def process(self, _edObject=None):
        EDPluginControl.process(self)
        self.DEBUG("EDPluginControlSaxsModelingv1_1.process")
        xsDataInputDammif = XSDataInputDammif(gnomOutputFile=self.xsGnomFile,
                                              unit=XSDataString(self.unit),
                                              symmetry=XSDataString(self.symmetry),
                                              mode=XSDataString(self.mode))
        for i in range(self.dammif_jobs):
            dammif = self.loadPlugin(self.strPluginExecDammif)
            dammif.connectSUCCESS(self.doSuccessExecDammif)
            dammif.connectFAILURE(self.doFailureExecDammif)
            xsd = xsDataInputDammif.copyViaDict()
            xsd.order = XSDataInteger(i + 1)
            dammif.dataInput = xsd
            self.addPluginToActionCluster(dammif)
            self.dammif_plugins.append(dammif)
        self.executeActionCluster()
        self.synchronizeActionCluster()
        for plugin in self.dammif_plugins:
            if plugin.isFailure():
                self.ERROR("dammif plugin %s-%08i failed" % (plugin.getName(), plugin.getId()))
                self.setFailure()
            self.retrieveMessages(plugin)
        if self.isFailure():
            return

        # retrieve results from best dammif
        self.dammif = self.bestDammif()

        self.chi2plot("chi2_R.png")
        self.result.chiRfactorPlot = XSDataFile(XSDataString(os.path.join(self.getWorkingDirectory(), "chi2_R.png")))

        # temporary results: use best dammif
        self.result.fitFile = self.dammif.dataOutput.fitFile
        self.result.logFile = self.dammif.dataOutput.logFile
        self.result.pdbMoleculeFile = self.dammif.dataOutput.pdbMoleculeFile
        self.result.pdbSolventFile = self.dammif.dataOutput.pdbSolventFile

        # align models, compute NSD and choose the reference model
        inputfiles = [self.dammif_plugins[idx].dataOutput.pdbMoleculeFile.path.value for idx in range(self.dammif_jobs)]
        align = AlignModels(inputfiles, slow=False)
        
        outputfiles = []
        for i in range(self.dammif_jobs):
            outputfiles.append(os.path.join(self.getWorkingDirectory(), "model-%02i.pdb" % (i+1)))
        align.outputfiles = outputfiles
        #align.outputfiles = ["model-%02i.pdb" % (i+1) for i in range(self.dammif_jobs)]
        align.validmodels = self.valid
        align.assign_models()
        align.makeNSDarray()
        align.alignment_reference()
        self.ref = align.reference
        
        pngfile = os.path.join(self.getWorkingDirectory(), "nsd.png")
        align.plotNSDarray(filename=pngfile ,save=True)
        self.result.nsdPlot = XSDataFile(XSDataString(pngfile))

#        Now that all (valid) models are aligned we can combine them using damaver
        pdbFiles = [XSDataFile(XSDataString(align.outputfiles[self.ref]))]

        for idx in range(self.dammif_jobs):
            if self.valid[idx] and idx != self.ref:
                pdbFiles.append(XSDataFile(XSDataString(align.outputfiles[idx])))

        damaver = self.loadPlugin(self.strPluginExecDamaver)
        damaver.dataInput = XSDataInputDamaver(pdbInputFiles=pdbFiles,
                                                automatic=XSDataBoolean(False))
        damaver.connectSUCCESS(self.doSuccessExecDamaver)
        damaver.connectFAILURE(self.doFailureExecDamaver)
        damaver.executeSynchronous()

        if self.isFailure():
            return

        damfilt = self.loadPlugin(self.strPluginExecDamfilt)
        damfilt.dataInput = XSDataInputDamfilt(inputPdbFile=damaver.dataOutput.damaverPdbFile)
        damfilt.connectSUCCESS(self.doSuccessExecDamfilt)
        damfilt.connectFAILURE(self.doFailureExecDamfilt)
        damfilt.execute()
        ########################################################################
        # TODO: This is a dead end : do it in parallel
        ########################################################################

        if self.isFailure():
            return

        damstart = self.loadPlugin(self.strPluginExecDamstart)
        damstart.dataInput = XSDataInputDamstart(inputPdbFile=damaver.dataOutput.damaverPdbFile)
        damstart.connectSUCCESS(self.doSuccessExecDamstart)
        damstart.connectFAILURE(self.doFailureExecDamstart)
        damstart.executeSynchronous()

