def setPluginInput(self, _edPlugin):
EDApplicationMXv1Characterisation.setPluginInput(self, _edPlugin)
if (not self.__strGeneratedTemplateFileMXv2 is None):
_edPlugin.setDataInput(XSDataString(self.__strGeneratedTemplateFileMXv2), "generatedTemplateFileMXv2")
if self.__bTemplateModeMXv2:
# Delete the existing entry if any
if _edPlugin.hasDataInput("templateMode"):
_edPlugin.setDataInput(None, "templateMode")
_edPlugin.setDataInput(XSDataBoolean(self.__bTemplateModeMXv2), "templateMode")
if self.__strDataCollectionMXv2File:
xsDataCollectionMXv2 = XSDataCollection_v2.parseFile(self.__strDataCollectionMXv2File)
_edPlugin.setDataInput(xsDataCollectionMXv2, "mxv2DataCollection")
def processCommandLineItems(self, _strCommandLineItem, _bFoundImageToken):
bFoundImageToken = EDApplicationMXv1Characterisation.processCommandLineItems(
self, _strCommandLineItem, _bFoundImageToken)
if _strCommandLineItem == EDApplicationMXv2Characterisation.TEMPLATE_MXV2_PARAM_LABEL:
self.__strGeneratedTemplateFileMXv2 = self.getCommandLineArgument(
EDApplicationMXv2Characterisation.TEMPLATE_MXV2_PARAM_LABEL)
if (self.__strGeneratedTemplateFileMXv2 == None):
strErrorMessage = EDMessage.ERROR_MANDATORY_PARAM_MISSING_02 % ("EDApplicationMXv2Characterisation.processCommandLineItems", "No argument for command line %s key word found!" % \
EDApplicationMXv2Characterisation.TEMPLATE_MXV2_PARAM_LABEL)
EDVerbose.error(strErrorMessage)
else:
if (not os.path.isabs(self.__strGeneratedTemplateFileMXv2)):
self.__strGeneratedTemplateFileMXv2 = os.path.abspath(
os.path.join(self.getCurrentWorkingDirectory(),
self.__strGeneratedTemplateFileMXv2))
self.__bTemplateModeMXv2 = True
if _strCommandLineItem == EDApplicationMXv2Characterisation.MXV2_DATACOLLECTION_FILE_LABEL:
self.__strDataCollectionMXv2File = self.getCommandLineArgument(
EDApplicationMXv2Characterisation.
MXV2_DATACOLLECTION_FILE_LABEL)
if (self.__strDataCollectionMXv2File == None):
strErrorMessage = EDMessage.ERROR_MANDATORY_PARAM_MISSING_02 % ("EDApplicationMXv2Characterisation.processCommandLineItems", "No argument for command line %s key word found!" % \
EDApplicationMXv2Characterisation.MXV2_DATACOLLECTION_FILE_LABEL)
EDVerbose.error(strErrorMessage)
else:
if (not os.path.isabs(self.__strDataCollectionMXv2File)):
self.__strDataCollectionMXv2File = os.path.abspath(
os.path.join(self.getCurrentWorkingDirectory(),
self.__strDataCollectionMXv2File))
return bFoundImageToken
def setPluginInput(self, _edPlugin):
EDApplicationMXv1Characterisation.setPluginInput(self, _edPlugin)
if (not self.__strGeneratedTemplateFileMXv2 is None):
_edPlugin.setDataInput(
XSDataString(self.__strGeneratedTemplateFileMXv2),
