def addFeaturesToPuvspr2File(setupObject, addAbundDict):
for puID in addAbundDict:
puAddAbundDict = addAbundDict[puID]
try:
puAbundDict = setupObject.abundPUKeyDict[puID]
except KeyError:
puAbundDict = {}
for featID in puAddAbundDict:
puAbundDict[featID] = puAddAbundDict[featID]
setupObject.abundPUKeyDict[puID] = puAbundDict
cluz_setup.makePuvspr2DatFile(setupObject)
def convertCSVToAbundTable(self, setupObject):
layerFactorCheck = True
convFactorCheck = True
unitIDFieldName = self.idfieldComboBox.currentText()
csvFilePath = self.csvFileLineEdit.text()
if csvFilePath == "":
self.close()
QMessageBox.critical(None, "No file specified", "Please specify a csv file to import.")
layerFactorCheck = False
elif os.path.isfile(csvFilePath) == False:
self.close()
QMessageBox.critical(None, "Incorrect format", "The specified csv file does not exist.")
layerFactorCheck = False
else:
pass
if layerFactorCheck == True:
convFactor = 1 # Default value
if self.userRadioButton.isChecked():
try:
convFactor = float(self.convLineEdit.text())
if convFactor <= 0:
self.close()
QMessageBox.critical(None, "Incorrect conversion value", "The conversion value must be a number greater than 0.")
convFactorCheck = False
except:
self.close()
QMessageBox.critical(None, "Incorrect conversion value", "The conversion value must be a number greater than 0.")
convFactorCheck = False
if layerFactorCheck == True and convFactorCheck == True:
addAbundDict, featIDList, warningStatus = cluz_functions1.makeCsvAddAbundDict(setupObject, csvFilePath, unitIDFieldName, convFactor)
if warningStatus == "ExistingFeatures":
self.close()
QMessageBox.critical(None, "Duplicate features", "The feature ID values in the table duplicate some of those in the abundance table. This process will terminate.")
elif warningStatus == "HeaderWithNoID":
self.close()
QMessageBox.critical(None, "Missing ID code", "One of the fields containing abundance data in the specified table does not contain any numerical characters and so does not specify the feature ID. This process will terminate.")
else:
setupObject.abundPUKeyDict = cluz_functions1.addAbundDictToAbundPUKeyDict(setupObject, addAbundDict)
cluz_setup.makePuvspr2DatFile(setupObject)
cluz_setup.makeSporderDatFile(setupObject)
cluz_functions1.addFeaturesToTargetCsvFile(setupObject, addAbundDict, featIDList)
setupObject.targetDict = cluz_setup.makeTargetDict(setupObject)
self.close()
def convertCSVToAbundTable(self, setupObject):
layerFactorCheck = True
convFactorCheck = True
unitIDFieldName = self.idfieldComboBox.currentText()
csvFilePath = self.csvFileLineEdit.text()
if csvFilePath == "":
self.close()
QMessageBox.critical(None, "No file specified",
"Please specify a csv file to import.")
layerFactorCheck = False
elif os.path.isfile(csvFilePath) == False:
self.close()
QMessageBox.critical(None, "Incorrect format",
"The specified csv file does not exist.")
layerFactorCheck = False
else:
pass
if layerFactorCheck == True:
convFactor = 1 # Default value
if self.userRadioButton.isChecked():
try:
convFactor = float(self.convLineEdit.text())
if convFactor <= 0:
self.close()
QMessageBox.critical(
None, "Incorrect conversion value",
"The conversion value must be a number greater than 0."
)
convFactorCheck = False
except:
self.close()
QMessageBox.critical(
None, "Incorrect conversion value",
"The conversion value must be a number greater than 0."
)
convFactorCheck = False
if layerFactorCheck == True and convFactorCheck == True:
addAbundDict, featIDList, warningStatus = cluz_functions1.makeCsvAddAbundDict(
setupObject, csvFilePath, unitIDFieldName, convFactor)
if warningStatus == "ExistingFeatures":
self.close()
QMessageBox.critical(
None, "Duplicate features",
"The feature ID values in the table duplicate some of those in the abundance table. This process will terminate."
)
elif warningStatus == "HeaderWithNoID":
self.close()
QMessageBox.critical(
None, "Missing ID code",
"One of the fields containing abundance data in the specified table does not contain any numerical characters and so does not specify the feature ID. This process will terminate."
)
else:
setupObject.abundPUKeyDict = cluz_functions1.addAbundDictToAbundPUKeyDict(
setupObject, addAbundDict)
cluz_setup.makePuvspr2DatFile(setupObject)
cluz_setup.makeSporderDatFile(setupObject)
cluz_functions1.addFeaturesToTargetCsvFile(
setupObject, addAbundDict, featIDList)
setupObject.targetDict = cluz_setup.makeTargetDict(setupObject)
self.close()