        if self.isFailure():
            return
        ########################################################################
        # Finally call dammin
        ########################################################################
        if self.config.get("do_dammin") in ["False", "0", False]:
            return
        dammin = self.loadPlugin(self.strPluginExecDammin)
        dammin.dataInput = XSDataInputDammin(pdbInputFile=damstart.dataOutput.outputPdbFile,
                                             gnomOutputFile=self.xsGnomFile,
                                             symmetry=XSDataString(self.symmetry),
                                             mode=XSDataString(self.mode))
        dammin.connectSUCCESS(self.doSuccessExecDammin)
        dammin.connectFAILURE(self.doFailureExecDammin)
        dammin.executeSynchronous()
Exemplo n.º 2
0
 def testCheckParameters(self):
     xsDataInput = XSDataInputDammif()
     xsDataInput.gnomOutputFile = XSDataFile()
     edPluginExecDammif = self.createPlugin()
     edPluginExecDammif.setDataInput(xsDataInput)
     edPluginExecDammif.checkParameters()
Exemplo n.º 3
0
    def process(self, _edObject=None):
        EDPluginControl.process(self)
        self.DEBUG("EDPluginControlSaxsModelingv1_1.process")
        xsDataInputDammif = XSDataInputDammif(gnomOutputFile=self.xsGnomFile,
                                              unit=XSDataString(self.unit),
                                              symmetry=XSDataString(
                                                  self.symmetry),
                                              mode=XSDataString(self.mode))
        for i in range(self.dammif_jobs):
            dammif = self.loadPlugin(self.strPluginExecDammif)
            dammif.connectSUCCESS(self.doSuccessExecDammif)
            dammif.connectFAILURE(self.doFailureExecDammif)
            xsd = xsDataInputDammif.copyViaDict()
            xsd.order = XSDataInteger(i + 1)
            dammif.dataInput = xsd
            self.addPluginToActionCluster(dammif)
            self.dammif_plugins.append(dammif)
        self.executeActionCluster()
        self.synchronizeActionCluster()
        for plugin in self.dammif_plugins:
            if plugin.isFailure():
                self.ERROR("dammif plugin %s-%08i failed" %
                           (plugin.getName(), plugin.getId()))
                self.setFailure()
            self.retrieveMessages(plugin)
        if self.isFailure():
            return

        # retrieve results from best dammif
        self.dammif = self.bestDammif()

        self.chi2plot("chi2_R.png")
        self.result.chiRfactorPlot = XSDataFile(
            XSDataString(os.path.join(self.getWorkingDirectory(),
                                      "chi2_R.png")))

        # temporary results: use best dammif
        self.result.fitFile = self.dammif.dataOutput.fitFile
        self.result.logFile = self.dammif.dataOutput.logFile
        self.result.pdbMoleculeFile = self.dammif.dataOutput.pdbMoleculeFile
        self.result.pdbSolventFile = self.dammif.dataOutput.pdbSolventFile

        # align models, compute NSD and choose the reference model
        inputfiles = [
            self.dammif_plugins[idx].dataOutput.pdbMoleculeFile.path.value
            for idx in range(self.dammif_jobs)
        ]
        align = AlignModels(inputfiles, slow=False)

        outputfiles = []
        for i in range(self.dammif_jobs):
            outputfiles.append(
                os.path.join(self.getWorkingDirectory(),
                             "model-%02i.pdb" % (i + 1)))
        align.outputfiles = outputfiles
        #align.outputfiles = ["model-%02i.pdb" % (i+1) for i in range(self.dammif_jobs)]
        align.validmodels = self.valid
        align.assign_models()
        align.makeNSDarray()
        align.alignment_reference()
        self.ref = align.reference

        pngfile = os.path.join(self.getWorkingDirectory(), "nsd.png")
        align.plotNSDarray(filename=pngfile, save=True)
        self.result.nsdPlot = XSDataFile(XSDataString(pngfile))

