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From ruwi1025@gmail.com <ruwi1...@gmail.com>
Subject Re: XCASParsingException while using DKPro with UIMA RUTA for POS tagging
Date Wed, 28 Feb 2018 12:52:31 GMT
Hi peter,

I imported the DKPro type system descriptor to my script as follows and set the preference
to 'Load CAS leniently' and now it works fine.


IMPORT PACKAGE de.tudarmstadt.ukp.dkpro.core.api.lexmorph.type.pos FROM desc.type.POS AS pos;
IMPORT de.tudarmstadt.ukp.dkpro.core.api.segmentation.type.Lemma FROM desc.type.LexicalUnits;

IMPORT de.tudarmstadt.ukp.dkpro.core.api.metadata.type.TagsetDescription;
UIMAFIT de.tudarmstadt.ukp.dkpro.core.opennlp.OpenNlpSegmenter;
UIMAFIT de.tudarmstadt.ukp.dkpro.core.stanfordnlp.StanfordPosTagger; 
UIMAFIT de.tudarmstadt.ukp.dkpro.core.stanfordnlp.StanfordLemmatizer;  
 
uima.tcas.DocumentAnnotation{-CONTAINS(pos.POS)} -> {
    uima.tcas.DocumentAnnotation{-> SETFEATURE("language", "en")};
    EXEC(OpenNlpSegmenter);
    EXEC(StanfordPosTagger, {pos.POS}); 
    };

Thank you so much, i have been banging my head trying to figure this out since yesterday.


Regards,
Ruwini.

On 2018/02/28 10:41:46, Peter Klügl <peter.kluegl@averbis.com> wrote: 
> Hi,
> 
> 
> this error occurs if you try to open the CAS Editor and the selected
> type system description does not contain all types present in the CAS.
> 
> 
> There are several ways to solve the problem.
> 
> Probably, the type system description that was selected is the
> description generated for the Ruta script. Then, you can simply import
> the required types in your script. This is at least
> de.tudarmstadt.ukp.dkpro.core.api.metadata.type.TagsetDescription in
> your use case. If you use a different type system, you need to add it there.
> 
> If you do not care about those other types, you can tell the CAS Editor
> to ignore them.
> 
> Open Menu->Window->Preferences->UIMA Cas Editor->Annotation Editor
> 
> And check the option "Load CAS leniently". Please mind that you will
> lose annotations if you save a modified CAS.
> 
> 
> Best,
> 
> 
> Peter
> 
> 
> 
> Am 28.02.2018 um 09:19 schrieb Ruwini Wijesiri:
> > Hi,
> >
> > I am new to using UIMA Ruta and I have been trying to get the POS tags
> > using DKPRo. I tried POS tagging by refering to the german novel
> > example[1], but i get an error saying editor couldn't be initilized due to
> > the following exception;
> >
> > org.apache.uima.UIMARuntimeException
> >> at org.apache.uima.util.CasIOUtils.load(CasIOUtils.java:368)
> >> at org.apache.uima.util.CasIOUtils.load(CasIOUtils.java:312)
> >> at org.apache.uima.util.CasIOUtils.load(CasIOUtils.java:193)
> >> at org.apache.uima.util.CasIOUtils.load(CasIOUtils.java:218)
> >> at
> >> org.apache.uima.caseditor.editor.DocumentUimaImpl.setContent(DocumentUimaImpl.java:248)
> >> at
> >> org.apache.uima.caseditor.editor.DocumentUimaImpl.<init>(DocumentUimaImpl.java:100)
> >> at
> >> org.apache.uima.caseditor.ide.DefaultCasDocumentProvider.createDocument(DefaultCasDocumentProvider.java:405)
> >> at
> >> org.apache.uima.caseditor.editor.TextDocumentProvider.createDocument(TextDocumentProvider.java:78)
> >> at
> >> org.eclipse.ui.texteditor.AbstractDocumentProvider.createElementInfo(AbstractDocumentProvider.java:327)
> >> at
> >> org.apache.uima.caseditor.editor.TextDocumentProvider.createElementInfo(TextDocumentProvider.java:110)
> >> at
> >> org.eclipse.ui.texteditor.AbstractDocumentProvider.connect(AbstractDocumentProvider.java:392)
> >> at
