Package org.apache.uima.collection

Examples of org.apache.uima.collection.CollectionReader

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//          XMIReader.class,
//          typeSystemDescription,
//          XMIReader.PARAM_FILES,
//          inputFiles);

    CollectionReader reader =
    CollectionReaderFactory.createCollectionReader(
      TextReader.class,
      typeSystemDescription,
      TextReader.PARAM_FILES,
      inputFiles);
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      File subDir = new File(rawTextDirectory, "doc" + set);
      files.addAll(Arrays.asList(subDir.listFiles()));
    }

    // construct reader and Knowtator XML parser
    CollectionReader reader = UriCollectionReader.getCollectionReaderFromFiles(files);
    AggregateBuilder aggregateBuilder = new AggregateBuilder();
    aggregateBuilder.add(UriToDocumentTextAnnotator.getDescription());
    aggregateBuilder.add(THYMEKnowtatorXMLReader.getDescription(knowtatorXMLDirectory));

    // walk through each document in the collection
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   * @throws Exception
   */
  public static void main(String[] args) throws Exception {
    FullOptions options = CliFactory.parseArguments(FullOptions.class, args);
   
    CollectionReader collectionReader = CollectionReaderFactory.createCollectionReaderFromPath(
        "../ctakes-core/desc/collection_reader/FilesInDirectoryCollectionReader.xml",
        FilesInDirectoryCollectionReader.PARAM_INPUTDIR,
        options.getInputDirectory());

    AggregateBuilder aggregateBuilder = getLightweightPreprocessorAggregateBuilder();
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    if(args.length < 2){
      System.err.println("Requires 2 arguments: <input file> <output file>");
      System.exit(-1);
    }
   
    CollectionReader reader = CollectionReaderFactory.createCollectionReader(LinesFromFileCollectionReader.class,
        LinesFromFileCollectionReader.PARAM_INPUT_FILE_NAME,
        args[0]);
    PrintWriter out = new PrintWriter(args[1]);
    AnalysisEngine ae = AnalysisEngineFactory.createPrimitive(ParserEvaluationAnnotator.class, new Object[]{});
   
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    Options options = CliFactory.parseArguments(Options.class, args);

    List<Integer> patientSets = options.getPatients().getList();
    List<Integer> trainItems = THYMEData.getTrainPatientSets(patientSets);
    List<File> trainFiles = Utils.getFilesFor(trainItems, options.getInputDirectory());
    CollectionReader collectionReader = Utils.getCollectionReader(trainFiles);

    AnalysisEngine annotationConsumer = AnalysisEngineFactory.createPrimitive(
        AnalyseRelationArgumentDuration.class,
        "OutputFile",
        options.getOutputFile());
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  public static void main(String[] args) throws Exception {
   
    EventOptions options = CliFactory.parseArguments(EventOptions.class, args);

    CollectionReader collectionReader = CollectionReaderFactory.createCollectionReaderFromPath(
        "../ctakes-core/desc/collection_reader/FilesInDirectoryCollectionReader.xml",
        FilesInDirectoryCollectionReader.PARAM_INPUTDIR,
        options.getInputDirectory());

    AggregateBuilder aggregateBuilder = getPreprocessorAggregateBuilder();
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      File setTextDirectory = new File(options.getRawTextDirectory(), "doc" + set);
      for (File file : setTextDirectory.listFiles()) {
        files.add(file);
      }
    }
    CollectionReader reader = UriCollectionReader.getCollectionReaderFromFiles(files);
    AnalysisEngine engine = AnalysisEngineFactory.createPrimitive(
        THYMEKnowtatorXMLReader.class,
        THYMEKnowtatorXMLReader.PARAM_KNOWTATOR_XML_DIRECTORY,
        options.getKnowtatorXMLDirectory());
    SimplePipeline.runPipeline(reader, engine);
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  public void execute() throws ResourceInitializationException
  {
    String filename = "/work/medfacts/sharp/data/2012-10-16_full_data_set_updated/Seed_Corpus/clean_dirs/splits/official/train";
   
      CollectionReader reader = CollectionReaderFactory.createCollectionReader(
            XReader.class,
            XReader.PARAM_ROOT_FILE,
            filename,
            XReader.PARAM_XML_SCHEME,
            XReader.XMI);
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      File setTextDirectory = new File(options.getRawTextDirectory(), "doc" + set);
      for (File file : setTextDirectory.listFiles()) {
        files.add(file);
      }
    }
    CollectionReader reader = UriCollectionReader.getCollectionReaderFromFiles(files);
    AggregateBuilder builder = new AggregateBuilder();
    builder.add(UriToDocumentTextAnnotator.getDescription());
    builder.add(AnalysisEngineFactory.createPrimitiveDescription(
        THYMEKnowtatorXMLReader.class,
        THYMEKnowtatorXMLReader.PARAM_KNOWTATOR_XML_DIRECTORY,
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   */
  public static void main(String[] args) throws UIMAException, IOException {
    Options options = CliFactory.parseArguments(Options.class, args);
    List<Integer> patientSets = options.getPatients().getList();
    List<Integer> trainItems = THYMEData.getTrainPatientSets(patientSets);
    CollectionReader reader = UriCollectionReader.getCollectionReaderFromFiles(getFilesFor(options.getRawTextDirectory(), trainItems));
    AggregateBuilder aggregateBuilder = new AggregateBuilder();
    aggregateBuilder.add(UriToDocumentTextAnnotator.getDescription());
    aggregateBuilder.add(AnalysisEngineFactory.createPrimitiveDescription(
        XMIReader.class,
        XMIReader.PARAM_XMI_DIRECTORY,
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