        #        Now that all (valid) models are aligned we can combine them using damaver
        pdbFiles = [XSDataFile(XSDataString(align.outputfiles[self.ref]))]

        for idx in range(self.dammif_jobs):
            if self.valid[idx] and idx != self.ref:
                pdbFiles.append(
                    XSDataFile(XSDataString(align.outputfiles[idx])))

        damaver = self.loadPlugin(self.strPluginExecDamaver)
        damaver.dataInput = XSDataInputDamaver(pdbInputFiles=pdbFiles,
                                               automatic=XSDataBoolean(False))
        damaver.connectSUCCESS(self.doSuccessExecDamaver)
        damaver.connectFAILURE(self.doFailureExecDamaver)
        damaver.executeSynchronous()

        if self.isFailure():
            return

        damfilt = self.loadPlugin(self.strPluginExecDamfilt)
        damfilt.dataInput = XSDataInputDamfilt(
            inputPdbFile=damaver.dataOutput.damaverPdbFile)
        damfilt.connectSUCCESS(self.doSuccessExecDamfilt)
        damfilt.connectFAILURE(self.doFailureExecDamfilt)
        damfilt.execute()
        ########################################################################
        # TODO: This is a dead end : do it in parallel
        ########################################################################

        if self.isFailure():
            return

        damstart = self.loadPlugin(self.strPluginExecDamstart)
        damstart.dataInput = XSDataInputDamstart(
            inputPdbFile=damaver.dataOutput.damaverPdbFile)
        damstart.connectSUCCESS(self.doSuccessExecDamstart)
        damstart.connectFAILURE(self.doFailureExecDamstart)
        damstart.executeSynchronous()

        if self.isFailure():
            return
        ########################################################################
        # Finally call dammin
        ########################################################################
        if self.config.get("do_dammin") in ["False", "0", False, 0]:
            pass
            #return
        dammin = self.loadPlugin(self.strPluginExecDammin)
        dammin.dataInput = XSDataInputDammin(
            pdbInputFile=damstart.dataOutput.outputPdbFile,
            gnomOutputFile=self.xsGnomFile,
            symmetry=XSDataString(self.symmetry),
            mode=XSDataString(self.mode))
        dammin.connectSUCCESS(self.doSuccessExecDammin)
        dammin.connectFAILURE(self.doFailureExecDammin)
        dammin.executeSynchronous()
Exemplo n.º 4
0
    def process(self, _edObject=None):
        EDPluginControl.process(self)
        self.DEBUG("EDPluginControlSaxsModelingv1_0.process")
        xsDataInputDammif = XSDataInputDammif(gnomOutputFile=self.xsGnomFile,
                                              unit=XSDataString(self.unit),
                                              symmetry=XSDataString(self.symmetry),
                                              mode=XSDataString(self.mode))
        for i in range(self.dammif_jobs):
            dammif = self.loadPlugin(self.strPluginExecDammif)
            dammif.connectSUCCESS(self.doSuccessExecDammif)
            dammif.connectFAILURE(self.doFailureExecDammif)
            xsd = xsDataInputDammif.copyViaDict()
            xsd.order = XSDataInteger(i + 1)
            dammif.dataInput = xsd
            self.addPluginToActionCluster(dammif)
            self.dammif_plugins.append(dammif)
        self.executeActionCluster()
        self.synchronizeActionCluster()
        for plugin in self.dammif_plugins:
            if plugin.isFailure():
                self.ERROR("dammif plugin %s-%08i failed" % (plugin.getName(), plugin.getId()))
                self.setFailure()
            self.retrieveMessages(plugin)
        if self.isFailure():
            return

        # retrieve results from best dammif
        self.dammif = self.bestDammif()

        self.chi2plot("chi2_R.png")
        self.result.chiRfactorPlot = XSDataFile(XSDataString(os.path.join(self.getWorkingDirectory(), "chi2_R.png")))

        # temporary results: use best dammif
        self.result.fitFile = self.dammif.dataOutput.fitFile
        self.result.logFile = self.dammif.dataOutput.logFile
        self.result.pdbMoleculeFile = self.dammif.dataOutput.pdbMoleculeFile
        self.result.pdbSolventFile = self.dammif.dataOutput.pdbSolventFile

