def configure(self, _edPlugin=None):
EDPluginExec.configure(self)
xsDataInputMXWaitFile = self.dataInput
if xsDataInputMXWaitFile.file is None:
strError = "No expected file path in input!"
self.ERROR(strError)
self.setFailure(true)
else:
self.strFilePath = xsDataInputMXWaitFile.file.path.value
if xsDataInputMXWaitFile.size is not None:
self.expectedSize = xsDataInputMXWaitFile.size.value
self.DEBUG("Expected size: %d (bytes)" % self.expectedSize)
if xsDataInputMXWaitFile.timeOut is None:
configTimeOut = self.config.get(EDPlugin.CONF_TIME_OUT)
if configTimeOut is not None:
self.timeOut = float(configTimeOut)
self.DEBUG("Using configured timeout = %.1f s" %
self.timeOut)
else:
self.DEBUG("Using default timeout = %.1f s" % self.timeOut)
else:
self.timeOut = xsDataInputMXWaitFile.timeOut.value
self.DEBUG("Using timeout = %.1f s from input" % self.timeOut)
# Set plugin timout to 60 s more in order to avoid EDPlugin timeout
self.setTimeOut(self.timeOut + 60.0)
def configure(self):
"""
Gets the web servise wdsl parameters from the config file and stores them in class member attributes.
"""
EDPluginExec.configure(self)
self.strUserName = self.config.get("userName")
if self.strUserName is None:
self.ERROR("EDPluginISPyBStoreListOfImageQualityIndicatorsv1_4.configure: No user name found in configuration!")
self.setFailure()
self.strPassWord = self.config.get("passWord")
if self.strPassWord is None:
self.ERROR("EDPluginISPyBStoreListOfImageQualityIndicatorsv1_4.configure: No pass word found in configuration!")
self.setFailure()
self.strToolsForAutoprocessingWebServiceWsdl = self.config.get("toolsForAutoprocessingWebServiceWsdl")
if self.strToolsForAutoprocessingWebServiceWsdl is None:
self.ERROR("EDPluginISPyBStoreListOfImageQualityIndicatorsv1_4.configure: No toolsForAutoprocessingWebServiceWsdl found in configuration!")
self.setFailure()
self.strToolsForCollectionWebServiceWsdl = self.config.get("toolsForCollectionWebServiceWsdl")
if self.strToolsForCollectionWebServiceWsdl is None:
self.ERROR("EDPluginISPyBStoreListOfImageQualityIndicatorsv1_4.configure: No toolsForCollectionWebServiceWsdl found in configuration!")
self.setFailure()
strAutoProcProgramId = self.config.get("autoProcProgramId")
if strAutoProcProgramId is None:
self.ERROR("EDPluginISPyBStoreListOfImageQualityIndicatorsv1_4.configure: No autoProcProgramId found in configuration!")
self.setFailure()
else:
self.iAutoProcProgramId = int(strAutoProcProgramId)
def configure(self):
"""
Gets the web servise wdsl parameters from the config file and stores them in class member attributes.
"""
EDPluginExec.configure(self)
self.strUserName = self.getStringConfigurationParameterValue("userName")
if self.strUserName is None:
self.ERROR("EDPluginISPyBStoreImageQualityIndicatorsv1_3.configure: No user name found in configuration!")
self.setFailure()
self.strPassWord = self.getStringConfigurationParameterValue("passWord")
if self.strPassWord is None:
self.ERROR("EDPluginISPyBStoreImageQualityIndicatorsv1_3.configure: No pass word found in configuration!")
self.setFailure()
self.strImageServiceWdsl = self.getStringConfigurationParameterValue("imageServiceWdsl")
if self.strImageServiceWdsl is None:
self.ERROR("EDPluginISPyBStoreImageQualityIndicatorsv1_3.configure: No imageServiceWdsl found in configuration!")
self.setFailure()
self.strToolsForMXCubeWebServiceWsdl = self.getStringConfigurationParameterValue("toolsForMXCubeWebServiceWsdl")
if self.strToolsForMXCubeWebServiceWsdl is None:
self.ERROR("EDPluginISPyBStoreImageQualityIndicatorsv1_3.configure: No toolsForMXCubeWebServiceWsdl found in configuration!")
self.setFailure()
self.iAutoProcProgramId = self.getIntegerConfigurationParameterValue("autoProcProgramId")
if self.iAutoProcProgramId is None:
self.ERROR("EDPluginISPyBStoreImageQualityIndicatorsv1_3.configure: No autoProcProgramId found in configuration!")
self.setFailure()
def configure(self):
"""
Gets the configuration parameters (if any).
"""
EDPluginExec.configure(self)
self.DEBUG("EDPluginExecSimpleHTMLPagev1_1.configure")
self.fMinTransmission = self.config.get("minTransmissionWarning", self.fMinTransmission)
def configure(self):
"""
Gets the web servise wdsl parameters from the config file and stores them in class member attributes.
"""
EDPluginExec.configure(self)
self.strUserName = str(self.config.get("userName"))
if self.strUserName is None:
self.ERROR("EDPluginISPyBStoreListOfImageQualityIndicatorsv1_4.configure: No user name found in configuration!")
self.setFailure()
self.strPassWord = str(self.config.get("passWord"))
if self.strPassWord is None:
self.ERROR("EDPluginISPyBStoreListOfImageQualityIndicatorsv1_4.configure: No pass word found in configuration!")
self.setFailure()
self.strToolsForAutoprocessingWebServiceWsdl = self.config.get("toolsForAutoprocessingWebServiceWsdl")
if self.strToolsForAutoprocessingWebServiceWsdl is None:
self.ERROR("EDPluginISPyBStoreListOfImageQualityIndicatorsv1_4.configure: No toolsForAutoprocessingWebServiceWsdl found in configuration!")
self.setFailure()
self.strToolsForCollectionWebServiceWsdl = self.config.get("toolsForCollectionWebServiceWsdl")
if self.strToolsForCollectionWebServiceWsdl is None:
self.ERROR("EDPluginISPyBStoreListOfImageQualityIndicatorsv1_4.configure: No toolsForCollectionWebServiceWsdl found in configuration!")
self.setFailure()
strAutoProcProgramId = self.config.get("autoProcProgramId")
if strAutoProcProgramId is None:
self.ERROR("EDPluginISPyBStoreListOfImageQualityIndicatorsv1_4.configure: No autoProcProgramId found in configuration!")
self.setFailure()
else:
self.iAutoProcProgramId = int(strAutoProcProgramId)
def configure(self):
"""
Gets the configuration parameters (if any).
