org.epiga.algorithm

Class EpigeneticAlgorithm<P extends Problem<R>,R extends Representation<?>>

java.lang.Object

org.epiga.algorithm.EpigeneticAlgorithm<P,R>

Type Parameters:

P - the problem type

R - the representation type

public class EpigeneticAlgorithm<P extends Problem<R>,R extends Representation<?>>
extends java.lang.Object

Epigenetic Algorithm.

Author:

Daniel H. Stolfi

Constructor Summary

Constructors

Constructor and Description
EpigeneticAlgorithm(P problem, int nIndividuals, int nCells, float pe, float pn, int radius) Creates a new Epigenetic Algorithm instance.

Method Summary

Modifier and Type	Method and Description
static void	main(java.lang.String[] args) Entry point
double	run(int nEvaluations, int nSeconds, int cores, java.lang.Long seed, java.lang.String outfile, java.lang.String statfile, int verbosity) Executes the algorithm and saves statistics

Methods inherited from class java.lang.Object

equals, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

EpigeneticAlgorithm

public EpigeneticAlgorithm(P problem,
                           int nIndividuals,
                           int nCells,
                           float pe,
                           float pn,
                           int radius)
                    throws EpigeneticException

Creates a new Epigenetic Algorithm instance.

Parameters:

problem - the problem

nIndividuals - the number of individuals

nCells - the number of cells

pe - the epigenetic probability

pn - the nucleosome probability

radius - the nucleosome radius

Throws:

EpigeneticException

Method Detail

run

public double run(int nEvaluations,
                  int nSeconds,
                  int cores,
                  java.lang.Long seed,
                  java.lang.String outfile,
                  java.lang.String statfile,
                  int verbosity)
           throws java.io.IOException,
                  java.lang.InterruptedException,
                  EpigeneticException

Executes the algorithm and saves statistics

Parameters:

nEvaluations - the number of evaluation or 0

nSeconds - for the optimization process or 0

cores - number of parallel cores

seed - random seed or null for using current milliseconds

outfile - the output file for the best solution

statfile - the output file for statistics

verbosity - the verbosity 0: nothing, 1: steps, 2: Stats, 3: Initial and Final, 4: Cells, 5: Population

Returns:

an array containing the best fitness and the average fitness of the population

Throws:

java.io.IOException

java.lang.InterruptedException

EpigeneticException

main

public static void main(java.lang.String[] args)

Entry point

Parameters:

args - no args here