Python XSDataDiffractionPlan.getForcedSpaceGroup方法代码示例

# 需要导入模块: from XSDataMXv1 import XSDataDiffractionPlan [as 别名]
# 或者: from XSDataMXv1.XSDataDiffractionPlan import getForcedSpaceGroup [as 别名]
 def diffractionPlan(self):
     # Do we have a diffracionPlan?
     xsDataDiffractionPlan = self.xsDataResultCharacterisation.getDataCollection().getDiffractionPlan()
     if xsDataDiffractionPlan is None:
         xsDataDiffractionPlan = XSDataDiffractionPlan()
     self.page.h2("Diffraction Plan")
     self.page.table(class_="diffractionPlan", border_="1", cellpadding_="0")
     self.page.tr(align_="CENTER", bgcolor_=self.strTableColourTitle2)
     self.page.th("Forced<br>space group")
     self.page.th("Anomalous<br>data")
     self.page.th("Aimed<br>multiplicity")
     self.page.th("Aimed<br>completeness")
     self.page.th("Aimed I/sigma<br>at highest res.")
     self.page.th("Aimed<br>resolution (&Aring;)")
     self.page.tr.close()
     self.page.tr(align_="CENTER", bgcolor_=self.strTableColourRows)
     # Forced space group
     if xsDataDiffractionPlan.getForcedSpaceGroup() is None:
         strForcedSpaceGroup = "None"
     else:
         strForcedSpaceGroup = xsDataDiffractionPlan.getForcedSpaceGroup().getValue()
     self.page.th(strForcedSpaceGroup)
     # Anomalous data
     if (
         xsDataDiffractionPlan.getAnomalousData() is None
         or xsDataDiffractionPlan.getAnomalousData().getValue() == False
     ):
         strAnomalousData = "False"
     else:
         strAnomalousData = "True"
     self.page.th(strAnomalousData)
     # Aimed multiplicity
     if xsDataDiffractionPlan.getAimedMultiplicity() is None:
         strAimedMultiplicity = "Default<br>(optimized)"
     else:
         strAimedMultiplicity = "%.2f" % xsDataDiffractionPlan.getAimedMultiplicity().getValue()
     self.page.th(strAimedMultiplicity)
     # Aimed completeness
     if xsDataDiffractionPlan.getAimedCompleteness() is None:
         strAimedCompleteness = "Default<br>(>= 0.99)"
     else:
         strAimedCompleteness = "%.2f" % xsDataDiffractionPlan.getAimedCompleteness().getValue()
     self.page.th(strAimedCompleteness)
     # Aimed aimedIOverSigmaAtHighestResolution
     if xsDataDiffractionPlan.getAimedIOverSigmaAtHighestResolution() is None:
         strAimedIOverSigmaAtHighestResolution = "BEST Default"
     else:
         strAimedIOverSigmaAtHighestResolution = (
             "%.2f" % xsDataDiffractionPlan.getAimedIOverSigmaAtHighestResolution().getValue()
         )
     self.page.th(strAimedIOverSigmaAtHighestResolution)
     # Aimed resolution
     if xsDataDiffractionPlan.getAimedResolution() is None:
         strAimedResolution = "Default<br>(highest possible)"
     else:
         strAimedResolution = "%0.2f" % xsDataDiffractionPlan.getAimedResolution().getValue()
     self.page.th(strAimedResolution)
     # Close the table
     self.page.tr.close()
     self.page.table.close()

# 需要导入模块: from XSDataMXv1 import XSDataDiffractionPlan [as 别名]
# 或者: from XSDataMXv1.XSDataDiffractionPlan import getForcedSpaceGroup [as 别名]

#.........这里部分代码省略.........

        bUseISPyBPlugin = self.config.get("useISPyBPlugin")
        if not bUseISPyBPlugin:
            self.DEBUG("EDPluginControlInterfacev1_3 configured to not use ISPyB")
            self.strEDPluginControlISPyBName = None


    def preProcess(self, _edPlugin=None):
        """
        Gets the Configuration Parameters, if found, overrides default parameters
        """
        EDPluginControl.preProcess(self, _edPlugin)
        self.DEBUG("EDPluginControlInterfacev1_3.preProcess...")

