Examples with StandardContentHandler de.catma.document.source.contenthandler.StandardContentHandler used on opensource projects

Example 1 with StandardContentHandler

use of de.catma.document.source.contenthandler.StandardContentHandler in project catma by forTEXT.

the class GraphWorktreeProject method insert.

@Override
public void insert(SourceDocument sourceDocument, boolean deleteTempFile) throws IOException {
    try {
        File sourceTempFile = Paths.get(new File(this.tempDir).toURI()).resolve(sourceDocument.getUuid()).toFile();
        String convertedFilename = sourceDocument.getUuid() + "." + UTF8_CONVERSION_FILE_EXTENSION;
        logger.info("start tokenizing sourcedocument");
        List<String> unseparableCharacterSequences = sourceDocument.getSourceContentHandler().getSourceDocumentInfo().getIndexInfoSet().getUnseparableCharacterSequences();
        List<Character> userDefinedSeparatingCharacters = sourceDocument.getSourceContentHandler().getSourceDocumentInfo().getIndexInfoSet().getUserDefinedSeparatingCharacters();
        Locale locale = sourceDocument.getSourceContentHandler().getSourceDocumentInfo().getIndexInfoSet().getLocale();
        TermExtractor termExtractor = new TermExtractor(sourceDocument.getContent(), unseparableCharacterSequences, userDefinedSeparatingCharacters, locale);
        final Map<String, List<TermInfo>> terms = termExtractor.getTerms();
        logger.info("tokenization finished");
        try (FileInputStream originalFileInputStream = new FileInputStream(sourceTempFile)) {
            MediaType mediaType = MediaType.parse(sourceDocument.getSourceContentHandler().getSourceDocumentInfo().getTechInfoSet().getMimeType());
            String extension = mediaType.getBaseType().getType();
            if (extension == null || extension.isEmpty()) {
                extension = "unknown";
            }
            String sourceDocRevisionHash = gitProjectHandler.createSourceDocument(sourceDocument.getUuid(), originalFileInputStream, sourceDocument.getUuid() + ORIG_INFIX + "." + extension, new ByteArrayInputStream(sourceDocument.getContent().getBytes(Charset.forName("UTF-8"))), convertedFilename, terms, sourceDocument.getUuid() + "." + TOKENIZED_FILE_EXTENSION, sourceDocument.getSourceContentHandler().getSourceDocumentInfo());
            sourceDocument.unload();
            StandardContentHandler contentHandler = new StandardContentHandler();
            contentHandler.setSourceDocumentInfo(sourceDocument.getSourceContentHandler().getSourceDocumentInfo());
            sourceDocument.setSourceContentHandler(contentHandler);
            sourceDocument.setRevisionHash(sourceDocRevisionHash);
        }
        if (deleteTempFile) {
            sourceTempFile.delete();
        }
        String oldRootRevisionHash = this.rootRevisionHash;
        this.rootRevisionHash = gitProjectHandler.getRootRevisionHash();
        graphProjectHandler.addSourceDocument(oldRootRevisionHash, this.rootRevisionHash, sourceDocument, getTokenizedSourceDocumentPath(sourceDocument.getUuid()));
        eventBus.post(new DocumentChangeEvent(sourceDocument, ChangeType.CREATED));
    } catch (Exception e) {
        e.printStackTrace();
        propertyChangeSupport.firePropertyChange(RepositoryChangeEvent.exceptionOccurred.name(), null, e);
    }
}

Example 2 with StandardContentHandler

use of de.catma.document.source.contenthandler.StandardContentHandler in project catma by forTEXT.

the class CorpusImporter method importCorpus.

