coreEngine.Calibration.Organisms

Class PBDemOrg

java.lang.Object

coreEngine.Calibration.Organism

coreEngine.Calibration.Organisms.PBDemOrg

Direct Known Subclasses:

PBDemCDPOrg

public class PBDemOrg
extends Organism

Author:

jltrask

Field Summary

Fields

Modifier and Type	Field and Description
protected StringProfile[][]	adjFactors
protected PBDemOrg	baseOrg

Fields inherited from class coreEngine.Calibration.Organism

alg, capacityDropPct, fitness, FITNESS_TYPE, FITNESS_TYPE2, geometry, multiFitness, mutationPct, numProfiles, profileMapping, scenIdx, seedIdx

Constructor Summary

Constructors

Constructor and Description
PBDemOrg(GeneticAlgorithm alg, int dim1, int dim2)
PBDemOrg(GeneticAlgorithm alg, int seedIdx, int dim1, int dim2)

Method Summary

Modifier and Type	Method and Description
int	applyMeme()
void	assignAFToSeed(int seg, int per)
void	calcFitness()
void	calcMultiFitness()
void	calcSingleFitness()
Organism[]	crossover(Organism mate)
void	decrementAF(int type, int numInc, int seg, int per)
float	getAF(int type, int seg, int per)
java.lang.String	getBinAF(int type, int seg, int per)
PBDemOrg	getChildOrg(java.lang.String[][][] newArr)
Organism	getDeepCopy()
int	getDim1()
int	getDim2()
float[]	getEncodingArray(int period)
java.lang.String	getEncodingString()
float	getSigma()
void	incrementAF(int type, int numInc, int seg, int per)
boolean	isSmoothed()
void	mutate()
void	setAFs(java.lang.String[][][] afArr)
void	setBinAF(java.lang.String afBinString, int type, int seg, int per)

Methods inherited from class coreEngine.Calibration.Organism

checkFitnessDiversity, getFitness, getScenarioIndex, getSeedBaseFitness, getSeedIdx, setGeometry, setScenarioIndex, setSeedIdx

Methods inherited from class java.lang.Object

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

Field Detail

adjFactors

protected final StringProfile[][] adjFactors

baseOrg

protected PBDemOrg baseOrg

Constructor Detail

PBDemOrg

public PBDemOrg(GeneticAlgorithm alg,
                int dim1,
                int dim2)

PBDemOrg

public PBDemOrg(GeneticAlgorithm alg,
                int seedIdx,
                int dim1,
                int dim2)

Method Detail

getChildOrg

public PBDemOrg getChildOrg(java.lang.String[][][] newArr)

setAFs

public void setAFs(java.lang.String[][][] afArr)

assignAFToSeed

public void assignAFToSeed(int seg,
                           int per)

Specified by:

assignAFToSeed in class Organism

calcFitness

public void calcFitness()

Specified by:

calcFitness in class Organism

calcSingleFitness

public void calcSingleFitness()

calcMultiFitness

public void calcMultiFitness()

getEncodingArray

public float[] getEncodingArray(int period)

Specified by:

getEncodingArray in class Organism

mutate

public void mutate()

Specified by:

mutate in class Organism

crossover

public Organism[] crossover(Organism mate)

Specified by:

crossover in class Organism

Returns:

getEncodingString

public java.lang.String getEncodingString()

Specified by:

getEncodingString in class Organism

getDeepCopy

public Organism getDeepCopy()

Specified by:

getDeepCopy in class Organism

getAF

public float getAF(int type,
                   int seg,
                   int per)

getBinAF

public java.lang.String getBinAF(int type,
                                 int seg,
                                 int per)

setBinAF

public void setBinAF(java.lang.String afBinString,
                     int type,
                     int seg,
                     int per)

getDim1

public int getDim1()

getDim2

public int getDim2()

isSmoothed

public boolean isSmoothed()

getSigma

public float getSigma()

incrementAF

public void incrementAF(int type,
                        int numInc,
                        int seg,
                        int per)

decrementAF

public void decrementAF(int type,
                        int numInc,
                        int seg,
                        int per)

applyMeme

public int applyMeme()

Specified by:

applyMeme in class Organism