/*
* Concept profile generation tool suite
* Copyright (C) 2015 Biosemantics Group, Erasmus University Medical Center,
* Rotterdam, The Netherlands
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU Affero General Public License as published
* by the Free Software Foundation, either version 3 of the License, or
* (at your option) any later version.
*
* This program is distributed in the hope that it will be useful,
* but WITHOUT ANY WARRANTY; without even the implied warranty of
* MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
* GNU Affero General Public License for more details.
*
* You should have received a copy of the GNU Affero General Public License
* along with this program. If not, see <http://www.gnu.org/licenses/>
*/
package org.erasmusmc.ontology.ontologyutilities.evaluationScripts;
import org.erasmusmc.ontology.Ontology;
import org.erasmusmc.ontology.OntologyFileLoader;
import org.erasmusmc.ontology.ontologyutilities.HomonymAnalyzer;
import org.erasmusmc.utilities.StringUtilities;
public class OntologyHomonymCountScript{
public static String outputFile = "/home/khettne/UMLS/2008AB/homonyms_umls2008AB.txt";
public static String ontologyPath = "/home/khettne/UMLS/2008AB/UMLS2008AB_060209.ontology";
public static String normaliserCacheFile = "/home/public/Peregrine/standardNormCache2006.bin";
public static void main(String[] args){
System.out.println("Starting script. " + StringUtilities.now());
System.out.println("Loading ontology. " + StringUtilities.now());
OntologyFileLoader loader = new OntologyFileLoader();
Ontology ontology = loader.load(ontologyPath);
System.out.println("Analyzing homonyms. " + StringUtilities.now());
HomonymAnalyzer homcount = new HomonymAnalyzer();
homcount.destroyOntologyDuringRelease = false;
homcount.normaliser.loadCacheBinary(normaliserCacheFile);
homcount.setOntology(ontology);
homcount.countHomonyms(outputFile);
System.out.println("Done. " + StringUtilities.now());
}
}