/*
* Copyright (c) 2010 Mathew Hall.
* All rights reserved.
*
* Redistribution and use in source and binary forms, with or
* without modification, are permitted provided that the following conditions
* are met:
*
* Redistributions of source code must retain the above copyright
* notice, this list of conditions and the following disclaimer.
* Redistributions in binary form must reproduce the above
* copyright notice, this list of conditions and the following
* disclaimer in the documentation and/or other materials provided
* with the distribution.
* Neither the name of the <ORGANIZATION> nor the names of its
* contributors may be used to endorse or promote products derived
* from this software without specific prior written permission.
*
* THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND
* CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES,
* INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF
* MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE
* DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR
* CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL,
* SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT
* NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES;
* LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION)
* HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN
* CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR
* OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE,
* EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
*/
package search.searchtechniques;
import org.jgap.Chromosome;
import org.jgap.Configuration;
import org.jgap.Genotype;
import org.jgap.IChromosome;
import org.jgap.InvalidConfigurationException;
import org.jgap.impl.DefaultConfiguration;
import primitives.cluster.ClusterHead;
import search.fitnessfunctions.util.TreeTranslator;
/**
*
* @author Mathew Hall
*/
public class GeneticAlgorithmSearch extends Search {
Configuration gaConf;
Genotype genotype;
IChromosome fittest;
double fitness;
public GeneticAlgorithmSearch(){
}
@Override
protected void setup() throws InvalidConfigurationException{
gaConf = new DefaultConfiguration();
gaConf.setPreservFittestIndividual(true);
GeneFactory gf = new GeneFactory(geneType, in.getSize());
IChromosome sampleChromosome = new Chromosome(gaConf, gf.getInstance(gaConf),
chromesize);
gaConf.setSampleChromosome(sampleChromosome);
gaConf.setPopulationSize(popsize);
gaConf.setFitnessFunction(ff);
genotype = Genotype.randomInitialGenotype(gaConf);
}
public double iteration(){
for(IChromosome ic : genotype.getPopulation().getChromosomes()){
ic.setApplicationData(geneType);
}
genotype.evolve();
fittest = genotype.getFittestChromosome();
fitness = fittest.getFitnessValue();
return fitness;
}
public ClusterHead getClustering(){
return TreeTranslator.getTree(fittest, in);
}
public double getFitness(){
return fitness;
}
}