evSOLve.JEvolution.chromosomes

Class SubsetPermChromosome

java.lang.Object

evSOLve.JEvolution.chromosomes.Chromosome

evSOLve.JEvolution.chromosomes.IntChromosome

evSOLve.JEvolution.chromosomes.PermChromosome

evSOLve.JEvolution.chromosomes.SubsetPermChromosome

All Implemented Interfaces:

java.io.Serializable, java.lang.Cloneable

public class SubsetPermChromosome
extends PermChromosome

See Also:

Serialized Form

Field Summary

Fields inherited from class evSOLve.JEvolution.chromosomes.IntChromosome

bases, high, low

Fields inherited from class evSOLve.JEvolution.chromosomes.Chromosome

BIASED, crossoverPoints, crossoverRate, LAPLACE, length, mutationRate, soupType

Constructor Summary

Constructors

Constructor and Description
SubsetPermChromosome() The standard constructor.
SubsetPermChromosome(Element c) Creates a SubsetPermChromosome via XML.
SubsetPermChromosome(int length) Constructs a chromosome of given length.

Method Summary

Methods

Modifier and Type	Method and Description
boolean	equals(java.lang.Object o) An efficient check for equality.
int	getSubSetSize() Return subset size.
int	hashCode() An efficient hash code.
void	setSubSetSize(int subSetSize) Change subset size.
Element	toXml(Element parent) Saves the current state to XML.

Methods inherited from class evSOLve.JEvolution.chromosomes.PermChromosome

doCrossover, doMutation, mixSoup

Methods inherited from class evSOLve.JEvolution.chromosomes.IntChromosome

clone, fromString, getBases, getHigh, getLow, setHigh, setLow, toString

Methods inherited from class evSOLve.JEvolution.chromosomes.Chromosome

create, getCrossoverPoints, getCrossoverRate, getLength, getMutationRate, getSoupType, setCrossoverPoints, setCrossoverRate, setLength, setMutationRate, setSoupType

Methods inherited from class java.lang.Object

finalize, getClass, notify, notifyAll, wait, wait, wait

Constructor Detail

SubsetPermChromosome

public SubsetPermChromosome()

The standard constructor.

SubsetPermChromosome

public SubsetPermChromosome(int length)

Constructs a chromosome of given length.

Parameters:

length - the number of bases

SubsetPermChromosome

public SubsetPermChromosome(Element c)

Creates a SubsetPermChromosome via XML.

Parameters:

c - an XML Chromosome element

Method Detail

equals

public boolean equals(java.lang.Object o)

An efficient check for equality. It only checks the bases, first, if the number of bases is equal, and then if the smaller subset of base values are the same.

Overrides:

equals in class IntChromosome

Returns:

equal The equality of the passed object with this object.

hashCode

public int hashCode()

An efficient hash code. Uses List.hashCode(), but it first creates a List where only the bases of the smaller subset are copied in order to keep the number of different keys as small as possible.

Overrides:

hashCode in class IntChromosome

Returns:

hashCode A correct hash code.

getSubSetSize

public int getSubSetSize()

Return subset size.

Returns:

subSetSize The number of elements in the subset.

setSubSetSize

public void setSubSetSize(int subSetSize)
                   throws JEvolutionException

Change subset size.

Parameters:

subSetSize - The number of elements in the subset.

Throws:

JEvolutionException - Invalid size.

toXml

public Element toXml(Element parent)

Saves the current state to XML.

Overrides:

toXml in class IntChromosome

Parameters:

parent - the JDOM parent element

Returns:

the Chromosome element