Index

A B C D E F G H I J K L M N O P Q R S T U V W X Y Z _
All Classes and Interfaces|All Packages|Constant Field Values|Serialized Form

A

A - Variable in class ec.eda.dovs.DOVSSpecies: Constraint coefficients
A_AT - Static variable in class ec.eval.Slave: The argument indicating the class where the resource is relative to.
A_AT - Static variable in class ec.Evolve: The argument indicating the class where the resource is relative to.
A_CHECKPOINT - Static variable in class ec.Evolve: The argument indicating that we're starting up from a checkpoint file.
A_FILE - Static variable in class ec.eval.Slave: The argument indicating that we're starting fresh from a new parameter file.
A_FILE - Static variable in class ec.Evolve: The argument indicating that we're starting fresh from a new parameter file.
A_FROM - Static variable in class ec.eval.Slave: The argument indicating that we're starting fresh from a parameter file stored in a jar file or as some resource.
A_FROM - Static variable in class ec.Evolve: The argument indicating that we're starting fresh from a parameter file stored in a jar file or as some resource.
A_HELP - Static variable in class ec.Evolve: The argument indicating a request to print out the help message.
ACCESSED - Static variable in class ec.util.ParameterDatabaseEvent
activate(EvolutionState) - Method in class ec.neat.NEATNetwork: Activates the net such that all outputs are active.
activateWithOverride() - Method in class ec.neat.NEATNode: Set activation to the override value and turn off override.
activation - Variable in class ec.neat.NEATNode: The total activation entering the node.
activationCount - Variable in class ec.neat.NEATNode: Keeps track of which activation the node is currently in.
activeFlag - Variable in class ec.neat.NEATNode: To make sure outputs are active.
activeSolutions - Variable in class ec.eda.dovs.DOVSSpecies: activeSolutions contains all the samples that is on the boundary of the most promising area.
activeSum - Variable in class ec.neat.NEATNode: The incoming activity before being processed.
adaptDistributionMultiplier(EvolutionState, Subpopulation) - Method in class ec.eda.amalgam.AMALGAMSpecies
add(int) - Method in class ec.util.IntBag
addAll(int[]) - Method in class ec.util.IntBag
addAll(int, int[]) - Method in class ec.util.IntBag
addAll(int, IntBag) - Method in class ec.util.IntBag
addAll(IntBag) - Method in class ec.util.IntBag
addArgument(GrammarNode) - Method in class ec.gp.ge.GrammarFunctionNode: Adds a given argument to the node.
addChoice(GrammarNode) - Method in class ec.gp.ge.GrammarRuleNode: Adds a choice to the children of this node.
addDataPoint(int, double, double) - Method in class ec.display.chart.XYSeriesChartStatistics
addGene(NEATGene[]) - Method in class ec.neat.NEATIndividual: We append new gene(s) to the current genome
addInnovation(NEATInnovation) - Method in class ec.neat.NEATSpecies
addInput(NEATNode) - Method in class ec.neat.NEATNetwork: Add a new input node.
addLog(int, boolean) - Method in class ec.util.Output: Creates a new log and adds it to Output.
addLog(int, int, boolean) - Method in class ec.util.Output: Creates a new log of minimal verbosity verbosity and adds it to Output.
addLog(Log) - Method in class ec.util.Output: Adds the given log to Output.
addLog(File, boolean) - Method in class ec.util.Output: Creates a new log and adds it to Output.
addLog(File, boolean, boolean) - Method in class ec.util.Output: Creates a new log and adds it to Output.
addLog(File, boolean, boolean, boolean) - Method in class ec.util.Output: Creates a new log and adds it to Output.
addLog(File, int, boolean, boolean) - Method in class ec.util.Output: Creates a new log of minimal verbosity verbosity and adds it to Output.
addLog(File, int, boolean, boolean, boolean) - Method in class ec.util.Output: Creates a new log of minimal verbosity verbosity and adds it to Output.
addLog(Writer, LogRestarter, boolean, boolean) - Method in class ec.util.Output: Creates a new log and adds it to Output.
addLog(Writer, LogRestarter, int, boolean, boolean) - Method in class ec.util.Output: Creates a new log of minimal verbosity verbosity and adds it to Output.
addNewGenIndividual(NEATIndividual) - Method in class ec.neat.NEATSubspecies: Add the individual to the next generation of this subspecies
addNodeMaxGenomeLength - Variable in class ec.neat.NEATSpecies: Beyond this genome length, mutateAddNode does a pure random split rather than a bias.
addOutput(NEATNode) - Method in class ec.neat.NEATNetwork: Add a new output node.
addParent(ParameterDatabase) - Method in class ec.util.ParameterDatabase
addRandomRule(EvolutionState, int) - Method in class ec.rule.RuleSet: Add a random rule to the rule set
addRule(Rule) - Method in class ec.rule.RuleSet: Add a rule directly to the rule set.
addSeries(String) - Method in class ec.display.chart.XYSeriesChartStatistics
addTreeModelListener(TreeModelListener) - Method in class ec.util.ReflectedObject
adf - Variable in class ec.gp.ADFContext: The ADF/ADM node proper
ADF - Class in ec.gp: An ADF is a GPNode which implements an "Automatically Defined Function", as described in Koza II.
ADF() - Constructor for class ec.gp.ADF
ADFArgument - Class in ec.gp: An ADFArgument is a GPNode which represents an ADF's argument terminal, its counterpart which returns argument values in its associated function tree.
ADFArgument() - Constructor for class ec.gp.ADFArgument
ADFContext - Class in ec.gp: ADFContext is the object pushed onto an ADF stack which represents the current context of an ADM or ADF function call, that is, how to get the argument values that argument_terminals need to return.
ADFContext() - Constructor for class ec.gp.ADFContext
ADFStack - Class in ec.gp: ADFStack is a special data object used to hold ADF data.
ADFStack() - Constructor for class ec.gp.ADFStack
adjustedFitness - Variable in class ec.neat.NEATIndividual: Fitness after the adjustment.
adjustedFitness() - Method in class ec.gp.koza.KozaFitness: Returns the adjusted fitness metric, which recasts the fitness to the half-open interval (0,1], where 1 is ideal and 0 is worst.
adjustFitness(EvolutionState, int, double) - Method in class ec.neat.NEATSubspecies: Adjust the fitness of the individuals within this subspecies.
ADM - Class in ec.gp: An ADM is an ADF which doesn't evaluate its arguments beforehand, but instead only evaluates them (and possibly repeatedly) when necessary at runtime.
ADM() - Constructor for class ec.gp.ADM
afterCoevolutionaryEvaluation(EvolutionState, GroupedProblemForm) - Method in class ec.coevolve.MultiPopCoevolutionaryEvaluator
age - Variable in class ec.neat.NEATSubspecies: Age of the current subspecies.
ageOfLastImprovement - Variable in class ec.neat.NEATSubspecies: Record the last time the best fitness improved within the individuals of this subspecies If this is too long ago, the subspecies will goes extinct
ageSignificance - Variable in class ec.neat.NEATSpecies: How much does age matter?
aggCovarMatrix - Variable in class ec.eda.amalgam.AMALGAMSpecies
ALL_MESSAGE_LOGS - Static variable in class ec.util.Output
allowOverEvaluation - Variable in class ec.coevolve.CompetitiveEvaluator
allValid(ArrayList<Individual>, int, int, EvolutionState, int) - Method in class ec.breed.CheckingPipeline
alpha - Variable in class ec.eda.pbil.PBILSpecies
alphaAMS - Variable in class ec.eda.amalgam.AMALGAMSpecies
altGeneratorTries - Variable in class ec.eda.cmaes.CMAESSpecies: How many times should we try to generate a valid individual before we give up and use the useAltGenerator approach?
AMALGAMBreeder - Class in ec.eda.amalgam
AMALGAMBreeder() - Constructor for class ec.eda.amalgam.AMALGAMBreeder
AMALGAMDefaults - Class in ec.eda.amalgam
AMALGAMDefaults() - Constructor for class ec.eda.amalgam.AMALGAMDefaults
AMALGAMSpecies - Class in ec.eda.amalgam: AMALGAMSpecies is a FloatVectorSpecies which implements a faithful version of the iAMaLGaM IDEA algorithm.
AMALGAMSpecies() - Constructor for class ec.eda.amalgam.AMALGAMSpecies
AnnealedSelection - Class in ec.select: Returns an individual using a form of simulated annealing.
AnnealedSelection() - Constructor for class ec.select.AnnealedSelection
appendOnRestart - Variable in class ec.util.Log: If the log writes to a file, should it append to the file on restart, or should it overwrite the file?
ARCHIVE_LOADED - Enum constant in enum class ec.multiobjective.nsga2.NSGA2Breeder.BreedingState
ARCHIVE_LOADED - Enum constant in enum class ec.multiobjective.spea2.SPEA2Breeder.BreedingState
argposition - Variable in class ec.gp.GPNode: The argument position of the child in its parent.
argument - Variable in class ec.gp.ADFArgument
arguments - Variable in class ec.gp.ADFContext: An array of GPData nodes (none of the null, when it's used) holding an ADF's arguments' return results
arity - Variable in class ec.gp.build.RandTree.ArityObject
ArityObject(int) - Constructor for class ec.gp.build.RandTree.ArityObject
assignFrontRanks(Subpopulation) - Method in class ec.multiobjective.nsga2.NSGA2Breeder: Divides inds into ranks and assigns each individual's rank to be the rank it was placed into.
associatedTree - Variable in class ec.gp.ADF: The ADF's associated tree
atDepth() - Method in class ec.gp.GPNode: Returns the depth at which I appear in the tree, which is a value >= 0.
author - Static variable in class ec.util.Version
authorEmail0 - Static variable in class ec.util.Version
authorEmail1 - Static variable in class ec.util.Version
authorEmail2 - Static variable in class ec.util.Version
authorURL - Static variable in class ec.util.Version
AUXILLARY_PREAMBLE - Static variable in class ec.pso.Particle

