A B C D E F G I M N P R S T W

A

addChromosomesToLog(int, int) - Method in class com.softtechdesign.ga.GA

Display chromosome information to System.out

B

bestFitnessChromIndex - Variable in class com.softtechdesign.ga.GA

index of fittest chromosome in current generation

binaryStrToInt(String) - Method in class com.softtechdesign.ga.GA

Take a binary string and convert it to the long integer.

C

ChromChars - class com.softtechdesign.ga.ChromChars.

Chromosome class where genes are stored as an array of chars

ChromChars(int) - Constructor for class com.softtechdesign.ga.ChromChars

Constructor creates new array of genes given the iGenesDim

chromDecPts - Variable in class com.softtechdesign.ga.GAString

you can store floating point numbers in strings.

ChromFloat - class com.softtechdesign.ga.ChromFloat.

Chromosome class where genes are stored as floating point numbers

ChromFloat(int) - Constructor for class com.softtechdesign.ga.ChromFloat

Creates an double array which stores the genes

chromNextGen - Variable in class com.softtechdesign.ga.GA

storage for temporary holding pool for next generation chromosomes

Chromosome - class com.softtechdesign.ga.Chromosome.

Chromosome is the abstract base class for all chromosomes.

Chromosome() - Constructor for class com.softtechdesign.ga.Chromosome

chromosomeDim - Variable in class com.softtechdesign.ga.GA

dimension of chromosome (number of genes)

chromosomes - Variable in class com.softtechdesign.ga.GA

storage for pool of chromosomes for current generation

ChromStrings - class com.softtechdesign.ga.ChromStrings.

Chromosome class where genes are stored as an array of strings

ChromStrings(int) - Constructor for class com.softtechdesign.ga.ChromStrings

Creates new string array of genes

chromStrToFloat(String, int) - Method in class com.softtechdesign.ga.GAString

Convert a chromosome string to it's double equivalent for example, if sChromosome = "01234" and iNumDecPts = 4, then return 0.1234

com.softtechdesign.ga - package com.softtechdesign.ga

computeFitnessRankings() - Method in class com.softtechdesign.ga.GA

Calculate rankings for all chromosomes.

computeStatistics - Variable in class com.softtechdesign.ga.GA

compute statistics for each generation during evolution?

copyChromGenes(Chromosome) - Method in class com.softtechdesign.ga.Chromosome

Copy the genes from the given chromosome over this chromosome's genes

copyChromGenes(Chromosome) - Method in class com.softtechdesign.ga.ChromFloat

Copy the genes from the given chromosome over the existing genes

copyChromGenes(Chromosome) - Method in class com.softtechdesign.ga.ChromStrings

Copy the genes from the given chromosome over the existing genes

copyChromGenes(Chromosome) - Method in class com.softtechdesign.ga.ChromChars

Copy the genes from the given chromosome over the existing genes

copyNextGenToThisGen() - Method in class com.softtechdesign.ga.GA

Copy the chromosomes previously created and stored in the "next" generation into the main chromsosome memory pool.

Crossover - interface com.softtechdesign.ga.Crossover.

The valid genetic mating crossover types

crossoverProb - Variable in class com.softtechdesign.ga.GA

probability that a crossover will occur during genetic mating

crossoverType - Variable in class com.softtechdesign.ga.GA

type of crossover to be employed during genetic mating

ctOnePoint - Static variable in interface com.softtechdesign.ga.Crossover

one point crossover

ctRoulette - Static variable in interface com.softtechdesign.ga.Crossover

roulette crossover (either one point, two point, or uniform)

ctTwoPoint - Static variable in interface com.softtechdesign.ga.Crossover

two point crossover

ctUniform - Static variable in interface com.softtechdesign.ga.Crossover

uniform crossover

D

decPtsPrecision - Variable in class com.softtechdesign.ga.GAFloat

the number of decimal points precision to use.

doGeneticMating() - Method in class com.softtechdesign.ga.GA

Create the next generation of chromosomes by genetically mating fitter individuals of the current generation.

doOnePtCrossover(Chromosome, Chromosome) - Method in class com.softtechdesign.ga.GA

do one point crossover between the two given chromosomes

doOnePtCrossover(Chromosome, Chromosome) - Method in class com.softtechdesign.ga.GAString

Genetically recombine the given chromosomes using a one point crossover technique.

doOnePtCrossover(Chromosome, Chromosome) - Method in class com.softtechdesign.ga.GAFloat

Genetically recombine the given chromosomes using a one point crossover technique.

doOnePtCrossover(Chromosome, Chromosome) - Method in class com.softtechdesign.ga.GAStringsSeq

