def configure(self, _edPlugin=None):
EDPluginControl.configure(self)
self.DEBUG("EDPluginControlReadImageHeaderv10.configure")
self.fMXWaitFileTimeOut = float(self.config.get("MXWaitFileTimeOut", self.fMXWaitFileTimeOut))
self.minImageSize = self.config.get("minImageSize")
if self.minImageSize is None:
self.minImageSize = self.defaultMinImageSize
def configure(self):
"""
Gets the configuration parameters (if any). Use the Python name mangling rules for storing the parameters in
the private variables of the parent class.
"""
EDPluginControl.configure(self)
self.DEBUG("EDPluginControlCharForReorientInterfacev2_0.configure")
strUseISPyBPlugin = "false"
if (self.getControlledPluginName("subWedgeAssemblePlugin")
is not None):
self._EDPluginControlInterfacev2_0__strEDPluginControlSubWedgeAssembleName = self.getControlledPluginName(
"subWedgeAssemblePlugin")
if (self.getControlledPluginName("characterisationPlugin")
is not None):
self._EDPluginControlInterfacev2_0__strEDPluginControlCharacterisationName = self.getControlledPluginName(
"characterisationPlugin")
if (self.getControlledPluginName("ispybPlugin") is not None):
self._EDPluginControlInterfacev2_0__strEDPluginControlISPyBName = self.getControlledPluginName(
"ispybPlugin")
strUseISPyBPlugin = self.config.get("useISPyBPlugin",
strUseISPyBPlugin)
if (strUseISPyBPlugin.lower() != "true"):
self._EDPluginControlInterfacev2_0__strEDPluginControlISPyBName = None
def configure(self):
EDPluginControl.configure(self)
if not self.configured:
with self.classlock:
if not self.configured:
EDPluginControl.configure(self)
dammif_jobs = self.config.get("dammifJobs", None)
if (dammif_jobs != None):
self.__class__.dammif_jobs = int(dammif_jobs)
self.DEBUG("EDPluginControlSaxsModelingv1_1.configure: setting number of dammif jobs to %d" % self.dammif_jobs)
unit = self.config.get("unit", None)
if (unit != None):
self.__class__.unit = unit.upper()
self.DEBUG("EDPluginControlSaxsModelingv1_1.configure: setting input units to %s" % self.unit)
symmetry = self.config.get("symmetry", None)
if (symmetry != None):
self.__class__.symmetry = symmetry
self.DEBUG("EDPluginControlSaxsModelingv1_1.configure: setting symmetry to %s" % self.symmetry)
mode = self.config.get("mode", None)
if (mode != None):
self.__class__.mode = mode
self.DEBUG("EDPluginControlSaxsModelingv1_1.configure: setting dammif mode to %s" % self.mode)
clusterSize = self.config.get("clusterSize", None)
if (clusterSize != None):
self.__class__.cluster_size = int(clusterSize)
self.DEBUG("EDPluginControl.configure: setting cluster size to %d" % self.cluster_size)
self.__class__.configured = True
def configure(self):
"""
Configures the plugin from the configuration file with the following parameters:
- CONF_MAX_THREAD max number of threads in the action cluster
- CONF_FILE_SIZE minimum file size
"""
EDPluginControl.configure(self)
self.DEBUG("EDPluginBioSaxsToSASv1_0.configure")
if (self.__class__.size is None) or (self.__class__.maxThreads is None):
xsPluginItem = self.getConfiguration()
if (xsPluginItem == None):
self.warning("EDPluginBioSaxsToSASv1_0.configure: No plugin item defined.")
xsPluginItem = XSPluginItem()
conf_size = self.config.get(self.CONF_FILE_SIZE, None)
if conf_size is None:
strMessage = 'EDPluginBioSaxsToSASv1_0.configure: Configuration parameter missing: \
%s for %s, defaulting to "1000"' % (self.CONF_FILE_SIZE, EDUtilsPath.EDNA_SITE)
self.WARNING(strMessage)
self.addErrorWarningMessagesToExecutiveSummary(strMessage)
self.__class__.size = 1000
else:
self.__class__.size = int(conf_size)
maxThreads = self.config.get(self.CONF_MAX_THREAD, None)
if maxThreads is None:
strMessage = 'EDPluginBioSaxsToSASv1_0.configure: Configuration parameter missing: \
%s for %s, defaulting to "max"' % (self.CONF_MAX_THREAD, EDUtilsPath.EDNA_SITE)
self.WARNING(strMessage)
self.addErrorWarningMessagesToExecutiveSummary(strMessage)
self.__class__.maxThreads = None
else:
self.__class__.maxThreads = int(maxThreads)
def configure(self):
EDPluginControl.configure(self)
self.DEBUG("EDPluginControlInterfaceToMXCuBEv1_3.configure")
self.strEDNAEmailSender = self.config.get(self.EDNA_EMAIL_SENDER,
self.strEDNAEmailSender)
self.strEDNAContactEmail = self.config.get(self.EDNA_CONTACT_EMAIL,
self.strEDNAContactEmail)
def configure(self):
"""
Gets the configuration parameters (if any). Use the Python name mangling rules for storing the parameters in
the private variables of the parent class.