B

b - Variable in class ec.eda.cmaes.CMAESSpecies: The "B" matrix, eigendecomposed from the "C" covariance matrix of the distribution.
b - Variable in class ec.eda.dovs.DOVSSpecies: Constratin coefficients
b - Variable in class ec.eda.pbil.PBILSpecies
babiesStolen - Variable in class ec.neat.NEATSpecies: The number of babies to siphen off to the champions.
backupPopulation - Variable in class ec.simple.SimpleBreeder
BAD_TREE - Static variable in class ec.gp.ge.GEIndividual
BadParameterException - Exception Class in ec.util: Thrown when you attempt to create a Parameter from bad path items.
BadParameterException(String) - Constructor for exception class ec.util.BadParameterException
BarChartStatistics - Class in ec.display.chart
BarChartStatistics() - Constructor for class ec.display.chart.BarChartStatistics
base - Variable in class ec.eval.MetaProblem: The parameter base from which the MetaProblem was loaded.
base - Variable in class ec.exchange.InterPopulationExchange: My parameter base -- I need to keep this in order to help the server reinitialize contacts
base - Variable in class ec.exchange.IslandExchange: My parameter base -- I need to keep this in order to help the server reinitialize contacts
base - Variable in class ec.neat.NEATSpecies
base() - Static method in class ec.breed.BreedDefaults: Returns the default base.
base() - Static method in class ec.ECDefaults: Returns the default base.
base() - Static method in class ec.eda.amalgam.AMALGAMDefaults: Returns the default base.
base() - Static method in class ec.eda.cmaes.CMAESDefaults: Returns the default base.
base() - Static method in class ec.eda.dovs.DOVSDefaults: Returns the default base.
base() - Static method in class ec.es.ESDefaults: Returns the default base.
base() - Static method in class ec.gp.breed.GPBreedDefaults: Returns the default base, which is built off of the GPDefaults base.
base() - Static method in class ec.gp.build.GPBuildDefaults: Returns the default base.
base() - Static method in class ec.gp.ge.GEDefaults: Returns the default base.
base() - Static method in class ec.gp.GPDefaults: Returns the default base.
base() - Static method in class ec.gp.koza.GPKozaDefaults: Returns the default base, which is built off of the GPDefaults base.
base() - Static method in class ec.gp.push.PushDefaults: Returns the default base.
base() - Static method in class ec.multiobjective.MultiObjectiveDefaults: Returns the default base.
base() - Static method in class ec.neat.NEATDefaults
base() - Static method in class ec.rule.RuleDefaults: Returns the default base.
base() - Static method in class ec.select.SelectDefaults: Returns the default base.
base() - Static method in class ec.simple.SimpleDefaults: Returns the default base.
base() - Static method in class ec.spatial.SpatialDefaults: Returns the default base.
base() - Static method in class ec.steadystate.SteadyStateDefaults: Returns the default base.
base() - Static method in class ec.vector.VectorDefaults: Returns the default base.
batchMode - Variable in class ec.eval.MasterProblem
bd - Variable in class ec.eda.cmaes.CMAESSpecies: b x d
beforeCoevolutionaryEvaluation(EvolutionState, Population, GroupedProblemForm) - Method in class ec.coevolve.MultiPopCoevolutionaryEvaluator
best_of_run - Variable in class ec.simple.SimpleStatistics: The best individual we've found so far
Best1BinDEBreeder - Class in ec.de: Best1BinDEBreeder is a differential evolution breeding operator.
Best1BinDEBreeder() - Constructor for class ec.de.Best1BinDEBreeder
bestn - Variable in class ec.select.BestSelection
bestnFrac - Variable in class ec.select.BestSelection
bestOfGeneration - Variable in class ec.simple.SimpleShortStatistics
BestSelection - Class in ec.select: Performs a tournament selection restricted to only the best, or worst, n indivdiuals in the population.
BestSelection() - Constructor for class ec.select.BestSelection
bestSoFar - Variable in class ec.simple.SimpleShortStatistics
bestSoFarIndex - Variable in class ec.de.DEBreeder: the best individuals in each population (required by some DE breeders).
bestUnderlyingIndividual - Variable in class ec.eval.MetaProblem: The best underlying individual array, one per subpopulation.
betterThan(Fitness) - Method in class ec.Fitness: Should return true if this fitness is clearly better than _fitness; You may assume that _fitness is of the same class as yourself.
betterThan(Fitness) - Method in class ec.gp.koza.KozaFitness
betterThan(Fitness) - Method in class ec.multiobjective.MultiObjectiveFitness: Returns true if I'm better than _fitness.
betterThan(Fitness) - Method in class ec.multiobjective.nsga2.NSGA2MultiObjectiveFitness: We specify the tournament selection criteria, Rank (lower values are better) and Sparsity (higher values are better)
betterThan(Fitness) - Method in class ec.multiobjective.spea2.SPEA2MultiObjectiveFitness: The selection criteria in SPEA2 uses the computed fitness, and not pareto dominance.
betterThan(Fitness) - Method in class ec.simple.SimpleFitness
betterThan(Individual, Individual, int, EvolutionState, int) - Method in class ec.parsimony.LexicographicTournamentSelection
betterThan(Individual, Individual, int, EvolutionState, int) - Method in class ec.parsimony.ProportionalTournamentSelection
betterThan(Individual, Individual, int, EvolutionState, int) - Method in class ec.select.TournamentSelection: Returns true if *first* is a better (fitter, whatever) individual than *second*.
BIAS - Enum constant in enum class ec.neat.NEATNode.NodePlace
BIG_TREE_ERROR - Static variable in class ec.gp.ge.GESpecies
BitVectorIndividual - Class in ec.vector: BitVectorIndividual is a VectorIndividual whose genome is an array of booleans.
BitVectorIndividual() - Constructor for class ec.vector.BitVectorIndividual
BitVectorSpecies - Class in ec.vector: BitVectorSpecies is a subclass of VectorSpecies with special constraints for boolean vectors, namely BitVectorIndividual.
BitVectorSpecies() - Constructor for class ec.vector.BitVectorSpecies
BoltzmannSelection - Class in ec.select: Similar to FitProportionateSelection, but with a Simulated Annealing style twist.
BoltzmannSelection() - Constructor for class ec.select.BoltzmannSelection
BOOLEAN_CONSTANT - Static variable in class ec.gp.ge.GrammarParser
boxA - Variable in class ec.eda.dovs.HyperboxSpecies: boxA and boxB contain the current constraint hyperbox.
boxB - Variable in class ec.eda.dovs.HyperboxSpecies: boxA and boxB contain the current constraint hyperbox.
BreedDefaults - Class in ec.breed
BreedDefaults() - Constructor for class ec.breed.BreedDefaults
breeder - Variable in class ec.EvolutionState: The population breeder, a singleton object.
Breeder - Class in ec: A Breeder is a singleton object which is responsible for the breeding process during the course of an evolutionary run.
Breeder() - Constructor for class ec.Breeder
breedIndividual(EvolutionState, int, int) - Method in class ec.steadystate.SteadyStateBreeder
BREEDING_COMPLETE - Enum constant in enum class ec.multiobjective.nsga2.NSGA2Breeder.BreedingState
BREEDING_COMPLETE - Enum constant in enum class ec.multiobjective.spea2.SPEA2Breeder.BreedingState
BreedingPipeline - Class in ec: A BreedingPipeline is a BreedingSource which provides "fresh" individuals which can be used to fill a new population.
BreedingPipeline() - Constructor for class ec.BreedingPipeline
BreedingSource - Class in ec: A BreedingSource is a Prototype which provides Individuals to populate new populations based on old ones.
BreedingSource() - Constructor for class ec.BreedingSource
breedNewPopulation(EvolutionState, int, int) - Method in class ec.neat.NEATSpecies: Breed a new generation of population, this is done by first figure the expected offsprings for each subspecies, and then calls each subspecies to reproduce.
breedPopChunk(Population, EvolutionState, int[], int[], int) - Method in class ec.es.MuCommaLambdaBreeder: A private helper function for breedPopulation which breeds a chunk of individuals in a subpopulation for a given thread.
breedPopChunk(Population, EvolutionState, int[], int[], int) - Method in class ec.simple.SimpleBreeder: A private helper function for breedPopulation which breeds a chunk of individuals in a subpopulation for a given thread.
breedPopChunk(Population, EvolutionState, int[], int[], int) - Method in class ec.spatial.SpatialBreeder
breedPopChunkProduce(int) - Method in class ec.simple.SimpleBreeder
breedPopulation(EvolutionState) - Method in class ec.Breeder: Breeds state.population, returning a new population.
breedPopulation(EvolutionState) - Method in class ec.de.DEBreeder
breedPopulation(EvolutionState) - Method in class ec.eda.amalgam.AMALGAMBreeder: Updates the distribution given the current population, then replaces the population with new samples generated from the distribution.
breedPopulation(EvolutionState) - Method in class ec.eda.cmaes.CMAESBreeder: Updates the CMA-ES distribution given the current population, then replaces the population with new samples generated from the distribution.
breedPopulation(EvolutionState) - Method in class ec.eda.dovs.DOVSBreeder: This method have three major part, first identify the best indiviudal, and then call updateMostPromisingArea(...) to construct a hyperbox around this individual.
breedPopulation(EvolutionState) - Method in class ec.eda.pbil.PBILBreeder: Updates the PBIL distribution given the current population, then replaces the population with new samples generated from the distribution.
breedPopulation(EvolutionState) - Method in class ec.es.MuCommaLambdaBreeder
breedPopulation(EvolutionState) - Method in class ec.multiobjective.nsga2.NSGA2Breeder: Use super's breeding, but also set our local state to record that breeding is complete.
breedPopulation(EvolutionState) - Method in class ec.multiobjective.spea2.SPEA2Breeder: Use super's breeding, but also set our local state to record that breeding is complete.
breedPopulation(EvolutionState) - Method in class ec.neat.NEATBreeder: This method simply call breedNewPopulation method in NEATSpecies，where all the critical work in done.
breedPopulation(EvolutionState) - Method in class ec.pso.PSOBreeder
breedPopulation(EvolutionState) - Method in class ec.simple.SimpleBreeder: A simple breeder that doesn't attempt to do any cross- population breeding.
breedthreads - Variable in class ec.EvolutionState: The requested number of threads to be used in breeding, excepting perhaps a "parent" thread which gathers the other threads.
BucketTournamentSelection - Class in ec.parsimony: Does a tournament selection, limited to the subpopulation it's working in at the time.
BucketTournamentSelection() - Constructor for class ec.parsimony.BucketTournamentSelection
buffer - Variable in class ec.breed.BufferedBreedingPipeline
BufferedBreedingPipeline - Class in ec.breed: If empty, a BufferedBreedingPipeline makes a request of exactly num-inds individuals from a single child source; it then uses these individuals to fill requests (returning min each time), until the buffer is emptied, at which time it grabs exactly num-inds more individuals, and so on.
BufferedBreedingPipeline() - Constructor for class ec.breed.BufferedBreedingPipeline
bufSize - Variable in class ec.breed.BufferedBreedingPipeline
buildArchive(EvolutionState, int) - Method in class ec.multiobjective.nsga2.NSGA2Breeder: Build the auxiliary fitness data and reduce the subpopulation to just the archive, which is returned.
buildDyckWord(int, int[], int[], EvolutionState, int) - Method in class ec.gp.build.RandTree
builder - Variable in class ec.gp.koza.MutationPipeline: How the pipeline builds a new subtree
buildMisc(EvolutionState, int, int) - Method in class ec.Species: Called whenever the Breeder calls produce(...) on a BreedingPipeline, in order to pass a new "misc" object.
buildNetwork(NEATIndividual) - Method in class ec.neat.NEATNetwork: Create the phenotype (network) from the genotype (genome).
buildOutput() - Static method in class ec.Evolve: Constructs and sets up an Output object which always issues errors in the traditional fashion rather than throwing them.
buildOutput(boolean) - Static method in class ec.Evolve: Constructs and sets up an Output object.
buildTree(EvolutionState, int) - Method in class ec.gp.GPTree: Builds a new randomly-generated rooted tree and attaches it to the GPTree.
buildTreeModel() - Method in class ec.util.ParameterDatabase: Builds a TreeModel from the available property keys.
bypassFinalStatistics(EvolutionState, int) - Method in class ec.simple.SimpleStatistics: Allows MultiObjectiveStatistics etc.
bypassPostEvaluationStatistics(EvolutionState) - Method in class ec.simple.SimpleStatistics: Allows MultiObjectiveStatistics etc.
ByteVectorIndividual - Class in ec.vector: ByteVectorIndividual is a VectorIndividual whose genome is an array of bytes.
ByteVectorIndividual() - Constructor for class ec.vector.ByteVectorIndividual

