Examples with DatastoreException org.cogcomp.DatastoreException used on opensource projects

Example 11 with DatastoreException

use of org.cogcomp.DatastoreException in project cogcomp-nlp by CogComp.

the class TreeGazetteers method init.

/**
 * init all the gazetters, mangle each term in a variety of ways.
 *
 * @param pathToDictionaries the path to the gazetteers.
 * @param phrase_length the max length of the phrases we will consider.
 * @throws IOException
 */
private void init(int phrase_length, String pathToDictionaries, final Language language) throws IOException {
    try {
        // check the local file system for it.
        File gazDirectory = new File(pathToDictionaries);
        String pathToLists = gazDirectory.getPath() + File.separator + "gazetteers" + File.separator + "gazetteers-list.txt";
        InputStream stream = ResourceUtilities.loadResource(pathToLists);
        if (stream == null) {
            logger.info("Loading gazetteers from \"" + pathToLists + "\" using the Minio cache.");
            // not in file system or classpath, try Minio.
            Datastore dsNoCredentials = new Datastore(new ResourceConfigurator().getDefaultConfig());
            gazDirectory = dsNoCredentials.getDirectory("org.cogcomp.gazetteers", "gazetteers", 1.6, false);
            stream = new FileInputStream(gazDirectory.getPath() + File.separator + "gazetteers" + File.separator + "gazetteers-list.txt");
        } else {
            logger.info("Loading gazetteers from \"" + pathToLists + "\" from the local file system.");
        }
        BufferedReader br = new BufferedReader(new InputStreamReader(stream));
        String line;
        ArrayList<String> filenames = new ArrayList<>();
        while ((line = br.readLine()) != null) filenames.add(line);
        // init the dictionaries.
        dictionaries = new ArrayList<>(filenames.size());
        dictionariesIgnoreCase = new ArrayList<>(filenames.size());
        GazetteerTree gaz = new GazetteerTree(phrase_length, new StringSplitterInterface() {

            @Override
            public String[] split(String line) {
                // character tokenization for Chinese
                if (language == Language.Chinese) {
                    String[] chars = new String[line.length()];
                    for (int i = 0; i < line.length(); i++) chars[i] = String.valueOf(line.charAt(i));
                    return chars;
                } else
                    return line.split("[\\s]+");
            }

            @Override
            public final String normalize(String term) {
                return term;
            }
        });
        GazetteerTree gazIC = new GazetteerTree(phrase_length, new StringSplitterInterface() {

            @Override
            public String[] split(String line) {
                String tmp = line.toLowerCase();
                if (tmp.equals("in") || tmp.equals("on") || tmp.equals("us") || tmp.equals("or") || tmp.equals("am"))
                    return new String[0];
                else {
                    // character tokenization for Chinese
                    if (language == Language.Chinese) {
                        String[] chars = new String[line.length()];
                        for (int i = 0; i < line.length(); i++) chars[i] = String.valueOf(line.charAt(i));
                        return chars;
                    } else
                        return normalize(line).split("[\\s]+");
                }
            }

            @Override
            public String normalize(String term) {
                return term.toLowerCase();
            }
        });
        // for each dictionary, compile each of the gaz trees for each phrase permutation.
        for (String file : filenames) {
            String fileName = gazDirectory.getAbsolutePath() + File.separator + file;
            gaz.readDictionary(file, "", ResourceUtilities.loadResource(fileName));
            gazIC.readDictionary(file, "(IC)", ResourceUtilities.loadResource(fileName));
        }
        gaz.trimToSize();
        gazIC.trimToSize();
        dictionaries.add(gaz);
        dictionariesIgnoreCase.add(gazIC);
        logger.info("Gazetteers from \"" + pathToLists + "\" are loaded.");
    } catch (InvalidPortException | InvalidEndpointException e) {
        e.printStackTrace();
    } catch (DatastoreException e) {
        e.printStackTrace();
    }
}

Example 12 with DatastoreException

use of org.cogcomp.DatastoreException in project cogcomp-nlp by CogComp.

the class PathLSTMHandler method initialize.

