Package org.data2semantics.exp.old

Source Code of org.data2semantics.exp.old.AffiliationLinkPredictionExperiment

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package org.data2semantics.exp.old;


import java.io.File;
import java.io.FileOutputStream;
import java.io.PrintWriter;
import java.util.ArrayList;
import java.util.List;

import org.data2semantics.exp.old.utils.Experimenter;
import org.data2semantics.exp.old.utils.LinkPredictionExperiment;
import org.data2semantics.exp.old.utils.datasets.DataSetFactory;
import org.data2semantics.exp.old.utils.datasets.LinkPredictionDataSet;
import org.data2semantics.exp.old.utils.datasets.LinkPredictionDataSetParameters;
import org.data2semantics.exp.utils.Result;
import org.data2semantics.exp.utils.ResultsTable;
import org.data2semantics.proppred.kernels.graphkernels.IntersectionPartialSubTreeKernel;
import org.data2semantics.proppred.kernels.graphkernels.IntersectionSubTreeKernel;
import org.data2semantics.proppred.kernels.graphkernels.WLSubTreeKernel;
import org.data2semantics.tools.rdf.RDFDataSet;
import org.data2semantics.tools.rdf.RDFFileDataSet;
import org.openrdf.rio.RDFFormat;

public class AffiliationLinkPredictionExperiment {

  private final static String DATA_DIR = "C:\\eclipse\\workspace\\datasets\\aifb\\";
  private final static int NUMBER_OF_PROC = 6;

  /**
   * @param args
   */
  public static void main(String[] args) {
    RDFDataSet testSetA = new RDFFileDataSet(DATA_DIR + "aifb-fixed_complete.rdf", RDFFormat.RDFXML);
    //RDFDataSet testSetB = new RDFFileDataSet(DATA_DIR + "aifb-fixed_no_schema.n3", RDFFormat.N3);

    List<LinkPredictionDataSetParameters> dataSetsParams = new ArrayList<LinkPredictionDataSetParameters>();
    List<String> bl = new ArrayList<String>();
    bl.add("http://swrc.ontoware.org/ontology#affiliation");
    bl.add("http://swrc.ontoware.org/ontology#employs");

    long[] seeds = {11,21,31,41,51,61,71,81,91,101};
    double[] cs = {0.5}; 
    int maxClassSize = 100;

    dataSetsParams.add(new LinkPredictionDataSetParameters(testSetA, "http://swrc.ontoware.org/ontology#Person", "http://swrc.ontoware.org/ontology#ResearchGroup", "http://swrc.ontoware.org/ontology#affiliation", bl, 1, false, false));
    dataSetsParams.add(new LinkPredictionDataSetParameters(testSetA, "http://swrc.ontoware.org/ontology#Person", "http://swrc.ontoware.org/ontology#ResearchGroup", "http://swrc.ontoware.org/ontology#affiliation", bl, 2, false, false));
    //dataSetsParams.add(new LinkPredictionDataSetParameters(testSetA, "http://swrc.ontoware.org/ontology#Person", "http://swrc.ontoware.org/ontology#ResearchGroup", "http://swrc.ontoware.org/ontology#affiliation", bl, 3, false, false));
   
    dataSetsParams.add(new LinkPredictionDataSetParameters(testSetA, "http://swrc.ontoware.org/ontology#Person", "http://swrc.ontoware.org/ontology#ResearchGroup", "http://swrc.ontoware.org/ontology#affiliation", bl, 1, false, true));
    dataSetsParams.add(new LinkPredictionDataSetParameters(testSetA, "http://swrc.ontoware.org/ontology#Person", "http://swrc.ontoware.org/ontology#ResearchGroup", "http://swrc.ontoware.org/ontology#affiliation", bl, 2, false, true));
    //dataSetsParams.add(new LinkPredictionDataSetParameters(testSetA, "http://swrc.ontoware.org/ontology#Person", "http://swrc.ontoware.org/ontology#ResearchGroup", "http://swrc.ontoware.org/ontology#affiliation", bl, 3, false, true));

