def postProcess(self, _edObject=None):
"""
Parses the labelit.screen log file and the generated MOSFLM script
"""
EDPluginLabelitv1_1.postProcess(self, _edObject)
self.DEBUG("EDPluginLabelitIndexingv1_1.postProcess...")
strLabelitLog = self.readProcessLogFile()
if (strLabelitLog is None):
strErrorMessage = "EDPluginLabelitIndexingv1_1.postProcess : Could not read the Labelit log file"
self.error(strErrorMessage)
self.addErrorMessage(strErrorMessage)
self.setFailure()
else:
xsDataLabelitScreenOutput = self.parseLabelitScreenOutput(strLabelitLog)
if xsDataLabelitScreenOutput is None:
strErrorMessage = "EDPluginLabelitIndexingv1_1.postProcess : Cannot parse output"
self.error(strErrorMessage)
self.addErrorMessage(strErrorMessage)
self.setFailure()
else:
xsDataIntegerSelectedSolutionNumber = xsDataLabelitScreenOutput.getSelectedSolutionNumber()
if (xsDataIntegerSelectedSolutionNumber is None):
strErrorMessage = "EDPluginLabelitIndexingv1_1.postProcess : No selected solution"
self.error(strErrorMessage)
self.addErrorMessage(strErrorMessage)
self.setFailure()
else:
strLabelitMosflmScriptsOutput = self.readProcessFile(self.generateMosflmScriptName(xsDataIntegerSelectedSolutionNumber.getValue()))
xsDataLabelitMosflmScriptsOutput = self.parseMosflmScriptsOutput(strLabelitMosflmScriptsOutput)
# Path to log file
xsDataLabelitScreenOutput.setPathToLogFile(XSDataFile(XSDataString(os.path.join(self.getWorkingDirectory(), self.getScriptLogFileName()))))
self.dataOutput.screenOutput = xsDataLabelitScreenOutput
self.dataOutput.mosflmScriptsOutput = xsDataLabelitMosflmScriptsOutput
def postProcess(self, _edObject=None):
"""
Parses the labelit.screen log file and the generated MOSFLM script
"""
EDPluginLabelitv1_1.postProcess(self, _edObject)
EDVerbose.DEBUG("EDPluginLabelitIndexingv1_1.postProcess...")
strLabelitLog = self.readProcessLogFile()
if (strLabelitLog is None):
strErrorMessage = "EDPluginLabelitIndexingv1_1.postProcess : Could not read the Labelit log file"
EDVerbose.error(strErrorMessage)
self.addErrorMessage(strErrorMessage)
self.setFailure()
else:
xsDataLabelitScreenOutput = self.parseLabelitScreenOutput(strLabelitLog)
if xsDataLabelitScreenOutput is None:
strErrorMessage = "EDPluginLabelitIndexingv1_1.postProcess : Cannot parse output"
EDVerbose.error(strErrorMessage)
self.addErrorMessage(strErrorMessage)
self.setFailure()
else:
xsDataIntegerSelectedSolutionNumber = xsDataLabelitScreenOutput.getSelectedSolutionNumber()
if (xsDataIntegerSelectedSolutionNumber is None):
strErrorMessage = "EDPluginLabelitIndexingv1_1.postProcess : No selected solution"
EDVerbose.error(strErrorMessage)
self.addErrorMessage(strErrorMessage)
self.setFailure()
else:
strLabelitMosflmScriptsOutput = self.readProcessFile(self.generateMosflmScriptName(xsDataIntegerSelectedSolutionNumber.getValue()))
xsDataLabelitMosflmScriptsOutput = self.parseMosflmScriptsOutput(strLabelitMosflmScriptsOutput)
self.setDataOutput(xsDataLabelitScreenOutput, "labelitScreenOutput")
self.setDataOutput(xsDataLabelitMosflmScriptsOutput, "mosflmScriptsOutput")
def preProcess(self, _edObject=None):
"""
Sets up the Labelit command line
"""
EDPluginLabelitv1_1.preProcess(self, _edObject)
self.DEBUG("EDPluginLabelitIndexingv1_1.preProcess...")
strCommandLabelit = "--index_only"
if len(self.dataInput.image) > 2:
file = open(
os.path.join(self.getWorkingDirectory(),
"dataset_preferences.py"), "w")
file.write("wedgelimit={0}\n".format(len(self.dataInput.image)))
file.close()
for xsDataImage in self.dataInput.image:
strCommandLabelit = strCommandLabelit + " " + xsDataImage.getPath(
).getValue()
self.setScriptCommandline(strCommandLabelit)
if self.dataInput.forcedSpaceGroup is not None:
self.strForcedSpaceGroup = self.dataInput.forcedSpaceGroup.value
if self.strForcedSpaceGroup != "":
strScriptCommandline = self.getScriptCommandline()
self.setScriptCommandline(
"known_symmetry=%s %s" %
(self.strForcedSpaceGroup, strScriptCommandline))
self.addListCommandPreExecution("export PYTHONPATH=\"\" ")
self.addListCommandPreExecution(". %s" %
self.getPathToLabelitSetpathScript())
self.addListCommandPostExecution(
"[ -f \"LABELIT_possible\" ] && labelit.mosflm_scripts")
# Force name of log file
self.setScriptLogFileName(
self.compactPluginName(self.getClassName()) + ".log")
def preProcess(self, _edObject=None):
"""
Sets up the Labelit command line
"""
EDPluginLabelitv1_1.preProcess(self, _edObject)
EDVerbose.DEBUG("EDPluginLabelitDistlv1_1.preProcess...")