"""
EDPluginControl.configure(self)
EDVerbose.DEBUG(
"EDPluginControlCharForReorientInterfacev2_0.configure")
pluginConfiguration = self.getConfiguration()
strUseISPyBPlugin = "false"
if (pluginConfiguration is None):
EDVerbose.DEBUG(
"No plugin configuration found for EDPluginControlCharForReorientInterfacev2_0."
)
else:
if (self.getControlledPluginName("subWedgeAssemblePlugin")
is not None):
self._EDPluginControlInterfacev2_0__strEDPluginControlSubWedgeAssembleName = self.getControlledPluginName(
"subWedgeAssemblePlugin")
if (self.getControlledPluginName("characterisationPlugin")
is not None):
self._EDPluginControlInterfacev2_0__strEDPluginControlCharacterisationName = self.getControlledPluginName(
"characterisationPlugin")
if (self.getControlledPluginName("ispybPlugin") is not None):
self._EDPluginControlInterfacev2_0__strEDPluginControlISPyBName = self.getControlledPluginName(
"ispybPlugin")
strUseISPyBPlugin = EDConfiguration.getStringParamValue(
pluginConfiguration, "useISPyBPlugin")
if (strUseISPyBPlugin.lower() != "true"):
self._EDPluginControlInterfacev2_0__strEDPluginControlISPyBName = None
def configure(self):
"""
Gets the configuration parameters (if any).
"""
EDPluginControl.configure(self)
EDVerbose.DEBUG("EDPluginControlCharacterisationv1_1.configure")
pluginConfiguration = self.getConfiguration()
if(pluginConfiguration is None):
EDVerbose.DEBUG("No plugin configuration found for EDPluginControlCharacterisationv1_1.")
else:
if (self.getControlledPluginName("indexingPlugin") is not None):
self.__strPluginIndexingName = self.getControlledPluginName("indexingPlugin")
if (self.getControlledPluginName("integrationPlugin") is not None):
self.__strPluginIntegrationName = self.getControlledPluginName("integrationPlugin")
if (self.getControlledPluginName("strategyPlugin") is not None):
self.__strPluginStrategyName = self.getControlledPluginName("strategyPlugin")
if (self.getControlledPluginName("kappaStrategyPlugin") is not None):
self.__strPluginKappaStrategyName = self.getControlledPluginName("kappaStrategyPlugin")
if (self.getControlledPluginName("integrationPointlessPlugin") is not None):
self.__strPluginIntegrationPoitlessName = self.getControlledPluginName("integrationPointlessPlugin")
pyStrKappa = EDConfiguration.getStringParamValue(pluginConfiguration, "KAPPA")
if(pyStrKappa == "ON"):
self.__strPluginStrategyName = self.__strPluginKappaStrategyName
pyStrPointless = EDConfiguration.getStringParamValue(pluginConfiguration, "POINTLESS")
if(pyStrPointless == "ON"):
self.__strPluginIntegrationName = self.__strPluginIntegrationPointlessName
def configure(self, _edPlugin = None):
EDPluginControl.configure(self)
self.DEBUG("EDPluginControlReadImageHeaderv10.configure")
if self.getConfiguration():
xsDataStringParameter = EDConfiguration.getParamItem(self.getConfiguration(), "waitFileTimeOut")
if xsDataStringParameter:
self.fWaitFileTimeOut = float(xsDataStringParameter.getValue())
def configure(self):
"""
Gets the configuration parameters (if any).
"""
EDPluginControl.configure(self)
EDVerbose.DEBUG("EDPluginControlInterfacev2_0.configure")
pluginConfiguration = self.getConfiguration()
strUseISPyBPlugin = "false"
if (pluginConfiguration is None):
EDVerbose.DEBUG(
"No plugin configuration found for EDPluginControlInterfacev2_0."
)
else:
if (self.getControlledPluginName("subWedgeAssemblePlugin")
is not None):
self.strEDPluginControlSubWedgeAssembleName = self.getControlledPluginName(
"subWedgeAssemblePlugin")
if (self.getControlledPluginName("characterisationPlugin")
is not None):
self.strEDPluginControlCharacterisationName = self.getControlledPluginName(
"characterisationPlugin")
if (self.getControlledPluginName("ispybPlugin") is not None):
self.strEDPluginControlISPyBName = self.getControlledPluginName(
"ispybPlugin")
strUseISPyBPlugin = EDConfiguration.getStringParamValue(
pluginConfiguration, "useISPyBPlugin")
if (strUseISPyBPlugin.lower() != "true"):
self.strEDPluginControlISPyBName = None
def configure(self):
EDPluginControl.configure(self)
EDVerbose.DEBUG("EDPluginControlKappaStrategyv2_0.configure")
pluginConfiguration = self.getConfiguration()
if pluginConfiguration != None:
strSymopHome = EDConfiguration.getStringParamValue(
pluginConfiguration, self.strCONF_SYMOP_HOME)
if (strSymopHome == None):
strWarningMessage = EDMessage.WARNING_NO_PARAM_CONFIGURATION_ITEM_FOUND_03 % (
'EDPluginControlKappaStrategyv2_0.configure',
self.strCONF_SYMOP_HOME, self.getPluginName())
EDVerbose.warning(strWarningMessage)
self.addWarningMessage(strWarningMessage)
else:
strSymopHomeNorm = os.path.normpath(strSymopHome)
self.setSymopHome(strSymopHomeNorm)
strSymopHome = EDConfiguration.getStringParamValue(
pluginConfiguration, "KAPPA")
if (strSymopHome == None or strSymopHome != "ON"):
#self.strPluginStrategyName = "EDPluginControlStrategyv10"
#self.strPluginStrategyName = "EDPluginControlStrategyv2_0"
self.KappaStrategy = 0
else:
self.KappaStrategy = 1
def configure(self):
"""
Gets the configuration parameters (if any). Use the Python name mangling rules for storing the parameters in
the private variables of the parent class.
