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-rw-r--r--src/jcgp/CGP.java73
-rw-r--r--src/jcgp/ea/EvolutionaryAlgorithm.java14
-rw-r--r--src/jcgp/ea/StandardEA.java11
-rw-r--r--src/jcgp/ea/StandardMutator.java22
-rw-r--r--src/jcgp/fitness/FitnessEvaluator.java17
-rw-r--r--src/jcgp/fitness/FitnessFunction.java4
-rw-r--r--src/jcgp/fitness/ParameterMismatchException.java10
-rw-r--r--src/jcgp/fitness/TestCase.java41
-rw-r--r--src/jcgp/fitness/TestFitFunction.java17
-rw-r--r--src/jcgp/fitness/TruthTableEvaluator.java26
-rw-r--r--src/jcgp/population/Chromosome.java4
-rw-r--r--src/jcgp/population/MutableElement.java2
-rw-r--r--src/jcgp/population/Node.java14
-rw-r--r--src/jcgp/population/Output.java7
-rw-r--r--src/jcgp/population/Population.java2
15 files changed, 192 insertions, 72 deletions
diff --git a/src/jcgp/CGP.java b/src/jcgp/CGP.java
index 44c76b2..26d1d2b 100644
--- a/src/jcgp/CGP.java
+++ b/src/jcgp/CGP.java
@@ -3,20 +3,27 @@ package jcgp;
import java.util.Random;
import jcgp.ea.EvolutionaryAlgorithm;
+import jcgp.ea.Mutator;
import jcgp.ea.StandardEA;
import jcgp.ea.StandardMutator;
import jcgp.fitness.FitnessFunction;
-import jcgp.fitness.TestFitFunction;
+import jcgp.fitness.TestCase;
+import jcgp.fitness.TruthTableEvaluator;
import jcgp.function.Addition;
import jcgp.function.Function;
import jcgp.function.FunctionSet;
import jcgp.function.Subtraction;
-import jcgp.population.*;
+import jcgp.population.Chromosome;
+import jcgp.population.Connection;
+import jcgp.population.Input;
+import jcgp.population.MutableElement;
+import jcgp.population.Node;
+import jcgp.population.Population;
public final class CGP {
public static class Parameters {
- private static int rows, columns, inputs, outputs, mutationRate, generations, runs, populationSize, levelsBack;
+ private static int rows, columns, inputs, outputs, mutationRate, generations, runs, populationSize, levelsBack, maxArity;
/**
* @return the number of nodes
@@ -151,9 +158,25 @@ public final class CGP {
Parameters.runs = runs;
}
+ /**
+ * @return the maxArity
+ */
+ public static int getMaxArity() {
+ return maxArity;
+ }
+
+ /**
+ * @param maxArity the maxArity to set
+ */
+ private static void setMaxArity(int maxArity) {
+ Parameters.maxArity = maxArity;
+ }
+
+
+
}
- public static class Utilities {
+ public abstract static class Utilities {
public static int getRandomInt(int limit){
return numberGenerator.nextInt(limit);
@@ -304,28 +327,42 @@ public final class CGP {
public static Function getFunction(int index) {
return functionSet.getFunction(index);
}
+ }
- public static int getMaxArity() {
- return maxArity;
+ public static class TruthTable {
+
+ private static TestCase[] testCases;
+
+ private static void setTestCases(TestCase ... testCases) {
+ TruthTable.testCases = testCases;
}
+
+ public static TestCase getTestCase(int index) {
+ return testCases[index];
+ }
+
+ public static int getTestCaseCount() {
+ return testCases.length;
+ }
+
}
-
+
// system-wide resources
private static FunctionSet functionSet;
private static Random numberGenerator;
- private static int maxArity = 0;
- //
- private FitnessFunction fitnessFunction;
+ // CGP components
private EvolutionaryAlgorithm ea;
+ private Mutator mutator;
private Population population;
+ private FitnessFunction fitnessFunction;
public CGP() {
initialise();
- fitnessFunction.evaluatePopulation(population);