   
    dataSetsParams.add(new LinkPredictionDataSetParameters(testSetA, "http://swrc.ontoware.org/ontology#Person", "http://swrc.ontoware.org/ontology#ResearchGroup", "http://swrc.ontoware.org/ontology#affiliation", bl, 1, true, false));
    dataSetsParams.add(new LinkPredictionDataSetParameters(testSetA, "http://swrc.ontoware.org/ontology#Person", "http://swrc.ontoware.org/ontology#ResearchGroup", "http://swrc.ontoware.org/ontology#affiliation", bl, 2, true, false));
    dataSetsParams.add(new LinkPredictionDataSetParameters(testSetA, "http://swrc.ontoware.org/ontology#Person", "http://swrc.ontoware.org/ontology#ResearchGroup", "http://swrc.ontoware.org/ontology#affiliation", bl, 1, true, true));
    dataSetsParams.add(new LinkPredictionDataSetParameters(testSetA, "http://swrc.ontoware.org/ontology#Person", "http://swrc.ontoware.org/ontology#ResearchGroup", "http://swrc.ontoware.org/ontology#affiliation", bl, 2, true, true));

    /*
    dataSetsParams.add(new LinkPredictionDataSetParameters(testSetB, "http://swrc.ontoware.org/ontology#Person", "http://swrc.ontoware.org/ontology#ResearchGroup", "http://swrc.ontoware.org/ontology#affiliation", bl, 1, false, false));
    dataSetsParams.add(new LinkPredictionDataSetParameters(testSetB, "http://swrc.ontoware.org/ontology#Person", "http://swrc.ontoware.org/ontology#ResearchGroup", "http://swrc.ontoware.org/ontology#affiliation", bl, 2, false, false));
    dataSetsParams.add(new LinkPredictionDataSetParameters(testSetB, "http://swrc.ontoware.org/ontology#Person", "http://swrc.ontoware.org/ontology#ResearchGroup", "http://swrc.ontoware.org/ontology#affiliation", bl, 1, false, true));
    dataSetsParams.add(new LinkPredictionDataSetParameters(testSetB, "http://swrc.ontoware.org/ontology#Person", "http://swrc.ontoware.org/ontology#ResearchGroup", "http://swrc.ontoware.org/ontology#affiliation", bl, 2, false, true));

    dataSetsParams.add(new LinkPredictionDataSetParameters(testSetB, "http://swrc.ontoware.org/ontology#Person", "http://swrc.ontoware.org/ontology#ResearchGroup", "http://swrc.ontoware.org/ontology#affiliation", bl, 1, true, false));
    dataSetsParams.add(new LinkPredictionDataSetParameters(testSetB, "http://swrc.ontoware.org/ontology#Person", "http://swrc.ontoware.org/ontology#ResearchGroup", "http://swrc.ontoware.org/ontology#affiliation", bl, 2, true, false));
    dataSetsParams.add(new LinkPredictionDataSetParameters(testSetB, "http://swrc.ontoware.org/ontology#Person", "http://swrc.ontoware.org/ontology#ResearchGroup", "http://swrc.ontoware.org/ontology#affiliation", bl, 1, true, true));
    dataSetsParams.add(new LinkPredictionDataSetParameters(testSetB, "http://swrc.ontoware.org/ontology#Person", "http://swrc.ontoware.org/ontology#ResearchGroup", "http://swrc.ontoware.org/ontology#affiliation", bl, 2, true, true));
    */

    LinkPredictionDataSet dataset;
    LinkPredictionExperiment exp;

    ResultsTable resultsWL  = new ResultsTable();
    ResultsTable resultsSTF = new ResultsTable();
    ResultsTable resultsSTP = new ResultsTable();
    ResultsTable resultsIGW = new ResultsTable();
    ResultsTable resultsIGP = new ResultsTable();