/**
 * !BACKGROUND THREAD! No direct UI code here!
 *
 * @param progressListener
 * @param corpusFile
 * @param documentMetadataList
 * @param tempDir
 * @param ui
 * @param project
 * @return
 * @throws Exception
 */
public Void importCorpus(final ProgressListener progressListener, final File corpusFile, final List<CorpusImportDocumentMetadata> documentMetadataList, final String tempDir, final UI ui, final Project project) throws Exception {
    progressListener.setProgress("Importing Corpus");
    GZIPInputStream gzipIs = new GZIPInputStream(new FileInputStream(corpusFile));
    try (TarArchiveInputStream taIs = new TarArchiveInputStream(gzipIs)) {
        TarArchiveEntry entry = taIs.getNextTarEntry();
        while (entry != null) {
            final String entryName = entry.getName();
            final String[] pathParts = entry.getName().split(Pattern.quote("/"));
            final String documentIdPart = pathParts[2];
            final String documentId = documentIdPart.substring(documentIdPart.indexOf("__") + 3);
            final String idUri = "catma://" + documentId;
            if (pathParts[3].equals("annotationcollections")) {
                progressListener.setProgress("Importing Collection %1$s", pathParts[4]);
                ui.accessSynchronously(() -> {
                    try {
                        final ByteArrayOutputStream buffer = new ByteArrayOutputStream();
                        IOUtils.copy(taIs, buffer);
                        SourceDocument document = project.getSourceDocument(documentId);
                        Pair<AnnotationCollection, List<TagsetDefinitionImportStatus>> loadResult = project.loadAnnotationCollection(new ByteArrayInputStream(buffer.toByteArray()), document);
                        List<TagsetDefinitionImportStatus> tagsetDefinitionImportStatusList = loadResult.getSecond();
                        final AnnotationCollection annotationCollection = loadResult.getFirst();
                        Optional<TagsetDefinition> optIntrinsicTagset = annotationCollection.getTagLibrary().getTagsetDefinitions().stream().filter(tagsetDef -> tagsetDef.getName().equals("Intrinsic Markup")).findFirst();
                        if (optIntrinsicTagset.isPresent()) {
                            TagsetDefinition intrinsicTagset = optIntrinsicTagset.get();
                            List<TagReference> intrinsicAnnotations = annotationCollection.getTagReferences(intrinsicTagset);
                            if (!intrinsicAnnotations.isEmpty()) {
                                annotationCollection.removeTagReferences(intrinsicAnnotations);
                            }
                            annotationCollection.getTagLibrary().remove(intrinsicTagset);
                            tagsetDefinitionImportStatusList.stream().filter(status -> status.getTagset().equals(intrinsicTagset)).findFirst().ifPresent(status -> status.setDoImport(false));
                        }
                        tagsetDefinitionImportStatusList.stream().filter(status -> status.getTagset().isEmpty()).forEach(status -> status.setDoImport(false));
                        if (!annotationCollection.isEmpty()) {
                            project.importCollection(tagsetDefinitionImportStatusList, annotationCollection);
                        }
                    } catch (Exception e) {
                        Logger.getLogger(ProjectView.class.getName()).log(Level.SEVERE, "Error importing the CATMA 5 Corpus: " + entryName, e);
                        String errorMsg = e.getMessage();
                        if ((errorMsg == null) || (errorMsg.trim().isEmpty())) {
                            errorMsg = "";
                        }
                        Notification.show("Error", String.format("Error importing the CATMA 5 Corpus! " + "This Collection will be skipped!\n The underlying error message was:\n%1$s", errorMsg), Type.ERROR_MESSAGE);
                    }
                });
            } else {
                final CorpusImportDocumentMetadata documentMetadata = documentMetadataList.stream().filter(metadata -> metadata.getSourceDocID().equals(idUri)).findFirst().orElse(null);
                final Locale locale = LocaleUtils.toLocale(documentMetadata.getSourceDocLocale());
                final boolean useApostrophe = Arrays.asList(documentMetadata.getSourceDocSepChars()).contains(String.valueOf(UploadFile.APOSTROPHE));
                final String title = (documentMetadata.getSourceDocName() == null || documentMetadata.getSourceDocName().isEmpty()) ? documentId : documentMetadata.getSourceDocName();
                progressListener.setProgress("Importing Document %1$s", title);
                final File tempFile = new File(new File(tempDir), documentId);
                if (tempFile.exists()) {
                    tempFile.delete();
                }
                try (FileOutputStream fos = new FileOutputStream(tempFile)) {
                    IOUtils.copy(taIs, fos);
                }
                ui.accessSynchronously(() -> {
                    IDGenerator idGenerator = new IDGenerator();
                    IndexInfoSet indexInfoSet = new IndexInfoSet(Collections.emptyList(), useApostrophe ? Lists.newArrayList(UploadFile.APOSTROPHE) : Collections.emptyList(), locale);
                    TechInfoSet techInfoSet = new TechInfoSet(documentId, FileType.TEXT.getMimeType(), tempFile.toURI());
                    ContentInfoSet contentInfoSet = new ContentInfoSet(documentMetadata.getSourceDocAuthor(), documentMetadata.getSourceDocDescription(), documentMetadata.getSourceDocPublisher(), title);
                    techInfoSet.setCharset(Charset.forName("UTF-8"));
                    SourceDocumentInfo documentInfo = new SourceDocumentInfo(indexInfoSet, contentInfoSet, techInfoSet);
                    AbstractSourceContentHandler handler = null;
                    boolean loadIntrinsicMarkup = false;
                    if (entryName.endsWith("xml2")) {
                        handler = new XML2ContentHandler();
                        loadIntrinsicMarkup = true;
                    } else if (entryName.endsWith("xml")) {
                        handler = new OldXMLContentHandler();
                        loadIntrinsicMarkup = true;
                    } else {
                        handler = new StandardContentHandler();
                    }
                    handler.setSourceDocumentInfo(documentInfo);
                    SourceDocument document = new SourceDocument(documentId, handler);
                    try {
                        project.insert(document, false);
                        if (loadIntrinsicMarkup) {
                            final TagManager tagmanager = new TagManager(new TagLibrary());
                            XmlMarkupCollectionSerializationHandler markupHandler = new XmlMarkupCollectionSerializationHandler(tagmanager, (XML2ContentHandler) handler, project.getUser().getIdentifier());
                            try (FileInputStream fis = new FileInputStream(tempFile)) {
                                AnnotationCollection intrinsicMarkupCollection = markupHandler.deserialize(document, idGenerator.generateCollectionId(), fis);
                                Collection<TagsetImport> tagsetImports = new ArrayList<TagsetImport>();
                                String defaultIntrinsicXMLElmentsName = "Default Intrinsic XML Elements";
                                for (TagsetDefinition tagset : tagmanager.getTagLibrary()) {
                                    if (!tagset.isEmpty()) {
                                        TagsetDefinition targetTagset = project.getTagManager().getTagLibrary().getTagsetDefinition(tagset.getUuid());
                                        boolean inProject = false;
                                        if (targetTagset == null) {
                                            targetTagset = tagset;