"""
EDPluginControl.configure(self)
EDVerbose.DEBUG("EDPluginControlCharForReorientInterfacev2_0.configure")
pluginConfiguration = self.getConfiguration()
strUseISPyBPlugin = "false"
if pluginConfiguration is None:
EDVerbose.DEBUG("No plugin configuration found for EDPluginControlCharForReorientInterfacev2_0.")
else:
if self.getControlledPluginName("subWedgeAssemblePlugin") is not None:
self._EDPluginControlInterfacev2_0__strEDPluginControlSubWedgeAssembleName = self.getControlledPluginName(
"subWedgeAssemblePlugin"
)
if self.getControlledPluginName("characterisationPlugin") is not None:
self._EDPluginControlInterfacev2_0__strEDPluginControlCharacterisationName = self.getControlledPluginName(
"characterisationPlugin"
)
if self.getControlledPluginName("ispybPlugin") is not None:
self._EDPluginControlInterfacev2_0__strEDPluginControlISPyBName = self.getControlledPluginName(
"ispybPlugin"
)
strUseISPyBPlugin = EDConfiguration.getStringParamValue(pluginConfiguration, "useISPyBPlugin")
if strUseISPyBPlugin.lower() != "true":
self._EDPluginControlInterfacev2_0__strEDPluginControlISPyBName = None
def configure(self, _edPlugin=None):
EDPluginControl.configure(self)
self.DEBUG("EDPluginControlImageQualityIndicatorsv1_4.configure")
self.fMXWaitFileTimeOut = float(self.config.get("MXWaitFileTimeOut", self.fMXWaitFileTimeOut))
self.minImageSize = self.config.get("minImageSize")
if self.minImageSize is None:
self.minImageSize = self.defaultMinImageSize
def configure(self, _edPlugin=None):
EDPluginControl.configure(self)
self.DEBUG("EDPluginControlReadImageHeaderv10.configure")
self.fMXWaitFileTimeOut = float(
self.config.get("MXWaitFileTimeOut", self.fMXWaitFileTimeOut))
self.minImageSize = self.config.get("minImageSize")
if self.minImageSize is None:
self.minImageSize = self.defaultMinImageSize
def configure(self):
"""
Gets the configuration parameters (if any).
"""
EDPluginControl.configure(self)
self.DEBUG("EDPluginControlInterfacev1_1.configure")
if self.getControlledPluginName("characterisationPlugin") is not None:
self.__strPluginCharacterisationName = self.getControlledPluginName("characterisationPlugin")
def configure(self):
EDPluginControl.configure(self)
self.DEBUG("EDPluginControlCharacterisationv2_0.configure")
strPointlessOn = self.config.get("POINTLESS", None)
if(strPointlessOn == None or strPointlessOn != "True"):
self.strPluginIntegrationName = "EDPluginControlIntegrationv10"
else:
self.strPluginIntegrationName = "EDPluginControlIntegrationPointlessv10"
def configure(self, _edPlugin=None):
EDPluginControl.configure(self)
self.DEBUG("EDPluginControlReadImageHeaderv10.configure")
if self.getConfiguration():
xsDataStringParameter = EDConfiguration.getParamItem(
self.getConfiguration(), "waitFileTimeOut")
if xsDataStringParameter:
self.fWaitFileTimeOut = float(xsDataStringParameter.getValue())
def configure(self, _edPlugin=None):
EDPluginControl.configure(self)
self.DEBUG("EDPluginControlImageQualityIndicatorsv1_4.configure")
self.fMXWaitFileTimeOut = float(
self.config.get("MXWaitFileTimeOut", self.fMXWaitFileTimeOut))
self.minImageSize = self.config.get("minImageSize")
if self.minImageSize is None:
self.minImageSize = self.defaultMinImageSize
def configure(self):
EDPluginControl.configure(self)
self.DEBUG("EDPluginControlIntegrationv10.configure")
strMaxRMSSpotDeviation = self.config.get(self.__strCONF_CONTROL_INTEGRATION_MAX_RMS)
if(strMaxRMSSpotDeviation == None):
self.DEBUG("EDPluginControlIntegrationv10.configure: No configuration parameter found for: " + self.__strCONF_CONTROL_INTEGRATION_MAX_RMS + ", no default value.")
else:
self.setMaxRMSSpotDeviation(float(strMaxRMSSpotDeviation))
def configure(self):
"""
Gets the EDPluginControl parameters from the configuration file and stores them in class member attributes.