C

c - Variable in class ec.eda.cmaes.CMAESSpecies: The "C" covariance matrix of the distribution.
C_ANY_POINT - Static variable in class ec.vector.VectorSpecies
C_AUTO - Static variable in class ec.simple.SimpleEvaluator
C_CLASS - Static variable in class ec.util.ParameterDatabase
C_EXACTLY_ONE_FIFTH_BETTER - Static variable in class ec.es.MuCommaLambdaBreeder
C_FLIP_MUTATION - Static variable in class ec.vector.BitVectorSpecies
C_GAUSS_MUTATION - Static variable in class ec.vector.FloatVectorSpecies
C_GEOMETRIC - Static variable in class ec.vector.VectorSpecies
C_HERE - Static variable in class ec.util.ParameterDatabase
C_INTEGER_RANDOM_WALK_MUTATION - Static variable in class ec.vector.FloatVectorSpecies
C_INTEGER_RESET_MUTATION - Static variable in class ec.vector.FloatVectorSpecies
C_INTERMED_RECOMB - Static variable in class ec.vector.VectorSpecies
C_LINE_RECOMB - Static variable in class ec.vector.VectorSpecies
C_NEIGHBORHOOD_RANDOM - Static variable in class ec.pso.PSOBreeder
C_NEIGHBORHOOD_RANDOM_EACH_TIME - Static variable in class ec.pso.PSOBreeder
C_NEIGHBORHOOD_TOROIDAL - Static variable in class ec.pso.PSOBreeder
C_NONE - Static variable in class ec.vector.VectorSpecies
C_ONE_POINT - Static variable in class ec.vector.VectorSpecies
C_ONE_POINT_NO_NOP - Static variable in class ec.vector.VectorSpecies
C_OVER_ONE_FIFTH_BETTER - Static variable in class ec.es.MuCommaLambdaBreeder
C_POLYNOMIAL_MUTATION - Static variable in class ec.vector.FloatVectorSpecies
C_RANDOM_WALK_MUTATION - Static variable in class ec.vector.IntegerVectorSpecies
C_RESET_MUTATION - Static variable in class ec.vector.BitVectorSpecies
C_RESET_MUTATION - Static variable in class ec.vector.FloatVectorSpecies
C_RESET_MUTATION - Static variable in class ec.vector.IntegerVectorSpecies
C_SIMULATED_BINARY - Static variable in class ec.vector.VectorSpecies
C_STARTED_FRESH - Static variable in class ec.EvolutionState: "The population has started fresh (not from a checkpoint)."
C_STARTED_FROM_CHECKPOINT - Static variable in class ec.EvolutionState: "The population started from a checkpoint."
C_TWO_POINT - Static variable in class ec.vector.VectorSpecies
C_TWO_POINT_NO_NOP - Static variable in class ec.vector.VectorSpecies
C_UNDER_ONE_FIFTH_BETTER - Static variable in class ec.es.MuCommaLambdaBreeder
C_UNIFORM - Static variable in class ec.vector.VectorSpecies
c1 - Variable in class ec.eda.cmaes.CMAESSpecies: The c_1 rank-1 update learning rate.
CACHE_SIZE - Static variable in class ec.gp.build.PTCFunctionSet
cacheBest(int, EvolutionState, int) - Method in class ec.select.AnnealedSelection
cacheBest(int, EvolutionState, int) - Method in class ec.select.TopSelection
calculateDistancesFromIndividual(Individual, ArrayList<Individual>) - Method in class ec.multiobjective.spea2.SPEA2Breeder
canEvaluate() - Method in class ec.eval.MasterProblem
canEvaluate() - Method in class ec.gp.ge.GEProblem
canEvaluate() - Method in class ec.Problem: Asynchronous Steady-State EC only: Returns true if the problem is ready to evaluate.
canEvaluate() - Method in class ec.steadystate.SteadyStateEvaluator: Returns true if we're ready to evaluate an individual.
canPick() - Method in class ec.gp.GPNodeBuilder: Returns true if some size distribution (either minSize and maxSize, or sizeDistribution) is set up by the user in order to pick sizes randomly.
cc - Variable in class ec.eda.cmaes.CMAESSpecies: The c_c rank-one evolution path cumulation parameter.
champion - Variable in class ec.neat.NEATIndividual: Marks the subspecies champion, which is the individual who has the highest fitness with the subspecies.
ChartableStatistics - Class in ec.display.chart
ChartableStatistics() - Constructor for class ec.display.chart.ChartableStatistics
chatty - Variable in class ec.exchange.InterPopulationExchange
CHECK_BOUNDARY - Static variable in class ec.gp.GPNodeBuilder
CHECKBOUNDARY - Static variable in class ec.util.RandomChoice
checkConstraints(EvolutionState, int, GPIndividual, Parameter) - Method in class ec.gp.ADF: Checks type-compatibility constraints between the ADF, its argument terminals, and the tree type of its associated tree, and also checks to make sure the tree exists, there aren't invalid argument terminals in it, and there are sufficient argument terminals (a warning).
checkConstraints(EvolutionState, int, GPIndividual, Parameter) - Method in class ec.gp.GPNode: You ought to override this method to check to make sure that the constraints are valid as best you can tell.
checkDyckWord(String) - Method in class ec.gp.build.RandTree
checkForHelp(String[], String, boolean) - Static method in class ec.Evolve: Optionally prints the help message.
CheckingPipeline - Class in ec.breed: CheckingPipeline is a BreedingPipeline which just passes through the individuals it receives from its source 0, but only if those individuals ALL pass a validation check (the method allValid(), which you must override).
CheckingPipeline() - Constructor for class ec.breed.CheckingPipeline
checkpoint - Variable in class ec.EvolutionState: Should we checkpoint at all?
Checkpoint - Class in ec.util: Checkpoints ec.EvolutionState objects out to checkpoint files, or restores the same from checkpoint files.
Checkpoint() - Constructor for class ec.util.Checkpoint
checkpointDirectory - Variable in class ec.EvolutionState: The requested directory where checkpoints should be located.
checkpointModulo - Variable in class ec.EvolutionState: The requested number of generations that should pass before we write out a checkpoint file.
checkpointPrefix - Variable in class ec.EvolutionState: The requested prefix to start checkpoint filenames, not including a following period.
checkPreamble(String, EvolutionState, LineNumberReader) - Static method in class ec.util.Code: Finds the next nonblank line, then trims the line and checks the preamble.
checkTerminationConditions(EvolutionState, Subpopulation) - Method in class ec.eda.amalgam.AMALGAMSpecies
child - Variable in class ec.gp.GPTree: the root GPNode in the GPTree
CHILD_D - Variable in class ec.gp.build.Uniform
children - Variable in class ec.gp.ge.GrammarNode
children - Variable in class ec.gp.GPNode
children - Variable in class ec.Statistics
CHILDREN_UNKNOWN - Static variable in class ec.gp.GPNode
childtypes - Variable in class ec.gp.GPNodeConstraints: The children types for a GPNode
chiN - Variable in class ec.eda.cmaes.CMAESSpecies: An estimate of the expected size of the standard multivariate gaussian N(0,I).
choleskyLower - Variable in class ec.eda.amalgam.AMALGAMSpecies
chunksize - Variable in class ec.vector.VectorSpecies: How big of chunks should we define for crossover?
clamp() - Method in class ec.vector.ByteVectorIndividual: Clips each gene value to be within its specified [min,max] range.
clamp() - Method in class ec.vector.DoubleVectorIndividual: Clips each gene value to be within its specified [min,max] range.
clamp() - Method in class ec.vector.FloatVectorIndividual: Clips each gene value to be within its specified [min,max] range.
clamp() - Method in class ec.vector.IntegerVectorIndividual: Clips each gene value to be within its specified [min,max] range.
clamp() - Method in class ec.vector.LongVectorIndividual: Clips each gene value to be within its specified [min,max] range.
clamp() - Method in class ec.vector.ShortVectorIndividual: Clips each gene value to be within its specified [min,max] range.
cleanup(EvolutionState) - Static method in class ec.Evolve: Begins a fresh evolutionary run with a given state.
clear() - Method in class ec.Population
clear() - Method in class ec.Subpopulation: Sets all Individuals in the Subpopulation to null, preparing it to be reused.
clear() - Method in class ec.util.IntBag: Removes all numbers in the IntBag.
clearAnnouncements() - Method in class ec.util.Output: Clears out announcements.
clearErrors() - Method in class ec.util.Output: Clears the error flag.
clearEvaluationFlag(ArrayList<Individual>) - Method in class ec.neat.NEATSpecies: Clear the evaluation flag in each individual.
clearGaussian() - Method in class ec.util.MersenneTwister: Clears the internal gaussian variable from the RNG.
clearGaussian() - Method in class ec.util.MersenneTwisterFast: Clears the internal gaussian variable from the RNG.
clearIncoming() - Method in class ec.neat.NEATNode: Clear in incomgin links of this node, this is useful in create a new network from current genotype.
clientPort - Variable in class ec.exchange.IslandExchange: The port of the client mailbox
Clique - Interface in ec: Clique is a class pattern marking classes which create only a few instances, generally accessible through some global mechanism, and every single one of which gets its own distinct setup(...) call.
clone() - Method in class ec.breed.StubPipeline
clone() - Method in class ec.breed.UniquePipeline
clone() - Method in class ec.BreedingPipeline
clone() - Method in class ec.BreedingSource
clone() - Method in class ec.eda.amalgam.AMALGAMSpecies
clone() - Method in class ec.eda.cmaes.CMAESSpecies
clone() - Method in class ec.eda.pbil.PBILSpecies
clone() - Method in class ec.eval.MasterProblem
clone() - Method in class ec.Fitness
clone() - Method in class ec.gp.ADFContext
clone() - Method in class ec.gp.ADFStack
clone() - Method in class ec.gp.breed.InternalCrossoverPipeline
clone() - Method in class ec.gp.breed.MutateAllNodesPipeline
clone() - Method in class ec.gp.breed.MutateERCPipeline
clone() - Method in class ec.gp.breed.MutateOneNodePipeline
clone() - Method in class ec.gp.breed.SizeFairCrossoverPipeline
clone() - Method in class ec.gp.ge.GEProblem
clone() - Method in class ec.gp.ge.GESpecies
clone() - Method in class ec.gp.ge.GrammarParser
clone() - Method in class ec.gp.GPData
clone() - Method in class ec.gp.GPIndividual: Deep-clones the GPIndividual.
clone() - Method in class ec.gp.GPNode: Deep-clones the tree rooted at this node, and returns the entire copied tree.
clone() - Method in class ec.gp.GPNodeBuilder
clone() - Method in class ec.gp.GPProblem
clone() - Method in class ec.gp.GPTree: Deep-clones the tree.
clone() - Method in class ec.gp.koza.CrossoverPipeline
clone() - Method in class ec.gp.koza.KozaNodeSelector
clone() - Method in class ec.gp.koza.MutationPipeline
clone() - Method in class ec.gp.push.PushInstruction
clone() - Method in class ec.gp.push.PushProblem
clone() - Method in class ec.Individual
clone() - Method in class ec.multiobjective.MultiObjectiveFitness
clone() - Method in class ec.neat.NEATGene
clone() - Method in class ec.neat.NEATIndividual
clone() - Method in class ec.neat.NEATInnovation
clone() - Method in class ec.neat.NEATNetwork
clone() - Method in class ec.neat.NEATNode
clone() - Method in class ec.neat.NEATSubspecies
clone() - Method in class ec.Problem
clone() - Method in interface ec.Prototype: Creates a new individual cloned from a prototype, and suitable to begin use in its own evolutionary context.
clone() - Method in class ec.pso.Particle
clone() - Method in class ec.rule.breed.RuleCrossoverPipeline
clone() - Method in class ec.rule.Rule
clone() - Method in class ec.rule.RuleIndividual
clone() - Method in class ec.rule.RuleSet
clone() - Method in class ec.select.MultiSelection
clone() - Method in class ec.Species
clone() - Method in class ec.util.IntBag
clone() - Method in class ec.util.MersenneTwister
clone() - Method in class ec.util.MersenneTwisterFast
clone() - Method in class ec.vector.BitVectorIndividual
clone() - Method in class ec.vector.breed.ListCrossoverPipeline
clone() - Method in class ec.vector.breed.MultipleVectorCrossoverPipeline
clone() - Method in class ec.vector.breed.VectorCrossoverPipeline
clone() - Method in class ec.vector.ByteVectorIndividual
clone() - Method in class ec.vector.DoubleVectorIndividual
clone() - Method in class ec.vector.FloatVectorIndividual
clone() - Method in class ec.vector.Gene
clone() - Method in class ec.vector.GeneVectorIndividual
clone() - Method in class ec.vector.IntegerVectorIndividual
clone() - Method in class ec.vector.LongVectorIndividual
clone() - Method in class ec.vector.ShortVectorIndividual
cloneGenes(Object) - Method in class ec.vector.GeneVectorIndividual
cloneGenes(Object) - Method in class ec.vector.VectorIndividual: Clones the genes in pieces, and replaces the genes with their copies.
clonePipelineAndPopulation - Variable in class ec.simple.SimpleBreeder
cloneProblem - Variable in class ec.simple.SimpleEvaluator
cloneReplacing() - Method in class ec.gp.GPNode: Deep-clones the tree rooted at this node, and returns the entire copied tree.
cloneReplacing(GPNode[], GPNode[]) - Method in class ec.gp.GPNode: Deep-clones the tree rooted at this node, and returns the entire copied tree.
cloneReplacing(GPNode, GPNode) - Method in class ec.gp.GPNode: Deep-clones the tree rooted at this node, and returns the entire copied tree.
cloneReplacingAtomic(GPNode[], GPNode[]) - Method in class ec.gp.GPNode: Clones a new subtree, but with each node in oldNodes[] respectively (which may or may not be in the subtree) replaced with the equivalent nodes in newNodes[] (and not clones).
cloneReplacingAtomic(GPNode, GPNode) - Method in class ec.gp.GPNode: Clones a new subtree, but with the single node oldNode (which may or may not be in the subtree) replaced with a newNode (not a clone of newNode).
cloneReplacingNoSubclone(GPNode, GPNode) - Method in class ec.gp.GPNode: Deep-clones the tree rooted at this node, and returns the entire copied tree.
close() - Method in class ec.util.Output: Closes the logs -- ONLY call this if you are preparing to quit