"""
EDPluginExec.configure(self)
self.DEBUG("EDPluginExecSimpleHTMLPagev1_1.configure")
self.fMinTransmission = self.config.get("minTransmissionWarning", self.fMinTransmission)
def configure(self,
_bRequireToolsForCollectionWebServiceWsdl=False,
_bRequireToolsForAutoprocessingWebServiceWsdl=False,
_bRequireToolsForBLSampleWebServiceWsdl=False,
_bRequireToolsForScreeningEDNAWebServiceWsdl=False):
"""
Gets the web servise wdsl parameters from the config file and stores them in class member attributes.
"""
EDPluginExec.configure(self)
self.strUserName = str(self.config.get("userName"))
if self.strUserName is None:
self.ERROR("{0}.configure: No user name found in configuration!".format(self.getName()))
self.setFailure()
self.strPassWord = str(self.config.get("passWord"))
if self.strPassWord is None:
self.ERROR("{0}.configure: No pass word found in configuration!")
self.setFailure()
self.strToolsForCollectionWebServiceWsdl = self.config.get("toolsForCollectionWebServiceWsdl")
if _bRequireToolsForCollectionWebServiceWsdl and self.strToolsForCollectionWebServiceWsdl is None:
self.ERROR("{0}.configure: No toolsForCollectionWebServiceWsdl found in configuration!")
self.setFailure()
self.strToolsForAutoprocessingWebServiceWsdl = self.config.get("toolsForAutoprocessingWebServiceWsdl")
if _bRequireToolsForAutoprocessingWebServiceWsdl and self.strToolsForAutoprocessingWebServiceWsdl is None:
self.ERROR("EDPluginISPyBStoreImageQualityIndicatorsv1_4.configure: No toolsForAutoprocessingWebServiceWsdl found in configuration!")
self.setFailure()
self.strToolsForBLSampleWebServiceWsdl = self.config.get("toolsForBLSampleWebServiceWsdl")
if _bRequireToolsForBLSampleWebServiceWsdl and self.strToolsForBLSampleWebServiceWsdl is None:
self.ERROR("EDPluginISPyBGetSampleInformationv1_4.configure: No toolsForBLSampleWebServiceWsdl found in configuration!")
self.setFailure()
self.strToolsForScreeningEDNAWebServiceWsdl = self.config.get("toolsForScreeningEDNAWebServiceWsdl")
if _bRequireToolsForScreeningEDNAWebServiceWsdl and self.strToolsForScreeningEDNAWebServiceWsdl is None:
self.ERROR("EDPluginISPyBStoreScreeningv1_4.configure: No toolsForScreeningEDNAWebServiceWsdl found in configuration!")
self.setFailure()
def configure(self):
"""
Configures the plugin with executable from configuration file
"""
EDPluginExec.configure(self)
EDVerbose.DEBUG("EDPluginExecProcess.configure")
strExecutable = self.config.get(self.CONF_EXEC_PROCESS_EXECUTABLE, None)
if strExecutable is None:
EDVerbose.DEBUG("EDPluginExecProcess.configure: No configuration parameter found for: %s , using default value: %s"\
% (self.CONF_EXEC_PROCESS_EXECUTABLE, self.getExecutable()))
else:
self.setExecutable(strExecutable)
# test if we're to use oar and check for additional config
if strExecutable == "oarsub":
oar_options = self.config.get("oarOptions", None)
if oar_options is None:
EDVerbose.DEBUG('EDPluginExecProcess.configure: no additional options were specified for oarsub')
self._oar_options = oar_options
oar_poll = self.config.get("oarPollInterval", None)
if oar_poll is None:
EDVerbose.DEBUG('EDPluginExecProcess.configure: oar polling interval not configured')
EDVerbose.DEBUG('EDPluginExecProcess.configure: using default version of {0}'.format(DEFAULT_OAR_POLL_INTERVAL))
self._oar_poll_interval = DEFAULT_OAR_POLL_INTERVAL
else:
self._oar_poll_interval = oar_poll
# The execProcessTimeOut is deprecated, see bug #563
timeOut = self.config.get(self.CONF_EXEC_PROCESS_TIME_OUT, None)
if timeOut is not None:
EDVerbose.WARNING("Use of %s in plugin configuration is deprecated" % self.CONF_EXEC_PROCESS_TIME_OUT)
EDVerbose.WARNING("Please use %s instead." % EDPlugin.CONF_TIME_OUT)
self.setTimeOut(timeOut)
def configure( self ):
EDPluginExec.configure( self )
EDVerbose.DEBUG( "*** EDPluginExecICATIngesterv10.configure" )
xsPluginItem = self.getConfiguration()
if ( xsPluginItem == None ):
EDVerbose.warning( "EDPluginExecICATIngesterv10.configure: No DLS Archiver plugin item defined." )
xsPluginItem = XSPluginItem()
def configure(self):
"""
Gets the web servise wdsl parameters from the config file and stores them in class member attributes.