+ fitnessFunction.evaluate(population);
- ea.evolve(population);
+ ea.evolve(population, mutator);
}
/**
@@ -350,14 +387,16 @@ public final class CGP {
functionSet = new FunctionSet(new Addition(), new Subtraction());
// compute and set maximum arity
- maxArity = functionSet.getMaxArity();
+ Parameters.setMaxArity(functionSet.getMaxArity());
// initialise EA
- ea = new StandardEA(new StandardMutator());
-
- // initialise fitness function
- fitnessFunction = new TestFitFunction();
+ ea = new StandardEA();
+ mutator = new StandardMutator();
+ // initialise fitness function and truth table
+ TruthTable.setTestCases(new TestCase(new int[] {2, 5, 4}, new int[] {1, 10, 15}));
+ fitnessFunction = new TruthTableEvaluator();
+
// initialise population
population = new Population();
diff --git a/src/jcgp/ea/EvolutionaryAlgorithm.java b/src/jcgp/ea/EvolutionaryAlgorithm.java
index 6e264aa..9e72a1b 100644
--- a/src/jcgp/ea/EvolutionaryAlgorithm.java
+++ b/src/jcgp/ea/EvolutionaryAlgorithm.java
@@ -2,14 +2,14 @@ package jcgp.ea;
import jcgp.population.Population;
-public abstract class EvolutionaryAlgorithm {
+public interface EvolutionaryAlgorithm {
- protected Mutator mutator;
+// protected Mutator mutator;
+//
+// public EvolutionaryAlgorithm(Mutator mutator) {
+// this.mutator = mutator;
+// }
- public EvolutionaryAlgorithm(Mutator mutator) {
- this.mutator = mutator;
- }
-
- public abstract void evolve(Population population);
+ public abstract void evolve(Population population, Mutator mutator);
}
diff --git a/src/jcgp/ea/StandardEA.java b/src/jcgp/ea/StandardEA.java
index fe0b3f9..b98fe9e 100644
--- a/src/jcgp/ea/StandardEA.java
+++ b/src/jcgp/ea/StandardEA.java
@@ -3,15 +3,12 @@ package jcgp.ea;
import jcgp.population.Chromosome;
import jcgp.population.Population;
-public class StandardEA extends EvolutionaryAlgorithm {
-
- public StandardEA(Mutator mutator) {
- super(mutator);
-
- }
+public class StandardEA implements EvolutionaryAlgorithm {
@Override
- public void evolve(Population population) {
+ public void evolve(Population population, Mutator mutator) {
+
+
for (Chromosome chromosome : population) {
mutator.mutate(chromosome);
}
diff --git a/src/jcgp/ea/StandardMutator.java b/src/jcgp/ea/StandardMutator.java
index 731215d..cab5c76 100644
--- a/src/jcgp/ea/StandardMutator.java
+++ b/src/jcgp/ea/StandardMutator.java
@@ -1,13 +1,31 @@
package jcgp.ea;
+import jcgp.CGP.Parameters;
+import jcgp.CGP.Utilities;
import jcgp.population.Chromosome;
+import jcgp.population.MutableElement;
+import jcgp.population.Node;
+import jcgp.population.Output;
public class StandardMutator implements Mutator {
@Override
public void mutate(Chromosome chromosome) {
+ int mutations = (int) (Parameters.getMutationRate() * ((double) Parameters.getNodeNumber() / 100));
-
+ for (int i = 0; i < mutations; i++) {
+ MutableElement m = Utilities.getRandomMutable(chromosome);
+
+ if (m instanceof Output) {
+ m.setConnection(Utilities.getRandomConnection(chromosome, m.getColumn()));
+ } else if (m instanceof Node) {
+ int geneType = Utilities.getRandomInt(1 + Parameters.getMaxArity());
+ if (geneType < 1) {
+ ((Node) m).setFunction(Utilities.getRandomFunction());
+ } else {
+ m.setConnection(Utilities.getRandomConnection(chromosome, m.getColumn()));
+ }
+ }
+ }
}
-
}
diff --git a/src/jcgp/fitness/FitnessEvaluator.java b/src/jcgp/fitness/FitnessEvaluator.java
deleted file mode 100644