"""
EDPluginControl.configure(self)
if (self.getControlledPluginName("indexingPlugin") is not None):
self.strPluginIndexingName = self.getControlledPluginName("indexingPlugin")
if (self.getControlledPluginName("generatePredictionPlugin") is not None):
self.strPluginGeneratePredictionName = self.getControlledPluginName("generatePredictionPlugin")
def configure(self):
"""
Gets the configuration parameters (if any).
"""
EDPluginControl.configure(self)
if (self.getControlledPluginName("integrationPlugin") is not None):
self.__strPluginIntegrationName = self.getControlledPluginName("integrationPlugin")
if (self.getControlledPluginName("strategyPlugin") is not None):
self.__strPluginStrategyName = self.getControlledPluginName("strategyPlugin")
def configure(self):
"""
Gets the configuration parameters (if any).
"""
EDPluginControl.configure(self)
if (self.getControlledPluginName("integrationPlugin") is not None):
self.__strPluginIntegrationName = self.getControlledPluginName("integrationPlugin")
if (self.getControlledPluginName("strategyPlugin") is not None):
self.__strPluginStrategyName = self.getControlledPluginName("strategyPlugin")
def configure(self):
EDPluginControl.configure(self)
EDVerbose.DEBUG("EDPluginControlStrategyv1_2.configure")
strSymopHome = self.config.get(self._strCONF_SYMOP_HOME)
if strSymopHome is None:
strWarningMessage = EDMessage.WARNING_NO_PARAM_CONFIGURATION_ITEM_FOUND_03 % ('EDPluginControlStrategyv1_2.configure', self._strCONF_SYMOP_HOME, self.getPluginName())
EDVerbose.warning(strWarningMessage)
self.addWarningMessage(strWarningMessage)
else:
self.setSymopHome(strSymopHome)
def configure(self):
EDPluginControl.configure(self)
EDVerbose.DEBUG("EDPluginControlStrategyv1_2.configure")
strSymopHome = self.config.get(self._strCONF_SYMOP_HOME)
if strSymopHome is None:
strWarningMessage = EDMessage.WARNING_NO_PARAM_CONFIGURATION_ITEM_FOUND_03 % ('EDPluginControlStrategyv1_2.configure', self._strCONF_SYMOP_HOME, self.getPluginName())
EDVerbose.warning(strWarningMessage)
self.addWarningMessage(strWarningMessage)
else:
self.setSymopHome(strSymopHome)
def configure( self ):
"""
configure the plugin, mainly boiler plate code in here, to make sure the underlying code is being run
"""
EDPluginControl.configure( self )
EDVerbose.DEBUG( strftime("%Y-%m-%d %H:%M:%S") + " *** EDPluginControlDLSArchiverv10.configure" )
xsPluginItem = self.getConfiguration()
if ( xsPluginItem == None ):
EDVerbose.warning( "EDPluginControlDLSArchiverv10.configure: No DLS Archiver plugin item defined." )
xsPluginItem = XSPluginItem()
def configure(self, _edPlugin = None):
EDPluginControl.configure(self)
self.DEBUG("EDPluginControlReadImageHeaderv10.configure")
self.fMXWaitFileTimeOut = float(self.config.get("MXWaitFileTimeOut", self.fMXWaitFileTimeOut))
self.bDoISPyBUpload = self.config.get("do_ispyb_upload")
if self.bDoISPyBUpload is None or self.bDoISPyBUpload == "false":
self.bDoISPyBUpload = False
self.minImageSize = self.config.get("minImageSize")
if self.minImageSize is None:
self.minImageSize = self.defaultMinImageSize
def configure(self):
EDPluginControl.configure(self)
self.DEBUG("EDPluginControlKappaStrategyv2_0.configure")
bKappaOn = self.config.get("KAPPA")
if bKappaOn:
# self.strPluginStrategyName = "EDPluginControlStrategyv10"
# self.strPluginStrategyName = "EDPluginControlStrategyv2_0"
self.KappaStrategy = 1
else:
self.KappaStrategy = 0
def configure(self):
EDPluginControl.configure(self)
self.DEBUG("EDPluginControlIndexingIndicatorsv1_1.configure")
strSymopHome = self.config.get(self.strCONF_SYMOP_HOME)
if strSymopHome is None:
strWarningMessage = "EDPluginControlIndexingIndicatorsv1_1: Configuration parameter '%s' not found" % self.strCONF_SYMOP_HOME
self.warning(strWarningMessage)
self.addWarningMessage(strWarningMessage)
else:
self.strSymopLib = os.path.join(strSymopHome, "symop.lib")
def configure(self):
EDPluginControl.configure(self)
EDVerbose.DEBUG("EDPluginControlCharacterisationv2_0.configure")
pluginConfiguration = self.getConfiguration()
if(pluginConfiguration != None):
strPointlessOn = EDConfiguration.getStringParamValue(pluginConfiguration, "POINTLESS")
if(strPointlessOn == None or strPointlessOn != "True"):
self.strPluginIntegrationName = "EDPluginControlIntegrationv10"
else:
self.strPluginIntegrationName = "EDPluginControlIntegrationPointlessv10"
def configure(self):
EDPluginControl.configure(self)
self.batchSize = self.config.get("batchSize")
self.hdf5BatchSize = self.config.get("hdf5BatchSize")
self._strMxCuBE_URI = self.config.get("mxCuBE_URI", None)
if self._strMxCuBE_URI is not None:
self.DEBUG("Enabling sending messages to mxCuBE via URI {0}".format(self._strMxCuBE_URI))
self._oServerProxy = xmlrpclib.ServerProxy(self._strMxCuBE_URI)
self.gnuplot = self.config.get("gnuplot", self.gnuplot)
def configure(self):
EDPluginControl.configure(self)
self.DEBUG("EDPluginControlInterfaceToMXCuBEv1_4.configure")
self.strEDNAEmailSender = self.config.get(self.EDNA_EMAIL_SENDER, self.strEDNAEmailSender)
self.strEDNAContactEmail = self.config.get(self.EDNA_CONTACT_EMAIL, self.strEDNAContactEmail)
self.strMxCuBE_URI = self.config.get("mxCuBE_URI", None)
if self.strMxCuBE_URI is not None and "mxCuBE_XMLRPC_log" in os.environ.keys():
self.DEBUG("Enabling sending messages to mxCuBE via URI {0}".format(self.strMxCuBE_URI))
self.oServerProxy = ServerProxy(self.strMxCuBE_URI)
self.minImageSize = int(self.config.get("minImageSize", self.minImageSize))
self.fMXWaitFileTimeOut = int(self.config.get("fileTimeOut", self.fMXWaitFileTimeOut))
def configure(self):
"""
Configures the plugin from the configuration file with the following parameters:
- DummyPixelValue: the value be assigned to dummy pixels.