"generatedTemplateFileMXv2")
if self.__bTemplateModeMXv2:
# Delete the existing entry if any
if _edPlugin.hasDataInput("templateMode"):
_edPlugin.setDataInput(None, "templateMode")
_edPlugin.setDataInput(XSDataBoolean(self.__bTemplateModeMXv2),
"templateMode")
if self.__strDataCollectionMXv2File:
xsDataCollectionMXv2 = XSDataCollection_v2.parseFile(
self.__strDataCollectionMXv2File)
_edPlugin.setDataInput(xsDataCollectionMXv2, "mxv2DataCollection")
def processCommandLineItems(self, _strCommandLineItem, _bFoundImageToken):
bFoundImageToken = EDApplicationMXv1Characterisation.processCommandLineItems(self, _strCommandLineItem, _bFoundImageToken)
if _strCommandLineItem == EDApplicationMXv2Characterisation.TEMPLATE_MXV2_PARAM_LABEL:
self.__strGeneratedTemplateFileMXv2 = self.getCommandLineArgument(EDApplicationMXv2Characterisation.TEMPLATE_MXV2_PARAM_LABEL)
if (self.__strGeneratedTemplateFileMXv2 == None):
strErrorMessage = EDMessage.ERROR_MANDATORY_PARAM_MISSING_02 % ("EDApplicationMXv2Characterisation.processCommandLineItems", "No argument for command line %s key word found!" % \
EDApplicationMXv2Characterisation.TEMPLATE_MXV2_PARAM_LABEL)
EDVerbose.error(strErrorMessage)
else:
if (not os.path.isabs(self.__strGeneratedTemplateFileMXv2)):
self.__strGeneratedTemplateFileMXv2 = os.path.abspath(os.path.join(self.getCurrentWorkingDirectory(), self.__strGeneratedTemplateFileMXv2))
self.__bTemplateModeMXv2 = True
if _strCommandLineItem == EDApplicationMXv2Characterisation.MXV2_DATACOLLECTION_FILE_LABEL:
self.__strDataCollectionMXv2File = self.getCommandLineArgument(EDApplicationMXv2Characterisation.MXV2_DATACOLLECTION_FILE_LABEL)
if (self.__strDataCollectionMXv2File == None):
strErrorMessage = EDMessage.ERROR_MANDATORY_PARAM_MISSING_02 % ("EDApplicationMXv2Characterisation.processCommandLineItems", "No argument for command line %s key word found!" % \
EDApplicationMXv2Characterisation.MXV2_DATACOLLECTION_FILE_LABEL)
EDVerbose.error(strErrorMessage)
else:
if (not os.path.isabs(self.__strDataCollectionMXv2File)):
self.__strDataCollectionMXv2File = os.path.abspath(os.path.join(self.getCurrentWorkingDirectory(), self.__strDataCollectionMXv2File))
return bFoundImageToken
import sys, os.path
pyStrProgramPath = sys.argv[0]
pyStrBinPath = os.path.split(pyStrProgramPath)[0]
pyStrMXv1Path = os.path.split(pyStrBinPath)[0]
pyStrEdnaHomePath = os.path.split(pyStrMXv1Path)[0]
os.environ["EDNA_HOME"] = pyStrEdnaHomePath
if (not "EDNA_SITE" in os.environ.keys()):
print "Cannot start the EDNA MXv1 characterisation application:"
print "Make sure that $EDNA_SITE is set up before running edna-mxv1-characterisation."