@Override
public void initialize(ResourceManager rm) {
    try {
        // TODO: move the end-point url to the resource configurator
        Datastore ds = new Datastore("http://smaug.cs.illinois.edu:8080");
        File lemmaModel = ds.getFile("org.cogcomp.mate-tools", "CoNLL2009-ST-English-ALL.anna.lemmatizer.model", 3.3, false);
        File parserModel = ds.getFile("org.cogcomp.mate-tools", "CoNLL2009-ST-English-ALL.anna.parser.model", 3.3, false);
        File posModel = ds.getFile("org.cogcomp.mate-tools", "CoNLL2009-ST-English-ALL.anna.postagger.model", 3.3, false);
        File pathLSTM = ds.getFile("uk.ac.ed.inf", "pathLSTM.model", 1.0, false);
        // SRL pipeline options (currently hard-coded)
        String[] args = new String[] { "eng", "-lemma", lemmaModel.getAbsolutePath(), "-parser", parserModel.getAbsolutePath(), "-tagger", posModel.getAbsolutePath(), "-srl", pathLSTM.getAbsolutePath(), "-reranker", "-externalNNs" };
        CompletePipelineCMDLineOptions options = new CompletePipelineCMDLineOptions();
        options.parseCmdLineArgs(args);
        try {
            SRLpipeline = CompletePipeline.getCompletePipeline(options);
        } catch (ClassNotFoundException | IOException e) {
            // TODO Auto-generated catch block
            e.printStackTrace();
        }
    } catch (DatastoreException e) {
        e.printStackTrace();
    }
    try {
        this.propBankManager = new FramesManager(true);
        this.nomBankManager = new FramesManager(false);
    } catch (InvalidPortException | InvalidEndpointException | DatastoreException e) {
        e.printStackTrace();
    }
}

Example 13 with DatastoreException

use of org.cogcomp.DatastoreException in project cogcomp-nlp by CogComp.

the class ExtentTester method testExtentOnPredictedHead.