        # prepare an action cluster with all supcomb plugins
        self.actclust_supcomb = EDActionCluster(self.cluster_size)
        for idx in range(self.dammif_jobs):
            if self.valid[idx]:
                for ser in range(idx):
                    if self.valid[ser]:
                        supcomb = self.loadPlugin(self.strPluginExecSupcomb)
                        supcomb.dataInput = XSDataInputSupcomb(templateFile=self.dammif_plugins[idx].dataOutput.pdbMoleculeFile,
                                                               superimposeFile=self.dammif_plugins[ser].dataOutput.pdbMoleculeFile,
                                                               name=self.dammif_plugins[ser].dataOutput.model.name)
                        self.supcomb_plugins[(idx, ser)] = supcomb
                        self.actclust_supcomb.addAction(supcomb)
        self.actclust_supcomb.executeSynchronous()

        for key, plugin in self.supcomb_plugins.items():
            if plugin.isFailure():
                self.ERROR("supcomb plugin for model pair (%i,%i) %s-%08i failed" % (key[0] + 1, key[1] + 1, plugin.getName(), plugin.getId()))
                self.setFailure()
            self.retrieveMessages(plugin)

        if self.isFailure():
            return

        self.makeNSDarray("nsd.png")
        self.result.nsdPlot = XSDataFile(XSDataString(os.path.join(self.getWorkingDirectory(), "nsd.png")))

        idx = self.ref
        self.actclust_supcomb = EDActionCluster(self.cluster_size)
        for ser in range(self.ref + 1, self.dammif_jobs):
            if self.valid[ser]:
                supcomb = self.loadPlugin(self.strPluginExecSupcomb)
                supcomb.dataInput = XSDataInputSupcomb(templateFile=self.dammif_plugins[self.ref].dataOutput.pdbMoleculeFile,
                                                       superimposeFile=self.dammif_plugins[ser].dataOutput.pdbMoleculeFile,
                                                       name=self.dammif_plugins[ser].dataOutput.model.name)
                self.supcomb_plugins[(self.ref, ser)] = supcomb
                self.actclust_supcomb.addAction(supcomb)
        self.actclust_supcomb.executeSynchronous()

        for ser in range(self.ref + 1, self.dammif_jobs):
            if self.valid[ser]:
                plugin = self.supcomb_plugins[(self.ref, ser)]
                if plugin.isFailure():
                    self.ERROR("supcomb plugin for model pair (%i,%i) %s-%08i failed" % (self.ref + 1, ser + 1, plugin.getName(), plugin.getId()))
                    self.setFailure()
                self.retrieveMessages(plugin)
        if self.isFailure():
            return

        for i in range(self.dammif_jobs):
            if i == self.ref or not self.valid[i]:
                model = self.dammif_plugins[i].dataOutput.model
            else:
                model = self.supcomb_plugins[(self.ref, i)].dataOutput.model
                model.chiSqrt = self.dammif_plugins[i].dataOutput.model.chiSqrt
#                model.chiSqrt =  self.dammif_plugins[i].dataOutput.model.chiSqrt
            self.symlink(model.pdbFile.path.value, "model-%02i.pdb" % (i + 1))
            self.result.dammifModels[i] = model


#        Now that all (valid) models are aligned we can combine them using damaver
        pdbFiles = [self.dammif_plugins[self.ref].dataOutput.pdbMoleculeFile]

        for idx in range(self.dammif_jobs):
            if self.valid[idx] and idx != self.ref:
                pdbFiles.append(self.supcomb_plugins[(self.ref, idx)].dataOutput.outputFilename)

        damaver = self.loadPlugin(self.strPluginExecDamaver)
        damaver.dataInput = XSDataInputDamaver(pdbInputFiles=pdbFiles,
                                                automatic=XSDataBoolean(False))
        damaver.connectSUCCESS(self.doSuccessExecDamaver)
        damaver.connectFAILURE(self.doFailureExecDamaver)
        damaver.executeSynchronous()

        if self.isFailure():
            return

        damfilt = self.loadPlugin(self.strPluginExecDamfilt)
        damfilt.dataInput = XSDataInputDamfilt(inputPdbFile=damaver.dataOutput.damaverPdbFile)
        damfilt.connectSUCCESS(self.doSuccessExecDamfilt)
        damfilt.connectFAILURE(self.doFailureExecDamfilt)
        damfilt.execute()
        ########################################################################
        # TODO: This is a dead end : do it in parallel
        ########################################################################

        if self.isFailure():
            return

        damstart = self.loadPlugin(self.strPluginExecDamstart)
        damstart.dataInput = XSDataInputDamstart(inputPdbFile=damaver.dataOutput.damaverPdbFile)
        damstart.connectSUCCESS(self.doSuccessExecDamstart)
        damstart.connectFAILURE(self.doFailureExecDamstart)
        damstart.executeSynchronous()