        self.listImagePaths = []

        # Check if XSDataInputInterface is given as input
        if self.hasDataInput():
            xsDataInputInterface = self.getDataInput()

            if xsDataInputInterface.getExperimentalCondition():
                self.xsDataExperimentalCodition = xsDataInputInterface.getExperimentalCondition()
                if self.xsDataExperimentalCodition.getGoniostat():
                    if self.xsDataExperimentalCodition.getGoniostat().getMinOscillationWidth():
                        self.fMinOscillationWidth = self.xsDataExperimentalCodition.getGoniostat().getMinOscillationWidth().getValue()
                    if self.xsDataExperimentalCodition.getGoniostat().getMaxOscillationSpeed():
                        self.fMaxOscillationSpeed = self.xsDataExperimentalCodition.getGoniostat().getMaxOscillationSpeed().getValue()


            self.xsDataSample = xsDataInputInterface.getSample()

            self.xsDataDiffractionPlan = self.getDataInput().getDiffractionPlan()
            if self.xsDataDiffractionPlan:
                if self.xsDataDiffractionPlan.getForcedSpaceGroup():
                    self.strForcedSpaceGroup = self.xsDataDiffractionPlan.getForcedSpaceGroup().getValue()
                if self.xsDataDiffractionPlan.getMaxExposureTimePerDataCollection():
                    self.fMaxExposureTimePerDataCollection = self.xsDataDiffractionPlan.getMaxExposureTimePerDataCollection().getValue()
                if self.xsDataDiffractionPlan.getAnomalousData():
                    self.bAnomalousData = self.xsDataDiffractionPlan.getAnomalousData().getValue()
                if self.xsDataDiffractionPlan.getStrategyOption():
                    self.strStrategyOption = self.xsDataDiffractionPlan.getStrategyOption().getValue()
                if self.xsDataDiffractionPlan.getComplexity():
                    self.strComplexity = self.xsDataDiffractionPlan.getComplexity().getValue()
                if self.fMinOscillationWidth == None:
                    if self.xsDataDiffractionPlan.getGoniostatMinOscillationWidth():
                        self.fMinOscillationWidth = self.xsDataDiffractionPlan.getGoniostatMinOscillationWidth().getValue()
                if self.fMaxOscillationSpeed == None:
                    if self.xsDataDiffractionPlan.getGoniostatMaxOscillationSpeed():
                        self.fMaxOscillationSpeed = self.xsDataDiffractionPlan.getGoniostatMaxOscillationSpeed().getValue()


            self.xsDataSample = xsDataInputInterface.getSample()

            if xsDataInputInterface.getImagePath():
                for xsDataFile in xsDataInputInterface.getImagePath():
                    self.listImagePaths.append(xsDataFile.getPath())

            if xsDataInputInterface.getFlux():
                self.fFlux = xsDataInputInterface.getFlux().getValue()
            elif self.xsDataExperimentalCodition != None:
                if self.xsDataExperimentalCodition.getBeam() != None:
                    if self.xsDataExperimentalCodition.getBeam().getFlux() != None:
                        self.fFlux = self.xsDataExperimentalCodition.getBeam().getFlux().getValue()

            if xsDataInputInterface.getMinExposureTimePerImage():
                self.fMinExposureTimePerImage = xsDataInputInterface.getMinExposureTimePerImage().getValue()

# 需要导入模块: from XSDataMXv1 import XSDataDiffractionPlan [as 别名]
# 或者: from XSDataMXv1.XSDataDiffractionPlan import getForcedSpaceGroup [as 别名]
    def preProcess(self, _edPlugin=None):
        """
        Gets the Configuration Parameters, if found, overrides default parameters
        """
        EDPluginControl.preProcess(self, _edPlugin)
        self.DEBUG("EDPluginControlInterfacev2_0.preProcess...")