- DummyPixelDelta: the value be assigned to delta dummy.
- DeviceType: "lut_ocl_1,3" will select device #3 on first platform #1
"""
EDPluginControl.configure(self)
if not self.__configured:
with self.semaphore:
if not self.__configured:
self.DEBUG("EDPluginBioSaxsProcessOneFilev1_5.configure")
dummy = self.config.get(self.CONF_DUMMY_PIXEL_VALUE)
if dummy is None:
strMessage = 'EDPluginBioSaxsProcessOneFilev1_5.configure: %s Configuration parameter missing: \
%s, defaulting to "%s"' % (self.getBaseName(),
self.CONF_DUMMY_PIXEL_VALUE, self.dummy)
self.WARNING(strMessage)
self.addErrorWarningMessagesToExecutiveSummary(
strMessage)
else:
self.__class__.dummy = float(dummy)
ddummy = self.config.get(self.CONF_DUMMY_PIXEL_DELTA)
if ddummy is None:
strMessage = 'EDPluginBioSaxsProcessOneFilev1_5.configure: %s Configuration parameter missing: \
%s, defaulting to "%s"' % (self.getBaseName(),
self.CONF_DUMMY_PIXEL_DELTA,
self.delta_dummy)
self.WARNING(strMessage)
self.addErrorWarningMessagesToExecutiveSummary(
strMessage)
else:
self.__class__.delta_dummy = float(ddummy)
method = self.config.get(self.CONF_OPENCL_DEVICE)
if method is None:
strMessage = 'EDPluginBioSaxsProcessOneFilev1_5.configure: %s Configuration parameter missing: \
%s, defaulting to "%s"' % (self.getBaseName(),
self.CONF_OPENCL_DEVICE, self.METHOD)
self.WARNING(strMessage)
self.addErrorWarningMessagesToExecutiveSummary(
strMessage)
else:
self.__class__.METHOD = method
number_of_bins = self.config.get(self.CONF_NUMBER_OF_BINS)
if number_of_bins is None:
strMessage = 'EDPluginBioSaxsProcessOneFilev1_5.configure: %s Configuration parameter missing: \
%s, defaulting to max(image.shape)' % (self.getBaseName(),
self.CONF_NUMBER_OF_BINS)
self.WARNING(strMessage)
self.addErrorWarningMessagesToExecutiveSummary(
strMessage)
else:
self.__class__.number_of_bins = number_of_bins
self.__class__.__configured = True
def configure(self, _edPlugin=None):
EDPluginControl.configure(self)
self.DEBUG("EDPluginControlReadImageHeaderv10.configure")
self.fMXWaitFileTimeOut = float(
self.config.get("MXWaitFileTimeOut", self.fMXWaitFileTimeOut))
self.bDoISPyBUpload = self.config.get("do_ispyb_upload")
if self.bDoISPyBUpload is None or self.bDoISPyBUpload == "false":
self.bDoISPyBUpload = False
self.minImageSize = self.config.get("minImageSize")
if self.minImageSize is None:
self.minImageSize = self.defaultMinImageSize
def configure(self):
"""
Gets the configuration parameters (if any).