"""
EDPluginExec.configure(self)
self.strUserName = self.config.get("userName")
if self.strUserName is None:
self.ERROR("EDPluginISPyBStoreScreeningv1_4.configure: No user name found in configuration!")
self.setFailure()
self.strPassWord = self.config.get("passWord")
if self.strPassWord is None:
self.ERROR("EDPluginISPyBStoreScreeningv1_4.configure: No pass word found in configuration!")
self.setFailure()
self.strToolsForBLSampleWebServiceWsdl = self.config.get("toolsForBLSampleWebServiceWsdl")
if self.strToolsForBLSampleWebServiceWsdl is None:
self.ERROR("EDPluginISPyBStoreScreeningv1_4.configure: No toolsForBLSampleWebServiceWsdl found in configuration!")
self.setFailure()
self.strToolsForScreeningEDNAWebServiceWsdl = self.config.get("toolsForScreeningEDNAWebServiceWsdl")
if self.strToolsForScreeningEDNAWebServiceWsdl is None:
self.ERROR("EDPluginISPyBStoreScreeningv1_4.configure: No toolsForScreeningEDNAWebServiceWsdl found in configuration!")
self.setFailure()
self.strToolsForCollectionWebServiceWsdl = self.config.get("toolsForCollectionWebServiceWsdl")
if self.strToolsForCollectionWebServiceWsdl is None:
self.ERROR("EDPluginISPyBStoreScreeningv1_4.configure: No toolsForCollectionWebServiceWsdl found in configuration!")
self.setFailure()
def configure(self):
"""
Gets the dbserver parameters from the config file and stores them in class member attributes.
"""
EDPluginExec.configure(self)
pluginConfiguration = self.getConfiguration()
if(pluginConfiguration == None):
EDVerbose.DEBUG("*** EDPluginISPyBv1_2.configure: pluginConfiguration is None, using default settings")
else:
EDVerbose.DEBUG("*** EDPluginISPyBv1_2.configure: pluginConfiguration found, using settings from there")
strDbserverHost = EDConfiguration.getStringParamValue(pluginConfiguration, "dbserverHost")
if(strDbserverHost == None):
strErrorMessage = EDMessage.ERROR_EXECUTION_03 % ("EDPluginISPyBv1_2.configure", self.getClassName(), \
"Configuration parameter missing: dbserverHost")
EDVerbose.error(strErrorMessage)
self.addErrorMessage(strErrorMessage)
raise RuntimeError, strErrorMessage
else:
self.setDbserverHost(strDbserverHost)
strDbserverPort = EDConfiguration.getStringParamValue(pluginConfiguration, "dbserverPort")
if(strDbserverPort == None):
strErrorMessage = EDMessage.ERROR_EXECUTION_03 % ("EDPluginISPyBv1_2.configure", self.getClassName(), \
"Configuration parameter missing: dbserverPort")
EDVerbose.error(strErrorMessage)
self.addErrorMessage(strErrorMessage)
raise RuntimeError, strErrorMessage
else:
self.setDbserverPort(int (strDbserverPort))
def configure(self):
"""
Gets the web servise wdsl parameters from the config file and stores them in class member attributes.
"""
EDPluginExec.configure(self)
self.strUserName = self.getStringConfigurationParameterValue(
"userName")
if self.strUserName is None:
self.ERROR(
"EDPluginISPyBStoreScreeningv1_4.configure: No user name found in configuration!"
)
self.setFailure()
self.strPassWord = self.getStringConfigurationParameterValue(
"passWord")
if self.strPassWord is None:
self.ERROR(
"EDPluginISPyBStoreScreeningv1_4.configure: No pass word found in configuration!"
)
self.setFailure()
self.strToolsForBLSampleWebServiceWsdl = self.getStringConfigurationParameterValue(
"toolsForBLSampleWebServiceWsdl")
if self.strToolsForBLSampleWebServiceWsdl is None:
self.ERROR(
"EDPluginISPyBStoreScreeningv1_4.configure: No toolsForBLSampleWebServiceWsdl found in configuration!"
)
self.setFailure()
self.strToolsForScreeningEDNAWebServiceWsdl = self.getStringConfigurationParameterValue(
"toolsForScreeningEDNAWebServiceWsdl")
if self.strToolsForScreeningEDNAWebServiceWsdl is None:
self.ERROR(
"EDPluginISPyBStoreScreeningv1_4.configure: No toolsForScreeningEDNAWebServiceWsdl found in configuration!"
)
self.setFailure()
def configure(self):
EDPluginExec.configure(self)
EDVerbose.DEBUG("EDPluginExecOutputHTMLv1_0.configure")
self.strEDNA2html = self.config.get(self.CONF_EDNA2html)
if self.strEDNA2html is None and os.environ.has_key("EDNA2html"):
self.strEDNA2html = os.environ["EDNA2html"]
else:
self.strEDNA2html = EDFactoryPluginStatic.getModuleLocation("EDNA2html")
pass
def configure(self):
EDPluginExec.configure(self)
EDVerbose.DEBUG("*** EDPluginExecICATIngesterv10.configure")
xsPluginItem = self.getConfiguration()
if (xsPluginItem == None):
EDVerbose.warning(
"EDPluginExecICATIngesterv10.configure: No DLS Archiver plugin item defined."