> >> org.eclipse.ui.texteditor.AbstractTextEditor.doSetInput(AbstractTextEditor.java:4178)
> >> at
> >> org.eclipse.ui.texteditor.StatusTextEditor.doSetInput(StatusTextEditor.java:257)
> >> at
> >> org.apache.uima.caseditor.editor.AnnotationEditor.doSetInput(AnnotationEditor.java:837)
> >> at
> >> org.eclipse.ui.texteditor.AbstractTextEditor$5.run(AbstractTextEditor.java:3154)
> >> at
> >> org.eclipse.jface.operation.ModalContext.runInCurrentThread(ModalContext.java:437)
> >> at org.eclipse.jface.operation.ModalContext.run(ModalContext.java:353)
> >> at
> >> org.eclipse.ui.internal.WorkbenchWindow$14.run(WorkbenchWindow.java:2195)
> >> at org.eclipse.swt.custom.BusyIndicator.showWhile(BusyIndicator.java:70)
> >> at org.eclipse.ui.internal.WorkbenchWindow.run(WorkbenchWindow.java:2191)
> >> at
> >> org.eclipse.ui.texteditor.AbstractTextEditor.internalInit(AbstractTextEditor.java:3172)
> >> at
> >> org.eclipse.ui.texteditor.AbstractTextEditor.init(AbstractTextEditor.java:3197)
> >> at
> >> org.apache.uima.caseditor.editor.AnnotationEditor.init(AnnotationEditor.java:594)
> >> at
> >> org.eclipse.ui.internal.EditorReference.initialize(EditorReference.java:362)
> >> at
> >> org.eclipse.ui.internal.e4.compatibility.CompatibilityPart.create(CompatibilityPart.java:333)
> >> at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
> >> at sun.reflect.NativeMethodAccessorImpl.invoke(Unknown Source)
> >> at sun.reflect.DelegatingMethodAccessorImpl.invoke(Unknown Source)
> >> at java.lang.reflect.Method.invoke(Unknown Source)
> >> at
> >> org.eclipse.e4.core.internal.di.MethodRequestor.execute(MethodRequestor.java:55)
> >> at
> >> org.eclipse.e4.core.internal.di.InjectorImpl.processAnnotated(InjectorImpl.java:990)
> >> at
> >> org.eclipse.e4.core.internal.di.InjectorImpl.processAnnotated(InjectorImpl.java:955)
> >> at
> >> org.eclipse.e4.core.internal.di.InjectorImpl.inject(InjectorImpl.java:124)
> >> at
> >> org.eclipse.e4.core.internal.di.InjectorImpl.internalMake(InjectorImpl.java:399)
> >> at org.eclipse.e4.core.internal.di.InjectorImpl.make(InjectorImpl.java:318)
> >> at
> >> org.eclipse.e4.core.contexts.ContextInjectionFactory.make(ContextInjectionFactory.java:162)
> >> at
> >> org.eclipse.e4.ui.internal.workbench.ReflectionContributionFactory.createFromBundle(ReflectionContributionFactory.java:105)
> >> at
> >> org.eclipse.e4.ui.internal.workbench.ReflectionContributionFactory.doCreate(ReflectionContributionFactory.java:74)
> >> at
> >> org.eclipse.e4.ui.internal.workbench.ReflectionContributionFactory.create(ReflectionContributionFactory.java:56)
> >> at
> >> org.eclipse.e4.ui.workbench.renderers.swt.ContributedPartRenderer.createWidget(ContributedPartRenderer.java:129)
> >> at
> >> org.eclipse.e4.ui.internal.workbench.swt.PartRenderingEngine.createWidget(PartRenderingEngine.java:992)
> >> at
> >> org.eclipse.e4.ui.internal.workbench.swt.PartRenderingEngine.safeCreateGui(PartRenderingEngine.java:661)
> >> at
> >> org.eclipse.e4.ui.internal.workbench.swt.PartRenderingEngine.safeCreateGui(PartRenderingEngine.java:767)
> >> at
> >> org.eclipse.e4.ui.internal.workbench.swt.PartRenderingEngine.access$0(PartRenderingEngine.java:738)
> >> at
> >> org.eclipse.e4.ui.internal.workbench.swt.PartRenderingEngine$2.run(PartRenderingEngine.java:732)
> >> at org.eclipse.core.runtime.SafeRunner.run(SafeRunner.java:42)
> >> at
> >> org.eclipse.e4.ui.internal.workbench.swt.PartRenderingEngine.createGui(PartRenderingEngine.java:716)
> >> at
> >> org.eclipse.e4.ui.internal.workbench.PartServiceImpl$1.handleEvent(PartServiceImpl.java:104)