    Experimenter experimenter = new Experimenter(NUMBER_OF_PROC);
    Thread expT = new Thread(experimenter);
    expT.setDaemon(true);
    expT.start();



    try {
      for (LinkPredictionDataSetParameters params : dataSetsParams) {
        dataset = DataSetFactory.createLinkPredictonDataSet(params);
        //dataset.removeSmallClasses(5);

        resultsWL.newRow(dataset.getLabel() + " WLSubTreeKernel");
        for (int i = 0; i < 3; i++) {
          if (experimenter.hasSpace()) {   
            int fileId = (int) (Math.random() * 100000000); 
            File file = new File(DATA_DIR + "_" + "WL" + fileId + "_" + i + ".txt");
            exp = new LinkPredictionExperiment(new LinkPredictionDataSet(dataset), new WLSubTreeKernel(i), new WLSubTreeKernel(i), 3.0/6.0, 3.0/6.0, seeds, cs, maxClassSize, new FileOutputStream(file));
            experimenter.addExperiment(exp);
            resultsWL.addResult(exp.getResults().getAccuracy());
            resultsWL.addResult(exp.getResults().getF1());
            resultsWL.addResult(exp.getResults().getrPrecision());
            resultsWL.addResult(exp.getResults().getAveragePrecision());
            resultsWL.addResult(exp.getResults().getNdcg());
           
            System.out.println("Running WL, it " + i + " on " + dataset.getLabel());
          }
        }


        resultsSTF.newRow(dataset.getLabel() + " IntersectionFullSubTreeKernel");
        for (int i = 0; i < 3; i++) {

          if (experimenter.hasSpace()) {   
            int fileId = (int) (Math.random() * 100000000); 
            File file = new File(DATA_DIR + "_" + "IntersectionFullSubTree" + fileId + "_" + i + ".txt");
            exp = new LinkPredictionExperiment(new LinkPredictionDataSet(dataset), new IntersectionSubTreeKernel(i,1), new IntersectionSubTreeKernel(i,1), 3.0/6.0, 3.0/6.0, seeds, cs, maxClassSize, new FileOutputStream(file));
            experimenter.addExperiment(exp);
            resultsSTF.addResult(exp.getResults().getAccuracy());
            resultsSTF.addResult(exp.getResults().getF1());
            resultsSTF.addResult(exp.getResults().getrPrecision());
            resultsSTF.addResult(exp.getResults().getAveragePrecision());
            resultsSTF.addResult(exp.getResults().getNdcg());
           
            System.out.println("Running STF, it " + i + " on " + dataset.getLabel());
          }
        }

        resultsSTP.newRow(dataset.getLabel() + " IntersectionPartialSubTreeKernel");
        for (int i = 0; i < 3; i++) {
          if (experimenter.hasSpace()) {   
            int fileId = (int) (Math.random() * 100000000); 
            File file = new File(DATA_DIR + "_" + "IntersectionPartialSubTree" + fileId + "_" + i + ".txt");
            exp = new LinkPredictionExperiment(new LinkPredictionDataSet(dataset), new IntersectionPartialSubTreeKernel(i,0.01), new IntersectionPartialSubTreeKernel(i,0.01), 3.0/6.0, 3.0/6.0, seeds, cs, maxClassSize, new FileOutputStream(file)); 
            experimenter.addExperiment(exp);
            resultsSTP.addResult(exp.getResults().getAccuracy());
            resultsSTP.addResult(exp.getResults().getF1());
            resultsSTP.addResult(exp.getResults().getrPrecision());
            resultsSTP.addResult(exp.getResults().getAveragePrecision());
            resultsSTP.addResult(exp.getResults().getNdcg());
           
            System.out.println("Running STP, it " + i + " on " + dataset.getLabel());
          }
        }


        /*
        resultsIGW.newRow(dataset.getLabel() + " IntersectionGraphWalkKernel");
        for (int i = 1; i < 3; i++) {
          if (experimenter.hasSpace()) {   
            int fileId = (int) (Math.random() * 100000000); 
            File file = new File(DATA_DIR + "_" + "IntersectionGraphWalk" + fileId + "_" + i + ".txt");
            exp = new LinkPredictionExperiment(new LinkPredictionDataSet(dataset), new IntersectionGraphWalkKernel(i,1), new IntersectionGraphWalkKernel(i,1), 0.5, 0.5, seeds, cs, maxClassSize, new FileOutputStream(file)); 
            experimenter.addExperiment(exp);
            resultsIGW.addResult(exp.getResults().getAccuracy());
            resultsIGW.addResult(exp.getResults().getF1());
            resultsIGW.addResult(exp.getResults().getrPrecision());
            resultsIGW.addResult(exp.getResults().getAveragePrecision());
            resultsIGW.addResult(exp.getResults().getNdcg());
           