self.setScriptExecutable("labelit.distl")
self.initaliseLabelitCommandLine()
self.addListCommandPreExecution("export PYTHONPATH=\"\" ")
self.addListCommandPreExecution(". %s" % self.getPathToLabelitSetpathScript())
def preProcess(self, _edObject=None):
"""
Sets up the Labelit command line
"""
EDPluginLabelitv1_1.preProcess(self, _edObject)
self.DEBUG("EDPluginLabelitDistlv1_1.preProcess...")
self.setScriptExecutable("labelit.distl")
self.initaliseLabelitCommandLine()
self.addListCommandPreExecution("export PYTHONPATH=\"\" ")
self.addListCommandPreExecution(". %s" % self.getPathToLabelitSetpathScript())
def preProcess(self, _edObject=None):
"""
Sets up the Labelit command line
"""
EDPluginLabelitv1_1.preProcess(self, _edObject)
EDVerbose.DEBUG("EDPluginLabelitIndexingv1_1.preProcess...")
self.setScriptExecutable("labelit.screen")
self.initaliseLabelitCommandLine()
if self.hasDataInput("forcedSpaceGroup"):
self.__strForcedSpaceGroup = self.getDataInput("forcedSpaceGroup")[0].getValue()
strScriptCommandline = self.getScriptCommandline()
self.setScriptCommandline("known_symmetry=%s %s" % (self.__strForcedSpaceGroup, strScriptCommandline))
self.addListCommandPreExecution("export PYTHONPATH=\"\" ")
self.addListCommandPreExecution(". %s" % self.getPathToLabelitSetpathScript())
self.addListCommandPostExecution("[ -f \"LABELIT_possible\" ] && labelit.mosflm_scripts")
def postProcess(self, _edObject=None):
"""
Parses the labelit.screen log file and the generated MOSFLM script
"""
EDPluginLabelitv1_1.postProcess(self, _edObject)
EDVerbose.DEBUG("EDPluginLabelitDistlv1_1.postProcess")
strLabelitDistlLog = self.readProcessLogFile()
if (strLabelitDistlLog is None):
strErrorMessage = "EDPluginLabelitDistlv1_1.postProcess : Could not read the Labelit log file"
EDVerbose.error(strErrorMessage)
self.addErrorMessage(strErrorMessage)
self.setFailure()
else:
xsDataImageQualityIndicators = self.parseLabelitDistlOutput(strLabelitDistlLog)
xsDataImage = self.getDataInput("referenceImage")[0]
xsDataImageQualityIndicators.setImage(xsDataImage)
self.setDataOutput(xsDataImageQualityIndicators, "imageQualityIndicators")
def postProcess(self, _edObject=None):
"""
Parses the labelit.screen log file and the generated MOSFLM script
"""
EDPluginLabelitv1_1.postProcess(self, _edObject)
self.DEBUG("EDPluginLabelitDistlv1_1.postProcess")
strLabelitDistlLog = self.readProcessLogFile()
if (strLabelitDistlLog is None):
strErrorMessage = "EDPluginLabelitDistlv1_1.postProcess : Could not read the Labelit log file"
self.error(strErrorMessage)
self.addErrorMessage(strErrorMessage)
self.setFailure()
else:
xsDataImageQualityIndicators = self.parseLabelitDistlOutput(strLabelitDistlLog)
xsDataImage = self.getDataInput("referenceImage")[0]
xsDataImageQualityIndicators.setImage(xsDataImage)
self.setDataOutput(xsDataImageQualityIndicators, "imageQualityIndicators")
def postProcess(self, _edObject=None):
"""
Parses the labelit.screen log file and the generated MOSFLM script
"""
EDPluginLabelitv1_1.postProcess(self, _edObject)
self.DEBUG("EDPluginLabelitIndexingv1_1.postProcess...")
