Individuals
Class GEIndividual

java.lang.Object
  Individuals.AbstractIndividual
      Individuals.GEIndividual

All Implemented Interfaces:

Individual, java.lang.Cloneable, java.lang.Comparable<Individual>

public class GEIndividual
extends AbstractIndividual

GEIndividual. Has a genotype, Phenotype and a GEGrammar. Has fields for validity and mapped status. Only has one chromosome and grammar

Author:

Blip

Field Summary

Fields inherited from class Individuals.AbstractIndividual

age, evaluated, fitness, parentUIDs

Constructor Summary

GEIndividual()
Creates a new instance of GEIndividual

GEIndividual(GEGrammar g, Phenotype p, Genotype gen, Fitness f)
Create new GEindividual instance

Method Summary

Individual	clone() Clone this individual, invialidate and return the clone
int[]	getCrossoverPoints()
Genotype	getGenotype() Get the genotype
static GEIndividual	getIndividual(GEGrammar grammar, Phenotype phen, Genotype genotype, Fitness fitness) Factory method for creating GEIndivdual with different grammars
Mapper	getMapper() Get the map use to map input and output
int[]	getMutationPoints()
java.util.ArrayList<Fitness>	getParents()
Phenotype	getPhenotype() Get phenotype
java.lang.String	getPhenotypeString(int map) Get a String representation of the output(Phenotype)
int	getPreviouslyUsedCodons() Get number of codons used for mapping previoulsy.
int	getUsedCodons() Get number of codons used for mapping
int	getUsedWraps() Get number of wraps used for mapping
void	invalidate() Invalidate the individual.
boolean	isMapped() Is the individual mapped
boolean	isValid() Get the validity of the individual
void	map(int map) Setting these both here so as to negate the need for multiple copies of the Mapper.
void	revalidate(GEIndividual ind) Sets the values reset by invalidate to the values from the individual passed in.
void	setCrossoverPoints(int[] crossoverPoints)
void	setGenotype(Genotype g) Invalidates the individual because a change has been made to the genotype.
void	setMapped(boolean mapped) Set the mapped status of the individual
void	setMapper(Mapper m) Set mapper
void	setMutationPoints(int[] mutationPoints)
void	setParents(java.util.ArrayList<Fitness> parents)
void	setPhenotype(Phenotype p) Set phenotype
void	setPreviouslyUsedCodons(int previouslyUsedCodons)
void	setUsedCodons(int usedCodons) Set how many codons were used
void	setUsedWraps(int usedWraps) Set how many wraps were used
void	setValid(boolean b) Set the validity of the individual
java.lang.String	toString()
boolean	wasPreviouslyValid() Find out whether individual was *previously* valid.

Methods inherited from class Individuals.AbstractIndividual

compareTo, getAge, getFitness, getParentUIDs, getUID, increaseUIDCounter, isEvaluated, setAge, setEvaluated, setFitness, setParentUIDs

Methods inherited from class java.lang.Object

equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait

Constructor Detail

GEIndividual

public GEIndividual()

Creates a new instance of GEIndividual

GEIndividual

public GEIndividual(GEGrammar g,
                    Phenotype p,
                    Genotype gen,
                    Fitness f)

Create new GEindividual instance

Parameters:

g - mapper(grammar)

p - output(phenotype)

gen - input(genotype)

f - fitness

Method Detail

getIndividual

public static GEIndividual getIndividual(GEGrammar grammar,
                                         Phenotype phen,
                                         Genotype genotype,
                                         Fitness fitness)

Factory method for creating GEIndivdual with different grammars

Parameters:

grammar - grammar

phen - phenotype

genotype - genotype

fitness - fitness

Returns:

new GEIndividual

revalidate

public void revalidate(GEIndividual ind)

Sets the values reset by invalidate to the values from the individual passed in.