closeContacts(EvolutionState, int) - Method in class ec.eval.MasterProblem: Gracefully close contacts with the slaves
closeContacts(EvolutionState, int) - Method in class ec.Evaluator: Called to shut down remote evaluation network contacts when the run is completed.
closeContacts(EvolutionState, int) - Method in class ec.exchange.InterPopulationExchange: Closes contacts with other processes, if that's what you're doing.
closeContacts(EvolutionState, int) - Method in class ec.exchange.IslandExchange: Closes contacts with other processes, if that's what you're doing.
closeContacts(EvolutionState, int) - Method in class ec.Exchanger: Closes contacts with other processes, if that's what you're doing.
closeContacts(EvolutionState, int) - Method in class ec.gp.ge.GEProblem
closeContacts(EvolutionState, int) - Method in class ec.Problem: Called to shut down remote evaluation network contacts when the run is completed.
closeContacts(EvolutionState, int) - Method in class ec.simple.SimpleExchanger: Doesn't do anything.
CMAESBreeder - Class in ec.eda.cmaes: CMAESBreeder is a Breeder which overrides the breedPopulation method to first update CMA-ES's internal distribution, then replace all the individuals in the population with new samples generated from the distribution.
CMAESBreeder() - Constructor for class ec.eda.cmaes.CMAESBreeder
CMAESDefaults - Class in ec.eda.cmaes: CMAESDefaults is the basic defaults class for the cmaes package.
CMAESDefaults() - Constructor for class ec.eda.cmaes.CMAESDefaults
CMAESInitializer - Class in ec.eda.cmaes: CMAESInitializer is a SimpleInitializer which ensures that the subpopulations are all set to the provided or computed lambda values.
CMAESInitializer() - Constructor for class ec.eda.cmaes.CMAESInitializer
CMAESSpecies - Class in ec.eda.cmaes: CMAESSpecies is a FloatVectorSpecies which implements a faithful version of the CMA-ES algorithm.
CMAESSpecies() - Constructor for class ec.eda.cmaes.CMAESSpecies
cmu - Variable in class ec.eda.cmaes.CMAESSpecies: The c_{\mu} rank-mu update learning rate.
Code - Class in ec.util: Code provides some simple wrapper functions for encoding and decoding basic data types for storage in a pseudo-Java source code strings format.
Code() - Constructor for class ec.util.Code
COLDGAUSSIAN - Enum constant in enum class ec.neat.NEATSpecies.MutationType
combine(EvolutionState, Fitness[], Fitness) - Method in class ec.eval.MetaProblem: Combines fitness results from multiple runs into a final Fitness.
COMMENT - Static variable in class ec.gp.ge.GrammarParser
compareIndividuals(Individual, Individual) - Method in class ec.eda.amalgam.AMALGAMSpecies
compareTo(Individual) - Method in class ec.Individual: Returns -1 if I am BETTER in some way than the other Individual, 1 if the other Individual is BETTER than me, and 0 if we are equivalent.
compareTo(Object) - Method in class ec.Fitness: Returns -1 if I am FITTER than the other Fitness, 1 if I am LESS FIT than the other Fitness, and 0 if we are equivalent.
compareTo(Object) - Method in class ec.rule.Rule: This function replaces the old gt and lt functions that Rule used to require as it implemented the SortComparator interface.
comparison - Variable in class ec.es.MuCommaLambdaBreeder
compatibility(NEATIndividual, NEATIndividual) - Method in class ec.neat.NEATSpecies: This function gives a measure of compatibility between two Genomes by computing a linear combination of 3 characterizing variables of their compatibilty.
compatibleWith(GPInitializer, GPType) - Method in class ec.gp.GPAtomicType
compatibleWith(GPInitializer, GPType) - Method in class ec.gp.GPSetType
compatibleWith(GPInitializer, GPType) - Method in class ec.gp.GPType: Am I compatible with ("fit" with) t? For two atomic types, this is done by direct pointer equality.
compatThreshold - Variable in class ec.neat.NEATSpecies: Compatible threshold to determine if two individual are compatible.
CompetitiveEvaluator - Class in ec.coevolve: CompetitiveEvaluator.java
CompetitiveEvaluator() - Constructor for class ec.coevolve.CompetitiveEvaluator
componentType() - Method in interface ec.util.Indexed: Should return the base component type for this Indexed object, or null if the component type should be queried via getValue(index).getClass.getComponentType()
componentType() - Method in class ec.util.IntBag
compress - Variable in class ec.simple.SimpleStatistics: Should we compress the file?
compressedCommunication - Variable in class ec.exchange.IslandExchange: whether the communication is compressed or not
computeAMS(EvolutionState, Subpopulation) - Method in class ec.eda.amalgam.AMALGAMSpecies
computeConstraintViolations(EvolutionState, Subpopulation) - Method in class ec.eda.amalgam.AMALGAMSpecies
computeCovariance(EvolutionState, Subpopulation) - Method in class ec.eda.amalgam.AMALGAMSpecies
computeMean(EvolutionState, Subpopulation) - Method in class ec.eda.amalgam.AMALGAMSpecies
computeNonterminalSelectionProbabilities(int) - Method in class ec.gp.build.PTCFunctionSet
computePercentages() - Method in class ec.gp.build.Uniform
computeValidationData(EvolutionState, ArrayList<Individual>, int) - Method in class ec.vector.breed.ListCrossoverPipeline: A hook called by ListCrossoverPipeline to allow subclasses to prepare for additional validation testing.
Console - Class in ec.display
Console(GraphicsConfiguration, String[]) - Constructor for class ec.display.Console
Console(String[]) - Constructor for class ec.display.Console
Console(String, GraphicsConfiguration, String[]) - Constructor for class ec.display.Console
Console(String, String[]) - Constructor for class ec.display.Console
constraintNumber - Variable in class ec.gp.GPNodeConstraints: The byte value of the constraints -- we can only have 256 of them
constraintNumber - Variable in class ec.gp.GPTreeConstraints: The byte value of the constraints -- we can only have 256 of them
constraintNumber - Variable in class ec.rule.RuleConstraints: The byte value of the constraints -- we can only have 256 of them
constraintNumber - Variable in class ec.rule.RuleSetConstraints: The byte value of the constraints -- we can only have 256 of them
constraints - Variable in class ec.gp.GPNode: The GPNode's constraints.
constraints - Variable in class ec.gp.GPTree: constraints on the GPTree -- don't access the constraints through this variable -- use the constraints() method instead, which will give the actual constraints object.
constraints - Variable in class ec.rule.Rule: An index to a RuleConstraints
constraints - Variable in class ec.rule.RuleSet: An index to a RuleSetConstraints
constraints(GPInitializer) - Method in class ec.gp.GPNode
constraints(GPInitializer) - Method in class ec.gp.GPTree
constraints(RuleInitializer) - Method in class ec.rule.Rule
constraints(RuleInitializer) - Method in class ec.rule.RuleSet
constraintsFor(String, EvolutionState) - Static method in class ec.gp.GPNodeConstraints: You must guarantee that after calling constraintsFor(...) one or several times, you call state.output.exitIfErrors() once.
constraintsFor(String, EvolutionState) - Static method in class ec.gp.GPTreeConstraints: You must guarantee that after calling constraintsFor(...) one or several times, you call state.output.exitIfErrors() once.
constraintsFor(String, EvolutionState) - Static method in class ec.rule.RuleConstraints: You must guarantee that after calling constraintsFor(...) one or several times, you call state.output.exitIfErrors() once.
constraintsFor(String, EvolutionState) - Static method in class ec.rule.RuleSetConstraints: You must guarantee that after calling constraintsFor(...) one or several times, you call state.output.exitIfErrors() once.
constraintViolations - Variable in class ec.eda.amalgam.AMALGAMSpecies
consumed(EvolutionState, GEIndividual, int) - Method in class ec.gp.ge.GESpecies: Returns the number of elements consumed from the GEIndividual array to produce the tree, else returns -1 if an error occurs, specifically if all elements were consumed and the tree had still not been completed.
contains(boolean[], boolean) - Method in class ec.vector.VectorSpecies: Utility method: returns the first array slot which contains the given value, else -1.
contains(double[], double) - Method in class ec.vector.VectorSpecies: Utility method: returns the first array slot which contains the given value, else -1.
contains(int) - Method in class ec.util.IntBag
contains(int[], int) - Method in class ec.vector.VectorSpecies: Utility method: returns the first array slot which contains the given value, else -1.
contains(long[], long) - Method in class ec.vector.VectorSpecies: Utility method: returns the first array slot which contains the given value, else -1.
contains(GPNode) - Method in class ec.gp.GPNode: Returns true if the subtree rooted at this node contains subnode.
containsNulls(Collection) - Static method in class ec.util.Misc
context - Variable in class ec.Fitness: Auxiliary variable, used by coevolutionary processes, to store the individuals involved in producing this given Fitness value.
context_proto - Variable in class ec.gp.ADFStack
contextIsBetterThan(Fitness) - Method in class ec.Fitness: Given another Fitness, returns true if the trial which produced my current context is "better" in fitness than the trial which produced his current context, and thus should be retained in lieu of his.
contributors - Static variable in class ec.util.Version
contributors2 - Static variable in class ec.util.Version
contributors3 - Static variable in class ec.util.Version
contributors4 - Static variable in class ec.util.Version
contributors5 - Static variable in class ec.util.Version
contributors6 - Static variable in class ec.util.Version
contributors7 - Static variable in class ec.util.Version
ControlPanel - Class in ec.display
ControlPanel(Console) - Constructor for class ec.display.ControlPanel: This is the default constructor
copy(Serializable) - Static method in class ec.util.DataPipe: A poor-man's clone for serializable but not cloneable objects: serializes an object to the pipe, then deserializes it.
copyIntoArray(int, int[], int, int) - Method in class ec.util.IntBag: Copies 'len' elements from the Bag into the provided array.
copyNoClone(RuleSet) - Method in class ec.rule.RuleSet: Clears out existing rules, and loads the rules from the other ruleset without cloning them.
copyright - Static variable in class ec.util.Version
copyTo(GPData) - Method in class ec.gp.GPData: Modifies gpd so that gpd is equivalent to us.
CornerMap - Class in ec.eda.dovs: CornerMap can help us to quickly identify the possible individuals that is able to form a hyperbox around best individual.
CornerMap() - Constructor for class ec.eda.dovs.CornerMap
CornerMap.Pair - Class in ec.eda.dovs: Simple structure store the key and value from this CornerMap.
corners - Variable in class ec.eda.dovs.DOVSSpecies: CornerMaps for the all the visisted individuals.
count - Variable in class ec.es.MuCommaLambdaBreeder: Modified by multiple threads, don't fool with this
countdown - Variable in class ec.evolve.RandomRestarts
countOffspring(double) - Method in class ec.neat.NEATSubspecies: Compute the collective offspring the entire species (the sum of all individual's offspring) is assigned skim is fractional offspring left over from a previous subspecies that was counted.
countOffspring(EvolutionState, int) - Method in class ec.neat.NEATSpecies: Determine the offsprings for all the subspecies.
covarMatrix - Variable in class ec.eda.amalgam.AMALGAMSpecies
Cr - Variable in class ec.de.DEBreeder: Probability of crossover per gene
CR_UNSPECIFIED - Static variable in class ec.de.DEBreeder
createIndividual(EvolutionState, int, int, int) - Method in class ec.de.Best1BinDEBreeder
createIndividual(EvolutionState, int, int, int) - Method in class ec.de.DEBreeder
createIndividual(EvolutionState, int, int, int) - Method in class ec.de.Rand1EitherOrDEBreeder
createNetwork() - Method in class ec.neat.NEATIndividual
createNodeCopyIfMissing(ArrayList<NEATNode>, NEATNode) - Method in class ec.neat.NEATIndividual: Create the node if the nodeList do not have that node.The nodes in the nodeList is guarantee in ascending order according to node's nodeId.
crossover(EvolutionState, int, NEATIndividual) - Method in class ec.neat.NEATIndividual: Crossover function.
crossover(EvolutionState, DoubleVectorIndividual, DoubleVectorIndividual, int) - Method in class ec.de.DEBreeder: Crosses over child with target, storing the result in child and returning it.
crossoverDistributionIndex - Variable in class ec.vector.VectorSpecies: What should the SBX distribution index be?
CrossoverPipeline - Class in ec.gp.koza: CrossoverPipeline is a GPBreedingPipeline which performs a strongly-typed version of Koza-style "Subtree Crossover".
CrossoverPipeline() - Constructor for class ec.gp.koza.CrossoverPipeline
crossoverProbability - Variable in class ec.vector.VectorSpecies: Probability that a gene will cross over -- ONLY used in V_ANY_POINT crossover
crossoverType - Variable in class ec.vector.breed.ListCrossoverPipeline
crossoverType - Variable in class ec.vector.VectorSpecies: What kind of crossover do we have?
cs - Variable in class ec.eda.cmaes.CMAESSpecies: The c_{\sigma} mutation rate evolution path learning rate.
currentDatabase - Variable in class ec.eval.MetaProblem: This points to the database presently used by the underlying (base-level) evolutionary computation system.
currNodeId - Variable in class ec.neat.NEATSpecies: Current node id that is available.
customInstructions - Variable in class ec.gp.push.Terminal: A list of custom PushInstructions I can be set to.

