Author: tn
Date: Sun Dec 8 18:18:13 2013
New Revision: 1549090
URL: http://svn.apache.org/r1549090
Log:
Add HelloWorld example for genetics package.
Added:
commons/proper/math/trunk/src/userguide/java/org/apache/commons/math3/userguide/genetics/
commons/proper/math/trunk/src/userguide/java/org/apache/commons/math3/userguide/genetics/HelloWorldExample.java
(with props)
Added:
commons/proper/math/trunk/src/userguide/java/org/apache/commons/math3/userguide/genetics/HelloWorldExample.java
URL:
http://svn.apache.org/viewvc/commons/proper/math/trunk/src/userguide/java/org/apache/commons/math3/userguide/genetics/HelloWorldExample.java?rev=1549090&view=auto
==============================================================================
---
commons/proper/math/trunk/src/userguide/java/org/apache/commons/math3/userguide/genetics/HelloWorldExample.java
(added)
+++
commons/proper/math/trunk/src/userguide/java/org/apache/commons/math3/userguide/genetics/HelloWorldExample.java
Sun Dec 8 18:18:13 2013
@@ -0,0 +1,171 @@
+package org.apache.commons.math3.userguide.genetics;
+
+import java.util.ArrayList;
+import java.util.Arrays;
+import java.util.LinkedList;
+import java.util.List;
+
+import org.apache.commons.lang3.ArrayUtils;
+import org.apache.commons.lang3.RandomStringUtils;
+import org.apache.commons.math3.exception.util.LocalizedFormats;
+import org.apache.commons.math3.genetics.AbstractListChromosome;
+import org.apache.commons.math3.genetics.Chromosome;
+import org.apache.commons.math3.genetics.ElitisticListPopulation;
+import org.apache.commons.math3.genetics.GeneticAlgorithm;
+import org.apache.commons.math3.genetics.InvalidRepresentationException;
+import org.apache.commons.math3.genetics.MutationPolicy;
+import org.apache.commons.math3.genetics.OnePointCrossover;
+import org.apache.commons.math3.genetics.Population;
+import org.apache.commons.math3.genetics.StoppingCondition;
+import org.apache.commons.math3.genetics.TournamentSelection;
+import org.apache.commons.math3.util.FastMath;
+import org.apache.commons.math3.util.Precision;
+
+public class HelloWorldExample {
+ public static final int POPULATION_SIZE = 1000;
+ public static final double CROSSOVER_RATE = 0.9;
+ public static final double MUTATION_RATE = 0.03;
+ public static final double ELITISM_RATE = 0.1;
+ public static final int TOURNAMENT_ARITY = 2;
+
+ public static final String TARGET_STRING = "Hello World!";
+ public static final int DIMENSION = TARGET_STRING.length();
+
+ public static void main(String[] args) {
+ long startTime = System.currentTimeMillis();
+
+ // initialize a new genetic algorithm
+ GeneticAlgorithm ga = new GeneticAlgorithm(new
OnePointCrossover<Character>(), CROSSOVER_RATE,
+ new
RandomCharacterMutation(), MUTATION_RATE,
+ new
TournamentSelection(TOURNAMENT_ARITY));
+
+ // initial population
+ Population initial = getInitialPopulation();
+
+ // stopping condition
+ StoppingCondition stoppingCondition = new StoppingCondition() {
+
+ int generation = 0;
+
+ @Override
+ public boolean isSatisfied(Population population) {
+ Chromosome fittestChromosome =
population.getFittestChromosome();
+
+ if (generation == 1 || generation % 10 == 0) {
+ System.out.println("Generation " + generation + ": " +
fittestChromosome.toString());
+ }
+ generation++;
+
+ double fitness = fittestChromosome.fitness();
+ if (Precision.equals(fitness, 0.0, 1e-6)) {
+ return true;
+ } else {
+ return false;
+ }
+ }
+ };
+
+ System.out.println("Starting evolution ...");
+
+ // run the algorithm
+ Population finalPopulation = ga.evolve(initial, stoppingCondition);
+
+ // Get the end time for the simulation.
