Examples with CasMerge de.tudarmstadt.ukp.clarin.webanno.curation.casmerge.CasMerge used on opensource projects

Example 1 with CasMerge

use of de.tudarmstadt.ukp.clarin.webanno.curation.casmerge.CasMerge in project webanno by webanno.

the class SuggestionBuilder method createCurationCas.

/**
 * For the first time a curation page is opened, create a MergeCas that contains only agreeing
 * annotations Using the CAS of the curator user.
 *
 * @param aState
 *            the annotator state
 * @param aRandomAnnotationDocument
 *            an annotation document.
 * @param aCasses
 *            the CASes
 * @param aAnnotationLayers
 *            the layers.
 * @return the CAS.
 * @throws IOException
 *             if an I/O error occurs.
 */
private CAS createCurationCas(AnnotatorState aState, AnnotationDocument aRandomAnnotationDocument, Map<String, CAS> aCasses, List<AnnotationLayer> aAnnotationLayers, boolean aMergeIncompleteAnnotations) throws IOException, UIMAException, AnnotationException {
    Validate.notNull(aState, "State must be specified");
    Validate.notNull(aRandomAnnotationDocument, "Annotation document must be specified");
    // We need a modifiable copy of some annotation document which we can use to initialize
    // the curation CAS. This is an exceptional case where BYPASS is the correct choice
    CAS mergeCas = documentService.readAnnotationCas(aRandomAnnotationDocument, UNMANAGED_ACCESS);
    List<DiffAdapter> adapters = getDiffAdapters(schemaService, aState.getAnnotationLayers());
    DiffResult diff;
    try (StopWatch watch = new StopWatch(log, "CasDiff")) {
        diff = doDiffSingle(adapters, LINK_ROLE_AS_LABEL, aCasses, 0, mergeCas.getDocumentText().length()).toResult();
    }
    try (StopWatch watch = new StopWatch(log, "CasMerge")) {
        CasMerge casMerge = new CasMerge(schemaService);
        casMerge.setMergeIncompleteAnnotations(aMergeIncompleteAnnotations);
        casMerge.reMergeCas(diff, aState.getDocument(), aState.getUser().getUsername(), mergeCas, aCasses);
    }
    curationDocumentService.writeCurationCas(mergeCas, aRandomAnnotationDocument.getDocument(), false);
    return mergeCas;
}

Example 2 with CasMerge

use of de.tudarmstadt.ukp.clarin.webanno.curation.casmerge.CasMerge in project webanno by webanno.

the class SuggestionViewPanel method actionAcceptAll.

private void actionAcceptAll(AjaxRequestTarget aTarget, UserAnnotationSegment aSegment, AnnotationLayer aLayer) throws IOException {
    CAS targetCas = readEditorCas(aSegment.getAnnotatorState());
    CAS sourceCas = readAnnotatorCas(aSegment);
    AnnotatorState sourceState = aSegment.getAnnotatorState();
    TypeAdapter adapter = schemaService.getAdapter(aLayer);
    int mergeConflict = 0;
    int alreadyMerged = 0;
    int updated = 0;
    int created = 0;
    Set<String> otherErrors = new LinkedHashSet<>();
    CasMerge casMerge = new CasMerge(schemaService);
    casMerge.setSilenceEvents(true);
    nextAnnotation: for (AnnotationFS ann : select(sourceCas, adapter.getAnnotationType(sourceCas))) {
        try {
            CasMergeOperationResult result;
            switch(aLayer.getType()) {
                case SPAN_TYPE:
                    result = mergeSpan(casMerge, targetCas, sourceCas, new VID(ann), sourceState.getDocument(), sourceState.getUser().getUsername(), aLayer);
                    break;
                case RELATION_TYPE:
                    result = mergeRelation(casMerge, targetCas, sourceCas, new VID(ann), sourceState.getDocument(), sourceState.getUser().getUsername(), aLayer);
                    break;
                default:
                    continue nextAnnotation;
            }
            switch(result.getState()) {
                case CREATED:
                    created++;
                    break;
                case UPDATED:
                    updated++;
                    break;
            }
        } catch (AlreadyMergedException e) {
            alreadyMerged++;
        } catch (MergeConflictException e) {
            mergeConflict++;
        } catch (Exception e) {
            otherErrors.add(e.getMessage());
        }
    }
    writeEditorCas(sourceState, targetCas);
    int success = created + updated;
    if (success > 0) {
        success(String.format("Annotations were changed: %d (%d created, %d updated)", success, created, updated));
    } else {
        info("No annotations were changed");
    }
    if (alreadyMerged > 0) {
        info("Annotations had already been merged: " + alreadyMerged);
    }
    if (mergeConflict > 0) {
        info("Annotations skipped due to conflicts: " + mergeConflict);
    }
    if (!otherErrors.isEmpty()) {
        otherErrors.forEach(this::error);
    }
    applicationEventPublisher.get().publishEvent(new BulkAnnotationEvent(this, sourceState.getDocument(), sourceState.getUser().getUsername(), adapter.getLayer()));
    aTarget.addChildren(getPage(), IFeedback.class);
    onChange(aTarget);
}