Parameters:

ind - individual which values are taken from

invalidate

public void invalidate()

Invalidate the individual.

isMapped

public boolean isMapped()

Is the individual mapped

Returns:

mapped

setMapped

public void setMapped(boolean mapped)

Set the mapped status of the individual

Parameters:

mapped - status of the individuals mapping

isValid

public boolean isValid()

Description copied from interface: Individual

Get the validity of the individual

Returns:

validity of the individual

setValid

public void setValid(boolean b)

Description copied from interface: Individual

Set the validity of the individual

Parameters:

b - validity to be set

wasPreviouslyValid

public boolean wasPreviouslyValid()

Find out whether individual was *previously* valid. Used in NGramUpdateOperator, because it needs to know, after selection has invalidated everything, whether individuals are "really" valid.

Returns:

whether it was valid before being invalidated by clone().

setUsedCodons

public void setUsedCodons(int usedCodons)

Set how many codons were used

Parameters:

usedCodons - number of codons used

setUsedWraps

public void setUsedWraps(int usedWraps)

Set how many wraps were used

Parameters:

usedWraps - number of wraps used

map

public void map(int map)

Setting these both here so as to negate the need for multiple copies of the Mapper.

Specified by:

map in interface Individual

Specified by:

map in class AbstractIndividual

Parameters:

map - index to use

getPhenotypeString

public java.lang.String getPhenotypeString(int map)

Description copied from interface: Individual

Get a String representation of the output(Phenotype)

Specified by:

getPhenotypeString in interface Individual

Specified by:

getPhenotypeString in class AbstractIndividual

Parameters:

map - phenotype to chose

Returns:

output string

getGenotype

public Genotype getGenotype()

Description copied from interface: Individual

Get the genotype

Specified by:

getGenotype in interface Individual

Specified by:

getGenotype in class AbstractIndividual

Returns:

genotype

getMapper

public Mapper getMapper()

Description copied from interface: Individual

Get the map use to map input and output

Specified by:

getMapper in interface Individual

Specified by:

getMapper in class AbstractIndividual

Returns:

map used

setMapper

public void setMapper(Mapper m)

Description copied from interface: Individual

Set mapper

Specified by:

setMapper in interface Individual

Specified by:

setMapper in class AbstractIndividual

Parameters:

m - mapper

setGenotype

public void setGenotype(Genotype g)

Invalidates the individual because a change has been made to the genotype. Sets the new genotype in the indivudual as well as in the mapper

Specified by:

setGenotype in interface Individual

Specified by:

setGenotype in class AbstractIndividual

Parameters:

g - genotype

setPhenotype

public void setPhenotype(Phenotype p)

Description copied from interface: Individual

Set phenotype

Specified by:

setPhenotype in interface Individual

Specified by:

setPhenotype in class AbstractIndividual

Parameters:

p - phenotype

getPhenotype

public Phenotype getPhenotype()

Description copied from interface: Individual

Get phenotype

Specified by:

getPhenotype in interface Individual

Specified by:

getPhenotype in class AbstractIndividual

Returns:

phenotype

clone

public Individual clone()

Clone this individual, invialidate and return the clone

Specified by:

clone in interface Individual

Specified by:

clone in class AbstractIndividual

Returns:

Individual cloned and invalidated individual

toString

public java.lang.String toString()

Overrides:

toString in class java.lang.Object

getUsedCodons

public int getUsedCodons()

Get number of codons used for mapping

Returns:

codons used for mapping

setPreviouslyUsedCodons

public void setPreviouslyUsedCodons(int previouslyUsedCodons)

getPreviouslyUsedCodons

public int getPreviouslyUsedCodons()

Get number of codons used for mapping previoulsy. Used when the individual gets invalidated but previous information is needed

Returns:

codons used for mapping previously

getUsedWraps

public int getUsedWraps()

Get number of wraps used for mapping

Returns:

wraps used

getCrossoverPoints

public int[] getCrossoverPoints()

getMutationPoints

public int[] getMutationPoints()

getParents

public java.util.ArrayList<Fitness> getParents()

setCrossoverPoints

public void setCrossoverPoints(int[] crossoverPoints)

setMutationPoints

public void setMutationPoints(int[] mutationPoints)

setParents

public void setParents(java.util.ArrayList<Fitness> parents)