Genetically recombine the given chromosomes using a one point crossover technique.

doOnePtCrossover(Chromosome, Chromosome) - Method in class com.softtechdesign.ga.GASequenceList

Perform one point crossover on the two given chromosomes

doRandomMutation(int) - Method in class com.softtechdesign.ga.GA

do a random mutation on given chromosome

doRandomMutation(int) - Method in class com.softtechdesign.ga.GAString

randomly swap two genes in the chromosome identified by the given index (iChromIndex)

doRandomMutation(int) - Method in class com.softtechdesign.ga.GAFloat

Randomly swap two genes in the chromosome identified by the given index (iChromIndex)

doRandomMutation(int) - Method in class com.softtechdesign.ga.GAStringsSeq

Randomly reassign a gene in the chromosome identified by the given index (iChromIndex) to one of the possible gene values

doTwoPtCrossover(Chromosome, Chromosome) - Method in class com.softtechdesign.ga.GA

do two point crossover between the two given chromosomes

doTwoPtCrossover(Chromosome, Chromosome) - Method in class com.softtechdesign.ga.GAString

Genetically recombine the given chromosomes using a two point crossover technique which combines two chromosomes at two random genes (loci), creating two new chromosomes.

doTwoPtCrossover(Chromosome, Chromosome) - Method in class com.softtechdesign.ga.GAFloat

Genetically recombine the given chromosomes using a two point crossover technique which combines two chromosomes at two random genes (loci), creating two new chromosomes.

doTwoPtCrossover(Chromosome, Chromosome) - Method in class com.softtechdesign.ga.GAStringsSeq

Genetically recombine the given chromosomes using a two point crossover technique which combines two chromosomes at two random genes (loci), creating two new chromosomes.

doTwoPtCrossover(Chromosome, Chromosome) - Method in class com.softtechdesign.ga.GASequenceList

Perform two point crossover on the two given chromosomes

doUniformCrossover(Chromosome, Chromosome) - Method in class com.softtechdesign.ga.GA

do uniform crossover between the two given chromosomes

doUniformCrossover(Chromosome, Chromosome) - Method in class com.softtechdesign.ga.GAString

Genetically recombine the given chromosomes using a uniform crossover technique.

doUniformCrossover(Chromosome, Chromosome) - Method in class com.softtechdesign.ga.GAFloat

Genetically recombine the given chromosomes using a uniform crossover technique.

doUniformCrossover(Chromosome, Chromosome) - Method in class com.softtechdesign.ga.GAStringsSeq

Genetically recombine the given chromosomes using a uniform crossover technique.

doUniformCrossover(Chromosome, Chromosome) - Method in class com.softtechdesign.ga.GASequenceList

Perform uniform crossover on the given two chromosomes

E

evolve() - Method in class com.softtechdesign.ga.GA

Main routine that runs the evolution simulation for this population of chromosomes.

F

fitness - Variable in class com.softtechdesign.ga.Chromosome

absolute (not relative) fitness value

fitnessRank - Variable in class com.softtechdesign.ga.Chromosome

0 = worst fit, PopDim = best fit

G

GA - class com.softtechdesign.ga.GA.

Package ga -------------------------------------------------------------------------------------------- The GAFloat, GAString, and GASequenceList classes all extend the GA class and can be used to model different populations of candidate solutions.

GA(int, int, double, int, int, int, int, double, int, boolean) - Constructor for class com.softtechdesign.ga.GA

Initializes the GA using given parameters

GAException - exception com.softtechdesign.ga.GAException.

Custom GA exception class

GAException(String) - Constructor for class com.softtechdesign.ga.GAException

GAException constructor

GAFloat - class com.softtechdesign.ga.GAFloat.

GAFloat class models chromosomes as floating point numbers.

GAFloat(int, int, double, int, int, int, int, double, int, int, boolean, boolean) - Constructor for class com.softtechdesign.ga.GAFloat

Initializes the GAFloat chromosome

GASequenceList - class com.softtechdesign.ga.GASequenceList.

The GASequenceList class models chromosomes as strings and extends GAString while adding one main capability: the ability to prevent duplicate genes from appearing in a chromosome.

GASequenceList(int, int, double, int, int, int, int, double, int, String, int, boolean) - Constructor for class com.softtechdesign.ga.GASequenceList

Initialize the GASequenceList

GAString - class com.softtechdesign.ga.GAString.

GAString models chromosomes as strings of characters

GAString(int, int, double, int, int, int, int, double, int, String, int, boolean) - Constructor for class com.softtechdesign.ga.GAString

Initialize the GAString

GAStringsSeq - class com.softtechdesign.ga.GAStringsSeq.