        if self.isFailure():
            return
        ########################################################################
        # Finally call dammin
        ########################################################################
        if self.config.get("do_dammin") in ["False", "0", False, 0]:
            return
        dammin = self.loadPlugin(self.strPluginExecDammin)
        dammin.dataInput = XSDataInputDammin(pdbInputFile=damstart.dataOutput.outputPdbFile,
                                             gnomOutputFile=self.xsGnomFile,
                                             symmetry=XSDataString(self.symmetry),
                                             mode=XSDataString(self.mode))
        dammin.connectSUCCESS(self.doSuccessExecDammin)
        dammin.connectFAILURE(self.doFailureExecDammin)
        dammin.executeSynchronous()
Exemplo n.º 5
0
    def process(self, _edObject=None):
        EDPluginControl.process(self)
        self.DEBUG("EDPluginControlSaxsModelingv1_0.process")
        xsDataInputDammif = XSDataInputDammif(gnomOutputFile=self.xsGnomFile,
                                              unit=XSDataString(self.unit),
                                              symmetry=XSDataString(
                                                  self.symmetry),
                                              mode=XSDataString(self.mode))
        for i in range(self.dammif_jobs):
            dammif = self.loadPlugin(self.strPluginExecDammif)
            dammif.connectSUCCESS(self.doSuccessExecDammif)
            dammif.connectFAILURE(self.doFailureExecDammif)
            xsd = xsDataInputDammif.copyViaDict()
            xsd.order = XSDataInteger(i + 1)
            dammif.dataInput = xsd
            self.addPluginToActionCluster(dammif)
            self.dammif_plugins.append(dammif)
        self.executeActionCluster()
        self.synchronizeActionCluster()
        for plugin in self.dammif_plugins:
            if plugin.isFailure():
                self.ERROR("dammif plugin %s-%08i failed" %
                           (plugin.getName(), plugin.getId()))
                self.setFailure()
            self.retrieveMessages(plugin)
        if self.isFailure():
            return

        # retrieve results from best dammif
        self.dammif = self.bestDammif()

        self.chi2plot("chi2_R.png")
        self.result.chiRfactorPlot = XSDataFile(
            XSDataString(os.path.join(self.getWorkingDirectory(),
                                      "chi2_R.png")))

        # temporary results: use best dammif
        self.result.fitFile = self.dammif.dataOutput.fitFile
        self.result.logFile = self.dammif.dataOutput.logFile
        self.result.pdbMoleculeFile = self.dammif.dataOutput.pdbMoleculeFile
        self.result.pdbSolventFile = self.dammif.dataOutput.pdbSolventFile

        # prepare an action cluster with all supcomb plugins
        self.actclust_supcomb = EDActionCluster(self.cluster_size)
        for idx in range(self.dammif_jobs):
            if self.valid[idx]:
                for ser in range(idx):
                    if self.valid[ser]:
                        supcomb = self.loadPlugin(self.strPluginExecSupcomb)
                        supcomb.dataInput = XSDataInputSupcomb(
                            templateFile=self.dammif_plugins[idx].dataOutput.
                            pdbMoleculeFile,
                            superimposeFile=self.dammif_plugins[ser].
                            dataOutput.pdbMoleculeFile,
                            name=self.dammif_plugins[ser].dataOutput.model.name
                        )
                        self.supcomb_plugins[(idx, ser)] = supcomb
                        self.actclust_supcomb.addAction(supcomb)
        self.actclust_supcomb.executeSynchronous()

        for key, plugin in self.supcomb_plugins.items():
            if plugin.isFailure():
                self.ERROR(
                    "supcomb plugin for model pair (%i,%i) %s-%08i failed" %
                    (key[0] + 1, key[1] + 1, plugin.getName(), plugin.getId()))
                self.setFailure()
            self.retrieveMessages(plugin)

        if self.isFailure():
            return

        self.makeNSDarray("nsd.png")
        self.result.nsdPlot = XSDataFile(
            XSDataString(os.path.join(self.getWorkingDirectory(), "nsd.png")))