"""
EDPluginControl.configure(self)
EDVerbose.DEBUG("EDPluginControlInterfacev1_1.configure")
pluginConfiguration = self.getConfiguration()
if (pluginConfiguration is None):
EDVerbose.DEBUG("No plugin configuration found for EDPluginControlInterfacev1_2.")
else:
if (self.getControlledPluginName("characterisationPlugin") is not None):
self.__strPluginCharacterisationName = self.getControlledPluginName("characterisationPlugin")
def configure(self):
EDPluginControl.configure(self)
EDVerbose.DEBUG("EDPluginControlInterfaceToMXCuBEv1_2.configure")
xsPluginItem = self.getConfiguration()
if xsPluginItem == None:
EDVerbose.DEBUG("EDPluginControlInterfaceToMXCuBEv1_2.configure: No plugin item defined.")
else:
self.__strEDNAContactEmail = EDConfiguration.getStringParamValue(xsPluginItem, EDPluginControlInterfaceToMXCuBEv1_2.__EDNA_CONTACT_EMAIL)
EDVerbose.DEBUG("EDPluginControlInterfaceToMXCuBEv1_2.configure: EDNAContactEmail = %s" % self.__strEDNAContactEmail)
strEDNAEmailSender = EDConfiguration.getStringParamValue(xsPluginItem, self.__EDNA_EMAIL_SENDER)
if strEDNAEmailSender:
self.__strEDNAEmailSender = strEDNAEmailSender
def configure(self):
"""
Configures the HPLC plugin by reading from the configuration file
- The threshold for similarity with sample & buffer
"""
EDPluginControl.configure(self)
if self.__class__.SIMILARITY_THRESHOLD_SAMPLE is None:
with self._sem:
if self.__class__.SIMILARITY_THRESHOLD_SAMPLE is None:
self.DEBUG("EDPluginBioSaxsHPLCv1_3.configure")
self.__class__.SIMILARITY_THRESHOLD_BUFFER = float(self.config.get(self.SIMILARITY_THRESHOLD_BUFFER_KEY, self.SIMILARITY_THRESHOLD_BUFFER_DEFAULT))
self.__class__.SIMILARITY_THRESHOLD_SAMPLE = float(self.config.get(self.SIMILARITY_THRESHOLD_SAMPLE_KEY, self.SIMILARITY_THRESHOLD_SAMPLE_DEFAULT))
def configure(self):
EDPluginControl.configure(self)
self.DEBUG("EDPluginControlIntegrationv10.configure")
strMaxRMSSpotDeviation = self.config.get(
self.__strCONF_CONTROL_INTEGRATION_MAX_RMS)
if (strMaxRMSSpotDeviation == None):
self.DEBUG(
"EDPluginControlIntegrationv10.configure: No configuration parameter found for: "
+ self.__strCONF_CONTROL_INTEGRATION_MAX_RMS +
", no default value.")
else:
self.setMaxRMSSpotDeviation(float(strMaxRMSSpotDeviation))
def configure(self):
EDPluginControl.configure(self)
EDVerbose.DEBUG("EDPluginControlCharacterisationv2_0.configure")
pluginConfiguration = self.getConfiguration()
if (pluginConfiguration != None):
strPointlessOn = EDConfiguration.getStringParamValue(
pluginConfiguration, "POINTLESS")
if (strPointlessOn == None or strPointlessOn != "True"):
self.strPluginIntegrationName = "EDPluginControlIntegrationv10"
else:
self.strPluginIntegrationName = "EDPluginControlIntegrationPointlessv10"
def configure(self):
"""
Gets the configuration parameters (if any).
"""
EDPluginControl.configure(self)
self.DEBUG("EDPluginControlCharacterisationv1_6.configure")
self._strMxCuBE_URI = self.config.get("mxCuBE_URI", None)
if self._strMxCuBE_URI is not None and "mxCuBE_XMLRPC_log" in os.environ.keys():
self.DEBUG("Enabling sending messages to mxCuBE via URI {0}".format(self._strMxCuBE_URI))
self._oServerProxy = xmlrpclib.ServerProxy(self._strMxCuBE_URI)
self._runKappa = self.config.get("runKappa", False)
self._fMinTransmission = self.config.get("minTransmissionWarning", self._fMinTransmission)
def configure(self):
"""
Gets the configuration parameters (if any).
"""
EDPluginControl.configure(self)
self.DEBUG("EDPluginControlInterfacev1_1.configure")
pluginConfiguration = self.getConfiguration()
if (pluginConfiguration is None):
self.DEBUG("No plugin configuration found for EDPluginControlInterfacev1_2.")
else:
if (self.getControlledPluginName("characterisationPlugin") is not None):
self.__strPluginCharacterisationName = self.getControlledPluginName("characterisationPlugin")
def configure(self):
EDPluginControl.configure(self)
EDVerbose.DEBUG("EDPluginControlInterfaceToMXCuBEv1_2.configure")
xsPluginItem = self.getConfiguration()
if xsPluginItem == None:
EDVerbose.DEBUG("EDPluginControlInterfaceToMXCuBEv1_2.configure: No plugin item defined.")
