Examples of org.uimafit.pipeline.JCasIterable

org.uimafit.pipeline.JCasIterable

    };
    Function<BinaryTextRelation, String> getOutcome = AnnotationStatistics.annotationToFeatureValue("category");


    // calculate statistics, iterating over the results of the classifier
    AnalysisEngine engine = builder.createAggregate();
    for (JCas jCas : new JCasIterable(collectionReader, engine)) {


      // get the gold view
      JCas goldView;
      try {
        goldView = jCas.getView(GOLD_VIEW_NAME);

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    AnalysisEngine classifierAnnotator = AnalysisEngineFactory.createPrimitive(ModifierExtractorAnnotator.getDescription(
        GenericJarClassifierFactory.PARAM_CLASSIFIER_JAR_PATH,
        new File(directory, "model.jar").getPath()));


    AnnotationStatistics<String> stats = new AnnotationStatistics<String>();
    for (JCas jCas : new JCasIterable(collectionReader, classifierAnnotator)) {
      JCas goldView;
      try {
        goldView = jCas.getView(GOLD_VIEW_NAME);
      } catch (CASException e) {
        throw new AnalysisEngineProcessException(e);

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      }
    };
    Function<BinaryTextRelation, String> getOutcome = AnnotationStatistics.annotationToFeatureValue("category");


    AnnotationStatistics<String> stats = new AnnotationStatistics<String>();
    JCasIterable jcasIter =new JCasIterable(collectionReader, aggregateBuilder.createAggregate());
    JCas jCas = null;
    while(jcasIter.hasNext()) {
      jCas = jcasIter.next();
      JCas goldView = jCas.getView(GOLD_VIEW_NAME);
      JCas systemView = jCas.getView(CAS.NAME_DEFAULT_SOFA);
      Collection<BinaryTextRelation> goldRelations = JCasUtil.select(
          goldView,
          BinaryTextRelation.class);

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      propertyGetters.put(name, getPropertyGetter(name));
    }


    Map<String, AnnotationStatistics<String>> statsMap = new HashMap<String, AnnotationStatistics<String>>();
    statsMap.put(DOC_TIME_REL, new AnnotationStatistics<String>());
    for (JCas jCas : new JCasIterable(collectionReader, aggregateBuilder.createAggregate())) {
      JCas goldView = jCas.getView(GOLD_VIEW_NAME);
      JCas systemView = jCas.getView(CAS.NAME_DEFAULT_SOFA);
      String text = goldView.getDocumentText();
      for (Segment segment : JCasUtil.select(jCas, Segment.class)) {
        if (!THYMEData.SEGMENTS_TO_SKIP.contains(segment.getId())) {

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          @Override
          public List<Integer> apply(Annotation annotation) {
            return Arrays.asList(annotation.getBegin(), annotation.getEnd());
          }
        });
    for (JCas jCas : new JCasIterable(collectionReader, aggregateBuilder.createAggregate())) {
      JCas goldView = jCas.getView(GOLD_VIEW_NAME);
      JCas systemView = jCas.getView(CAS.NAME_DEFAULT_SOFA);
      for (Segment segment : JCasUtil.select(jCas, Segment.class)) {
        if (!THYMEData.SEGMENTS_TO_SKIP.contains(segment.getId())) {
          Collection<? extends Annotation> goldAnnotations = this.getGoldAnnotations(goldView, segment);

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          // train the main model as well:
          evaluation.train(evaluation.getCollectionReader(allTrain), directory);
        }
        
      }
      casIters[fold] = new JCasIterable(getCollectionReader(xfoldTest), aggregateBuilder.createAggregate());
    }
    // run meta data-writer for this fold:
    AggregateBuilder writerBuilder = new AggregateBuilder();
    writerBuilder.add(CopyFromGold.getDescription(TimeMention.class));
    writerBuilder.add(this.getDataWriterDescription(directory));

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    AggregateBuilder aggregateBuilder = new AggregateBuilder();
    aggregateBuilder.add(UriToDocumentTextAnnotator.getDescription());
    aggregateBuilder.add(THYMEKnowtatorXMLReader.getDescription(knowtatorXMLDirectory));


    // walk through each document in the collection
    for (JCas jCas : new JCasIterable(reader, aggregateBuilder.createAggregate())) {
      System.err.println(ViewURIUtil.getURI(jCas));


      // collect all relations and sort them by the order they appear in the text
      Collection<BinaryTextRelation> relations = JCasUtil.select(jCas, BinaryTextRelation.class);
      List<BinaryTextRelation> relationList = new ArrayList<BinaryTextRelation>(relations);

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      }
    };
    Function<BinaryTextRelation, String> getOutcome = AnnotationStatistics.annotationToFeatureValue("category");


    AnnotationStatistics<String> stats = new AnnotationStatistics<>();
    JCasIterable jcasIter =new JCasIterable(collectionReader, aggregateBuilder.createAggregate());
    JCas jCas = null;
    while(jcasIter.hasNext()) {
      jCas = jcasIter.next();
      JCas goldView = jCas.getView(GOLD_VIEW_NAME);
      JCas systemView = jCas.getView(CAS.NAME_DEFAULT_SOFA);
      Collection<BinaryTextRelation> goldRelations = Lists.newArrayList();
      for(BinaryTextRelation relation : Lists.newArrayList(JCasUtil.select(goldView, BinaryTextRelation.class))){
        if(relation.getArg1().getArgument() != null && relation.getArg2().getArgument() != null && relation.getCategory() != null){

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        args[0]);
    PrintWriter out = new PrintWriter(args[1]);
    AnalysisEngine ae = AnalysisEngineFactory.createPrimitive(ParserEvaluationAnnotator.class, new Object[]{});
    
    JCas jcas = null;
    JCasIterable casIter = new JCasIterable(reader, ae);
    while(casIter.hasNext()){
      jcas = casIter.next();
      Collection<TopTreebankNode> nodes = JCasUtil.select(jcas, TopTreebankNode.class);
      for(TopTreebankNode tree : nodes){
        out.println(tree.getTreebankParse());
      }
    }

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        return new HashableArguments(relation);
      }
    };
    Function<BinaryTextRelation, String> getOutcome = AnnotationStatistics.annotationToFeatureValue("category");
    AnnotationStatistics<String> stats = new AnnotationStatistics<String>();
    for (JCas jCas : new JCasIterable(collectionReader, aggregateBuilder.createAggregate())) {
      JCas goldView = jCas.getView(GOLD_VIEW_NAME);
      JCas systemView = jCas.getView(CAS.NAME_DEFAULT_SOFA);
      Collection<BinaryTextRelation> goldRelations = JCasUtil.select(
          goldView,
          BinaryTextRelation.class);

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