        idx = self.ref
        self.actclust_supcomb = EDActionCluster(self.cluster_size)
        for ser in range(self.ref + 1, self.dammif_jobs):
            if self.valid[ser]:
                supcomb = self.loadPlugin(self.strPluginExecSupcomb)
                supcomb.dataInput = XSDataInputSupcomb(
                    templateFile=self.dammif_plugins[
                        self.ref].dataOutput.pdbMoleculeFile,
                    superimposeFile=self.dammif_plugins[ser].dataOutput.
                    pdbMoleculeFile,
                    name=self.dammif_plugins[ser].dataOutput.model.name)
                self.supcomb_plugins[(self.ref, ser)] = supcomb
                self.actclust_supcomb.addAction(supcomb)
        self.actclust_supcomb.executeSynchronous()

        for ser in range(self.ref + 1, self.dammif_jobs):
            if self.valid[ser]:
                plugin = self.supcomb_plugins[(self.ref, ser)]
                if plugin.isFailure():
                    self.ERROR(
                        "supcomb plugin for model pair (%i,%i) %s-%08i failed"
                        % (self.ref + 1, ser + 1, plugin.getName(),
                           plugin.getId()))
                    self.setFailure()
                self.retrieveMessages(plugin)
        if self.isFailure():
            return

        for i in range(self.dammif_jobs):
            if i == self.ref or not self.valid[i]:
                model = self.dammif_plugins[i].dataOutput.model
            else:
                model = self.supcomb_plugins[(self.ref, i)].dataOutput.model
                model.chiSqrt = self.dammif_plugins[i].dataOutput.model.chiSqrt
#                model.chiSqrt =  self.dammif_plugins[i].dataOutput.model.chiSqrt
            self.symlink(model.pdbFile.path.value, "model-%02i.pdb" % (i + 1))
            self.result.dammifModels[i] = model

#        Now that all (valid) models are aligned we can combine them using damaver
        pdbFiles = [self.dammif_plugins[self.ref].dataOutput.pdbMoleculeFile]

        for idx in range(self.dammif_jobs):
            if self.valid[idx] and idx != self.ref:
                pdbFiles.append(
                    self.supcomb_plugins[(self.ref,
                                          idx)].dataOutput.outputFilename)

        damaver = self.loadPlugin(self.strPluginExecDamaver)
        damaver.dataInput = XSDataInputDamaver(pdbInputFiles=pdbFiles,
                                               automatic=XSDataBoolean(False))
        damaver.connectSUCCESS(self.doSuccessExecDamaver)
        damaver.connectFAILURE(self.doFailureExecDamaver)
        damaver.executeSynchronous()

        if self.isFailure():
            return

        damfilt = self.loadPlugin(self.strPluginExecDamfilt)
        damfilt.dataInput = XSDataInputDamfilt(
            inputPdbFile=damaver.dataOutput.damaverPdbFile)
        damfilt.connectSUCCESS(self.doSuccessExecDamfilt)
        damfilt.connectFAILURE(self.doFailureExecDamfilt)
        damfilt.execute()
        ########################################################################
        # TODO: This is a dead end : do it in parallel
        ########################################################################

        if self.isFailure():
            return

        damstart = self.loadPlugin(self.strPluginExecDamstart)
        damstart.dataInput = XSDataInputDamstart(
            inputPdbFile=damaver.dataOutput.damaverPdbFile)
        damstart.connectSUCCESS(self.doSuccessExecDamstart)
        damstart.connectFAILURE(self.doFailureExecDamstart)
        damstart.executeSynchronous()

        if self.isFailure():
            return
        ########################################################################
        # Finally call dammin
        ########################################################################
        if self.config.get("do_dammin") in ["False", "0", False, 0]:
            return
        dammin = self.loadPlugin(self.strPluginExecDammin)
        dammin.dataInput = XSDataInputDammin(
            pdbInputFile=damstart.dataOutput.outputPdbFile,
            gnomOutputFile=self.xsGnomFile,
            symmetry=XSDataString(self.symmetry),
            mode=XSDataString(self.mode))
        dammin.connectSUCCESS(self.doSuccessExecDammin)
        dammin.connectFAILURE(self.doFailureExecDammin)
        dammin.executeSynchronous()
 def testCheckParameters(self):
     xsDataInput = XSDataInputDammif()
     xsDataInput.gnomOutputFile = XSDataFile()
     edPluginExecDammif = self.createPlugin()
     edPluginExecDammif.setDataInput(xsDataInput)
     edPluginExecDammif.checkParameters()