else:
self.__strEDNAContactEmail = EDConfiguration.getStringParamValue(xsPluginItem, EDPluginControlInterfaceToMXCuBEv1_2.__EDNA_CONTACT_EMAIL)
EDVerbose.DEBUG("EDPluginControlInterfaceToMXCuBEv1_2.configure: EDNAContactEmail = %s" % self.__strEDNAContactEmail)
strEDNAEmailSender = EDConfiguration.getStringParamValue(xsPluginItem, self.__EDNA_EMAIL_SENDER)
if strEDNAEmailSender:
self.__strEDNAEmailSender = strEDNAEmailSender
def configure(self):
"""
Configures the ISPyB webservice access with the following parameters:
- The "url" key from config file
"""
EDPluginControl.configure(self)
if self.URL is None:
self.DEBUG("EDPluginBioSaxsSolutionScatteringISPyBv1_0.configure")
url = self.config.get(self.CONF_URL_KEY, None)
if url:
self.__class__.URL = url
else:
self.__class__.URL = self.CONF_URL_DEFAULT
def configure(self):
"""
Configures the ISPyB webservice access with the following parameters:
- The "url" key from config file
"""
EDPluginControl.configure(self)
if self.URL is None:
self.DEBUG("EDPluginBioSaxsSolutionScatteringISPyBv1_0.configure")
url = self.config.get(self.CONF_URL_KEY, None)
if url:
self.__class__.URL = url
else:
self.__class__.URL = self.CONF_URL_DEFAULT
def configure(self):
"""
configure the plugin, mainly boiler plate code in here, to make sure the underlying code is being run
"""
EDPluginControl.configure(self)
EDVerbose.DEBUG(
strftime("%Y-%m-%d %H:%M:%S") +
" *** EDPluginControlDLSArchiverv10.configure")
xsPluginItem = self.getConfiguration()
if (xsPluginItem == None):
EDVerbose.warning(
"EDPluginControlDLSArchiverv10.configure: No DLS Archiver plugin item defined."
)
xsPluginItem = XSPluginItem()
def configure(self):
EDPluginControl.configure(self)
self.DEBUG("EDPluginControlStrategyv1_2.configure")
strSymopHome = self.config.get(self._strCONF_SYMOP_HOME)
if strSymopHome is None:
strWarningMessage = "EDPluginControlStrategyv1_2: No configuration parameter found for {0}".format(
self._strCONF_SYMOP_HOME
)
self.warning(strWarningMessage)
self.addWarningMessage(strWarningMessage)
else:
self.setSymopHome(strSymopHome)
# Even 100 images?
self.roundUpToEven100 = self.config.get("roundUpToEven100", False)
def configure(self):
"""
Gets the configuration parameters (if any).
"""
EDPluginControl.configure(self)
self.DEBUG("EDPluginControlInterfacev2_0.configure")
if (self.getControlledPluginName("subWedgeAssemblePlugin") is not None):
self.strEDPluginControlSubWedgeAssembleName = self.getControlledPluginName("subWedgeAssemblePlugin")
if (self.getControlledPluginName("characterisationPlugin") is not None):
self.strEDPluginControlCharacterisationName = self.getControlledPluginName("characterisationPlugin")
if (self.getControlledPluginName("ispybPlugin") is not None):
self.strEDPluginControlISPyBName = self.getControlledPluginName("ispybPlugin")
bUseISPyBPlugin = self.config.get("useISPyBPlugin", False)
if not bUseISPyBPlugin:
self.strEDPluginControlISPyBName = None
def configure(self):
"""
Gets the configuration parameters (if any).
"""
EDPluginControl.configure(self)
self.DEBUG("EDPluginControlCharacterisationv1_6.configure")
self._strMxCuBE_URI = self.config.get("mxCuBE_URI", None)
if self._strMxCuBE_URI is not None and "mxCuBE_XMLRPC_log" in os.environ.keys(
):
self.DEBUG(
"Enabling sending messages to mxCuBE via URI {0}".format(
self._strMxCuBE_URI))
self._oServerProxy = xmlrpclib.ServerProxy(self._strMxCuBE_URI)
self._runKappa = self.config.get("runKappa", False)
self._fMinTransmission = self.config.get("minTransmissionWarning",
self._fMinTransmission)
def configure(self):
"""
Configures the plugin from the configuration file with the following parameters
- Excpected image size
"""
EDPluginControl.configure(self)
EDVerbose.DEBUG("EDPluginControlDiffractionCTv1_2.configure")
xsPluginItem = self.getConfiguration()
if (xsPluginItem == None):
EDVerbose.warning("EDPluginControlDiffractionCTv1_2.configure: No plugin item defined.")
xsPluginItem = XSPluginItem()
strImageSize = EDConfiguration.getStringParamValue(xsPluginItem, EDPluginControlDiffractionCTv1_2.CONF_INPUT_IMAGE_SIZE)
if(strImageSize == None):
EDVerbose.WARNING("EDPluginControlDiffractionCTv1_2.configure: No configuration parameter found for: %s, using default value: %s " % (\
EDPluginControlDiffractionCTv1_2.CONF_INPUT_IMAGE_SIZE, self.iImageSize))
else:
self.iImageSize = int(strImageSize)
def configure(self):
"""
Configures the plugin from the configuration file with the following parameters:
- DummyPixelValue: the value be assigned to dummy pixels.
- DummyPixelDelta: the value be assigned to delta dummy.