D

d - Variable in class ec.eda.cmaes.CMAESSpecies: The "C" matrix, eigendecomposed from the "C" covariance matrix of the distribution.
d - Variable in class ec.util.DecodeReturn: Stores floats, doubles
D_STDERR - Static variable in class ec.util.Log: Specifies that the log should write to stderr (System.err)
D_STDOUT - Static variable in class ec.util.Log: Specifies that the log should write to stdout (System.out)
damps - Variable in class ec.eda.cmaes.CMAESSpecies: The d_{\sigma} dampening for the mutation rate update.
data - Variable in class ec.EvolutionState: An array of HashMaps, indexed by the thread number you were given (or, if you're not in a multithreaded area, use 0).
data - Variable in class ec.util.DecodeReturn: The DecodeReturn string that's read from.
DataPipe - Class in ec.util
DataPipe() - Constructor for class ec.util.DataPipe
dataset - Variable in class ec.display.chart.BarChartStatistics
dataset - Variable in class ec.display.chart.PieChartStatistics
date - Static variable in class ec.util.Version
DEBreeder - Class in ec.de: DEBreeder provides a straightforward Differential Evolution (DE) breeder for the ECJ system.
DEBreeder() - Constructor for class ec.de.DEBreeder
decode(DecodeReturn) - Method in class ec.gp.ERC: Decodes data into the ERC from dret.
decode(DecodeReturn) - Method in class ec.gp.push.Terminal
decode(DecodeReturn) - Static method in class ec.util.Code: Decodes the next item out of a DecodeReturn and modifies the DecodeReturn to hold the results.
DecodeReturn - Class in ec.util: DecodeReturn is used by Code to provide varied information returned when decoding.
DecodeReturn(String) - Constructor for class ec.util.DecodeReturn: Use this to make a new DecodeReturn starting at position 0
DecodeReturn(String, int) - Constructor for class ec.util.DecodeReturn: Use this to make a new DecodeReturn starting at some position
DEEvaluator - Class in ec.de: DEEvaluator is a simple subclass of SimpleEvaluator which first evaluates the population, then compares each population member against the parent which had created it in Differential Evolution.
DEEvaluator() - Constructor for class ec.de.DEEvaluator
DEFAULT_ALT_GENERATOR_TRIES - Static variable in class ec.eda.cmaes.CMAESSpecies: Default value (100) for altGeneratorTries.
DEFAULT_OUT_OF_BOUNDS_RETRIES - Static variable in class ec.vector.FloatVectorSpecies
DEFAULT_PROBABILITY - Static variable in class ec.gp.GPNodeConstraints
DEFAULT_REGEXES - Static variable in class ec.gp.ge.GrammarParser: The default regular expressions for tokens in the parser.
defaultBase() - Method in class ec.breed.BufferedBreedingPipeline
defaultBase() - Method in class ec.breed.CheckingPipeline
defaultBase() - Method in class ec.breed.FirstCopyPipeline
defaultBase() - Method in class ec.breed.ForceBreedingPipeline
defaultBase() - Method in class ec.breed.GenerationSwitchPipeline
defaultBase() - Method in class ec.breed.InitializationPipeline
defaultBase() - Method in class ec.breed.MultiBreedingPipeline
defaultBase() - Method in class ec.breed.RepeatPipeline
defaultBase() - Method in class ec.breed.ReproductionPipeline
defaultBase() - Method in class ec.breed.StubPipeline
defaultBase() - Method in class ec.breed.UniquePipeline
defaultBase() - Method in class ec.eda.amalgam.AMALGAMSpecies
defaultBase() - Method in class ec.eda.cmaes.CMAESSpecies
defaultBase() - Method in class ec.eda.dovs.DOVSSpecies
defaultBase() - Method in class ec.es.ESSelection
defaultBase() - Method in class ec.gp.ADF
defaultBase() - Method in class ec.gp.ADFArgument
defaultBase() - Method in class ec.gp.ADFContext
defaultBase() - Method in class ec.gp.ADFStack
defaultBase() - Method in class ec.gp.breed.InternalCrossoverPipeline
defaultBase() - Method in class ec.gp.breed.MutateAllNodesPipeline
defaultBase() - Method in class ec.gp.breed.MutateDemotePipeline
defaultBase() - Method in class ec.gp.breed.MutateERCPipeline
defaultBase() - Method in class ec.gp.breed.MutateOneNodePipeline
defaultBase() - Method in class ec.gp.breed.MutatePromotePipeline
defaultBase() - Method in class ec.gp.breed.MutateSwapPipeline
defaultBase() - Method in class ec.gp.breed.RehangPipeline
defaultBase() - Method in class ec.gp.breed.SizeFairCrossoverPipeline
defaultBase() - Method in class ec.gp.build.PTC1
defaultBase() - Method in class ec.gp.build.PTC2
defaultBase() - Method in class ec.gp.build.RandomBranch
defaultBase() - Method in class ec.gp.build.RandTree
defaultBase() - Method in class ec.gp.build.Uniform
defaultBase() - Method in class ec.gp.ge.GESpecies
defaultBase() - Method in class ec.gp.ge.GrammarParser
defaultBase() - Method in class ec.gp.GPData
defaultBase() - Method in class ec.gp.GPIndividual
defaultBase() - Method in class ec.gp.GPNode: The default base for GPNodes -- defined even though GPNode is abstract so you don't have to in subclasses.
defaultBase() - Method in class ec.gp.GPProblem: GPProblem defines a default base so your subclass doesn't absolutely have to.
defaultBase() - Method in class ec.gp.GPSpecies
defaultBase() - Method in class ec.gp.GPTree
defaultBase() - Method in class ec.gp.koza.CrossoverPipeline
defaultBase() - Method in class ec.gp.koza.FullBuilder
defaultBase() - Method in class ec.gp.koza.GrowBuilder
defaultBase() - Method in class ec.gp.koza.HalfBuilder
defaultBase() - Method in class ec.gp.koza.KozaFitness
defaultBase() - Method in class ec.gp.koza.KozaNodeSelector
defaultBase() - Method in class ec.gp.koza.MutationPipeline
defaultBase() - Method in class ec.gp.push.PushBuilder
defaultBase() - Method in class ec.gp.push.PushInstruction
defaultBase() - Method in class ec.gp.push.Terminal
defaultBase() - Method in class ec.multiobjective.MultiObjectiveFitness
defaultBase() - Method in class ec.neat.NEATGene
defaultBase() - Method in class ec.neat.NEATIndividual
defaultBase() - Method in class ec.neat.NEATInnovation
defaultBase() - Method in class ec.neat.NEATNetwork
defaultBase() - Method in class ec.neat.NEATNode
defaultBase() - Method in class ec.neat.NEATSpecies
defaultBase() - Method in class ec.neat.NEATSubspecies
defaultBase() - Method in class ec.parsimony.BucketTournamentSelection
defaultBase() - Method in class ec.parsimony.DoubleTournamentSelection
defaultBase() - Method in class ec.parsimony.LexicographicTournamentSelection
defaultBase() - Method in class ec.parsimony.ProportionalTournamentSelection
defaultBase() - Method in class ec.parsimony.RatioBucketTournamentSelection
defaultBase() - Method in class ec.Problem: Here's a nice default base for you -- you can change it if you like
defaultBase() - Method in interface ec.Prototype: Returns the default base for this prototype.
defaultBase() - Method in class ec.rule.breed.RuleCrossoverPipeline
defaultBase() - Method in class ec.rule.breed.RuleMutationPipeline
defaultBase() - Method in class ec.rule.Rule
defaultBase() - Method in class ec.rule.RuleIndividual
defaultBase() - Method in class ec.rule.RuleSet
defaultBase() - Method in class ec.rule.RuleSpecies
defaultBase() - Method in class ec.select.AnnealedSelection
defaultBase() - Method in class ec.select.BestSelection
defaultBase() - Method in class ec.select.BoltzmannSelection
defaultBase() - Method in class ec.select.FirstSelection
defaultBase() - Method in class ec.select.FitProportionateSelection
defaultBase() - Method in class ec.select.GreedyOverselection
defaultBase() - Method in class ec.select.LexicaseSelection
defaultBase() - Method in class ec.select.MultiSelection
defaultBase() - Method in class ec.select.RandomSelection
defaultBase() - Method in class ec.select.SigmaScalingSelection
defaultBase() - Method in class ec.select.SUSSelection
defaultBase() - Method in class ec.select.TopSelection
defaultBase() - Method in class ec.select.TournamentSelection
defaultBase() - Method in class ec.simple.SimpleFitness
defaultBase() - Method in class ec.spatial.SpatialTournamentSelection
defaultBase() - Method in class ec.Subpopulation
defaultBase() - Method in class ec.vector.BitVectorIndividual
defaultBase() - Method in class ec.vector.breed.GeneDuplicationPipeline
defaultBase() - Method in class ec.vector.breed.ListCrossoverPipeline
defaultBase() - Method in class ec.vector.breed.MultipleVectorCrossoverPipeline
defaultBase() - Method in class ec.vector.breed.VectorCrossoverPipeline
defaultBase() - Method in class ec.vector.breed.VectorMutationPipeline
defaultBase() - Method in class ec.vector.ByteVectorIndividual
defaultBase() - Method in class ec.vector.DoubleVectorIndividual
defaultBase() - Method in class ec.vector.FloatVectorIndividual
defaultBase() - Method in class ec.vector.Gene
defaultBase() - Method in class ec.vector.GeneVectorIndividual
