Example usage for weka.clusterers HierarchicalClusterer getNumClusters

Introduction

In this page you can find the example usage for weka.clusterers HierarchicalClusterer getNumClusters.

Prototype

public int getNumClusters() 

Source Link

Usage

From source file:net.sf.mzmine.modules.peaklistmethods.dataanalysis.clustering.hierarchical.HierarClusterer.java

License:Open Source License

@Override
public ClusteringResult performClustering(Instances dataset, ParameterSet parameters) {
    HierarchicalClusterer clusterer = new HierarchicalClusterer();
    String[] options = new String[5];
    LinkType link = parameters.getParameter(HierarClustererParameters.linkType).getValue();
    DistanceType distanceType = parameters.getParameter(HierarClustererParameters.distanceType).getValue();
    options[0] = "-L";
    options[1] = link.name();// w  w w.  j av  a  2  s. c  o  m
    options[2] = "-A";
    switch (distanceType) {
    case EUCLIDIAN:
        options[3] = "weka.core.EuclideanDistance";
        break;
    case CHEBYSHEV:
        options[3] = "weka.core.ChebyshevDistance";
        break;
    case MANHATTAN:
        options[3] = "weka.core.ManhattanDistance";
        break;
    case MINKOWSKI:
        options[3] = "weka.core.MinkowskiDistance";
        break;
    }

    options[4] = "-P";
    try {
        clusterer.setOptions(options);
        clusterer.setPrintNewick(true);
        clusterer.buildClusterer(dataset);
        // clusterer.graph() gives only the first cluster and in the case
        // there
        // are more than one cluster the variables in the second cluster are
        // missing.
        // I'm using clusterer.toString() which contains all the clusters in
        // Newick format.
        ClusteringResult result = new ClusteringResult(null, clusterer.toString(), clusterer.getNumClusters(),
                null);
        return result;
    } catch (Exception ex) {
        logger.log(Level.SEVERE, null, ex);
        return null;
    }
}

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