+ long endTime = System.currentTimeMillis();
+
+ // best chromosome from the final population
+ Chromosome best = finalPopulation.getFittestChromosome();
+ System.out.println("Generation " + ga.getGenerationsEvolved() + ": " +
best.toString());
+ System.out.println("Total execution time: " + (endTime - startTime) +
"ms");
+ }
+
+ private static List<Character> randomRepresentation(int length) {
+ return asList(RandomStringUtils.randomAscii(length));
+ }
+
+ private static List<Character> asList(String str) {
+ return Arrays.asList(ArrayUtils.toObject(str.toCharArray()));
+ }
+
+ private static Population getInitialPopulation() {
+ List<Chromosome> popList = new LinkedList<Chromosome>();
+
+ for (int i = 0; i < POPULATION_SIZE; i++) {
+ popList.add(new StringChromosome(randomRepresentation(DIMENSION)));
+ }
+ return new ElitisticListPopulation(popList, 2 * popList.size(),
ELITISM_RATE);
+ }
+
+ /**
+ * String Chromosome represented by a list of characters.
+ */
+ public static class StringChromosome extends
AbstractListChromosome<Character> {
+
+ public StringChromosome(List<Character> repr) {
+ super(repr);
+ }
+
+ public StringChromosome(String str) {
+ this(asList(str));
+ }
+
+ public double fitness() {
+ String target = TARGET_STRING;
+ int f = 0; // start at 0; the best fitness
+ List<Character> chromosome = getRepresentation();
+ for (int i = 0, c = target.length(); i < c; i++) {
+ // subtract the ascii difference between the target character
and the chromosome character.
+ // Thus 'c' is fitter than 'd' when compared to 'a'.
+ f -= FastMath.abs(target.charAt(i) -
chromosome.get(i).charValue());
+ }
+ return f;
+ }
+
+ @Override
+ protected void checkValidity(List<Character> repr) throws
InvalidRepresentationException {
+ for (char c : repr) {
+ if (c < 32 || c > 126) {
+ throw new
InvalidRepresentationException(LocalizedFormats.INVALID_FIXED_LENGTH_CHROMOSOME);
+ }
+ }
+ }
+
+ public List<Character> getStringRepresentation() {
+ return getRepresentation();
+ }
+
+ @Override
+ public StringChromosome newFixedLengthChromosome(List<Character>
repr) {
+ return new StringChromosome(repr);
+ }
+
+ @Override
+ public String toString() {
+ StringBuffer sb = new StringBuffer();
+ for (Character i : getRepresentation()) {
+ sb.append(i.charValue());
+ }
+ return String.format("(f=%s '%s')", getFitness(),
sb.toString());
+ }
+
+ }
+
+ private static class RandomCharacterMutation implements MutationPolicy {
+ public Chromosome mutate(Chromosome original) {
+ if (!(original instanceof StringChromosome)) {
+ throw new IllegalArgumentException();
+ }
+
+ StringChromosome strChromosome = (StringChromosome)
original;
+ List<Character> characters =
strChromosome.getStringRepresentation();
+
+ int mutationIndex =
GeneticAlgorithm.getRandomGenerator().nextInt(characters.size());
+
+ List<Character> mutatedChromosome = new
ArrayList<Character>(characters);
+ char newValue = (char) (32 +
GeneticAlgorithm.getRandomGenerator().nextInt(127 - 32));
+ mutatedChromosome.set(mutationIndex, newValue);
+
+ return
strChromosome.newFixedLengthChromosome(mutatedChromosome);
+ }
+ }
+}
Propchange:
commons/proper/math/trunk/src/userguide/java/org/apache/commons/math3/userguide/genetics/HelloWorldExample.java
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commons/proper/math/trunk/src/userguide/java/org/apache/commons/math3/userguide/genetics/HelloWorldExample.java
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