)
xsPluginItem = XSPluginItem()
def configure(self):
EDPluginExec.configure(self)
EDVerbose.DEBUG("EDPluginExecOutputHTMLv1_0.configure")
pluginConfiguration = self.getConfiguration()
if pluginConfiguration != None:
self.__strEDNA2html = EDConfiguration.getStringParamValue(pluginConfiguration, \
EDPluginExecOutputHTMLv1_0.CONF_EDNA2html)
elif os.environ.has_key("EDNA2html"):
self.__strEDNA2html = os.environ["EDNA2html"]
def configure(self):
EDPluginExec.configure(self)
EDVerbose.DEBUG("EDPluginExecOutputHTMLv1_0.configure")
self.strEDNA2html = self.config.get(self.CONF_EDNA2html)
if self.strEDNA2html is None and os.environ.has_key("EDNA2html"):
self.strEDNA2html = os.environ["EDNA2html"]
else:
self.strEDNA2html = EDFactoryPluginStatic.getModuleLocation(
"EDNA2html")
pass
def configure( self ):
"""
Configure the plugin, mainly boiler plate code to get things going
"""
EDPluginExec.configure( self )
EDVerbose.DEBUG( "*** EDPluginExecSRBRegisterv10.configure" )
xsPluginItem = self.getConfiguration()
if ( xsPluginItem == None ):
EDVerbose.warning( "EDPluginExecSRBRegisterv10.configure: No DLS Archiver plugin item defined." )
xsPluginItem = XSPluginItem()
def configure(self):
"""
Configures the plugin (if not done yet
"""
EDPluginExec.configure(self)
if self.use_sift_pyocl is None:
with self.config_lock:
if self.use_sift_pyocl is None:
self.DEBUG("EDPluginExecMeasureOffsetv2_1.configure")
self.__class__.use_sift_pyocl = self.config.get("sift_pyocl", False)
print self.use_sift_pyocl, self.sift_keypoints, self.sift_match
def configure(self):
"""
Configures the plugin (if not done yet
"""
EDPluginExec.configure(self)
if self.use_sift_pyocl is None:
with self.config_lock:
if self.use_sift_pyocl is None:
self.DEBUG("EDPluginExecAlignFramev1_0.configure")
self.__class__.use_sift_pyocl = self.config.get(
"sift_pyocl", False)
print self.use_sift_pyocl, self.sift_keypoints, self.sift_match
def configure(self):
"""
Configure the plugin, mainly boiler plate code to get things going
"""
EDPluginExec.configure(self)
EDVerbose.DEBUG("*** EDPluginExecSRBRegisterv10.configure")
xsPluginItem = self.getConfiguration()
if (xsPluginItem == None):
EDVerbose.warning(
"EDPluginExecSRBRegisterv10.configure: No DLS Archiver plugin item defined."
)
xsPluginItem = XSPluginItem()
def configure(self):
"""
setup two configurations:
--> MAX_OFFSET_VALUE
--> FILL_VALUE
"""
EDPluginExec.configure(self)
if not self.__class__.CONFIGURED:
with self.__class__._clsLock:
if not self.__class__.CONFIGURED:
self.DEBUG("EDPluginExecShiftImagev1_1.configure")
xsPluginItem = self.getConfiguration()
if (xsPluginItem == None):
self.WARNING(
"EDPluginExecShiftImagev1_1.configure: No plugin item defined."
)
xsPluginItem = XSPluginItem()
strFill = EDConfiguration.getStringParamValue(
xsPluginItem, self.__class__.FILL_KEY)
if (strFill == None):
self.WARNING("EDPluginExecShiftImagev1_1.configure: No configuration parameter found for: %s using default value: %s\n%s"\
% (self.FILL_KEY, self.FILL_VALUE, xsPluginItem.marshal()))
else:
strFill = strFill.strip().lower()
if strFill in ["min", "max", "mean"]:
self.__class__.FILL_VALUE = strFill
else:
try:
self.__class__.FILL_VALUE = float(strFill)
except ValueError, error:
self.ERROR(
"unable to convert %s to float: %s" %
(strFill, error))
strMaxOffset = EDConfiguration.getStringParamValue(
xsPluginItem, self.__class__.MAX_OFFSET_KEY)
if (strMaxOffset == None):
self.WARNING("EDPluginExecShiftImagev1_1.configure: No configuration parameter found for: %s using default value: %s\n%s"\
% (self.MAX_OFFSET_KEY, self.MAX_OFFSET_VALUE, xsPluginItem.marshal()))
else:
if strMaxOffset.isdigit():
try:
self.__class__.MAX_OFFSET_VALUE = int(
strMaxOffset)
except ValueError, error:
self.ERROR("unable to convert %s to int: %s" %
(strMaxOffset, error))
else:
self.WARNING("EDPluginExecShiftImagev1_1.configure: No configuration parameter found for: %s using default value: %s\n%s"\
% (self.MAX_OFFSET_KEY, self.MAX_OFFSET_VALUE, xsPluginItem.marshal()))
def configure(self):
EDPluginExec.configure(self)
EDVerbose.DEBUG("EDPluginExecOutputHTMLv1_0.configure")
pluginConfiguration = self.getConfiguration()
if pluginConfiguration != None:
self.strEDNA2html = EDConfiguration.getStringParamValue(pluginConfiguration, \
EDPluginExecOutputHTMLv1_0.CONF_EDNA2html)
elif os.environ.has_key("EDNA2html"):
self.strEDNA2html = os.environ["EDNA2html"]
else:
self.strEDNA2html = EDFactoryPluginStatic.getModuleLocation(
"EDNA2html")
pass
def configure(self):
"""
setup two configurations:
--> MAX_OFFSET_VALUE
--> FILL_VALUE
"""
EDPluginExec.configure(self)
if not self.__class__.CONFIGURED:
with self.__class__._clsLock:
if not self.__class__.CONFIGURED:
self.DEBUG("EDPluginExecShiftImagev1_1.configure")
xsPluginItem = self.getConfiguration()
if xsPluginItem == None:
self.WARNING("EDPluginExecShiftImagev1_1.configure: No plugin item defined.")