> >> at
> >> org.eclipse.e4.ui.services.internal.events.UIEventHandler$1.run(UIEventHandler.java:40)
> >> at org.eclipse.swt.widgets.Synchronizer.syncExec(Synchronizer.java:233)
> >> at org.eclipse.ui.internal.UISynchronizer.syncExec(UISynchronizer.java:144)
> >> at org.eclipse.swt.widgets.Display.syncExec(Display.java:4889)
> >> at
> >> org.eclipse.e4.ui.internal.workbench.swt.E4Application$1.syncExec(E4Application.java:212)
> >> at
> >> org.eclipse.e4.ui.services.internal.events.UIEventHandler.handleEvent(UIEventHandler.java:36)
> >> at
> >> org.eclipse.equinox.internal.event.EventHandlerWrapper.handleEvent(EventHandlerWrapper.java:201)
> >> at
> >> org.eclipse.equinox.internal.event.EventHandlerTracker.dispatchEvent(EventHandlerTracker.java:197)
> >> at
> >> org.eclipse.equinox.internal.event.EventHandlerTracker.dispatchEvent(EventHandlerTracker.java:1)
> >> at
> >> org.eclipse.osgi.framework.eventmgr.EventManager.dispatchEvent(EventManager.java:230)
> >> at
> >> org.eclipse.osgi.framework.eventmgr.ListenerQueue.dispatchEventSynchronous(ListenerQueue.java:148)
> >> at
> >> org.eclipse.equinox.internal.event.EventAdminImpl.dispatchEvent(EventAdminImpl.java:135)
> >> at
> >> org.eclipse.equinox.internal.event.EventAdminImpl.sendEvent(EventAdminImpl.java:78)
> >> at
> >> org.eclipse.equinox.internal.event.EventComponent.sendEvent(EventComponent.java:39)
> >> at
> >> org.eclipse.e4.ui.services.internal.events.EventBroker.send(EventBroker.java:52)
> >> at
> >> org.eclipse.e4.ui.internal.workbench.UIEventPublisher.notifyChanged(UIEventPublisher.java:60)
> >> at
> >> org.eclipse.emf.common.notify.impl.BasicNotifierImpl.eNotify(BasicNotifierImpl.java:374)
> >> at
> >> org.eclipse.e4.ui.model.application.ui.impl.ElementContainerImpl.setSelectedElement(ElementContainerImpl.java:173)
> >> at
> >> org.eclipse.e4.ui.internal.workbench.ModelServiceImpl.showElementInWindow(ModelServiceImpl.java:620)
> >> at
> >> org.eclipse.e4.ui.internal.workbench.ModelServiceImpl.bringToTop(ModelServiceImpl.java:584)
> >> at
> >> org.eclipse.e4.ui.internal.workbench.PartServiceImpl.delegateBringToTop(PartServiceImpl.java:769)
> >> at
> >> org.eclipse.e4.ui.internal.workbench.PartServiceImpl.bringToTop(PartServiceImpl.java:401)
> >> at
> >> org.eclipse.e4.ui.internal.workbench.PartServiceImpl.showPart(PartServiceImpl.java:1188)
> >> at
> >> org.eclipse.ui.internal.WorkbenchPage.busyOpenEditor(WorkbenchPage.java:3261)
> >> at org.eclipse.ui.internal.WorkbenchPage.access$25(WorkbenchPage.java:3176)
> >> at org.eclipse.ui.internal.WorkbenchPage$10.run(WorkbenchPage.java:3158)
> >> at org.eclipse.swt.custom.BusyIndicator.showWhile(BusyIndicator.java:70)
> >> at
> >> org.eclipse.ui.internal.WorkbenchPage.openEditor(WorkbenchPage.java:3153)
> >> at
> >> org.eclipse.ui.internal.WorkbenchPage.openEditor(WorkbenchPage.java:3117)
> >> at
> >> org.eclipse.ui.internal.WorkbenchPage.openEditor(WorkbenchPage.java:3107)
> >> at org.eclipse.ui.ide.IDE.openEditor(IDE.java:563)
> >> at org.eclipse.ui.ide.IDE.openEditor(IDE.java:518)
> >> at
> >> org.eclipse.dltk.internal.ui.editor.EditorUtility.openInEditor(EditorUtility.java:403)
> >> at
> >> org.eclipse.dltk.internal.ui.editor.EditorUtility.openInEditor(EditorUtility.java:155)
> >> at
> >> org.eclipse.dltk.internal.ui.actions.OpenActionUtil.open(OpenActionUtil.java:44)
> >> at org.eclipse.dltk.ui.actions.OpenAction.run(OpenAction.java:264)
> >> at org.eclipse.dltk.ui.actions.OpenAction.run(OpenAction.java:245)
> >> at
