
self.assertTrue(_Test)