GAStringsSeq models chromosomes as arrays of strings.

GAStringsSeq(int, int, double, int, int, int, int, double, int, String[], int, boolean) - Constructor for class com.softtechdesign.ga.GAStringsSeq

Initialize the GAStringSeq

genAvgDeviation - Variable in class com.softtechdesign.ga.GA

statistics--average deviation of current generation

genAvgFitness - Variable in class com.softtechdesign.ga.GA

statistics--average fitness of current generation

genes - Variable in class com.softtechdesign.ga.ChromFloat

array of genes that comprise the chromosome

genes - Variable in class com.softtechdesign.ga.ChromStrings

array of genes which comprise this Chromosome

genes - Variable in class com.softtechdesign.ga.ChromChars

array of genes that comprise this Chromosome

getAvgDeviation(int) - Method in class com.softtechdesign.ga.GA

Gets the average deviation of the given generation of chromosomes

getAvgDeviationAmongChroms() - Method in class com.softtechdesign.ga.GA

Get the average deviation from the current population of chromosomes.

getAvgFitness() - Method in class com.softtechdesign.ga.GA

Go through all chromosomes and calculate the average fitness (of this generation)

getAvgFitness(int) - Method in class com.softtechdesign.ga.GA

Gets the average fitness of the given generation of chromosomes

getChromosome(int) - Method in class com.softtechdesign.ga.GAString

returns the given chromosome casted as a ChromChars

getChromosome(int) - Method in class com.softtechdesign.ga.GAFloat

Returns the chromosome casted as a ChromFloat

getChromosome(int) - Method in class com.softtechdesign.ga.GAStringsSeq

Returns the chromosome given by index casted as a ChromStrings object

getChromosomeDim() - Method in class com.softtechdesign.ga.GA

Gets the dimension (size or number) of genes per chromosome

getChromValAsDouble(String) - Method in class com.softtechdesign.ga.GAString

convert a chromosome string to a double

getChromWithoutDuplicates(String) - Method in class com.softtechdesign.ga.GASequenceList

Take the given chromosome which may have duplicated genes and eliminate any duplicated genes by replacing duplicates with genes which were left out of the chromosome (that is they exist in the gene space but not in the given chromosome).

getComputeStatistics() - Method in class com.softtechdesign.ga.GA

Returns whether statistics will be computed for this evolution run

getCrossoverProb() - Method in class com.softtechdesign.ga.GA

Gets the crossover probability

getCrossoverType() - Method in class com.softtechdesign.ga.GA

Gets the crossover type (e.g.

getFitness(int) - Method in class com.softtechdesign.ga.GA

get the fitness value for the given chromosome

getFitnessRank(double) - Method in class com.softtechdesign.ga.GA

Calculate the ranking of the parameter "fitness" with respect to the current generation.

getFittestChromosome() - Method in class com.softtechdesign.ga.GA

Returns the fittest chromosome in the population

getFittestChromosomesFitness() - Method in class com.softtechdesign.ga.GA

Gets the fitness value of the fittest chromosome in the population

getGene(int) - Method in class com.softtechdesign.ga.ChromFloat

return the gene indexed by iGene as a double

getGene(int) - Method in class com.softtechdesign.ga.ChromStrings

return the gene indexed by iGene as a char

getGene(int) - Method in class com.softtechdesign.ga.ChromChars

return the gene indexed by iGene as a char

getGenes() - Method in class com.softtechdesign.ga.ChromFloat

Getter for the genes array

getGenes() - Method in class com.softtechdesign.ga.ChromStrings

Get a reference to the genes array

getGenes() - Method in class com.softtechdesign.ga.ChromChars

Getter for the genes array

getGenesAsStr() - Method in class com.softtechdesign.ga.Chromosome

Get the genes as a string

getGenesAsStr() - Method in class com.softtechdesign.ga.ChromFloat

return the array of genes as a string

getGenesAsStr() - Method in class com.softtechdesign.ga.ChromStrings

return the array of genes as a string

getGenesAsStr() - Method in class com.softtechdesign.ga.ChromChars

return the array of genes as a string

getGenesAsString() - Method in class com.softtechdesign.ga.ChromFloat

Return the array of genes as a string

getMaxGenerations() - Method in class com.softtechdesign.ga.GA

Gets the maximum number of generations this evolution will evolve

getMaxPrelimGenerations() - Method in class com.softtechdesign.ga.GA

Gets the maximum number of preliminary generations to evolve

getMutationProb() - Method in class com.softtechdesign.ga.GA

Returns the mutation probability

getNumGenesInCommon(Chromosome) - Method in class com.softtechdesign.ga.Chromosome