> >> org.eclipse.dltk.ui.actions.SelectionDispatchAction.dispatchRun(SelectionDispatchAction.java:254)
> >> at
> >> org.eclipse.dltk.ui.actions.SelectionDispatchAction.run(SelectionDispatchAction.java:232)
> >> at
> >> org.eclipse.dltk.internal.ui.scriptview.ScriptExplorerActionGroup.handleOpen(ScriptExplorerActionGroup.java:326)
> >> at
> >> org.eclipse.dltk.internal.ui.scriptview.ScriptExplorerPart.lambda$2(ScriptExplorerPart.java:675)
> >> at
> >> org.eclipse.jface.viewers.StructuredViewer$2.run(StructuredViewer.java:851)
> >> at org.eclipse.core.runtime.SafeRunner.run(SafeRunner.java:42)
> >> at org.eclipse.ui.internal.JFaceUtil.lambda$0(JFaceUtil.java:44)
> >> at org.eclipse.jface.util.SafeRunnable.run(SafeRunnable.java:173)
> >> at
> >> org.eclipse.jface.viewers.StructuredViewer.fireOpen(StructuredViewer.java:848)
> >> at
> >> org.eclipse.jface.viewers.StructuredViewer.handleOpen(StructuredViewer.java:1163)
> >> at org.eclipse.jface.util.OpenStrategy.fireOpenEvent(OpenStrategy.java:273)
> >> at org.eclipse.jface.util.OpenStrategy.access$2(OpenStrategy.java:268)
> >> at org.eclipse.jface.util.OpenStrategy$1.handleEvent(OpenStrategy.java:308)
> >> at org.eclipse.swt.widgets.EventTable.sendEvent(EventTable.java:86)
> >> at org.eclipse.swt.widgets.Display.sendEvent(Display.java:4428)
> >> at org.eclipse.swt.widgets.Widget.sendEvent(Widget.java:1079)
> >> at org.eclipse.swt.widgets.Display.runDeferredEvents(Display.java:4238)
> >> at org.eclipse.swt.widgets.Display.readAndDispatch(Display.java:3817)
> >> at
> >> org.eclipse.e4.ui.internal.workbench.swt.PartRenderingEngine$5.run(PartRenderingEngine.java:1150)
> >> at
> >> org.eclipse.core.databinding.observable.Realm.runWithDefault(Realm.java:336)
> >> at
> >> org.eclipse.e4.ui.internal.workbench.swt.PartRenderingEngine.run(PartRenderingEngine.java:1039)
> >> at
> >> org.eclipse.e4.ui.internal.workbench.E4Workbench.createAndRunUI(E4Workbench.java:153)
> >> at org.eclipse.ui.internal.Workbench.lambda$3(Workbench.java:680)
> >> at
> >> org.eclipse.core.databinding.observable.Realm.runWithDefault(Realm.java:336)
> >> at
> >> org.eclipse.ui.internal.Workbench.createAndRunWorkbench(Workbench.java:594)
> >> at org.eclipse.ui.PlatformUI.createAndRunWorkbench(PlatformUI.java:148)
> >> at
> >> org.eclipse.ui.internal.ide.application.IDEApplication.start(IDEApplication.java:151)
> >> at
> >> org.eclipse.equinox.internal.app.EclipseAppHandle.run(EclipseAppHandle.java:196)
> >> at
> >> org.eclipse.core.runtime.internal.adaptor.EclipseAppLauncher.runApplication(EclipseAppLauncher.java:134)
> >> at
> >> org.eclipse.core.runtime.internal.adaptor.EclipseAppLauncher.start(EclipseAppLauncher.java:104)
> >> at
> >> org.eclipse.core.runtime.adaptor.EclipseStarter.run(EclipseStarter.java:388)
> >> at
> >> org.eclipse.core.runtime.adaptor.EclipseStarter.run(EclipseStarter.java:243)
> >> at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
> >> at sun.reflect.NativeMethodAccessorImpl.invoke(Unknown Source)
> >> at sun.reflect.DelegatingMethodAccessorImpl.invoke(Unknown Source)
> >> at java.lang.reflect.Method.invoke(Unknown Source)
> >> at org.eclipse.equinox.launcher.Main.invokeFramework(Main.java:653)
> >> at org.eclipse.equinox.launcher.Main.basicRun(Main.java:590)
> >> at org.eclipse.equinox.launcher.Main.run(Main.java:1499)
> >> Caused by: XCASParsingException: Error parsing XCAS or XMI-CAS from source
> >> <unknown> at line <unknown>, column <unknown>: unknown type:
> >> de.tudarmstadt.ukp.dkpro.core.api.metadata.type.TagsetDescription.