xsPluginItem = XSPluginItem()
strFill = EDConfiguration.getStringParamValue(xsPluginItem, self.__class__.FILL_KEY)
if strFill == None:
self.WARNING(
"EDPluginExecShiftImagev1_1.configure: No configuration parameter found for: %s using default value: %s\n%s"
% (self.FILL_KEY, self.FILL_VALUE, xsPluginItem.marshal())
)
else:
strFill = strFill.strip().lower()
if strFill in ["min", "max", "mean"]:
self.__class__.FILL_VALUE = strFill
else:
try:
self.__class__.FILL_VALUE = float(strFill)
except ValueError, error:
self.ERROR("unable to convert %s to float: %s" % (strFill, error))
strMaxOffset = EDConfiguration.getStringParamValue(xsPluginItem, self.__class__.MAX_OFFSET_KEY)
if strMaxOffset == None:
self.WARNING(
"EDPluginExecShiftImagev1_1.configure: No configuration parameter found for: %s using default value: %s\n%s"
% (self.MAX_OFFSET_KEY, self.MAX_OFFSET_VALUE, xsPluginItem.marshal())
)
else:
if strMaxOffset.isdigit():
try:
self.__class__.MAX_OFFSET_VALUE = int(strMaxOffset)
except ValueError, error:
self.ERROR("unable to convert %s to int: %s" % (strMaxOffset, error))
else:
self.WARNING(
"EDPluginExecShiftImagev1_1.configure: No configuration parameter found for: %s using default value: %s\n%s"
% (self.MAX_OFFSET_KEY, self.MAX_OFFSET_VALUE, xsPluginItem.marshal())
)
def configure(self):
"""
Configure the HDF5 compression scheme
"""
EDPluginExec.configure(self)
self.DEBUG("EDPluginHDF5.configure")
if not EDPluginHDF5.__bConfigured:
xsPluginItem = self.getConfiguration()
if xsPluginItem is not None:
strCompression = EDConfiguration.getStringParamValue(xsPluginItem, EDPluginHDF5.CONF_COMPRESSION_KEY)
if strCompression != None:
if strCompression == "None":
EDPluginHDF5.HDF5_Compression = None
else:
EDPluginHDF5.HDF5_Compression = strCompression
EDPluginHDF5.__bConfigured = True
def configure(self,
_bRequireToolsForCollectionWebServiceWsdl=False,
_bRequireToolsForAutoprocessingWebServiceWsdl=False,
_bRequireToolsForBLSampleWebServiceWsdl=False,
_bRequireToolsForScreeningEDNAWebServiceWsdl=False):
"""
Gets the web servise wdsl parameters from the config file and stores them in class member attributes.
"""
EDPluginExec.configure(self)
self.strUserName = str(self.config.get("userName"))
if self.strUserName is None:
self.ERROR(
"{0}.configure: No user name found in configuration!".format(
self.getName()))
self.setFailure()
self.strPassWord = str(self.config.get("passWord"))
if self.strPassWord is None:
self.ERROR("{0}.configure: No pass word found in configuration!")
self.setFailure()
self.strToolsForCollectionWebServiceWsdl = self.config.get(
"toolsForCollectionWebServiceWsdl")
if _bRequireToolsForCollectionWebServiceWsdl and self.strToolsForCollectionWebServiceWsdl is None:
self.ERROR(
"{0}.configure: No toolsForCollectionWebServiceWsdl found in configuration!"
)
self.setFailure()
self.strToolsForAutoprocessingWebServiceWsdl = self.config.get(
"toolsForAutoprocessingWebServiceWsdl")
if _bRequireToolsForAutoprocessingWebServiceWsdl and self.strToolsForAutoprocessingWebServiceWsdl is None:
self.ERROR(
"EDPluginISPyBStoreImageQualityIndicatorsv1_4.configure: No toolsForAutoprocessingWebServiceWsdl found in configuration!"
)
self.setFailure()
self.strToolsForBLSampleWebServiceWsdl = self.config.get(
"toolsForBLSampleWebServiceWsdl")
if _bRequireToolsForBLSampleWebServiceWsdl and self.strToolsForBLSampleWebServiceWsdl is None:
self.ERROR(
"EDPluginISPyBGetSampleInformationv1_4.configure: No toolsForBLSampleWebServiceWsdl found in configuration!"
)
self.setFailure()
self.strToolsForScreeningEDNAWebServiceWsdl = self.config.get(
"toolsForScreeningEDNAWebServiceWsdl")
if _bRequireToolsForScreeningEDNAWebServiceWsdl and self.strToolsForScreeningEDNAWebServiceWsdl is None:
self.ERROR(
"EDPluginISPyBStoreScreeningv1_4.configure: No toolsForScreeningEDNAWebServiceWsdl found in configuration!"
)
self.setFailure()
def configure(self):
"""
Gets the web servise wdsl parameters from the config file and stores them in class member attributes.
"""
EDPluginExec.configure(self)
self.strUserName = self.config.get("userName")
if self.strUserName is None:
self.ERROR("EDPluginISPyBUpdateWorkflowStatusv1_4.configure: No user name found in configuration!")
self.setFailure()
self.strPassWord = self.config.get("passWord")
if self.strPassWord is None:
self.ERROR("EDPluginISPyBUpdateWorkflowStatusv1_4.configure: No pass word found in configuration!")
self.setFailure()
self.strToolsForCollectionWebServiceWsdl = self.config.get("toolsForCollectionWebServiceWsdl")
if self.strToolsForCollectionWebServiceWsdl is None:
self.ERROR("EDPluginISPyBUpdateWorkflowStatusv1_4.configure: No toolsForCollectionWebServiceWsdl found in configuration!")
self.setFailure()
def configure(self):
"""
Gets the web servise wdsl parameters from the config file and stores them in class member attributes.