print "Example:"
print "$ export EDNA_SITE=<SUFFIX> (should be the configuration file suffix XSConfiguration_<SUFFIX>.xml)"
print "Please read the INSTALL.txt file under the \"$EDNA_HOME/mxv1\" directory for more details"
print ""
sys.exit(1)
strConfigurationFilePath = os.path.join(
pyStrEdnaHomePath, "mxv1", "conf",
"XSConfiguration_" + os.environ["EDNA_SITE"] + ".xml")
#
# Then add kernel/src and mxv1/src to PYTHONPATH
#
sys.path.append(os.path.join(pyStrEdnaHomePath, "kernel", "src"))
sys.path.append(os.path.join(pyStrEdnaHomePath, "mxv1", "src"))
#
# Now the edApplicationMXv1Characterisation can be imported and started
#
from EDApplicationMXv1Characterisation import EDApplicationMXv1Characterisation
edApplicationMXv1Characterisation = EDApplicationMXv1Characterisation(_strPluginName="EDPluginControlInterfacev1_2", \
_strConfigurationFileName=strConfigurationFilePath)
edApplicationMXv1Characterisation.execute()
def __init__(self, _strPluginName=None, _strConfigurationFileName=None):
EDApplicationMXv1Characterisation.__init__(self, _strPluginName, _strConfigurationFileName)
self.__strGeneratedTemplateFileMXv2 = None
self.__strDataCollectionMXv2File = None
self.__bTemplateModeMXv2 = None
def __init__(self, _strPluginName=None, _strConfigurationFileName=None):
EDApplicationMXv1Characterisation.__init__(self, _strPluginName,
_strConfigurationFileName)
self.__strGeneratedTemplateFileMXv2 = None
self.__strDataCollectionMXv2File = None
self.__bTemplateModeMXv2 = None
def runMXv1Pipeline():
strLogFileName = os.path.join(returnWorkingDirectory(), "wsgi-server.log")
EDVerbose.setLogFileName(strLogFileName)
strInput = str(request['wsgi.input'].read(int(request['CONTENT_LENGTH'])))
if strInput:
# Take the parameters string, split off the title and run the bash script to generate the input char. XML
listParams = shlex.split(strInput)
strComments = listParams[0] # the 1st item
strShortComments = listParams[1] # the 2nd item
strWorkingDir = listParams[2] # the 3rd item
strHTMLResultDir = listParams[3] # the 4th item
os.chdir(strWorkingDir)
strParamString = " ".join(
listParams[4:]) # all but the first four items
edPluginMxv1ParamsToXML = EDFactoryPluginStatic.loadPlugin(
'EDPluginMxv1ParamsToXMLv1_0')
edPluginMxv1ParamsToXML.setDataInput(XSDataString(strParamString),
"paramString")
edPluginMxv1ParamsToXML.executeSynchronous()
xsDataFile = edPluginMxv1ParamsToXML.getDataOutput()
# Read the XML and parse it into an object hierarchy
strXMLFile = xsDataFile.getPath().getValue()
f = open(strXMLFile, 'r')
xml = f.read()
f.close()
xsDataInputCharacterisation = XSDataInputCharacterisation.parseString(
xml)
# Run the MXv1 application pipeline
edApplicationMXv1Characterisation = EDApplicationMXv1Characterisation(_strPluginName="EDPluginControlInterfacev1_2", \
_strConfigurationFileName=strConfigurationFilePath, \
_xsDataInputCharacterisation=xsDataInputCharacterisation, \
_strComments=strComments, \
_strShortComments=strShortComments)
edApplicationMXv1Characterisation.execute()
# Run the EDNA2HTML generator on the output from the MXv1 application
edPluginExecOutputHTML = EDFactoryPluginStatic.loadPlugin(
'EDPluginExecOutputHTMLv1_0')
edPluginExecOutputHTML.setDataInput(XSDataString(strComments), "title")
strWorkingDir = os.path.join(
strWorkingDir, edApplicationMXv1Characterisation.getWorkingDir())
edPluginExecOutputHTML.setDataInput(XSDataString(strWorkingDir),
"workingDir")
#strBaseDir = os.path.join(strHTMLResultDir, "edna")
#edPluginExecOutputHTML.setDataInput(XSDataString(strBaseDir), "basename")
edPluginExecOutputHTML.setDataInput(XSDataString(strHTMLResultDir),
"basename")
edPluginExecOutputHTML.executeSynchronous()
strPathToHTMLFile = ""
if (edPluginExecOutputHTML.hasDataOutput("htmlFile")):
strPathToHTMLFile = edPluginExecOutputHTML.getDataOutput(
"htmlFile")[0].getPath().getValue()
else:
EDVerbose.ERROR(
"edna-mxv1-wsgi-server: edPluginExecOutputHTML has no dataOutput htmlFile!"
)
if strPathToHTMLFile == "":
EDVerbose.ERROR("edna-mxv1-wsgi-server: Returning empty string")
return strPathToHTMLFile
else:
return strInput