strLabelitLog = self.readProcessLogFile()
if (strLabelitLog is None):
strErrorMessage = "EDPluginLabelitIndexingv1_1.postProcess : Could not read the Labelit log file"
self.error(strErrorMessage)
self.addErrorMessage(strErrorMessage)
self.setFailure()
else:
xsDataLabelitScreenOutput = self.parseLabelitScreenOutput(
strLabelitLog)
if xsDataLabelitScreenOutput is None:
strErrorMessage = "EDPluginLabelitIndexingv1_1.postProcess : Cannot parse output"
self.error(strErrorMessage)
self.addErrorMessage(strErrorMessage)
self.setFailure()
else:
xsDataIntegerSelectedSolutionNumber = xsDataLabelitScreenOutput.getSelectedSolutionNumber(
)
if (xsDataIntegerSelectedSolutionNumber is None):
strErrorMessage = "EDPluginLabelitIndexingv1_1.postProcess : No selected solution"
self.error(strErrorMessage)
self.addErrorMessage(strErrorMessage)
self.setFailure()
else:
strLabelitMosflmScriptsOutput = self.readProcessFile(
self.generateMosflmScriptName(
xsDataIntegerSelectedSolutionNumber.getValue()))
xsDataLabelitMosflmScriptsOutput = self.parseMosflmScriptsOutput(
strLabelitMosflmScriptsOutput)
# Path to log file
xsDataLabelitScreenOutput.setPathToLogFile(
XSDataFile(
XSDataString(
os.path.join(self.getWorkingDirectory(),
self.getScriptLogFileName()))))
self.setDataOutput(xsDataLabelitScreenOutput,
"labelitScreenOutput")
self.setDataOutput(xsDataLabelitMosflmScriptsOutput,
"mosflmScriptsOutput")
def preProcess(self, _edObject=None):
"""
Sets up the Labelit command line
"""
EDPluginLabelitv1_1.preProcess(self, _edObject)
self.DEBUG("EDPluginLabelitIndexingv1_1.preProcess...")
self.setScriptExecutable("labelit.screen")
self.initaliseLabelitCommandLine()
if self.hasDataInput("forcedSpaceGroup"):
self.__strForcedSpaceGroup = self.getDataInput(
"forcedSpaceGroup")[0].getValue()
strScriptCommandline = self.getScriptCommandline()
self.setScriptCommandline(
"known_symmetry=%s %s" %
(self.__strForcedSpaceGroup, strScriptCommandline))
self.addListCommandPreExecution("export PYTHONPATH=\"\" ")
self.addListCommandPreExecution(". %s" %
self.getPathToLabelitSetpathScript())
self.addListCommandPostExecution(
"[ -f \"LABELIT_possible\" ] && labelit.mosflm_scripts")
# Force name of log file
self.setScriptLogFileName(
self.compactPluginName(self.getClassName()) + ".log")
def preProcess(self, _edObject=None):
"""
Sets up the Labelit command line
"""
EDPluginLabelitv1_1.preProcess(self, _edObject)
self.DEBUG("EDPluginLabelitIndexingv1_1.preProcess...")
strCommandLabelit = "--index_only"
if len(self.dataInput.image) > 2:
file = open(os.path.join(self.getWorkingDirectory(), "dataset_preferences.py"), "w")
file.write("wedgelimit={0}\n".format(len(self.dataInput.image)))
file.close()
for xsDataImage in self.dataInput.image:
strCommandLabelit = strCommandLabelit + " " + xsDataImage.getPath().getValue()
self.setScriptCommandline(strCommandLabelit)
if self.dataInput.forcedSpaceGroup is not None:
self.strForcedSpaceGroup = self.dataInput.forcedSpaceGroup.value
if self.strForcedSpaceGroup != "":
strScriptCommandline = self.getScriptCommandline()
self.setScriptCommandline("known_symmetry=%s %s" % (self.strForcedSpaceGroup, strScriptCommandline))
self.addListCommandPreExecution("export PYTHONPATH=\"\" ")
self.addListCommandPreExecution(". %s" % self.getPathToLabelitSetpathScript())
self.addListCommandPostExecution("[ -f \"LABELIT_possible\" ] && labelit.mosflm_scripts")
# Force name of log file
self.setScriptLogFileName(self.compactPluginName(self.getClassName()) + ".log")
def __init__(self):
EDPluginLabelitv1_1.__init__(self)
self.setXSDataInputClass(XSDataString, "forcedSpaceGroup")
self.__strForcedSpaceGroup = None
def __init__(self):
EDPluginLabelitv1_1.__init__(self)
self.setXSDataInputClass(XSDataInputLabelitIndexing)
self.setDataOutput(XSDataResultLabelitIndexing())
self.strForcedSpaceGroup = None
def __init__(self):
EDPluginLabelitv1_1.__init__(self)
self.setXSDataInputClass(XSDataString, "forcedSpaceGroup")
self.__strForcedSpaceGroup = None
def __init__(self):
EDPluginLabelitv1_1.__init__(self)
self.setXSDataInputClass(XSDataInputLabelitIndexing)
self.setDataOutput(XSDataResultLabelitIndexing())
self.strForcedSpaceGroup = None