"""
EDPluginExec.configure(self)
self.strUserName = self.getStringConfigurationParameterValue("userName")
if self.strUserName is None:
self.ERROR("EDPluginISPyBStoreAutoProcv1_4.configure: No user name found in configuration!")
self.setFailure()
self.strPassWord = self.getStringConfigurationParameterValue("passWord")
if self.strPassWord is None:
self.ERROR("EDPluginISPyBStoreAutoProcv1_4.configure: No pass word found in configuration!")
self.setFailure()
self.strToolsForAutoprocessingWebServiceWsdl = self.getStringConfigurationParameterValue("toolsForAutoprocessingWebServiceWsdl")
if self.strToolsForAutoprocessingWebServiceWsdl is None:
self.ERROR("EDPluginISPyBStoreAutoProcv1_4.configure: No toolsForAutoprocessingWebServiceWsdl found in configuration!")
self.setFailure()
def configure(self):
"""
Configures the plugin with executable from configuration file
"""
EDPluginExec.configure(self)
EDVerbose.DEBUG("EDPluginExecProcess.configure")
strExecutable = self.config.get(self.CONF_EXEC_PROCESS_EXECUTABLE,
None)
if strExecutable is None:
EDVerbose.DEBUG("EDPluginExecProcess.configure: No configuration parameter found for: %s , using default value: %s"\
% (self.CONF_EXEC_PROCESS_EXECUTABLE, self.getExecutable()))
else:
self.setExecutable(strExecutable)
# test if we're to use oar and check for additional config
if strExecutable == "oarsub":
oar_options = self.config.get("oarOptions", None)
if oar_options is None:
EDVerbose.DEBUG(
'EDPluginExecProcess.configure: no additional options were specified for oarsub'
)
self._oar_options = oar_options
oar_poll = self.config.get("oarPollInterval", None)
if oar_poll is None:
EDVerbose.DEBUG(
'EDPluginExecProcess.configure: oar polling interval not configured'
)
EDVerbose.DEBUG(
'EDPluginExecProcess.configure: using default version of {0}'
.format(DEFAULT_OAR_POLL_INTERVAL))
self._oar_poll_interval = DEFAULT_OAR_POLL_INTERVAL
else:
self._oar_poll_interval = oar_poll
# The execProcessTimeOut is deprecated, see bug #563
timeOut = self.config.get(self.CONF_EXEC_PROCESS_TIME_OUT, None)
if timeOut is not None:
EDVerbose.WARNING(
"Use of %s in plugin configuration is deprecated" %
self.CONF_EXEC_PROCESS_TIME_OUT)
EDVerbose.WARNING("Please use %s instead." %
EDPlugin.CONF_TIME_OUT)
self.setTimeOut(timeOut)
def configure(self):
"""
Add the dtype to the configuration file, probably "float32" or "float64"
"""
EDPluginExec.configure(self)
self.DEBUG("EDPluginExecNormalizeImagev1_1.configure")
if self.__class__.dtype is None:
with self.__class__.semaphore:
xsPluginItem = self.getConfiguration()
if (xsPluginItem == None):
self.WARNING("EDPluginExecNormalizeImagev1_1.configure: No plugin item defined.")
xsPluginItem = XSPluginItem()
strDtype = EDConfiguration.getStringParamValue(xsPluginItem, self.CONF_DTYPE_KEY)
if(strDtype == None):
self.WARNING("EDPluginExecNormalizeImagev1_1.configure: No configuration parameter found for: %s using default value: %s\n%s"\
% (self.CONF_DTYPE_KEY, self.CONF_DTYPE_DEFAULT, xsPluginItem.marshal()))
self.__class__.dtype = self.CONF_DTYPE_DEFAULT
else:
self.__class__.dtype = str(strDtype.strip().lower())
def configure(self):
"""
Configures the plugin from the configuration file with the following parameters
- The CONVOLUTION method
"""
EDPluginExec.configure(self)
if self.CONF_CONVOLUTION is None:
with self.__class__.__sem:
self.DEBUG("EDPluginExecMeasureOffsetv1_0.configure")
xsPluginItem = self.getConfiguration()
if xsPluginItem is None:
self.WARNING("EDPluginExecMeasureOffsetv1_0.configure: No plugin item defined.")
xsPluginItem = XSPluginItem()
strCONVOLUTION = EDConfiguration.getStringParamValue(xsPluginItem, self.CONF_CONVOLUTION_KEY)
if strCONVOLUTION is None:
self.WARNING("EDPluginExecMeasureOffsetv1_0.configure: No configuration parameter found for: %s using default value: %s\n%s"\
% (self.CONF_CONVOLUTION_KEY, self.CONF_CONVOLUTION_DEFAULT, xsPluginItem.marshal()))
self.__class__CONF_CONVOLUTION = self.CONF_CONVOLUTION_DEFAULT
else:
self.__class__.CONF_CONVOLUTION = strCONVOLUTION.strip().lower()
def configure(self):
"""
Gets the web servise wdsl parameters from the config file and stores them in class member attributes.
"""
EDPluginExec.configure(self)
self.strUserName = self.getStringConfigurationParameterValue(
"userName")
if self.strUserName is None:
self.ERROR(
"EDPluginISPyBStoreImageQualityIndicatorsv1_3.configure: No user name found in configuration!"
)
self.setFailure()
self.strPassWord = self.getStringConfigurationParameterValue(
"passWord")
if self.strPassWord is None:
self.ERROR(
"EDPluginISPyBStoreImageQualityIndicatorsv1_3.configure: No pass word found in configuration!"
)
self.setFailure()
self.strImageServiceWdsl = self.getStringConfigurationParameterValue(
"imageServiceWdsl")
if self.strImageServiceWdsl is None:
self.ERROR(
"EDPluginISPyBStoreImageQualityIndicatorsv1_3.configure: No imageServiceWdsl found in configuration!"
)
self.setFailure()
self.strToolsForCollectionWebServiceWsdl = self.getStringConfigurationParameterValue(
"toolsForCollectionWebServiceWsdl")
if self.strToolsForCollectionWebServiceWsdl is None:
self.ERROR(
"EDPluginISPyBStoreImageQualityIndicatorsv1_3.configure: No toolsForCollectionWebServiceWsdl found in configuration!"
)
self.setFailure()
self.iAutoProcProgramId = self.getIntegerConfigurationParameterValue(
"autoProcProgramId")
if self.iAutoProcProgramId is None:
self.ERROR(
"EDPluginISPyBStoreImageQualityIndicatorsv1_3.configure: No autoProcProgramId found in configuration!"