Example 3 with CasMerge

use of de.tudarmstadt.ukp.clarin.webanno.curation.casmerge.CasMerge in project webanno by webanno.

the class SuggestionViewPanel method onClientEvent.

/**
 * Method is called, if user has clicked on a span or an arc in the sentence panel. The span or
 * arc respectively is identified and copied to the merge CAS.
 */
protected void onClientEvent(AjaxRequestTarget aTarget, UserAnnotationSegment aSegment) throws UIMAException, IOException, AnnotationException {
    if (isDocumentFinished(documentService, aSegment.getAnnotatorState())) {
        error("This document is already closed. Please ask the project manager to re-open it.");
        aTarget.addChildren(getPage(), IFeedback.class);
        return;
    }
    IRequestParameters request = getRequest().getPostParameters();
    StringValue action = request.getParameterValue(PARAM_ACTION);
    if (!action.isEmpty()) {
        String type = removePrefix(request.getParameterValue(PARAM_TYPE).toString());
        AnnotationLayer layer = schemaService.getLayer(TypeUtil.getLayerId(type));
        VID sourceVid = VID.parse(request.getParameterValue(PARAM_ID).toString());
        CAS targetCas = readEditorCas(aSegment.getAnnotatorState());
        CAS sourceCas = readAnnotatorCas(aSegment);
        AnnotatorState sourceState = aSegment.getAnnotatorState();
        if (CHAIN_TYPE.equals(layer.getType())) {
            error("Coreference annotations are not supported in curation");
            aTarget.addChildren(getPage(), IFeedback.class);
            return;
        }
        if (ACTION_CONTEXT_MENU.equals(action.toString())) {
            // No bulk actions supports for slots at the moment.
            if (sourceVid.isSlotSet()) {
                return;
            }
            List<IMenuItem> items = contextMenu.getItemList();
            items.clear();
            items.add(new LambdaMenuItem(String.format("Merge all %s", layer.getUiName()), _target -> actionAcceptAll(_target, aSegment, layer)));
            contextMenu.onOpen(aTarget);
            return;
        }
        // check if clicked on a span
        CasMerge casMerge = new CasMerge(schemaService);
        if (ACTION_SELECT_SPAN_FOR_MERGE.equals(action.toString())) {
            mergeSpan(casMerge, targetCas, sourceCas, sourceVid, sourceState.getDocument(), sourceState.getUser().getUsername(), layer);
        } else // check if clicked on an arc (relation or slot)
        if (ACTION_SELECT_ARC_FOR_MERGE.equals(action.toString())) {
            // this is a slot arc
            if (sourceVid.isSlotSet()) {
                mergeSlot(casMerge, targetCas, sourceCas, sourceVid, sourceState.getDocument(), sourceState.getUser().getUsername(), layer);
            } else // normal relation annotation arc is clicked
            {
                mergeRelation(casMerge, targetCas, sourceCas, sourceVid, sourceState.getDocument(), sourceState.getUser().getUsername(), layer);
            }
        }
        writeEditorCas(sourceState, targetCas);
        // Update timestamp
        AnnotationFS sourceAnnotation = selectAnnotationByAddr(sourceCas, sourceVid.getId());
        int sentenceNumber = getSentenceNumber(sourceAnnotation.getCAS(), sourceAnnotation.getBegin());
        sourceState.getDocument().setSentenceAccessed(sentenceNumber);
        if (sourceState.getPreferences().isScrollPage()) {
            sourceState.getPagingStrategy().moveToOffset(sourceState, targetCas, sourceAnnotation.getBegin(), CENTERED);
        }
        onChange(aTarget);
    }
}