            System.out.println("Running IGW, it " + i + " on " + dataset.getLabel());
          }
        }       

        resultsIGP.newRow(dataset.getLabel() + " IntersectionGraphPathKernel");
        for (int i = 1; i < 3; i++) {
          if (experimenter.hasSpace()) {   
            int fileId = (int) (Math.random() * 100000000); 
            File file = new File(DATA_DIR + "_" + "IntersectionGraphPath" + fileId + "_" + i + ".txt");
            exp = new LinkPredictionExperiment(new LinkPredictionDataSet(dataset), new IntersectionGraphPathKernel(i,1), new IntersectionGraphPathKernel(i,1), 0.5, 0.5, seeds, cs, maxClassSize, new FileOutputStream(file)); 
            experimenter.addExperiment(exp);
            resultsIGP.addResult(exp.getResults().getAccuracy());
            resultsIGP.addResult(exp.getResults().getF1());
            resultsIGP.addResult(exp.getResults().getrPrecision());
            resultsIGP.addResult(exp.getResults().getAveragePrecision());
            resultsIGP.addResult(exp.getResults().getNdcg());
           
            System.out.println("Running IGP, it " + i + " on " + dataset.getLabel());
          }
        }

        //*/

      }
    } catch (Exception e) {
      e.printStackTrace();
    }

    experimenter.stop();

    while (expT.isAlive()) {
      try {
        Thread.sleep(1000);
      } catch (Exception e) {
        e.printStackTrace();
      }
    }

    try {
      int fileId = (int) (Math.random() * 100000000); 
      File file = new File(DATA_DIR + fileId + "_" + "all_results" + ".txt");
      PrintWriter fileOut = new PrintWriter(new FileOutputStream(file));

     
      List<Result> bestResults = new ArrayList<Result>();
     
      bestResults = resultsWL.getBestResults(bestResults);
      bestResults = resultsSTF.getBestResults(bestResults);
      bestResults = resultsSTP.getBestResults(bestResults);
      bestResults = resultsIGW.getBestResults(bestResults);
      bestResults = resultsIGP.getBestResults(bestResults);
     
      resultsWL.addCompResults(bestResults);
      resultsSTF.addCompResults(bestResults);
      resultsSTP.addCompResults(bestResults);
      resultsIGW.addCompResults(bestResults);
      resultsIGP.addCompResults(bestResults);

     
      fileOut.println(resultsWL);
      fileOut.println(resultsSTF);
      fileOut.println(resultsSTP);
      fileOut.println(resultsIGW);
      fileOut.println(resultsIGP);

      fileOut.println(resultsWL.allScoresToString());
      fileOut.println(resultsSTF.allScoresToString());
      fileOut.println(resultsSTP.allScoresToString());
      fileOut.println(resultsIGW.allScoresToString());
      fileOut.println(resultsIGP.allScoresToString());

      System.out.println(resultsWL);
      System.out.println(resultsSTF);
      System.out.println(resultsSTP);
      System.out.println(resultsIGW);
      System.out.println(resultsIGP);

      System.out.println(resultsWL.allScoresToString());
      System.out.println(resultsSTF.allScoresToString());
      System.out.println(resultsSTP.allScoresToString());
      System.out.println(resultsIGW.allScoresToString());
      System.out.println(resultsIGP.allScoresToString());


    } catch (Exception e) {
      e.printStackTrace();
    }

  }

}
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Related Classes of org.data2semantics.exp.old.AffiliationLinkPredictionExperiment

  • org.data2semantics.exp.old.utils.datasets.LinkPredictionDataSet
  • org.data2semantics.exp.old.utils.datasets.LinkPredictionDataSetParameters
  • org.data2semantics.exp.old.utils.Experimenter
  • org.data2semantics.exp.old.utils.LinkPredictionExperiment
  • org.data2semantics.exp.utils.ResultsTable
  • org.data2semantics.proppred.kernels.graphkernels.IntersectionPartialSubTreeKernel
  • org.data2semantics.proppred.kernels.graphkernels.IntersectionSubTreeKernel
  • org.data2semantics.proppred.kernels.graphkernels.WLSubTreeKernel
  • org.data2semantics.tools.rdf.RDFDataSet
  • org.data2semantics.tools.rdf.RDFFileDataSet
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