- DeviceType: "lut_ocl_1,3" will select device #3 on first platform #1
"""
EDPluginControl.configure(self)
if not self.__configured:
with self.semaphore:
if not self.__configured:
self.DEBUG("EDPluginBioSaxsProcessOneFilev1_3.configure")
dummy = self.config.get(self.CONF_DUMMY_PIXEL_VALUE)
if dummy is None:
strMessage = (
'EDPluginBioSaxsProcessOneFilev1_3.configure: %s Configuration parameter missing: \
%s, defaulting to "%s"'
% (self.getBaseName(), self.CONF_DUMMY_PIXEL_VALUE, self.dummy)
)
self.WARNING(strMessage)
self.addErrorWarningMessagesToExecutiveSummary(strMessage)
else:
self.__class__.dummy = float(dummy)
ddummy = self.config.get(self.CONF_DUMMY_PIXEL_DELTA)
if ddummy is None:
strMessage = (
'EDPluginBioSaxsProcessOneFilev1_3.configure: %s Configuration parameter missing: \
%s, defaulting to "%s"'
% (self.getBaseName(), self.CONF_DUMMY_PIXEL_DELTA, self.delta_dummy)
)
self.WARNING(strMessage)
self.addErrorWarningMessagesToExecutiveSummary(strMessage)
else:
self.__class__.delta_dummy = float(ddummy)
method = self.config.get(self.CONF_OPENCL_DEVICE)
if method is None:
strMessage = (
'EDPluginBioSaxsProcessOneFilev1_3.configure: %s Configuration parameter missing: \
%s, defaulting to "%s"'
% (self.getBaseName(), self.CONF_OPENCL_DEVICE, self.METHOD)
)
self.WARNING(strMessage)
self.addErrorWarningMessagesToExecutiveSummary(strMessage)
else:
self.__class__.METHOD = method
self.__class__.__configured = True
def configure(self):
EDPluginControl.configure(self)
EDVerbose.DEBUG("EDPluginControlStrategyv1_2.configure")
pluginConfiguration = self.getConfiguration()
if(pluginConfiguration == None):
strWarningMessage = EDMessage.WARNING_NO_PLUGIN_CONFIGURATION_ITEM_FOUND_02 % ('EDPluginControlStrategyv1_2.configure', self.getPluginName())
EDVerbose.warning(strWarningMessage)
self.addWarningMessage(strWarningMessage)
else:
strSymopHome = self.getStringConfigurationParameterValue(self._strCONF_SYMOP_HOME)
if(strSymopHome == None):
strWarningMessage = EDMessage.WARNING_NO_PARAM_CONFIGURATION_ITEM_FOUND_03 % ('EDPluginControlStrategyv1_2.configure', self._strCONF_SYMOP_HOME, self.getPluginName())
EDVerbose.warning(strWarningMessage)
self.addWarningMessage(strWarningMessage)
else:
self.setSymopHome(strSymopHome)
def configure(self):
"""
Configures the plugin from the configuration file with the following parameters:
- DummyPixelValue: the value to be assigned to dummy pixels.
"""
EDPluginControl.configure(self)
self.DEBUG("EDPluginBioSaxsNormalizev1_1.configure")
xsPluginItem = self.getConfiguration()
if (xsPluginItem == None):
self.warning("EDPluginBioSaxsNormalizev1_1.configure: No plugin item defined.")
xsPluginItem = XSPluginItem()
self.dummy = EDConfiguration.getStringParamValue(xsPluginItem, self.CONF_DUMMY_PIXEL_VALUE)
if self.dummy is None:
strMessage = 'EDPluginBioSaxsNormalizev1_1.configure: %s Configuration parameter missing: \
%s, defaulting to "-1"' % (self.getBaseName(), self.CONF_DUMMY_PIXEL_VALUE)
self.WARNING(strMessage)
self.addErrorWarningMessagesToExecutiveSummary(strMessage)
self.dummy = -1
def configure(self):
"""
Configures the plugin from the configuration file with the following parameters:
- DummyPixelValue: the value to be assigned to dummy pixels.
"""
EDPluginControl.configure(self)
self.DEBUG("EDPluginBioSaxsNormalizev1_1.configure")
xsPluginItem = self.getConfiguration()
if (xsPluginItem == None):
self.warning("EDPluginBioSaxsNormalizev1_1.configure: No plugin item defined.")
xsPluginItem = XSPluginItem()
self.dummy = EDConfiguration.getStringParamValue(xsPluginItem, self.CONF_DUMMY_PIXEL_VALUE)
if self.dummy is None:
strMessage = 'EDPluginBioSaxsNormalizev1_1.configure: %s Configuration parameter missing: \
%s, defaulting to "-1"' % (self.getBaseName(), self.CONF_DUMMY_PIXEL_VALUE)
self.WARNING(strMessage)
self.addErrorWarningMessagesToExecutiveSummary(strMessage)
self.dummy = -1
def configure(self):
EDPluginControl.configure(self)
EDVerbose.DEBUG("EDPluginControlKappaStrategyv2_0.configure")
strSymopHome = self.config.get(self.strCONF_SYMOP_HOME)
if strSymopHome is None:
strWarningMessage = EDMessage.WARNING_NO_PARAM_CONFIGURATION_ITEM_FOUND_03 % ('EDPluginControlKappaStrategyv2_0.configure', self.strCONF_SYMOP_HOME, self.getPluginName())
EDVerbose.warning(strWarningMessage)
self.addWarningMessage(strWarningMessage)
else:
strSymopHomeNorm = os.path.normpath(strSymopHome)
self.setSymopHome(strSymopHomeNorm)
bKappaOn = self.config.get("KAPPA")
if bKappaOn:
#self.strPluginStrategyName = "EDPluginControlStrategyv10"
#self.strPluginStrategyName = "EDPluginControlStrategyv2_0"
self.KappaStrategy = 1
else:
self.KappaStrategy = 0