defaultBase() - Method in class ec.vector.IntegerVectorIndividual
defaultBase() - Method in class ec.vector.LongVectorIndividual
defaultBase() - Method in class ec.vector.ShortVectorIndividual
defaultBase() - Method in class ec.vector.VectorSpecies
defaultCrossover(EvolutionState, int, VectorIndividual) - Method in class ec.vector.BitVectorIndividual
defaultCrossover(EvolutionState, int, VectorIndividual) - Method in class ec.vector.ByteVectorIndividual
defaultCrossover(EvolutionState, int, VectorIndividual) - Method in class ec.vector.DoubleVectorIndividual
defaultCrossover(EvolutionState, int, VectorIndividual) - Method in class ec.vector.FloatVectorIndividual
defaultCrossover(EvolutionState, int, VectorIndividual) - Method in class ec.vector.GeneVectorIndividual
defaultCrossover(EvolutionState, int, VectorIndividual) - Method in class ec.vector.IntegerVectorIndividual
defaultCrossover(EvolutionState, int, VectorIndividual) - Method in class ec.vector.LongVectorIndividual
defaultCrossover(EvolutionState, int, VectorIndividual) - Method in class ec.vector.ShortVectorIndividual
defaultCrossover(EvolutionState, int, VectorIndividual) - Method in class ec.vector.VectorIndividual: Destructively crosses over the individual with another in some default manner.
defaultMutate(EvolutionState, int) - Method in class ec.neat.NEATIndividual: Mutation function, determine which mutation is going to proceed with certain probabilities parameters.
defaultMutate(EvolutionState, int) - Method in class ec.vector.BitVectorIndividual: Destructively mutates the individual in some default manner.
defaultMutate(EvolutionState, int) - Method in class ec.vector.ByteVectorIndividual: Destructively mutates the individual in some default manner.
defaultMutate(EvolutionState, int) - Method in class ec.vector.DoubleVectorIndividual: Destructively mutates the individual in some default manner.
defaultMutate(EvolutionState, int) - Method in class ec.vector.FloatVectorIndividual: Destructively mutates the individual in some default manner.
defaultMutate(EvolutionState, int) - Method in class ec.vector.GeneVectorIndividual: Destructively mutates the individual in some default manner.
defaultMutate(EvolutionState, int) - Method in class ec.vector.IntegerVectorIndividual: Destructively mutates the individual in some default manner.
defaultMutate(EvolutionState, int) - Method in class ec.vector.LongVectorIndividual: Destructively mutates the individual in some default manner.
defaultMutate(EvolutionState, int) - Method in class ec.vector.ShortVectorIndividual: Destructively mutates the individual in some default manner.
defaultMutate(EvolutionState, int) - Method in class ec.vector.VectorIndividual: Destructively mutates the individual in some default manner.
DefaultsForm - Interface in ec: DefaultsForm is the interface which describes how Defaults objects should work.
delimiter - Variable in class ec.simple.SimpleShortStatistics
delimiter - Static variable in class ec.util.Parameter
deltaAMS - Variable in class ec.eda.amalgam.AMALGAMSpecies
deltaCoding(EvolutionState, int, ArrayList<NEATSubspecies>) - Method in class ec.neat.NEATSpecies: Perform a delta coding.
depth() - Method in class ec.gp.GPNode: Returns the depth of the tree, which is a value >= 1.
depth(int, NEATNetwork, int) - Method in class ec.neat.NEATNode: Return the depth of this node in the network.
describe(EvolutionState, Individual, int, int, int) - Method in class ec.eval.MasterProblem
describe(EvolutionState, Individual, int, int, int) - Method in class ec.eval.MetaProblem
describe(EvolutionState, Individual, int, int, int) - Method in class ec.gp.ge.GEProblem
describe(EvolutionState, Individual, int, int, int) - Method in class ec.Problem: Part of SimpleProblemForm.
describe(EvolutionState, Individual, int, int, int) - Method in interface ec.simple.SimpleProblemForm: "Reevaluates" an individual, for the purpose of printing out interesting facts about the individual in the context of the Problem, and logs the results.
describe(Individual, EvolutionState, int, int, int, int) - Method in class ec.Problem
determineSeed(Output, ParameterDatabase, Parameter, long, int, boolean) - Static method in class ec.Evolve: Loads a random generator seed.
determineThreads(Output, ParameterDatabase, Parameter) - Static method in class ec.Evolve: Loads the number of threads.
disableControls() - Method in class ec.display.ControlPanel
disjointCoeff - Variable in class ec.neat.NEATSpecies: Coefficient for disjoint gene in compatibility computation.
distanceTo(Individual) - Method in class ec.Individual: Returns the metric distance to another individual, if such a thing can be measured.
distanceTo(Individual) - Method in class ec.vector.BitVectorIndividual: Implements distance as hamming distance.
distanceTo(Individual) - Method in class ec.vector.ByteVectorIndividual
distanceTo(Individual) - Method in class ec.vector.DoubleVectorIndividual
distanceTo(Individual) - Method in class ec.vector.FloatVectorIndividual
distanceTo(Individual) - Method in class ec.vector.IntegerVectorIndividual
distanceTo(Individual) - Method in class ec.vector.LongVectorIndividual
distanceTo(Individual) - Method in class ec.vector.ShortVectorIndividual
distributionMultiplier - Variable in class ec.eda.amalgam.AMALGAMSpecies
distributionMultiplierDecrease - Variable in class ec.eda.amalgam.AMALGAMSpecies
distributionMultiplierIncrease - Variable in class ec.eda.amalgam.AMALGAMSpecies
doDepth - Variable in class ec.gp.koza.KozaShortStatistics
doDescription - Variable in class ec.simple.SimpleStatistics
doFinal - Variable in class ec.simple.SimpleStatistics
doGeneration - Variable in class ec.simple.SimpleStatistics
doHeader - Variable in class ec.simple.SimpleShortStatistics
doHypervolume - Variable in class ec.multiobjective.MultiObjectiveStatistics
doLengthFirst - Variable in class ec.parsimony.DoubleTournamentSelection
domain - Variable in class ec.eval.MetaProblem: A list of domain information, one per parameter in the genome.
doMessage - Variable in class ec.simple.SimpleStatistics
doPerGenerationDescription - Variable in class ec.simple.SimpleStatistics
doSize - Variable in class ec.simple.SimpleShortStatistics
doSubpops - Variable in class ec.simple.SimpleShortStatistics
doTime - Variable in class ec.simple.SimpleShortStatistics
doubleArrayEquals(double[], double[], double) - Static method in class ec.util.Misc
doubleEquals(double, double, double) - Static method in class ec.util.Misc
DoubleTournamentSelection - Class in ec.parsimony
DoubleTournamentSelection() - Constructor for class ec.parsimony.DoubleTournamentSelection
DoubleVectorIndividual - Class in ec.vector: DoubleVectorIndividual is a VectorIndividual whose genome is an array of doubles.
DoubleVectorIndividual() - Constructor for class ec.vector.DoubleVectorIndividual
DOVSBreeder - Class in ec.eda.dovs: DOVSBreeder is a Breeder which overrides the breedPopulation method to first construct hyperbox around current best individual and replace the population with new individuals sampled from this hyperbox.
DOVSBreeder() - Constructor for class ec.eda.dovs.DOVSBreeder
DOVSDefaults - Class in ec.eda.dovs: DOVSDefaults is the basic defaults class for the dovs package.
DOVSDefaults() - Constructor for class ec.eda.dovs.DOVSDefaults
DOVSEvaluator - Class in ec.eda.dovs: The DOVSEvaluator is a SimpleEvaluator to evaluate the Individual.
DOVSEvaluator() - Constructor for class ec.eda.dovs.DOVSEvaluator
DOVSFitness - Class in ec.eda.dovs: DOVSFitness is a subclass of Fitness which implements contains important statistics about simulation results of the individual.
DOVSFitness() - Constructor for class ec.eda.dovs.DOVSFitness
DOVSInitializer - Class in ec.eda.dovs: DOVSInitializer is a SimpleInitializer which ensures that the subpopulations are create from an existing individual read from file.
DOVSInitializer() - Constructor for class ec.eda.dovs.DOVSInitializer
DOVSSpecies - Class in ec.eda.dovs: DOVSSpecies is a IntegerVectorSpecies which implements DOVS algorithm.
DOVSSpecies() - Constructor for class ec.eda.dovs.DOVSSpecies
dropoffAge - Variable in class ec.neat.NEATSpecies: Age where Species starts to be penalized.
duplicateRetries - Variable in class ec.vector.VectorSpecies: How often do we retry until we get a non-duplicate gene?
duplicateRetries(int) - Method in class ec.vector.VectorSpecies
DYNAMIC_SOURCES - Static variable in class ec.BreedingPipeline: Indicates that the number of sources is not hard coded but is determined by the user in the parameter file.
dynamicInitialSize - Variable in class ec.vector.VectorSpecies: Was the initial size determined dynamically?