                                        } else {
                                            inProject = true;
                                        }
                                        String namespace = tagset.getName() == null ? "none" : tagset.getName();
                                        if (tagset.getName() == null) {
                                            tagset.setName(defaultIntrinsicXMLElmentsName);
                                        }
                                        TagsetImport tagsetImport = new TagsetImport(namespace, tagset, targetTagset, inProject ? TagsetImportState.WILL_BE_MERGED : TagsetImportState.WILL_BE_CREATED);
                                        tagsetImports.add(tagsetImport);
                                    }
                                }
                                // Creating Tagsets
                                tagsetImports.stream().filter(ti -> ti.getImportState().equals(TagsetImportState.WILL_BE_CREATED)).forEach(tagsetImport -> {
                                    if (project.getTagManager().getTagLibrary().getTagsetDefinition(tagsetImport.getTargetTagset().getUuid()) != null) {
                                        // already imported, so it will be a merge
                                        tagsetImport.setImportState(TagsetImportState.WILL_BE_MERGED);
                                    } else {
                                        TagsetDefinition extractedTagset = tagsetImport.getExtractedTagset();
                                        try {
                                            project.importTagsets(Collections.singletonList(new TagsetDefinitionImportStatus(extractedTagset, project.inProjectHistory(extractedTagset.getUuid()), project.getTagManager().getTagLibrary().getTagsetDefinition(extractedTagset.getUuid()) != null)));
                                        } catch (Exception e) {
                                            Logger.getLogger(ProjectView.class.getName()).log(Level.SEVERE, String.format("Error importing tagset %1$s with ID %2$s", extractedTagset.getName(), extractedTagset.getUuid()), e);
                                            String errorMsg = e.getMessage();
                                            if ((errorMsg == null) || (errorMsg.trim().isEmpty())) {
                                                errorMsg = "";
                                            }
                                            Notification.show("Error", String.format("Error importing tagset %1$s! " + "This tagset will be skipped!\n The underlying error message was:\n%2$s", extractedTagset.getName(), errorMsg), Type.ERROR_MESSAGE);
                                        }
                                    }
                                });
                                // Merging Tagsets
                                tagsetImports.stream().filter(ti -> ti.getImportState().equals(TagsetImportState.WILL_BE_MERGED)).forEach(tagsetImport -> {
                                    TagsetDefinition targetTagset = project.getTagManager().getTagLibrary().getTagsetDefinition(tagsetImport.getTargetTagset().getUuid());
                                    for (TagDefinition tag : tagsetImport.getExtractedTagset()) {
                                        Optional<TagDefinition> optionalTag = targetTagset.getTagDefinitionsByName(tag.getName()).findFirst();
                                        if (optionalTag.isPresent()) {
                                            TagDefinition existingTag = optionalTag.get();
                                            tag.getUserDefinedPropertyDefinitions().forEach(pd -> {
                                                if (existingTag.getPropertyDefinition(pd.getName()) == null) {
                                                    project.getTagManager().addUserDefinedPropertyDefinition(existingTag, new PropertyDefinition(pd));
                                                }
                                            });
                                            List<TagReference> tagReferences = intrinsicMarkupCollection.getTagReferences(tag);
                                            intrinsicMarkupCollection.removeTagReferences(tagReferences);
                                            Multimap<TagInstance, TagReference> referencesByInstance = ArrayListMultimap.create();
                                            tagReferences.forEach(tr -> referencesByInstance.put(tr.getTagInstance(), tr));
                                            for (TagInstance incomingTagInstance : referencesByInstance.keySet()) {
                                                TagInstance newTagInstance = new TagInstance(idGenerator.generate(), existingTag.getUuid(), incomingTagInstance.getAuthor(), incomingTagInstance.getTimestamp(), existingTag.getUserDefinedPropertyDefinitions(), targetTagset.getUuid());
                                                for (Property oldProp : incomingTagInstance.getUserDefinedProperties()) {
                                                    String oldPropDefId = oldProp.getPropertyDefinitionId();
                                                    PropertyDefinition oldPropDef = tag.getPropertyDefinitionByUuid(oldPropDefId);
                                                    PropertyDefinition existingPropDef = existingTag.getPropertyDefinition(oldPropDef.getName());
                                                    newTagInstance.addUserDefinedProperty(new Property(existingPropDef.getUuid(), oldProp.getPropertyValueList()));
                                                }
                                                ArrayList<TagReference> newReferences = new ArrayList<>();
                                                referencesByInstance.get(incomingTagInstance).forEach(tr -> {
                                                    try {
                                                        newReferences.add(new TagReference(newTagInstance, tr.getTarget().toString(), tr.getRange(), tr.getUserMarkupCollectionUuid()));
                                                    } catch (URISyntaxException e) {
                                                        e.printStackTrace();
                                                    }
                                                });
                                                intrinsicMarkupCollection.addTagReferences(newReferences);
                                            }
                                        } else {
                                            tag.setTagsetDefinitionUuid(targetTagset.getUuid());
                                            project.getTagManager().addTagDefinition(targetTagset, tag);
                                        }
                                    }
                                });
                                project.importCollection(Collections.emptyList(), intrinsicMarkupCollection);
                            }
                            if (tempFile.exists()) {
                                tempFile.delete();
                            }
                        }
                    } catch (Exception e) {
                        Logger.getLogger(ProjectView.class.getName()).log(Level.SEVERE, "Error importing the CATMA 5 Corpus: " + entryName, e);
                        String errorMsg = e.getMessage();
                        if ((errorMsg == null) || (errorMsg.trim().isEmpty())) {
                            errorMsg = "";
                        }
                        Notification.show("Error", String.format("Error importing the CATMA 5 Corpus! " + "This Document will be skipped!\n The underlying error message was:\n%1$s", errorMsg), Type.ERROR_MESSAGE);
                    }
                });
            }
            entry = taIs.getNextTarEntry();
        }
    }
    return null;
}

