for iIndex, strArg in enumerate(sys.argv[1:]):
strarg = strArg.lower()
if strarg == "--verbose":
EDVerbose.setVerboseOn()
elif strarg == "--debug":
EDVerbose.setVerboseDebugOn()
strArgPath = strArg
if os.path.dirname(strArgPath) == "":
strArgPath = os.path.join(strCwd, strArg)
strArgPathAbsolute = os.path.abspath(strArgPath)
if os.path.exists(strArgPathAbsolute):
listPaths.append(strArgPathAbsolute)
if listPaths == []:
EDVerbose.ERROR("No valid XML file given as input!")
EDVerbose.ERROR("Arguments: %r" % sys.argv)
EDVerbose.ERROR("Usage: edna-autoproc2ispyb path_to_xml_file [--debug]")
sys.exit(1)
for strPath in listPaths:
EDVerbose.screen("Starting EDNA AutoProc -> ISPyB for file %s" % strPath)
xsDataInputStoreAutoProc = XSDataInputStoreAutoProc()
strXMLAutoProcContainer = EDUtilsFile.readFile(strPath)
xsDataAutoProcContainer = AutoProcContainer.parseString(strXMLAutoProcContainer)
if xsDataAutoProcContainer is None:
EDVerbose.WARNING("Couldn't parse file %s" % strPath)
else:
xsDataInputStoreAutoProc.setAutoProcContainer(xsDataAutoProcContainer)
edPluginISPyBStoreAutoProc = EDFactoryPluginStatic.loadPlugin("EDPluginISPyBStoreAutoProcv1_4")
edPluginISPyBStoreAutoProc.setDataInput(xsDataInputStoreAutoProc)
edPluginISPyBStoreAutoProc.connectSUCCESS(successAction)
edPluginISPyBStoreAutoProc.connectFAILURE(failureAction)
edPluginISPyBStoreAutoProc.executeSynchronous()
EDVerbose.ERROR(
"Usage: edna-autoproc2ispyb path_to_xml_file [--debug]")
sys.exit(1)
for strPath in listPaths:
EDVerbose.screen("Starting EDNA AutoProc -> ISPyB for file %s" %
strPath)
xsDataInputStoreAutoProc = XSDataInputStoreAutoProc()
strXMLAutoProcContainer = EDUtilsFile.readFile(strPath)
xsDataAutoProcContainer = AutoProcContainer.parseString(
strXMLAutoProcContainer)
if xsDataAutoProcContainer is None:
EDVerbose.WARNING("Couldn't parse file %s" % strPath)
else:
if xsDataAutoProcContainer.AutoProcProgramContainer.AutoProcProgram.processingStatus == "True":
xsDataAutoProcContainer.AutoProcProgramContainer.AutoProcProgram.processingStatus = "SUCCESS"
xsDataInputStoreAutoProc.setAutoProcContainer(
xsDataAutoProcContainer)
edPluginISPyBStoreAutoProc = EDFactoryPluginStatic.loadPlugin(
"EDPluginISPyBStoreAutoProcv1_4")
edPluginISPyBStoreAutoProc.setDataInput(xsDataInputStoreAutoProc)
edPluginISPyBStoreAutoProc.executeSynchronous()
if edPluginISPyBStoreAutoProc.isFailure():
EDVerbose.ERROR("XML data not stored in ISPyB")
else:
xsDataResultISPyBStoreAutoProc = edPluginISPyBStoreAutoProc.dataOutput
EDVerbose.screen("XML data sucessfully stored in ISPyB")
if xsDataResultISPyBStoreAutoProc.autoProcScalingId is not None:
EDVerbose.screen(
"autoProcScalingId: %d" %
xsDataResultISPyBStoreAutoProc.autoProcScalingId.value)
else:
EDVerbose.warning("No autoProcScalingId in results!")