E

ec - package ec
ec.breed - package ec.breed
ec.coevolve - package ec.coevolve
ec.de - package ec.de
ec.display - package ec.display
ec.display.chart - package ec.display.chart
ec.display.portrayal - package ec.display.portrayal
ec.eda.amalgam - package ec.eda.amalgam
ec.eda.cmaes - package ec.eda.cmaes
ec.eda.dovs - package ec.eda.dovs
ec.eda.pbil - package ec.eda.pbil
ec.es - package ec.es
ec.eval - package ec.eval
ec.evolve - package ec.evolve
ec.exchange - package ec.exchange
ec.gp - package ec.gp
ec.gp.breed - package ec.gp.breed
ec.gp.build - package ec.gp.build
ec.gp.ge - package ec.gp.ge
ec.gp.koza - package ec.gp.koza
ec.gp.push - package ec.gp.push
ec.multiobjective - package ec.multiobjective
ec.multiobjective.nsga2 - package ec.multiobjective.nsga2
ec.multiobjective.spea2 - package ec.multiobjective.spea2
ec.neat - package ec.neat
ec.parsimony - package ec.parsimony
ec.pso - package ec.pso
ec.rule - package ec.rule
ec.rule.breed - package ec.rule.breed
ec.select - package ec.select
ec.simple - package ec.simple
ec.spatial - package ec.spatial
ec.steadystate - package ec.steadystate
ec.util - package ec.util
ec.vector - package ec.vector
ec.vector.breed - package ec.vector.breed
ECDefaults - Class in ec
ECDefaults() - Constructor for class ec.ECDefaults
Ek - Variable in class ec.eda.dovs.DOVSSpecies: This is the Ek in original paper, where is the collection all the individuals evaluated in generation k.
eliminate - Variable in class ec.neat.NEATIndividual: Marker for destruction of inferior individual.
elite - Variable in class ec.simple.SimpleBreeder: An array[subpop] of the number of elites to keep for that subpopulation
eliteFrac - Variable in class ec.simple.SimpleBreeder: An array[subpop] of the *fraction* of elites to keep for that subpopulation
emptyAtGenerationBoundary - Variable in class ec.steadystate.SteadyStateEvolutionState: If true, the population will be emptied after each "generation," so no replacement or breeding occurrs.
emptyClone() - Method in class ec.neat.NEATNode: Return a clone of this node, but with a empty incomingGenes list.
emptyClone() - Method in class ec.neat.NEATSubspecies: Return a clone of this subspecies, but with a empty individuals and newGenIndividuals list.
emptyClone() - Method in class ec.Population: Returns an instance of Population just like it had been before it was populated with individuals.
emptyClone() - Method in class ec.Subpopulation: Returns an instance of Subpopulation just like it had been before it was populated with individuals.
enable - Variable in class ec.neat.NEATGene: Is the link this gene represent is enable in network activation.
enableControls() - Method in class ec.display.ControlPanel
encode() - Method in class ec.gp.ERC: Encodes data from the ERC, using ec.util.Code.
encode() - Method in class ec.gp.push.Terminal
encode(boolean) - Static method in class ec.util.Code: Encodes a boolean.
encode(byte) - Static method in class ec.util.Code: Encodes a byte.
encode(char) - Static method in class ec.util.Code: Encodes a character.
encode(double) - Static method in class ec.util.Code: Encodes a double.
encode(float) - Static method in class ec.util.Code: Encodes a float.
encode(int) - Static method in class ec.util.Code: Encodes an int.
encode(long) - Static method in class ec.util.Code: Encodes a long.
encode(short) - Static method in class ec.util.Code: Encodes a short.
encode(String) - Static method in class ec.util.Code: Encodes a String.
enteringInitialPopulationStatistics(SteadyStateEvolutionState) - Method in class ec.Statistics: STEADY-STATE: called when we created an empty initial Population.
enteringInitialPopulationStatistics(SteadyStateEvolutionState) - Method in interface ec.steadystate.SteadyStateStatisticsForm: Called when we created an empty initial Population.
enteringSteadyStateStatistics(int, SteadyStateEvolutionState) - Method in class ec.Statistics: STEADY-STATE: called when a given Subpopulation is entering the Steady-State.
enteringSteadyStateStatistics(int, SteadyStateEvolutionState) - Method in interface ec.steadystate.SteadyStateStatisticsForm: Called when we have filled the initial population and are entering the steady state.
enumerateGrammarTree(GrammarNode) - Method in class ec.gp.ge.GrammarParser: Run BFS to enumerate the whole grammar tree into all necessary indices lists/hash-maps, we *need* to run BFS because the decoding of the "GE array to tree" works in a BFS fashion, so we need to stick with that; After enumeration, we will have four data-structures like these -- (1) productionRuleList (a flattened grammar tree): grammar-tree ==> {rule-0, rule-1, ,,, rule-(n-1)} (2) ruleToIndex: rule-0 --> 0 rule-1 --> 1 , , rule-(n-1) --> (n-1) (3) indexToRule (reverse of ruleToIndex): 0 --> rule-0 1 --> rule-1 , , n-1 --> rule-(n-1) and then, last but not the least, the relative rule index -- (4) absIndexToRelIndex: if we have two rules like " -> | " and " -> | " then, [rule] [absIndex] [relIndex] -> --> [0] --> [0] -> --> [1] --> [1] -> --> [2] --> [0] -> --> [3] --> [1] etc,
EPSILON_STABILITY - Static variable in class ec.eda.dovs.HyperboxSpecies
equals(Object) - Method in class ec.gp.ge.GrammarNode: This is needed when we use a GrammarNode as a "key" in hash-map, see GrammarParser.java for details.
equals(Object) - Method in class ec.gp.GPIndividual
equals(Object) - Method in class ec.Individual: Returns true if I am genetically "equal" to ind.
equals(Object) - Method in class ec.neat.NEATGene
equals(Object) - Method in class ec.neat.NEATIndividual
equals(Object) - Method in class ec.neat.NEATInnovation
equals(Object) - Method in class ec.neat.NEATNetwork
equals(Object) - Method in class ec.neat.NEATNode
equals(Object) - Method in class ec.pso.Particle
equals(Object) - Method in class ec.rule.Rule: Unlike the standard form for Java, this function should return true if this rule is "genetically identical" to the other rule.
equals(Object) - Method in class ec.rule.RuleIndividual
equals(Object) - Method in class ec.rule.RuleSet
equals(Object) - Method in class ec.util.IIntPoint
equals(Object) - Method in class ec.util.ReflectedObject
equals(Object) - Method in class ec.vector.BitVectorIndividual
equals(Object) - Method in class ec.vector.ByteVectorIndividual
equals(Object) - Method in class ec.vector.DoubleVectorIndividual
equals(Object) - Method in class ec.vector.FloatVectorIndividual
equals(Object) - Method in class ec.vector.Gene: Unlike the standard form for Java, this function should return true if this gene is "genetically identical" to the other gene.
equals(Object) - Method in class ec.vector.GeneVectorIndividual
equals(Object) - Method in class ec.vector.IntegerVectorIndividual
equals(Object) - Method in class ec.vector.LongVectorIndividual
equals(Object) - Method in class ec.vector.ShortVectorIndividual
EQUALS - Static variable in class ec.gp.ge.GrammarParser
equivalentTo(Fitness) - Method in class ec.Fitness: Should return true if this fitness is in the same equivalence class as _fitness, that is, neither is clearly better or worse than the other.
equivalentTo(Fitness) - Method in class ec.gp.koza.KozaFitness
equivalentTo(Fitness) - Method in class ec.multiobjective.MultiObjectiveFitness: Returns true if I'm equivalent in fitness (neither better nor worse) to _fitness.
equivalentTo(Fitness) - Method in class ec.multiobjective.nsga2.NSGA2MultiObjectiveFitness
equivalentTo(Fitness) - Method in class ec.multiobjective.spea2.SPEA2MultiObjectiveFitness: The selection criteria in SPEA2 uses the computed fitness, and not pareto dominance.
equivalentTo(Fitness) - Method in class ec.simple.SimpleFitness
ERC - Class in ec.gp: ERC is an abstract GPNode which implements Ephemeral Random Constants, as described in Koza I.
ERC() - Constructor for class ec.gp.ERC
ERC_NAMES - Static variable in class ec.gp.push.Terminal
ERC_PREAMBLE - Static variable in class ec.gp.ge.GEIndividual
ERCBank - Variable in class ec.gp.ge.GESpecies: All the ERCs created so far, the ERCs are mapped as, "key --> list of ERC nodes", where the key = (genome[i] - minGene[i]); The ERCBank is "static", beacause we need one identical copy for all the individuals; Moreover, this copy may be sent to other sub-populations as well.
error(String) - Method in class ec.util.Output: Posts a simple error.
error(String, Parameter) - Method in class ec.util.Output: Posts a simple error.
error(String, Parameter, Parameter) - Method in class ec.util.Output: Posts a simple error.
errorAboutNoNodeWithType(GPType, EvolutionState) - Method in class ec.gp.GPNodeBuilder: Issues a fatal error that no node (nonterminal or terminal) was found with a return type of the given type, and that an algorithm had requested one.
errorInfo() - Method in class ec.gp.GPNode: A convenience function for identifying a GPNode in an error message
ESDefaults - Class in ec.es
ESDefaults() - Constructor for class ec.es.ESDefaults
ESSelection - Class in ec.es: ESSelection is a special SelectionMethod designed to be used with evolutionary strategies-type breeders.
ESSelection() - Constructor for class ec.es.ESSelection
etaP - Variable in class ec.eda.amalgam.AMALGAMSpecies
etaS - Variable in class ec.eda.amalgam.AMALGAMSpecies
eval(EvolutionState, int, GPData, ADFStack, GPIndividual, Problem) - Method in class ec.gp.ADF
eval(EvolutionState, int, GPData, ADFStack, GPIndividual, Problem) - Method in class ec.gp.ADFArgument
eval(EvolutionState, int, GPData, ADFStack, GPIndividual, Problem) - Method in class ec.gp.ADM
eval(EvolutionState, int, GPData, ADFStack, GPIndividual, Problem) - Method in class ec.gp.GPNode: Evaluates the node with the given thread, state, individual, problem, and stack.
eval(EvolutionState, int, GPData, ADFStack, GPIndividual, Problem) - Method in class ec.gp.push.Nonterminal
eval(EvolutionState, int, GPData, ADFStack, GPIndividual, Problem) - Method in class ec.gp.push.Terminal
evalNRandomOneWay(EvolutionState, int[], int[], ArrayList<Individual>, int, GroupedProblemForm) - Method in class ec.coevolve.CompetitiveEvaluator
evalNRandomOneWayPopChunk(EvolutionState, int, int, int, ArrayList<Individual>, int, GroupedProblemForm) - Method in class ec.coevolve.CompetitiveEvaluator
evalNRandomTwoWay(EvolutionState, int[], int[], ArrayList<Individual>, int, GroupedProblemForm) - Method in class ec.coevolve.CompetitiveEvaluator
evalNRandomTwoWayPopChunk(EvolutionState, int, int, int, ArrayList<Individual>, int, GroupedProblemForm) - Method in class ec.coevolve.CompetitiveEvaluator
evalPopChunk(EvolutionState, int[], int[], int, Problem) - Method in class ec.simple.SimpleEvaluator: A private helper function for evaluatePopulation which evaluates a chunk of individuals in a subpopulation for a given thread.
evalPopChunk(EvolutionState, int[], int[], int, Problem) - Method in class ec.simple.SimpleGroupedEvaluator: This protected helper function for evaluatePopulation evaluates a chunk of individuals in a subpopulation for a given thread.
evalPopChunk(EvolutionState, int[], int[], int, SimpleProblemForm) - Method in class ec.eda.dovs.DOVSEvaluator: For each of the iteration, we are not just evaluate the individuals in current population but also current best individual and individuals in activeSolutions.
evalRoundRobin(EvolutionState, int[], int[], ArrayList<Individual>, int, GroupedProblemForm) - Method in class ec.coevolve.CompetitiveEvaluator
evalRoundRobinPopChunk(EvolutionState, int, int, int, ArrayList<Individual>, int, GroupedProblemForm) - Method in class ec.coevolve.CompetitiveEvaluator: A private helper function for evalutatePopulation which evaluates a chunk of individuals in a subpopulation for a given thread.
evalSingleElimination(EvolutionState, ArrayList<Individual>, int, GroupedProblemForm) - Method in class ec.coevolve.CompetitiveEvaluator
evalthreads - Variable in class ec.EvolutionState: The requested number of threads to be used in evaluation, excepting perhaps a "parent" thread which gathers the other threads.
evaluate(EvolutionState, int, GPData, ADFStack, GPIndividual, Problem, int) - Method in class ec.gp.ADFContext: Evaluates the argument number in the current context
evaluate(EvolutionState, Individual[], boolean[], boolean, int[], int) - Method in interface ec.coevolve.GroupedProblemForm: Evaluates the individuals found in ind together.
evaluate(EvolutionState, Individual[], boolean[], boolean, int[], int) - Method in class ec.eval.MasterProblem
evaluate(EvolutionState, Individual[], boolean[], boolean, int[], int) - Method in class ec.gp.ge.GEProblem: Default version assumes that every individual is a GEIndividual.
evaluate(EvolutionState, Individual, int, int) - Method in class ec.eval.MasterProblem
evaluate(EvolutionState, Individual, int, int) - Method in class ec.eval.MetaProblem
evaluate(EvolutionState, Individual, int, int) - Method in class ec.gp.ge.GEProblem
evaluate(EvolutionState, Individual, int, int) - Method in interface ec.simple.SimpleProblemForm: Evaluates the individual in ind, if necessary (perhaps not evaluating them if their evaluated flags are true), and sets their fitness appropriately.
evaluated - Variable in class ec.Individual: Has the individual been evaluated and its fitness determined yet?
EVALUATED_PREAMBLE - Static variable in class ec.Individual: A string appropriate to put in front of whether or not the individual has been printed.
evaluatedIndividualAvailable() - Method in class ec.eval.MasterProblem: This will only return true if (1) the EvolutionState is a SteadyStateEvolutionState and (2) an individual has returned from the system.
evaluatedIndividualAvailable() - Method in class ec.eval.SlaveMonitor
evaluateGroupedProblemForm(EvolutionState, boolean, DataInputStream, DataOutputStream) - Static method in class ec.eval.Slave
evaluateIndividual(EvolutionState, Individual, int) - Method in class ec.steadystate.SteadyStateEvaluator: Submits an individual to be evaluated by the Problem, and adds it and its subpopulation to the queue.
evaluatePopulation(EvolutionState) - Method in class ec.coevolve.CompetitiveEvaluator: An evaluator that performs coevolutionary evaluation.
evaluatePopulation(EvolutionState) - Method in class ec.coevolve.MultiPopCoevolutionaryEvaluator
evaluatePopulation(EvolutionState) - Method in class ec.de.DEEvaluator
evaluatePopulation(EvolutionState) - Method in class ec.Evaluator: Evaluates the fitness of an entire population.
evaluatePopulation(EvolutionState) - Method in class ec.simple.SimpleEvaluator: A simple evaluator that doesn't do any coevolutionary evaluation.
evaluateSimpleProblemForm(EvolutionState, boolean, DataInputStream, DataOutputStream, String[]) - Static method in class ec.eval.Slave
evaluations - Variable in class ec.EvolutionState: The current number of evaluations which have transpired so far in the run.
evaluator - Variable in class ec.EvolutionState: The population evaluator, a singleton object.
Evaluator - Class in ec: An Evaluator is a singleton object which is responsible for the evaluation process during the course of an evolutionary run.
Evaluator() - Constructor for class ec.Evaluator
EvolutionState - Class in ec: An EvolutionState object is a singleton object which holds the entire state of an evolutionary run.
EvolutionState() - Constructor for class ec.EvolutionState: This will be called to create your evolution state; immediately after the constructor is called, the parameters, random, and output fields will be set for you.
EvolutionStateEvent - Class in ec.display
EvolutionStateEvent(Object) - Constructor for class ec.display.EvolutionStateEvent
EvolutionStateListener - Interface in ec.display
evolve() - Method in class ec.EvolutionState
evolve() - Method in class ec.exchange.IslandExchange
evolve() - Method in class ec.simple.SimpleEvolutionState
evolve() - Method in class ec.steadystate.SteadyStateEvolutionState
Evolve - Class in ec: Evolve is the main entry class for an evolutionary computation run.
Evolve() - Constructor for class ec.Evolve
excessCoeff - Variable in class ec.neat.NEATSpecies: Coefficient for excess genes in compatibility computation.
exchanger - Variable in class ec.EvolutionState: The population exchanger, a singleton object.
Exchanger - Class in ec: The Exchanger is a singleton object whose job is to (optionally) perform individual exchanges between subpopulations in the run, or exchange individuals with other concurrent evolutionary run processes, using sockets or whatever.
Exchanger() - Constructor for class ec.Exchanger
Execute(Interpreter) - Method in class ec.gp.push.PushInstruction
executeProgram(Program, Interpreter, int) - Method in class ec.gp.push.PushProblem: Executes the given program for up to maxSteps steps.
exists(Parameter) - Method in class ec.util.ParameterDatabase: Returns true if parameter exist in the database
exists(Parameter, Parameter) - Method in class ec.util.ParameterDatabase: Returns true if either parameter or defaultParameter exists in the database
exitIfErrors() - Method in class ec.util.Output: Exits with a fatal error if the error flag has been raised.
expectedChildren() - Method in class ec.gp.ADFArgument
expectedChildren() - Method in class ec.gp.ERC: Usually ERCs don't have children, and this default implementation makes certain of it.
expectedChildren() - Method in class ec.gp.GPNode: Returns the number of children this node expects to have.
expectedChildren() - Method in class ec.gp.push.Terminal
expectedOffspring - Variable in class ec.neat.NEATIndividual: Number of children this individual may have for next generation.
expectedOffspring - Variable in class ec.neat.NEATSubspecies: Expected Offspring for next generation for this subspecies
expectedSize - Variable in class ec.gp.build.PTC1: The default expected tree size for PTC1
extraBehavior - Variable in class ec.Subpopulation: What is our fill behavior beyond files?