index 5ecf679..0000000
--- a/src/jcgp/fitness/FitnessEvaluator.java
+++ /dev/null
@@ -1,17 +0,0 @@
-package jcgp.fitness;
-
-import jcgp.population.Population;
-
-public class FitnessEvaluator {
-
- private FitnessFunction fitnessFunction;
-
- public FitnessEvaluator(FitnessFunction fitnessFunction) {
- this.fitnessFunction = fitnessFunction;
- }
-
- public void evaluateFitness(Population population) {
-
- }
-
-}
diff --git a/src/jcgp/fitness/FitnessFunction.java b/src/jcgp/fitness/FitnessFunction.java
index 2155542..6fa63ef 100644
--- a/src/jcgp/fitness/FitnessFunction.java
+++ b/src/jcgp/fitness/FitnessFunction.java
@@ -3,7 +3,7 @@ package jcgp.fitness;
import jcgp.population.Population;
public interface FitnessFunction {
-
- public void evaluatePopulation(Population population);
+
+ public void evaluate(Population population);
}
diff --git a/src/jcgp/fitness/ParameterMismatchException.java b/src/jcgp/fitness/ParameterMismatchException.java
new file mode 100644
index 0000000..0ca69a7
--- /dev/null
+++ b/src/jcgp/fitness/ParameterMismatchException.java
@@ -0,0 +1,10 @@
+package jcgp.fitness;
+
+public class ParameterMismatchException extends RuntimeException {
+
+ /**
+ *
+ */
+ private static final long serialVersionUID = -3161318886125868134L;
+
+}
diff --git a/src/jcgp/fitness/TestCase.java b/src/jcgp/fitness/TestCase.java
new file mode 100644
index 0000000..e2bd5ed
--- /dev/null
+++ b/src/jcgp/fitness/TestCase.java
@@ -0,0 +1,41 @@
+package jcgp.fitness;
+
+import jcgp.CGP.Parameters;
+
+public class TestCase {
+
+ private int[] inputs;
+ private int[] outputs;
+
+ public TestCase(int[] inputs, int[] outputs) throws ParameterMismatchException {
+ if (inputs.length == Parameters.getInputs()) {
+ this.inputs = inputs;
+ } else {
+ throw new ParameterMismatchException();
+ }
+
+ if (outputs.length == Parameters.getOutputs()) {
+ this.outputs = outputs;
+ } else {
+ throw new ParameterMismatchException();
+ }
+
+ }
+
+ public int getInput(int index) {
+ return inputs[index];
+ }
+
+ public int getOutput(int index) {
+ return outputs[index];
+ }
+
+ public int[] getInputs() {
+ return inputs;
+ }
+
+ public int[] getOutputs() {
+ return outputs;
+ }
+
+}
diff --git a/src/jcgp/fitness/TestFitFunction.java b/src/jcgp/fitness/TestFitFunction.java
deleted file mode 100644
index 00ee833..0000000
--- a/src/jcgp/fitness/TestFitFunction.java
+++ /dev/null
@@ -1,17 +0,0 @@
-package jcgp.fitness;
-
-import jcgp.population.Chromosome;
-import jcgp.population.Population;
-
-public class TestFitFunction implements FitnessFunction {
-
- @Override
- public void evaluatePopulation(Population population) {
-
- for (Chromosome c : population) {
- int i = c.getOutput(0).calculate();
- System.out.println(i);
- c.setFitness(1);
- }
- }
-}
diff --git a/src/jcgp/fitness/TruthTableEvaluator.java b/src/jcgp/fitness/TruthTableEvaluator.java
new file mode 100644
index 0000000..64ca209
--- /dev/null
+++ b/src/jcgp/fitness/TruthTableEvaluator.java
@@ -0,0 +1,26 @@
+package jcgp.fitness;
+
+import jcgp.CGP.Parameters;
+import jcgp.CGP.TruthTable;
+import jcgp.population.Chromosome;
+import jcgp.population.Population;
+
+public class TruthTableEvaluator implements FitnessFunction {
+
+ @Override
+ public void evaluate(Population population) {
+ for (Chromosome chromosome : population) {
+ for (int t = 0; t < TruthTable.getTestCaseCount(); t++) {