)
self.setFailure()
def configure(self):
"""
Configures the plugin with executable from configuration file
"""
EDPluginExec.configure(self)
EDVerbose.DEBUG("EDPluginExecProcess.configure")
xsPluginItem = self.getConfiguration()
if (xsPluginItem == None):
EDVerbose.warning("EDPluginExecProcess.configure: No plugin item defined.")
xsPluginItem = XSPluginItem()
strExecutable = EDConfiguration.getStringParamValue(xsPluginItem, EDPluginExecProcess.CONF_EXEC_PROCESS_EXECUTABLE)
if(strExecutable == None):
EDVerbose.DEBUG("EDPluginExecProcess.configure: No configuration parameter found for: %s , using default value: %s"\
% (EDPluginExecProcess.CONF_EXEC_PROCESS_EXECUTABLE, self.getExecutable()))
else:
self.setExecutable(strExecutable)
# The execProcessTimeOut is deprecated, see bug #563
strTimeOut = EDConfiguration.getStringParamValue(xsPluginItem, EDPluginExecProcess.CONF_EXEC_PROCESS_TIME_OUT)
if strTimeOut is not None:
EDVerbose.WARNING("Use of %s in plugin configuration is deprecated" % EDPluginExecProcess.CONF_EXEC_PROCESS_TIME_OUT)
EDVerbose.WARNING("Please use %s instead." % EDPlugin.CONF_TIME_OUT)
self.setTimeOut(strTimeOut)
def configure(self, _edPlugin=None):
EDPluginExec.configure(self)
xsDataInputMXWaitFile = self.dataInput
if xsDataInputMXWaitFile.file is None:
strError = "No expected file path in input!"
self.ERROR(strError)
self.setFailure(true)
else:
self.strFilePath = xsDataInputMXWaitFile.file.path.value
if xsDataInputMXWaitFile.size is not None:
self.expectedSize = xsDataInputMXWaitFile.size.value
self.DEBUG("Expected size: %d (bytes)" % self.expectedSize)
if xsDataInputMXWaitFile.timeOut is None:
configTimeOut = self.config.get(EDPlugin.CONF_TIME_OUT)
if configTimeOut is not None:
self.timeOut = float(configTimeOut)
self.DEBUG("Using configured timeout = %.1f s" % self.timeOut)
else:
self.DEBUG("Using default timeout = %.1f s" % self.timeOut)
else:
self.timeOut = xsDataInputMXWaitFile.timeOut.value
self.DEBUG("Using timeout = %.1f s from input" % self.timeOut)
# Set plugin timout to 60 s more in order to avoid EDPlugin timeout
self.setTimeOut(self.timeOut + 60.0)
def configure(self):
"""
Configures the plugin from the configuration file with the following parameters
- The CONVOLUTION method
"""
EDPluginExec.configure(self)
if self.CONF_CONVOLUTION is None:
with self.__class__.__sem:
self.DEBUG("EDPluginExecMeasureOffsetv1_0.configure")
xsPluginItem = self.getConfiguration()
if xsPluginItem is None:
self.WARNING(
"EDPluginExecMeasureOffsetv1_0.configure: No plugin item defined."
)
xsPluginItem = XSPluginItem()
strCONVOLUTION = EDConfiguration.getStringParamValue(
xsPluginItem, self.CONF_CONVOLUTION_KEY)
if strCONVOLUTION is None:
self.WARNING("EDPluginExecMeasureOffsetv1_0.configure: No configuration parameter found for: %s using default value: %s\n%s"\
% (self.CONF_CONVOLUTION_KEY, self.CONF_CONVOLUTION_DEFAULT, xsPluginItem.marshal()))
self.__class__CONF_CONVOLUTION = self.CONF_CONVOLUTION_DEFAULT
else:
self.__class__.CONF_CONVOLUTION = strCONVOLUTION.strip(
).lower()
def configure(self):
"""
Gets the dbserver parameters from the config file and stores them in class member attributes.
"""
EDPluginExec.configure(self)
pluginConfiguration = self.getConfiguration()
if (pluginConfiguration == None):
self.DEBUG(
"*** EDPluginISPyBv10.configure: pluginConfiguration is None, using default settings"
)
else:
self.DEBUG(
"*** EDPluginISPyBv10.configure: pluginConfiguration found, using settings from there"
)
pyStrDbserverHost = EDConfiguration.getStringParamValue(
pluginConfiguration, "dbserverHost")
if (pyStrDbserverHost == None):
pyStrErrorMessage = EDMessage.ERROR_EXECUTION_03 % ("EDPluginISPyBv10.configure", self.getClassName(), \
"Configuration parameter missing: dbserverHost")
self.error(pyStrErrorMessage)
self.addErrorMessage(pyStrErrorMessage)
raise RuntimeError, pyStrErrorMessage
else:
self.setDbserverHost(pyStrDbserverHost)
pyStrDbserverPort = EDConfiguration.getStringParamValue(
pluginConfiguration, "dbserverPort")
if (pyStrDbserverPort == None):
pyStrErrorMessage = EDMessage.ERROR_EXECUTION_03 % ("EDPluginISPyBv10.configure", self.getClassName(), \
"Configuration parameter missing: dbserverPort")
self.error(pyStrErrorMessage)
self.addErrorMessage(pyStrErrorMessage)
raise RuntimeError, pyStrErrorMessage
else:
self.setDbserverPort(int(pyStrDbserverPort))
def configure(self):
"""
Configures the plugin from the configuration file with the following
parameters
- The shell that will execute the script
- Script executor
- Script executable to be invoked
- Path to CCP4 setup file if required
- The 3rd party executable installed version
"""
EDPluginExec.configure(self)
EDVerbose.DEBUG("EDPluginExecProcessXIA2CORE.configure")
xsPluginItem = self.getConfiguration()
if (xsPluginItem == None):
EDVerbose.warning(
"EDPluginExecProcessXIA2CORE.configure: No plugin item defined."