        self.listImagePaths = []

        if (self.hasDataInput("diffractionPlan")):
            xsDataDiffractionPlan = XSDataDiffractionPlan()
            xsDataDiffractionPlans = self.getDataInput("diffractionPlan")
            if (not xsDataDiffractionPlans[0] is None):
                xsDataDiffractionPlan = xsDataDiffractionPlans[0]
                if (not xsDataDiffractionPlan.getForcedSpaceGroup() is None):
                    self.strForcedSpaceGroup = xsDataDiffractionPlan.getForcedSpaceGroup().getValue()
                if (not xsDataDiffractionPlan.getMaxExposureTimePerDataCollection() is None):
                    self.fMaxExposureTimePerDataCollection = xsDataDiffractionPlan.getMaxExposureTimePerDataCollection().getValue()
                if (not xsDataDiffractionPlan.getAnomalousData() is None):
                    self.bAnomalousData = xsDataDiffractionPlan.getAnomalousData().getValue()
                if (not xsDataDiffractionPlan.getStrategyOption() is None):
                    self.strStrategyOption = xsDataDiffractionPlan.getStrategyOption().getValue()
                if (not xsDataDiffractionPlan.getComplexity() is None):
                    self.strComplexity = xsDataDiffractionPlan.getComplexity().getValue()

        if (self.hasDataInput("imagePaths")):
            for strImagePath in self.getDataInput("imagePaths"):
                self.listImagePaths.append(strImagePath)
        if (self.hasDataInput("flux")):
            self.fFlux = self.getDataInput("flux")[0].getValue()
        if (self.hasDataInput("minExposureTimePerImage")):
            self.fMinExposureTimePerImage = self.getDataInput("minExposureTimePerImage")[0].getValue()
        if (self.hasDataInput("beamSize")):
            self.fBeamSize = self.getDataInput("beamSize")[0].getValue()
        if (self.hasDataInput("templateMode")):
            self.bTemplateMode = self.getDataInput("templateMode")[0].getValue()
        if (self.hasDataInput("generatedTemplateFile")):
            self.strGeneratedTemplateFile = self.getDataInput("generatedTemplateFile")[0].getValue()
        if (self.hasDataInput("generatedTemplateFileMXv2")):
            self.strGeneratedTemplateFileMXv2 = self.getDataInput("generatedTemplateFileMXv2")[0].getValue()
        if (self.hasDataInput("resultsFilePath")):
            self.strResultsFilePath = self.getDataInput("resultsFilePath")[0].getValue()
        if (self.hasDataInput("beamPosX")):
            self.fBeamPosX = self.getDataInput("beamPosX")[0].getValue()
        if (self.hasDataInput("beamPosY")):
            self.fBeamPosY = self.getDataInput("beamPosY")[0].getValue()
        if (self.hasDataInput("transmission")):
            self.fTransmission = self.getDataInput("transmission")[0].getValue()
        if (self.hasDataInput("dataCollectionId")):
            self.iDataCollectionId = self.getDataInput("dataCollectionId")[0].getValue()
        if (self.hasDataInput("shortComments")):
            self.strShortComments = self.getDataInput("shortComments")[0].getValue()
        if (self.hasDataInput("comments")):
            self.strComments = self.getDataInput("comments")[0].getValue()
        if (self.hasDataInput("inputCharacterisation")):
            self.xsDataInputCharacterisation = self.getDataInput("inputCharacterisation")[0]
        if (self.hasDataInput("mxv2DataCollection")):
            self.xsDataCollectionMXv2 = self.getDataInput("mxv2DataCollection")[0]

        # Check if XML data is given as input :
        if (self.xsDataInputCharacterisation is None):
            self.edPluginControlSubWedgeAssemble = self.loadPlugin(self.strEDPluginControlSubWedgeAssembleName, "SubWedgeAssemble")

        self.edPluginControlCharacterisation = self.loadPlugin(self.strEDPluginControlCharacterisationName, "Characterisation")

        if (self.strEDPluginControlISPyBName is not None):
            self.edPluginControlISPyB = self.loadPlugin(self.strEDPluginControlISPyBName, "ISPyB")