Get the number of genes in common between this chromosome and the given chromosome

getNumGenesInCommon(Chromosome) - Method in class com.softtechdesign.ga.ChromFloat

Get the number of genes in common

getNumGenesInCommon(Chromosome) - Method in class com.softtechdesign.ga.ChromStrings

Calculates how many genes are the same between this chromosome and the given chromosome

getNumGenesInCommon(Chromosome) - Method in class com.softtechdesign.ga.ChromChars

Determines how many genes are in common betwen this Chromosome and the given Chromosome

getNumPrelimRuns() - Method in class com.softtechdesign.ga.GA

Gets the number of preliminary runs that will be performed before the main evolution begins

getPopulationDim() - Method in class com.softtechdesign.ga.GA

Gets the dimension (size or number) of chromosomes in the population

getRandom(double) - Method in class com.softtechdesign.ga.GA

return a double random number between 0 and upperBound

getRandom(int) - Method in class com.softtechdesign.ga.GA

return a integer random number between 0 and upperBound

getRandomGeneFromPossGenes() - Method in class com.softtechdesign.ga.GAString

Randomly pick and return a possible gene value

getRandomGeneFromPossGenes() - Method in class com.softtechdesign.ga.GAStringsSeq

Randomly pick and return a gene value

getRandomSelectionChance() - Method in class com.softtechdesign.ga.GA

Gets the random selection probability

I

initPopulation() - Method in class com.softtechdesign.ga.GA

initialize the population (chromosomes) to random values

initPopulation() - Method in class com.softtechdesign.ga.GAString

create random chromosomes from the given gene space.

initPopulation() - Method in class com.softtechdesign.ga.GAFloat

Create random chromosomes from the given gene space (floating pt numbers).

initPopulation() - Method in class com.softtechdesign.ga.GAStringsSeq

Create random chromosomes from the given gene space.

initPopulation() - Method in class com.softtechdesign.ga.GASequenceList

Create random chromosomes from the given gene space.

M

maxGenerations - Variable in class com.softtechdesign.ga.GA

maximum generations to evolve

maxPrelimGenerations - Variable in class com.softtechdesign.ga.GA

prelim generations.

mutationProb - Variable in class com.softtechdesign.ga.GA

probability of a mutation occuring during genetic mating.

N

numPossGeneValues - Variable in class com.softtechdesign.ga.GAStringsSeq

the number of possible gene values

numPrelimRuns - Variable in class com.softtechdesign.ga.GA

number of prelim generations to evolve.

P

populationDim - Variable in class com.softtechdesign.ga.GA

number of chromosomes to evolve.

positiveNumOnly - Variable in class com.softtechdesign.ga.GAFloat

constrain chromsosomes to positive numbers only?

possGeneValues - Variable in class com.softtechdesign.ga.GAString

legal gene (char) values.

possGeneValues - Variable in class com.softtechdesign.ga.GAStringsSeq

the building material or pool "allowed" or "possible" gene values

prelimChrom - Variable in class com.softtechdesign.ga.GA

storage for pool of prelim generation chromosomes

R

randomSelectionChance - Variable in class com.softtechdesign.ga.GA

1-100 (e.g.

run() - Method in class com.softtechdesign.ga.GA

Runs the evolution by calling evolve() routine

S

selectTwoParents(int[]) - Method in class com.softtechdesign.ga.GA

Select two parents from population, giving highly fit individuals a greater chance of being selected.

sequence - Variable in class com.softtechdesign.ga.GASequenceList

sequence of genes

setGene(int, double) - Method in class com.softtechdesign.ga.ChromFloat

Set the gene indexed by iGene to the given double value

setGene(String, int) - Method in class com.softtechdesign.ga.ChromStrings

sets the gene value

setGenesFromStr(String) - Method in class com.softtechdesign.ga.ChromChars

Set this chromosomes genes (array) to the given chromosome string

setGeneValue(int, int, String) - Method in class com.softtechdesign.ga.GAStringsSeq

Sets the value of a gene for the given chromosome at the given geneIndex

T

toString() - Method in class com.softtechdesign.ga.ChromFloat

Return the genes as a string

toString() - Method in class com.softtechdesign.ga.ChromStrings

Returns the array of genes as a string

toString() - Method in class com.softtechdesign.ga.ChromChars

Returns the genes in this chromosome as a string

W

worstFitnessChromIndex - Variable in class com.softtechdesign.ga.GA

index of least fit chromosome in current generation

A B C D E F G I M N P R S T W