Example usage for org.apache.commons.collections BidiMap inverseBidiMap

Introduction

In this page you can find the example usage for org.apache.commons.collections BidiMap inverseBidiMap.

Prototype

BidiMap inverseBidiMap();

Source Link

Document

Gets a view of this map where the keys and values are reversed.

Usage

From source file:gov.nih.nci.lmp.mimGpml.ImporterHelper.java

/**
 * Convert arrow head./*from w ww. j  av a  2 s .  c om*/
 * 
 * @param mimArrowHead
 *            the MIM arrow head
 * @return the GPML arrowhead type
 */
private static String convertArrowHead(String mimArrowHead) {

    BidiMap arrowHash = getGpmlToMimVisArrowHeadMap();

    String gpmlArrowHead;

    // Default to LINE
    if (arrowHash.inverseBidiMap().get(mimArrowHead) != null) {
        gpmlArrowHead = arrowHash.inverseBidiMap().get(mimArrowHead).toString();
    } else {
        gpmlArrowHead = "Line";
        Logger.log.info("Pathway contains an arrow not supported in MIM: " + gpmlArrowHead);
    }

    return gpmlArrowHead;
}

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From source file:org.dkpro.tc.ml.svmhmm.report.SVMHMMOutcomeIDReport.java

@Override
public void execute() throws Exception {
    // load gold and predicted labels
    loadGoldAndPredictedLabels();/*from w ww.  j a v a  2s  . com*/

    File testFile = locateTestFile();

    // original tokens
    List<String> originalTokens = SVMHMMUtils.extractOriginalTokens(testFile);

    // sequence IDs
    List<Integer> sequenceIDs = SVMHMMUtils.extractOriginalSequenceIDs(testFile);

    // sanity check
    if (goldLabels.size() != originalTokens.size() || goldLabels.size() != sequenceIDs.size()) {
        throw new IllegalStateException("Gold labels, original tokens or sequenceIDs differ in size!");
    }

    File evaluationFolder = getContext().getFolder("", AccessMode.READWRITE);
    File evaluationFile = new File(evaluationFolder, ID_OUTCOME_KEY);

    File mappingFile = getContext().getFile(SVMHMMUtils.LABELS_TO_INTEGERS_MAPPING_FILE_NAME,
            AccessMode.READONLY);
    BidiMap id2label = SVMHMMUtils.loadMapping(mappingFile);

    String header = buildHeader(id2label);

    Properties prop = new SortedKeyProperties();
    BidiMap label2id = id2label.inverseBidiMap();

    for (int idx = 0; idx < goldLabels.size(); idx++) {
        String gold = goldLabels.get(idx);
        String pred = predictedLabels.get(idx);
        int g = (int) label2id.getKey(gold);
        int p = (int) label2id.getKey(pred);

        // we decrement all gold/pred labels by one because the evaluation modules seems to
        // expect that the numbering starts with 0 which is seemingly a problem for SVMHMM -
        // thus we decrement all labels and shifting the entire outcome numbering by one
        g--;
        p--;

        prop.setProperty("" + String.format("%05d", idx),
                p + SEPARATOR_CHAR + g + SEPARATOR_CHAR + THRESHOLD_DUMMY_CONSTANT);
    }
    OutputStreamWriter osw = new OutputStreamWriter(new FileOutputStream(evaluationFile), "utf-8");
    prop.store(osw, header);
    osw.close();
}

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From source file:org.LexGrid.LexBIG.example.ScoreTerm.java

/**
 * Display results to the user.//from  w ww  . j a  va 2  s .  c o m
 * 
 * @param result
 */
protected void printReport(BidiMap result) {
    final String Dash6 = "------";
    final String Dash10 = "----------";
    final String Dash60 = "------------------------------------------------------------";

    Formatter f = new Formatter();

    // Print header.
    String format = "%-5.5s|%-10.10s|%-60.60s\n";
    Object[] hSep = new Object[] { Dash6, Dash10, Dash60 };
    f.format(format, hSep);
    f.format(format, new Object[] { "Score", "Code", "Term" });
    f.format(format, hSep);

    // Iterate over the result.
    for (MapIterator items = result.inverseBidiMap().mapIterator(); items.hasNext();) {
        ScoredTerm st = (ScoredTerm) items.next();
        String code = (String) items.getValue();

        // Evaluate code
        if (code != null && code.length() > 10)
            code = code.substring(0, 7) + "...";

        // Evaluate term (wrap if necessary)
        String term = st.term;
        if (term != null && term.length() < 60)
            f.format(format, new Object[] { st.score, code, term });
        else {
            String sub = term.substring(0, 60);
            f.format(format, new Object[] { st.score, code, sub });
            int begin = 60;
            int end = term.length();
            while (begin < end) {
                sub = term.substring(begin, Math.min(begin + 60, end));
                f.format(format, new Object[] { "", "", sub });
                begin += 60;
            }
        }
    }
    Util.displayMessage(f.out().toString());
}

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