# 需要导入模块: from XSDataMXv1 import XSDataDiffractionPlan [as 别名]
# 或者: from XSDataMXv1.XSDataDiffractionPlan import getForcedSpaceGroup [as 别名]
 def diffractionPlan(self):
     # Do we have a diffracionPlan?
     xsDataDiffractionPlan = self.xsDataResultCharacterisation.getDataCollection().getDiffractionPlan()
     if xsDataDiffractionPlan is None:
         xsDataDiffractionPlan = XSDataDiffractionPlan()
     strTitle = "Diffraction Plan"
     strExtraColumnTitle = None
     strExtraColumnValue = None
     if xsDataDiffractionPlan.strategyOption is not None:
         strStrategyOption = xsDataDiffractionPlan.strategyOption.value
         if strStrategyOption.find("-helic") != -1:
             strTitle = "Helical Diffraction Plan"
             self.bIsHelical = True
             strExtraColumnTitle = "Helical<br>distance (mm)"
             if self.dataInput.helicalDistance is not None:
                 fHelicalDistance = self.dataInput.helicalDistance.value
                 strExtraColumnValue = "%.3f" % fHelicalDistance
             else:
                 strExtraColumnValue = "Unknown"
         elif strStrategyOption.find("-Npos") != -1:
             strTitle = "Multi-positional Diffraction Plan"
             self.bIsMultiPositional = True
     dictTable = {"type": "table",
                  "title": "Diffraction Plan",
                  "columns": [],
                  "data": []}
     dictTable["columns"].append("Forced\nspace group")
     dictTable["columns"].append("Anomalous\ndata")
     dictTable["columns"].append("Aimed\nmultiplicity")
     dictTable["columns"].append("Aimed\ncompleteness")
     dictTable["columns"].append("Aimed I/sigma\nat highest res.")
     dictTable["columns"].append("Aimed\nresolution (&Aring;)")
     dictTable["columns"].append("Min osc.\nwidth")
     if strExtraColumnTitle is not None:
         dictTable["columns"].append(strExtraColumnTitle)
     listRow = []
     # Forced space group
     if xsDataDiffractionPlan.getForcedSpaceGroup() is None:
         strForcedSpaceGroup = "None"
     else:
         strForcedSpaceGroup = xsDataDiffractionPlan.getForcedSpaceGroup().getValue()
     listRow.append(strForcedSpaceGroup)
     # Anomalous data
     if xsDataDiffractionPlan.getAnomalousData() is None or xsDataDiffractionPlan.getAnomalousData().getValue() == False:
         strAnomalousData = "False"
     else:
         strAnomalousData = "True"
     listRow.append(strAnomalousData)
     # Aimed multiplicity
     if xsDataDiffractionPlan.getAimedMultiplicity() is None:
         strAimedMultiplicity = "Default<br>(optimized)"
     else:
         strAimedMultiplicity = "%.2f" % xsDataDiffractionPlan.getAimedMultiplicity().getValue()
     listRow.append(strAimedMultiplicity)
     # Aimed completeness
     if xsDataDiffractionPlan.getAimedCompleteness() is None:
         strAimedCompleteness = "Default<br>(>= 0.99)"
     else:
         strAimedCompleteness = "%.2f" % xsDataDiffractionPlan.getAimedCompleteness().getValue()
     listRow.append(strAimedCompleteness)
     # Aimed aimedIOverSigmaAtHighestResolution
     if xsDataDiffractionPlan.getAimedIOverSigmaAtHighestResolution() is None:
         strAimedIOverSigmaAtHighestResolution = "BEST Default"
     else:
         strAimedIOverSigmaAtHighestResolution = "%.2f" % xsDataDiffractionPlan.getAimedIOverSigmaAtHighestResolution().getValue()
     listRow.append(strAimedIOverSigmaAtHighestResolution)
     # Aimed resolution
     if xsDataDiffractionPlan.getAimedResolution() is None:
         strAimedResolution = "Default<br>(highest possible)"
     else:
         strAimedResolution = "%0.2f" % xsDataDiffractionPlan.getAimedResolution().getValue()
     listRow.append(strAimedResolution)
     # Min osc width
     if xsDataDiffractionPlan.goniostatMinOscillationWidth is None:
         strMinOscWidth = "Default"
     else:
         strMinOscWidth = "%0.2f" % xsDataDiffractionPlan.goniostatMinOscillationWidth.value
     listRow.append(strMinOscWidth)
     if strExtraColumnValue is not None:
         listRow.append(strExtraColumnValue)
     #
     dictTable["data"].append(listRow)
     self.workflowStepReport.addTable(strTitle,
                                      dictTable["columns"],
                                      dictTable["data"])