)
xsPluginItem = XSPluginItem()
if (self.getExecutable() is None):
strExecutable = EDConfiguration.getStringParamValue(
xsPluginItem,
EDPluginExecProcessXIA2CORE.CONF_EXEC_PROCESS_EXECUTABLE)
if (strExecutable == None):
strErrorMessage = "Configuration parameter missing: " + \
EDPluginExecProcessXIA2CORE.CONF_EXEC_PROCESS_EXECUTABLE
EDVerbose.error(strErrorMessage)
self.addErrorMessage(strErrorMessage)
self.setFailure()
if (EDVerbose.isVerboseDebug()):
raise RuntimeError, strErrorMessage
else:
# Check that the executable file exists
if (os.path.exists(strExecutable) == False):
strErrorMessage = "Cannot find configured " + EDPluginExecProcessXIA2CORE.CONF_EXEC_PROCESS_EXECUTABLE + " : " + strExecutable
EDVerbose.error(strErrorMessage)
self.addErrorMessage(strErrorMessage)
self.setFailure()
if (EDVerbose.isVerboseDebug()):
raise RuntimeError, strErrorMessage
else:
self.setExecutable(strExecutable)
if (self.getConfigXIA2COREType() is None):
strXIA2COREType = EDConfiguration.getStringParamValue(
xsPluginItem,
EDPluginExecProcessXIA2CORE.CONF_EXEC_PROCESS_XIA2CORE_TYPE)
if (strXIA2COREType == None):
strErrorMessage = "Configuration parameter not set: " + \
EDPluginExecProcessXIA2CORE.CONF_EXEC_PROCESS_XIA2CORE_TYPE
EDVerbose.DEBUG(strErrorMessage)
else:
# FIXME test that this is a legal name
self.__strConfigXIA2COREType = strXIA2COREType
strVersion = EDConfiguration.getStringParamValue(
xsPluginItem,
EDPluginExecProcessXIA2CORE.CONF_EXEC_PROCESS_VERSION_STRING)
if (strVersion == None):
EDVerbose.DEBUG("EDPluginExecProcessXIA2CORE.configure: No configuration parameter found for: " + \
EDPluginExecProcessXIA2CORE.CONF_EXEC_PROCESS_VERSION_STRING + ", NO default value!")
else:
self.setStringVersion(strVersion)
if (self.__strLogFileName == None):
self.setLogFileName(self.getBaseName() + ".log")
if (self.__strErrorLogFileName == None):
self.setErrorLogFileName(self.getBaseName() + ".err")
if self.__strExecutable is None:
EDVerbose.ERROR("Executable not defined in configuration file")
# shall we raise an exception?
self.__strPathToHostNamePidFile = os.path.join(
self.getWorkingDirectory(),
os.path.basename(self.__strExecutable) + "_hostNamePid.txt")
return
def configure(self):
"""
Configures the plugin from the configuration file with the following
parameters
- The shell that will execute the script
- Script executor
- Script executable to be invoked
- Path to CCP4 setup file if required
- The 3rd party executable installed version
"""
EDPluginExec.configure(self)
EDVerbose.DEBUG("EDPluginExecProcessXIA2CORE.configure")
xsPluginItem = self.getConfiguration()
if (xsPluginItem == None):
EDVerbose.warning(
"EDPluginExecProcessXIA2CORE.configure: No plugin item defined.")
xsPluginItem = XSPluginItem()
if (self.getExecutable() is None):
strExecutable = EDConfiguration.getStringParamValue(
xsPluginItem,
EDPluginExecProcessXIA2CORE.CONF_EXEC_PROCESS_EXECUTABLE)
if(strExecutable == None):
strErrorMessage = "Configuration parameter missing: " + \
EDPluginExecProcessXIA2CORE.CONF_EXEC_PROCESS_EXECUTABLE
EDVerbose.error(strErrorMessage)
self.addErrorMessage(strErrorMessage)
self.setFailure()
if (EDVerbose.isVerboseDebug()):
raise RuntimeError, strErrorMessage
else:
# Check that the executable file exists
if (os.path.exists(strExecutable) == False):
strErrorMessage = "Cannot find configured " + EDPluginExecProcessXIA2CORE.CONF_EXEC_PROCESS_EXECUTABLE + " : " + strExecutable
EDVerbose.error(strErrorMessage)
self.addErrorMessage(strErrorMessage)
self.setFailure()
if (EDVerbose.isVerboseDebug()):
raise RuntimeError, strErrorMessage
else:
self.setExecutable(strExecutable)
if (self.getConfigXIA2COREType() is None):
strXIA2COREType = EDConfiguration.getStringParamValue(
xsPluginItem,
EDPluginExecProcessXIA2CORE.CONF_EXEC_PROCESS_XIA2CORE_TYPE)
if(strXIA2COREType == None):
strErrorMessage = "Configuration parameter not set: " + \
EDPluginExecProcessXIA2CORE.CONF_EXEC_PROCESS_XIA2CORE_TYPE
EDVerbose.DEBUG(strErrorMessage)
else:
# FIXME test that this is a legal name
self.__strConfigXIA2COREType = strXIA2COREType
strVersion = EDConfiguration.getStringParamValue(xsPluginItem, EDPluginExecProcessXIA2CORE.CONF_EXEC_PROCESS_VERSION_STRING)
if(strVersion == None):
EDVerbose.DEBUG("EDPluginExecProcessXIA2CORE.configure: No configuration parameter found for: " + \
EDPluginExecProcessXIA2CORE.CONF_EXEC_PROCESS_VERSION_STRING + ", NO default value!")
else:
self.setStringVersion(strVersion)
if (self.__strLogFileName == None):
self.setLogFileName(self.getBaseName() + ".log")
if (self.__strErrorLogFileName == None):
self.setErrorLogFileName(self.getBaseName() + ".err")
if self.__strExecutable is None:
EDVerbose.ERROR("Executable not defined in configuration file")
# shall we raise an exception?
self.__strPathToHostNamePidFile = os.path.join(self.getWorkingDirectory(), os.path.basename(self.__strExecutable) + "_hostNamePid.txt")
return
