How to use uk.gov.dstl.baleen.uima

@Override
public final void process(final JCas aJCas) throws AnalysisEngineProcessException {
 monitor.startFunction("execute");
 execute(new JobSettings(aJCas));
 monitor.finishFunction("execute");
 monitor.persistCounts();
}

@Override
public final void processStream(InputStream stream, String source, JCas jCas) throws IOException {
 monitor.startFunction("process");
 doProcessStream(stream, source, jCas);
 monitor.finishFunction("process");
 monitor.persistCounts();
}

/**
 * Merge an existing annotation with old annotations, removing the old annotations.
 *
 * @param existingAnnotation The annotation which exists and is to be left in the document
 *     (merged)
 * @param annotations Annotation(s) which have been merged wiht existingAnnotation and then
 *     removed
 */
protected void mergeWithExisting(Annotation existingAnnotation, Annotation... annotations) {
 getSupport().mergeWithExisting(existingAnnotation, annotations);
}

@Override
public void destroy() {
 monitor.startFunction("destroy");
 doDestroy();
 monitor.finishFunction("destroy");
}

@Override
public final Progress[] getProgress() {
 monitor.startFunction("getProgress");
 Progress[] ret = doGetProgress();
 monitor.finishFunction("getProgress");
 return ret;
}

@Override
public final void destroy() {
 monitor.startFunction("destroy");
 doDestroy();
 monitor.finishFunction("destroy");
}

@Override
public final void close() throws IOException {
 monitor.startFunction("close");
 doClose();
 monitor.finishFunction("close");
}

/**
 * Add an annotation to the JCas index, notifying UimaMonitor of the fact we have done so
 *
 * @param annot Annotation(s) to add
 */
protected void addToJCasIndex(Annotation... annotations) {
 getSupport().add(annotations);
}

/**
 * Add an annotation to the JCas index, notifying UimaMonitor of the fact we have done so
 *
 * @param annotations Annotation(s) to add
 */
protected void addToJCasIndex(Annotation... annotations) {
 getSupport().add(annotations);
}

/**
 * Override of the UIMA hasNext() method with logic to continuously check for new documents until
 * one is found. This prevents the collection reader from exiting (unless asked to), and so
 * creates a persistent collection reader and pipeline.
 */
@Override
public final boolean hasNext() throws IOException, CollectionException {
 monitor.startFunctionTrace("hasNext");
 boolean next = doHasNext();
 monitor.finishFunctionTrace("hasNext");
 return next;
}

/**
 * Add a new annotation, which is merged from the old annotations, removing the old annotations.
 *
 * @param newAnnotation The annotation which is to be added to the document as the merged result
 *     of the old annotations
 * @param annotations Annotation(s) which have been merged and should be removed
 */
protected void mergeWithNew(Annotation newAnnotation, Annotation... annotations) {
 getSupport().mergeWithNew(newAnnotation, annotations);
}

/**
 * Remove an annotation to the JCas index, notifying UimaMonitor of the fact we have done so
 *
 * @param annot Annotation(s) to remove
 */
protected void removeFromJCasIndex(Annotation... annotations) {
 getSupport().remove(annotations);
}

@Override
public final void process(final JCas aJCas) throws AnalysisEngineProcessException {
 monitor.startFunction("execute");
 execute(new JobSettings(aJCas));
 monitor.finishFunction("execute");
 monitor.persistCounts();
}

@Override
public void destroy() {
 monitor.startFunction("destroy");
 doDestroy();
 monitor.finishFunction("destroy");
}

/**
 * Add an annotation to the JCas index, notifying UimaMonitor of the fact we have done so
 *
 * @param annot Annotation(s) to add
 */
protected void addToJCasIndex(Collection<? extends Annotation> annotations) {
 getSupport().add(annotations);
}

/**
 * Add a new annotation, which is merged from the old annotations, removing the old annotations.
 *
 * @param newAnnotation The annotation which is to be added to the document as the merged result
 *     of the old annotations
 * @param annotations Annotation(s) which have been merged and should be removed
 */
protected void mergeWithNew(
  Annotation newAnnotation, Collection<? extends Annotation> annotations) {
 getSupport().mergeWithNew(newAnnotation, annotations);
}

/**
 * Merge an existing annotation with old annotations, removing the old annotations.
 *
 * @param existingAnnotation The annotation which exists and is to be left in the document
 *     (merged)
 * @param annotations Annotation(s) which have been merged wiht existingAnnotation and then
 *     removed
 */
protected void mergeWithExisting(Annotation existingAnnotation, Annotation... annotations) {
 getSupport().mergeWithExisting(existingAnnotation, annotations);
}

/**
 * Remove an annotation to the JCas index, notifying UimaMonitor of the fact we have done so
 *
 * @param annot Annotation(s) to remove
 */
protected void removeFromJCasIndex(Collection<? extends Annotation> annotations) {
 getSupport().remove(annotations);
}

/**
 * Add an annotation to the JCas index, notifying UimaMonitor of the fact we have done so
 *
 * @param annot Annotation(s) to add
 */
protected void addToJCasIndex(Annotation... annotations) {
 getSupport().add(annotations);
}

/**
 * Add a new annotation, which is merged from the old annotations, removing the old annotations.
 *
 * @param newAnnotation The annotation which is to be added to the document as the merged result
 *     of the old annotations
 * @param annotations Annotation(s) which have been merged and should be removed
 */
protected void mergeWithNew(Annotation newAnnotation, Annotation... annotations) {
 getSupport().mergeWithNew(newAnnotation, annotations);
}