> >> at
> >> org.apache.uima.cas.impl.XmiCasDeserializer$XmiCasDeserializerHandler.createException(XmiCasDeserializer.java:1635)
> >> at
> >> org.apache.uima.cas.impl.XmiCasDeserializer$XmiCasDeserializerHandler.createException(XmiCasDeserializer.java:1657)
> >> at
> >> org.apache.uima.cas.impl.XmiCasDeserializer$XmiCasDeserializerHandler.readFS(XmiCasDeserializer.java:490)
> >> at
> >> org.apache.uima.cas.impl.XmiCasDeserializer$XmiCasDeserializerHandler.startElement(XmiCasDeserializer.java:409)
> >> at
> >> org.apache.uima.util.XmlCasDeserializer$XmlCasDeserializerHandler.startElement(XmlCasDeserializer.java:150)
> >> at
> >> com.sun.org.apache.xerces.internal.parsers.AbstractSAXParser.startElement(Unknown
> >> Source)
> >> at
> >> com.sun.org.apache.xerces.internal.parsers.AbstractXMLDocumentParser.emptyElement(Unknown
> >> Source)
> >> at
> >> com.sun.org.apache.xerces.internal.impl.XMLNSDocumentScannerImpl.scanStartElement(Unknown
> >> Source)
> >> at
> >> com.sun.org.apache.xerces.internal.impl.XMLDocumentFragmentScannerImpl$FragmentContentDriver.next(Unknown
> >> Source)
> >> at
> >> com.sun.org.apache.xerces.internal.impl.XMLDocumentScannerImpl.next(Unknown
> >> Source)
> >> at
> >> com.sun.org.apache.xerces.internal.impl.XMLNSDocumentScannerImpl.next(Unknown
> >> Source)
> >> at
> >> com.sun.org.apache.xerces.internal.impl.XMLDocumentFragmentScannerImpl.scanDocument(Unknown
> >> Source)
> >> at
> >> com.sun.org.apache.xerces.internal.parsers.XML11Configuration.parse(Unknown
> >> Source)
> >> at
> >> com.sun.org.apache.xerces.internal.parsers.XML11Configuration.parse(Unknown
> >> Source)
> >> at com.sun.org.apache.xerces.internal.parsers.XMLParser.parse(Unknown
> >> Source)
> >> at
> >> com.sun.org.apache.xerces.internal.parsers.AbstractSAXParser.parse(Unknown
> >> Source)
> >> at
> >> org.apache.uima.util.XmlCasDeserializer.deserializeR(XmlCasDeserializer.java:111)
> >> at org.apache.uima.util.CasIOUtils.load(CasIOUtils.java:366)
> >> ... 123 more
> >>
> >>
> > The script i tried to run is as follow;
> >
> > IMPORT PACKAGE de.tudarmstadt.ukp.dkpro.core.api.lexmorph.type.pos FROM
> >> desc.type.POS AS pos;
> >> IMPORT de.tudarmstadt.ukp.dkpro.core.api.segmentation.type.Lemma FROM
> >> desc.type.LexicalUnits;
> >> UIMAFIT de.tudarmstadt.ukp.dkpro.core.opennlp.OpenNlpSegmenter;
> >> UIMAFIT de.tudarmstadt.ukp.dkpro.core.stanfordnlp.StanfordPosTagger;
> >> UIMAFIT de.tudarmstadt.ukp.dkpro.core.stanfordnlp.StanfordLemmatizer;
> >> uima.tcas.DocumentAnnotation{-CONTAINS(pos.POS)} -> {
> >>     uima.tcas.DocumentAnnotation{-> SETFEATURE("language", "en")};
> >>     EXEC(OpenNlpSegmenter);
> >>     EXEC(StanfordPosTagger, {pos.POS});
> >>     };
> >
> >
> >
> > I couldn't find anyway to resolve this issue and im very new to RUTA. I'd
> > greatful if someone could help me out with this.
> >
> > [1].https://github.com/pkluegl/ruta/tree/master/ruta-german-novel-with-dkpro
> >
> > Thanks in advance,
> > Regards,
> > Ruwini
> >
> 
> -- 
> Peter Klügl
> R&D Text Mining/Machine Learning
> 
> Averbis GmbH
> Tennenbacher Str. 11
> 79106 Freiburg
> Germany
> 
> Fon: +49 761 708 394 0
> Fax: +49 761 708 394 10
> Email: peter.kluegl@averbis.com
> Web: https://averbis.com
> 
> Headquarters: Freiburg im Breisgau
> Register Court: Amtsgericht Freiburg im Breisgau, HRB 701080
> Managing Directors: Dr. med. Philipp Daumke, Dr. Kornél Markó
> 
> 

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