def parseOutput(self, _strFileName):
"""
This method parses the output of dozor
"""
xsDataResultDozor = XSDataResultDozor()
strOutput = EDUtilsFile.readFile(_strFileName)
# Skip the four first lines
listOutput = strOutput.split("\n")[6:]
for strLine in listOutput:
xsDataImageDozor = XSDataImageDozor()
# Remove "|"
listLine = shlex.split(strLine.replace("|", " "))
# print listLine
if listLine != []:
xsDataImageDozor.number = XSDataInteger(listLine[0])
if listLine[4].startswith("-"):
xsDataImageDozor.spots_num_of = XSDataInteger(listLine[1])
xsDataImageDozor.spots_int_aver = self.parseDouble(listLine[2])
xsDataImageDozor.spots_resolution = self.parseDouble(listLine[3])
xsDataImageDozor.score = self.parseDouble(listLine[7])
else:
xsDataImageDozor.spots_num_of = XSDataInteger(listLine[1])
xsDataImageDozor.spots_int_aver = self.parseDouble(listLine[2])
xsDataImageDozor.spots_resolution = self.parseDouble(listLine[3])
xsDataImageDozor.powder_wilson_scale = self.parseDouble(listLine[4])
xsDataImageDozor.powder_wilson_bfactor = self.parseDouble(listLine[5])
xsDataImageDozor.powder_wilson_resolution = self.parseDouble(listLine[6])
xsDataImageDozor.powder_wilson_correlation = self.parseDouble(listLine[7])
xsDataImageDozor.powder_wilson_rfactor = self.parseDouble(listLine[8])
xsDataImageDozor.score = self.parseDouble(listLine[9])
# print xsDataImageDozor.marshal()
xsDataResultDozor.addImageDozor(xsDataImageDozor)
return xsDataResultDozor
def parseOutput(self, _strFileName):
"""
This method parses the output of dozor
"""
xsDataResultDozor = XSDataResultDozor()
strOutput = EDUtilsFile.readFile(_strFileName)
# Skip the four first lines
self.DEBUG('***** Dozor raw output ***** ')
self.DEBUG(strOutput)
listOutput = strOutput.split("\n")[14:]
for strLine in listOutput:
xsDataImageDozor = XSDataImageDozor()
# Remove "|"
listLine = shlex.split(strLine.replace("|", " "))
#print listLine
if listLine != [] and not listLine[0].startswith("-"):
xsDataImageDozor.number = XSDataInteger(listLine[0])
# Fix for xaloc-ALBA
#if listLine[5].startswith("-") or len(listLine) < 11:
if len(listLine) < 11:
xsDataImageDozor.spots_num_of = XSDataInteger(listLine[1])
xsDataImageDozor.spots_int_aver = self.parseDouble(listLine[2])
try:
xsDataImageDozor.spots_resolution = self.parseDouble(listLine[3])
except IndexError as e:
xsDataImageDozor.spots_resolution = XSDataDouble(0.0)
xsDataImageDozor.score = XSDataDouble(0.0) #self.parseDouble(listLine[4])
else:
xsDataImageDozor.spots_num_of = XSDataInteger(listLine[1])
xsDataImageDozor.spots_int_aver = self.parseDouble(listLine[2])
xsDataImageDozor.spots_resolution = self.parseDouble(listLine[3])
xsDataImageDozor.powder_wilson_scale = self.parseDouble(listLine[4])
xsDataImageDozor.powder_wilson_bfactor = self.parseDouble(listLine[5])
xsDataImageDozor.powder_wilson_resolution = self.parseDouble(listLine[6])
xsDataImageDozor.powder_wilson_correlation = self.parseDouble(listLine[7])
xsDataImageDozor.powder_wilson_rfactor = self.parseDouble(listLine[8])
xsDataImageDozor.score = self.parseDouble(listLine[9])
# print xsDataImageDozor.marshal()
xsDataResultDozor.addImageDozor(xsDataImageDozor)
return xsDataResultDozor