public static void testExtentOnPredictedHead() throws InvalidPortException, InvalidEndpointException, DatastoreException, IOException, JWNLException {
    WordNetManager wordNet = null;
    Gazetteers gazetteers = null;
    BrownClusters brownClusters = null;
    try {
        WordNetManager.loadConfigAsClasspathResource(true);
        wordNet = WordNetManager.getInstance();
        Datastore ds = new Datastore(new ResourceConfigurator().getDefaultConfig());
        File gazetteersResource = ds.getDirectory("org.cogcomp.gazetteers", "gazetteers", 1.3, false);
        gazetteers = GazetteersFactory.get(5, gazetteersResource.getPath() + File.separator + "gazetteers", true, Language.English);
        Vector<String> bcs = new Vector<>();
        bcs.add("brown-clusters" + File.separator + "brown-english-wikitext.case-intact.txt-c1000-freq10-v3.txt");
        bcs.add("brown-clusters" + File.separator + "brownBllipClusters");
        bcs.add("brown-clusters" + File.separator + "brown-rcv1.clean.tokenized-CoNLL03.txt-c1000-freq1.txt");
        Vector<Integer> bcst = new Vector<>();
        bcst.add(5);
        bcst.add(5);
        bcst.add(5);
        Vector<Boolean> bcsl = new Vector<>();
        bcsl.add(false);
        bcsl.add(false);
        bcsl.add(false);
        brownClusters = BrownClusters.get(bcs, bcst, bcsl);
    } catch (Exception e) {
        e.printStackTrace();
    }
    int total_mention_predicted = 0;
    int total_mention_labeled = 0;
    int total_mention_head_correct = 0;
    int total_mention_extent_correct = 0;
    for (int i = 0; i < 5; i++) {
        BIOReader h_train_parser_nam = new BIOReader("data/partition_with_dev/train/" + i, "ACE05-TRAIN", "NAM", false);
        BIOReader h_train_parser_nom = new BIOReader("data/partition_with_dev/train/" + i, "ACE05-TRAIN", "NOM", false);
        BIOReader h_train_parser_pro = new BIOReader("data/partition_with_dev/train/" + i, "ACE05-TRAIN", "PRO", false);
        bio_classifier_nam h_classifier_nam = BIOTester.train_nam_classifier(h_train_parser_nam);
        bio_classifier_nom h_classifier_nom = BIOTester.train_nom_classifier(h_train_parser_nom);
        bio_classifier_pro h_classifier_pro = BIOTester.train_pro_classifier(h_train_parser_pro);
        Learner[] h_candidates = new Learner[3];
        h_candidates[0] = h_classifier_nam;
        h_candidates[1] = h_classifier_nom;
        h_candidates[2] = h_classifier_pro;
        ExtentReader e_train_parser = new ExtentReader("data/partition_with_dev/train/" + i);
        extent_classifier e_classifier = train_extent_classifier(e_train_parser);
        BIOReader test_parser = new BIOReader("data/partition_with_dev/eval/" + i, "ACE05-EVAL", "ALL", false);
        test_parser.reset();
        String preBIOLevel1 = "";
        String preBIOLevel2 = "";
        List<Constituent> predictedHeads = new ArrayList<>();
        List<Constituent> predictedMentions = new ArrayList<>();
        for (Object example = test_parser.next(); example != null; example = test_parser.next()) {
            ((Constituent) example).addAttribute("preBIOLevel1", preBIOLevel1);
            ((Constituent) example).addAttribute("preBIOLevel2", preBIOLevel2);
            Pair<String, Integer> h_prediction = BIOTester.joint_inference((Constituent) example, h_candidates);
            String bioTag = h_prediction.getFirst();
            if (bioTag.startsWith("B") || bioTag.startsWith("U")) {
                Constituent predictMention = BIOTester.getConstituent((Constituent) example, h_candidates[h_prediction.getSecond()], false);
                predictedHeads.add(predictMention);
            }
            preBIOLevel2 = preBIOLevel1;
            preBIOLevel1 = bioTag;
        }
        for (Constituent head : predictedHeads) {
            Constituent mention = getFullMention(e_classifier, head, gazetteers, brownClusters, wordNet);
            predictedMentions.add(mention);
        }
        List<Constituent> goldMentions = new ArrayList<>();
        ACEReader aceReader = null;
        try {
            aceReader = new ACEReader("data/partition_with_dev/eval/" + i, false);
        } catch (Exception e) {
            e.printStackTrace();
        }
        for (TextAnnotation ta : aceReader) {
            goldMentions.addAll(ta.getView(ViewNames.MENTION_ACE).getConstituents());
        }
        total_mention_labeled += goldMentions.size();
        total_mention_predicted += predictedMentions.size();
        for (Constituent p : predictedMentions) {
            Constituent ph = getPredictedMentionHead(p);
            for (Constituent g : goldMentions) {
                if (!p.getTextAnnotation().getText().equals(g.getTextAnnotation().getText())) {
                    continue;
                }
                Constituent gh = ACEReader.getEntityHeadForConstituent(g, g.getTextAnnotation(), "TESTG");
                try {
                    if (ph.getStartSpan() == gh.getStartSpan() && ph.getEndSpan() == gh.getEndSpan()) {
                        total_mention_head_correct++;
                        if (g.getStartSpan() == p.getStartSpan() && g.getEndSpan() == p.getEndSpan()) {
                            total_mention_extent_correct++;
                        }
                        break;
                    }
                } catch (Exception e) {
                    e.printStackTrace();
                }
            }
        }
    }
    System.out.println("Total labeled mention: " + total_mention_labeled);
    System.out.println("Total predicted mention: " + total_mention_predicted);
    System.out.println("Total head correct: " + total_mention_head_correct);
    System.out.println("Total extent correct: " + total_mention_extent_correct);
}

