I can fix the xmiCAS if I change the address of the DocumentAnnotation to be lower than the Year...
Peter Am 06.02.2014 13:23, schrieb Peter Klügl: > Hi, > > if I open the following xmiCAS in the CAS Editor, remove the Year > annotation and try to save the file, then I get the same exception. The > other annotations are removable... > > <?xml version="1.0" encoding="UTF-8"?> > <xmi:XMI xmlns:Title="http:///uima/ruta/example/Title.ecore"; > xmlns:cas="http:///uima/cas.ecore"; > xmlns:type="http:///org/apache/uima/ruta/type.ecore"; > xmlns:xmi="http://www.omg.org/XMI"; > xmlns:Author="http:///uima/ruta/example/Author.ecore"; > xmlns:tcas="http:///uima/tcas.ecore"; > xmlns:example="http:///uima/ruta/example.ecore"; xmi:version="2.0"> > <cas:NULL xmi:id="0"/> > <cas:Sofa xmi:id="1" sofaNum="1" sofaID="_InitialView" > mimeType="text" sofaString="Ogren, P.V., Wetzler, P.G., Bethard, S.: > ClearTK: A UIMA Toolkit for Statistical Natural Language Processing. In: > UIMA for NLP workshop at LREC 08. (2008) "/> > <example:Year xmi:id="8" sofa="1" begin="148" end="154"/> > <example:Author xmi:id="12" sofa="1" begin="0" end="40"/> > <example:Title xmi:id="16" sofa="1" begin="41" end="109"/> > <tcas:DocumentAnnotation xmi:id="20" sofa="1" begin="0" end="156" > language="x-unspecified"/> > <cas:View sofa="1" members="8 12 16 20"/> > </xmi:XMI> > > > Peter > > Am 06.02.2014 12:56, schrieb Peter Klügl: >> Hi, >> >> has anyone seen the following exception. I have no idea what can cause >> this problem. (the typeCode is 0 or something causing the feats int >> array to be null). I added the method that causes the problem below. It >> just removes some annotations dependent of its type. >> >> I was thinking that the problem is caused by removing annotations that >> are indexed and are the value of the feature of another indexed >> annotation. However, that works for almost all types. I would assume >> that this functionality would not depend on the actual type or the order >> in the type system, right? >> >> Any ideas is greatly appreciated. >> >> java.lang.NullPointerException >> at >> org.apache.uima.cas.impl.XmiCasSerializer$XmiCasDocSerializer.enqueueFeatures(XmiCasSerializer.java:593) >> at >> org.apache.uima.cas.impl.XmiCasSerializer$XmiCasDocSerializer.enqueueFeaturesOfIndexed(XmiCasSerializer.java:521) >> at >> org.apache.uima.cas.impl.XmiCasSerializer$XmiCasDocSerializer.serialize(XmiCasSerializer.java:241) >> at >> org.apache.uima.cas.impl.XmiCasSerializer$XmiCasDocSerializer.access$700(XmiCasSerializer.java:108) >> at >> org.apache.uima.cas.impl.XmiCasSerializer.serialize(XmiCasSerializer.java:1551) >> at >> org.apache.uima.cas.impl.XmiCasSerializer.serialize(XmiCasSerializer.java:1616) >> at >> org.apache.uima.cas.impl.XmiCasSerializer.serialize(XmiCasSerializer.java:1567) >> at >> org.apache.uima.ruta.testing.ui.handlers.RerunActionHandler.writeXmi(RerunActionHandler.java:652) >> at >> org.apache.uima.ruta.testing.ui.handlers.RerunActionHandler.access$0(RerunActionHandler.java:647) >> at >> org.apache.uima.ruta.testing.ui.handlers.RerunActionHandler$RerunHandlerJob.writeCleanInputFiles(RerunActionHandler.java:378) >> at >> org.apache.uima.ruta.testing.ui.handlers.RerunActionHandler$RerunHandlerJob.evalRutaWithClassPathScript(RerunActionHandler.java:196) >> at >> org.apache.uima.ruta.testing.ui.handlers.RerunActionHandler$RerunHandlerJob.run(RerunActionHandler.java:182) >> at org.eclipse.core.internal.jobs.Worker.run(Worker.java:53) >> >> >> private void prepareCas(CAS cas) { >> if (!includedTypes.isEmpty()) { >> // exclude all other types if there are some included types >> excludedTypes = new ArrayList<String>(); >> List<Type> types = >> cas.getTypeSystem().getProperlySubsumedTypes(cas.getAnnotationType()); >> for (Type type : types) { >> if (!includedTypes.contains(type.getName())) { >> excludedTypes.add(type.getName()); >> } >> } >> } >> if (includedTypes.isEmpty() && excludedTypes.isEmpty()) { >> // remove all annotation in default settings >> String documentText = cas.getDocumentText(); >> cas.reset(); >> cas.setDocumentText(documentText); >> } else { >> List<AnnotationFS> toRemove = new LinkedList<AnnotationFS>(); >> AnnotationIndex<AnnotationFS> annotationIndex = >> cas.getAnnotationIndex(); >> for (AnnotationFS annotationFS : annotationIndex) { >> Type type = annotationFS.getType(); >> String typeName = type.getName(); >> if (includedTypes.contains(typeName) || >> !excludedTypes.contains(typeName)) { >> toRemove.add(annotationFS); >> } >> } >> for (AnnotationFS each : toRemove) { >> if (!cas.getDocumentAnnotation().equals(each)) { >> cas.removeFsFromIndexes(each); >> } >> } >> } >> } >>