+ chromosome.setInputs(TruthTable.getTestCase(t).getInputs());
+ int fitness = 0;
+ for (int o = 0; o < Parameters.getOutputs(); o++) {
+ if (chromosome.getOutput(o).calculate() == TruthTable.getTestCase(t).getOutput(o)) {
+ fitness++;
+ }
+ }
+ chromosome.setFitness(fitness);
+ }
+ }
+ }
+
+}
diff --git a/src/jcgp/population/Chromosome.java b/src/jcgp/population/Chromosome.java
index 70e8836..f060e14 100644
--- a/src/jcgp/population/Chromosome.java
+++ b/src/jcgp/population/Chromosome.java
@@ -45,7 +45,7 @@ public class Chromosome {
for (int r = 0; r < rows; r++) {
//nodes[r] = new Node[Parameters.getColumns()];
for (int c = 0; c < columns; c++) {
- nodes[r][c] = new Node();
+ nodes[r][c] = new Node(c);
}
}
outputs = new Output[outputCount];
@@ -59,7 +59,7 @@ public class Chromosome {
// initialise nodes - [rows][columns]
for (int r = 0; r < nodes.length; r++) {
for (int c = 0; c < nodes.length; c++) {
- Connection[] connections = new Connection[Utilities.getMaxArity()];
+ Connection[] connections = new Connection[Parameters.getMaxArity()];
for (int i = 0; i < connections.length; i++) {
connections[i] = Utilities.getRandomConnection(this, c);
}
diff --git a/src/jcgp/population/MutableElement.java b/src/jcgp/population/MutableElement.java
index 5eae4ef..8ac3724 100644
--- a/src/jcgp/population/MutableElement.java
+++ b/src/jcgp/population/MutableElement.java
@@ -4,4 +4,6 @@ public interface MutableElement {
public void setConnection(Connection newConnection);
+ public int getColumn();
+
}
diff --git a/src/jcgp/population/Node.java b/src/jcgp/population/Node.java
index 8958475..fd0cd47 100644
--- a/src/jcgp/population/Node.java
+++ b/src/jcgp/population/Node.java
@@ -1,5 +1,6 @@
package jcgp.population;
+import jcgp.CGP.Parameters;
import jcgp.CGP.Utilities;
import jcgp.function.Function;
@@ -8,7 +9,12 @@ public class Node implements MutableElement, Connection {
private Function function;
private Connection[] connections;
+ private int column;
+ public Node(int col) {
+ column = col;
+ }
+
@Override
public int evaluate() {
return function.run(connections);
@@ -27,10 +33,16 @@ public class Node implements MutableElement, Connection {
function = newFunction;
- if (newConnections.length >= Utilities.getMaxArity()) {
+ if (newConnections.length >= Parameters.getMaxArity()) {
connections = newConnections;
} else {
throw new InsufficientConnectionsException();
}
}
+
+ @Override
+ public int getColumn() {
+
+ return column;
+ }
}
diff --git a/src/jcgp/population/Output.java b/src/jcgp/population/Output.java
index 1640deb..eeae743 100644
--- a/src/jcgp/population/Output.java
+++ b/src/jcgp/population/Output.java
@@ -1,5 +1,7 @@
package jcgp.population;
+import jcgp.CGP.Parameters;
+
public class Output implements MutableElement {
@@ -15,4 +17,9 @@ public class Output implements MutableElement {
}
+ @Override
+ public int getColumn() {
+ return Parameters.getColumns();
+ }
+
}
diff --git a/src/jcgp/population/Population.java b/src/jcgp/population/Population.java
index 55f756a..e171a2f 100644
--- a/src/jcgp/population/Population.java
+++ b/src/jcgp/population/Population.java
@@ -43,6 +43,8 @@ public class Population implements Iterable<Chromosome> {
@Override
public void remove() {
// not allowed
+ // since this would shift everything back one position, increment index
+ index++;
}
};
generated by cgit v1.2.3 (git 2.25.1) at 2024-11-22 06:30:23 +0000