# 需要导入模块: from XSDataMXv1 import XSDataDiffractionPlan [as 别名]
# 或者: from XSDataMXv1.XSDataDiffractionPlan import getForcedSpaceGroup [as 别名]

#.........这里部分代码省略.........
                self.strEDPluginControlISPyBName = self.getControlledPluginName("ispybPlugin")

            bUseISPyBPlugin = EDConfiguration.getStringParamValue(pluginConfiguration, "useISPyBPlugin")
            if (bUseISPyBPlugin.lower() != "true"):
                self.strEDPluginControlISPyBName = None


    def preProcess(self, _edPlugin=None):
        """
        Gets the Configuration Parameters, if found, overrides default parameters
        """
        EDPluginControl.preProcess(self, _edPlugin)
        EDVerbose.DEBUG("EDPluginControlInterfacev1_2.preProcess...")

        self.listImagePaths = []

        # Check if XSDataInputInterface is given as input
        if self.hasDataInput():
            xsDataInputInterface = self.getDataInput()

            if xsDataInputInterface.getExperimentalCondition():
                self.xsDataExperimentalCodition = xsDataInputInterface.getExperimentalCondition()
                if self.xsDataExperimentalCodition.getGoniostat():
                    if self.xsDataExperimentalCodition.getGoniostat().getMinOscillationWidth():
                        self.fMinOscillationWidth = self.xsDataExperimentalCodition.getGoniostat().getMinOscillationWidth().getValue()
                    if self.xsDataExperimentalCodition.getGoniostat().getMaxOscillationSpeed():
                        self.fMaxOscillationSpeed = self.xsDataExperimentalCodition.getGoniostat().getMaxOscillationSpeed().getValue()


            self.xsDataSample = xsDataInputInterface.getSample()

            self.xsDataDiffractionPlan = self.getDataInput().getDiffractionPlan()
            if self.xsDataDiffractionPlan:
                if self.xsDataDiffractionPlan.getForcedSpaceGroup():
                    self.strForcedSpaceGroup = self.xsDataDiffractionPlan.getForcedSpaceGroup().getValue()
                if self.xsDataDiffractionPlan.getMaxExposureTimePerDataCollection():
                    self.fMaxExposureTimePerDataCollection = self.xsDataDiffractionPlan.getMaxExposureTimePerDataCollection().getValue()
                if self.xsDataDiffractionPlan.getAnomalousData():
                    self.bAnomalousData = self.xsDataDiffractionPlan.getAnomalousData().getValue()
                if self.xsDataDiffractionPlan.getStrategyOption():
                    self.strStrategyOption = self.xsDataDiffractionPlan.getStrategyOption().getValue()
                if self.xsDataDiffractionPlan.getComplexity():
                    self.strComplexity = self.xsDataDiffractionPlan.getComplexity().getValue()
                if self.fMinOscillationWidth == None:
                    if self.xsDataDiffractionPlan.getGoniostatMinOscillationWidth():
                        self.fMinOscillationWidth = self.xsDataDiffractionPlan.getGoniostatMinOscillationWidth().getValue()
                if self.fMaxOscillationSpeed == None:
                    if self.xsDataDiffractionPlan.getGoniostatMaxOscillationSpeed():
                        self.fMaxOscillationSpeed = self.xsDataDiffractionPlan.getGoniostatMaxOscillationSpeed().getValue()


            self.xsDataSample = xsDataInputInterface.getSample()

            if xsDataInputInterface.getImagePath():
                for xsDataFile in xsDataInputInterface.getImagePath():
                    self.listImagePaths.append(xsDataFile.getPath())

            if xsDataInputInterface.getFlux():
                self.fFlux = xsDataInputInterface.getFlux().getValue()
            elif self.xsDataExperimentalCodition != None:
                if self.xsDataExperimentalCodition.getBeam() != None:
                    if self.xsDataExperimentalCodition.getBeam().getFlux() != None:
                        self.fFlux = self.xsDataExperimentalCodition.getBeam().getFlux().getValue()

            if xsDataInputInterface.getMinExposureTimePerImage():
                self.fMinExposureTimePerImage = xsDataInputInterface.getMinExposureTimePerImage().getValue()