Example 3 with StandardContentHandler

use of de.catma.document.source.contenthandler.StandardContentHandler in project catma by forTEXT.

the class GitSourceDocumentHandler method open.

public SourceDocument open(@Nonnull String projectId, @Nonnull String sourceDocumentId) throws IOException {
    try (ILocalGitRepositoryManager localGitRepoManager = this.localGitRepositoryManager) {
        String projectRootRepositoryName = GitProjectManager.getProjectRootRepositoryName(projectId);
        localGitRepoManager.open(projectId, projectRootRepositoryName);
        String sourceDocumentSubmoduleName = String.format("%s/%s", GitProjectHandler.SOURCE_DOCUMENT_SUBMODULES_DIRECTORY_NAME, sourceDocumentId);
        File sourceDocumentSubmodulePath = new File(localGitRepoManager.getRepositoryWorkTree().toString(), sourceDocumentSubmoduleName);
        File headerFile = new File(sourceDocumentSubmodulePath, HEADER_FILE_NAME);
        String serializedHeaderFile = FileUtils.readFileToString(headerFile, StandardCharsets.UTF_8);
        SourceDocumentInfo sourceDocumentInfo = new SerializationHelper<SourceDocumentInfo>().deserialize(serializedHeaderFile, SourceDocumentInfo.class);
        SourceDocumentHandler sourceDocumentHandler = new SourceDocumentHandler();
        SourceContentHandler sourceContentHandler = new StandardContentHandler();
        sourceContentHandler.setSourceDocumentInfo(sourceDocumentInfo);
        SourceDocument sourceDocument = sourceDocumentHandler.loadSourceDocument(sourceDocumentId, sourceContentHandler);
        String sourceDocumentRevisionHash = localGitRepoManager.getSubmoduleHeadRevisionHash(sourceDocumentSubmoduleName);
        sourceDocument.setRevisionHash(sourceDocumentRevisionHash);
        return sourceDocument;
    }
}