Example 14 with DatastoreException

use of org.cogcomp.DatastoreException in project cogcomp-nlp by CogComp.

the class ExtentTester method testExtentOnGoldHead.

public static void testExtentOnGoldHead() throws InvalidPortException, InvalidEndpointException, IOException, JWNLException, DatastoreException {
    int labeled = 0;
    int correct = 0;
    POSAnnotator posAnnotator = null;
    WordNetManager wordNet = null;
    Gazetteers gazetteers = null;
    BrownClusters brownClusters = null;
    try {
        WordNetManager.loadConfigAsClasspathResource(true);
        wordNet = WordNetManager.getInstance();
        posAnnotator = new POSAnnotator();
        Datastore ds = new Datastore(new ResourceConfigurator().getDefaultConfig());
        File gazetteersResource = ds.getDirectory("org.cogcomp.gazetteers", "gazetteers", 1.3, false);
        gazetteers = GazetteersFactory.get(5, gazetteersResource.getPath() + File.separator + "gazetteers", true, Language.English);
        Vector<String> bcs = new Vector<>();
        bcs.add("brown-clusters" + File.separator + "brown-english-wikitext.case-intact.txt-c1000-freq10-v3.txt");
        bcs.add("brown-clusters" + File.separator + "brownBllipClusters");
        bcs.add("brown-clusters" + File.separator + "brown-rcv1.clean.tokenized-CoNLL03.txt-c1000-freq1.txt");
        Vector<Integer> bcst = new Vector<>();
        bcst.add(5);
        bcst.add(5);
        bcst.add(5);
        Vector<Boolean> bcsl = new Vector<>();
        bcsl.add(false);
        bcsl.add(false);
        bcsl.add(false);
        brownClusters = BrownClusters.get(bcs, bcst, bcsl);
    } catch (Exception e) {
        e.printStackTrace();
    }
    for (int i = 0; i < 1; i++) {
        ExtentReader train_parser = new ExtentReader("data/partition_with_dev/train/" + i, "COMBINED-ALL-TRAIN-" + i);
        extent_classifier classifier = train_extent_classifier(train_parser);
        BIOCombinedReader bioCombinedReader = null;
        try {
            bioCombinedReader = new BIOCombinedReader(i, "ALL-EVAL", "ALL", true);
        } catch (Exception e) {
            e.printStackTrace();
        }
        for (Object ota = bioCombinedReader.next(); ota != null; ota = bioCombinedReader.next()) {
            TextAnnotation ta = (TextAnnotation) ota;
            try {
                ta.addView(posAnnotator);
            } catch (Exception e) {
                e.printStackTrace();
            }
            String mentionViewName = ViewNames.MENTION_ERE;
            if (ta.getId().startsWith("bn") || ta.getId().startsWith("nw")) {
                mentionViewName = ViewNames.MENTION_ACE;
            }
            View mentionView = ta.getView(mentionViewName);
            for (Constituent mention : mentionView.getConstituents()) {
                Constituent head = ACEReader.getEntityHeadForConstituent(mention, ta, "HEADS");
                if (head == null) {
                    continue;
                }
                labeled++;
                Constituent predictedFullMention = getFullMention(classifier, head, gazetteers, brownClusters, wordNet);
                if (predictedFullMention.getStartSpan() == mention.getStartSpan() && predictedFullMention.getEndSpan() == mention.getEndSpan()) {
                    correct++;
                } else {
                    System.out.println("Gold: " + mention.toString());
                    System.out.println("Predicted: " + predictedFullMention.toString());
                }
            }
        }
    }
    System.out.println("Labeled: " + labeled);
    System.out.println("Correct: " + correct);
    System.out.println("Correctness: " + (double) correct * 100.0 / (double) labeled);
}