F

F - Variable in class ec.de.DEBreeder

Scaling factor for mutation

F_NOISE - Variable in class ec.de.Best1BinDEBreeder

limits on uniform noise for F

f_prototype - Variable in class ec.Species

The prototypical fitness for individuals of this species.

FAILURE - Static variable in class ec.util.Lexer

An index which indicates that no further tokens were found.

fatal(String) - Method in class ec.util.Output

Posts a fatal error.

fatal(String, Parameter) - Method in class ec.util.Output

Posts a fatal error.

fatal(String, Parameter, Parameter) - Method in class ec.util.Output

Posts a fatal error.

file - Variable in class ec.Population

file - Variable in class ec.Subpopulation

filename - Variable in class ec.util.Log

A filename, if the writer writes to a file

fill(boolean[], boolean) - Method in class ec.vector.VectorSpecies

Utility method: fills the array with the given value and returns it.

fill(double[], double) - Method in class ec.vector.VectorSpecies

Utility method: fills the array with the given value and returns it.

fill(int) - Method in class ec.util.IntBag

Replaces all elements in the bag with the provided int.

fill(int[], int) - Method in class ec.vector.VectorSpecies

Utility method: fills the array with the given value and returns it.

fill(long[], long) - Method in class ec.vector.VectorSpecies

Utility method: fills the array with the given value and returns it.

FILL - Static variable in class ec.Subpopulation

fillStubs(EvolutionState, BreedingSource) - Method in class ec.breed.StubPipeline

fillStubs(EvolutionState, BreedingSource) - Method in class ec.BreedingPipeline

fillStubs(EvolutionState, BreedingSource) - Method in class ec.BreedingSource

finalStatistics(EvolutionState, int) - Method in class ec.multiobjective.HypervolumeStatistics

Logs the best individual of the run.

finalStatistics(EvolutionState, int) - Method in class ec.multiobjective.MultiObjectiveStatistics

Logs the best individual of the run.

finalStatistics(EvolutionState, int) - Method in class ec.simple.SimpleStatistics

Logs the best individual of the run.

finalStatistics(EvolutionState, int) - Method in class ec.Statistics

Called immediately after the run has completed.

finalStatistics(EvolutionState, int) - Method in interface ec.steadystate.SteadyStateStatisticsForm

Called immediately after the run has completed.

findBestSample(EvolutionState, Subpopulation) - Method in class ec.eda.dovs.DOVSSpecies

To find the best sample for each generation, we need to go through each individual in the current population, and also best individual and individuals in actionSolutions.

findFairSizeNode(ArrayList, HashMap, GPNode, GPTree, EvolutionState, int) - Method in class ec.gp.breed.SizeFairCrossoverPipeline

This method finds a node using the logic given in the langdon paper.

finish(int) - Method in class ec.EvolutionState

finish(int) - Method in class ec.exchange.IslandExchange

finish(int) - Method in class ec.simple.SimpleEvolutionState

finish(int) - Method in class ec.steadystate.SteadyStateEvolutionState

finisher - Variable in class ec.EvolutionState

The population finisher, a singleton object.

Finisher - Class in ec

Finisher is a singleton object which is responsible for cleaning up a population after a run has completed.

Finisher() - Constructor for class ec.Finisher

finishEvaluating(EvolutionState, int) - Method in class ec.eval.MasterProblem

finishEvaluating(EvolutionState, int) - Method in class ec.gp.ge.GEProblem

finishEvaluating(EvolutionState, int) - Method in class ec.Problem

Will be called by the Evaluator after prepareToEvaluate(...) is called and then a series of individuals are evaluated.

finishEvaluationStatistics() - Method in class ec.steadystate.SteadyStateEvolutionState

finishPipelines(EvolutionState) - Method in class ec.steadystate.SteadyStateBreeder

finishPopulation(EvolutionState, int) - Method in class ec.Finisher

Cleans up the population after the run has completed.

finishPopulation(EvolutionState, int) - Method in class ec.simple.SimpleFinisher

Doesn't do anything.

finishProducing(EvolutionState, int, int) - Method in class ec.BreedingPipeline

finishProducing(EvolutionState, int, int) - Method in class ec.BreedingSource

Called after produce(...), usually once a generation, or maybe only once if you're doing steady-state evolution (at the end of the run).

finishProducing(EvolutionState, int, int) - Method in class ec.select.BestSelection

finishProducing(EvolutionState, int, int) - Method in class ec.select.FitProportionateSelection

finishProducing(EvolutionState, int, int) - Method in class ec.select.GreedyOverselection

finishProducing(EvolutionState, int, int) - Method in class ec.SelectionMethod

A default version of finishProducing, which does nothing.

fireUpServer(EvolutionState, Parameter) - Method in class ec.exchange.IslandExchange

Fires up the server.

first() - Method in class ec.neat.NEATSubspecies

Return the first individual in this subspecies

FirstCopyPipeline - Class in ec.breed

FirstCopyPipeline is a BreedingPipeline similar to ReproductionPipeline, except that after a call to prepareToProduce(...), the immediate next child produced is produced from source 0, and all the remaining children in that produce() call and in subsequent produce() calls are produced from source 1.

FirstCopyPipeline() - Constructor for class ec.breed.FirstCopyPipeline

firstGeneration - Variable in class ec.eda.amalgam.AMALGAMSpecies

FirstSelection - Class in ec.select

Always picks the first individual in the subpopulation.

FirstSelection() - Constructor for class ec.select.FirstSelection

firstTime - Variable in class ec.breed.FirstCopyPipeline

firstTime - Variable in class ec.steadystate.SteadyStateEvolutionState

First time calling evolve

fitness - Variable in class ec.Individual

The fitness of the Individual.

fitness - Variable in class ec.multiobjective.spea2.SPEA2MultiObjectiveFitness

Final SPEA2 fitness.

fitness() - Method in class ec.Fitness

Should return an absolute fitness value ranging from negative infinity to infinity, NOT inclusive (thus infinity, negative infinity, and NaN are NOT valid fitness values).

fitness() - Method in class ec.gp.koza.KozaFitness

Returns the adjusted fitness metric, which recasts the fitness to the half-open interval (0,1], where 1 is ideal and 0 is worst.

fitness() - Method in class ec.multiobjective.MultiObjectiveFitness

Returns the Max() of objectives, which adheres to Fitness.java's protocol for this method.

fitness() - Method in class ec.simple.SimpleFitness

Fitness - Class in ec

Fitness is a prototype which describes the fitness of an individual.

Fitness() - Constructor for class ec.Fitness

FITNESS_POSTAMBLE - Static variable in class ec.multiobjective.MultiObjectiveFitness

FITNESS_PREAMBLE - Static variable in class ec.Fitness

Basic preamble for printing Fitness values out

fitnesses - Variable in class ec.select.FitProportionateSelection

Normalized, totalized fitnesses for the population

fitnesses - Variable in class ec.select.SUSSelection

The distribution of fitnesses.

fitnessPressureProb - Variable in class ec.parsimony.ProportionalTournamentSelection

The probability of having the tournament based on fitness

fitnessToString() - Method in class ec.Fitness

Print to a string the fitness in a fashion intended to be parsed in again via readFitness(...).

fitnessToString() - Method in class ec.gp.koza.KozaFitness

fitnessToString() - Method in class ec.multiobjective.MultiObjectiveFitness

fitnessToString() - Method in class ec.multiobjective.nsga2.NSGA2MultiObjectiveFitness

fitnessToString() - Method in class ec.multiobjective.spea2.SPEA2MultiObjectiveFitness

fitnessToString() - Method in class ec.simple.SimpleFitness

fitnessToStringForHumans() - Method in class ec.Fitness

Print to a string the fitness in a fashion readable by humans, and not intended to be parsed in again.

fitnessToStringForHumans() - Method in class ec.gp.koza.KozaFitness

fitnessToStringForHumans() - Method in class ec.multiobjective.MultiObjectiveFitness

fitnessToStringForHumans() - Method in class ec.multiobjective.nsga2.NSGA2MultiObjectiveFitness

fitnessToStringForHumans() - Method in class ec.multiobjective.spea2.SPEA2MultiObjectiveFitness

fitnessToStringForHumans() - Method in class ec.simple.SimpleFitness

fitnessVarianceTolerance - Variable in class ec.eda.amalgam.AMALGAMSpecies

FitProportionateSelection - Class in ec.select

Picks individuals in a population in direct proportion to their fitnesses as returned by their fitness() methods.

FitProportionateSelection() - Constructor for class ec.select.FitProportionateSelection

flattenSexp(EvolutionState, int, GPTree) - Method in class ec.gp.ge.GESpecies

Flattens an S-expression

FLOAT_ERC - Static variable in class ec.gp.push.Terminal

FloatVectorIndividual - Class in ec.vector

FloatVectorIndividual is a VectorIndividual whose genome is an array of floats.

FloatVectorIndividual() - Constructor for class ec.vector.FloatVectorIndividual

FloatVectorSpecies - Class in ec.vector

FloatVectorSpecies is a subclass of VectorSpecies with special constraints for floating-point vectors, namely FloatVectorIndividual and DoubleVectorIndividual.

FloatVectorSpecies() - Constructor for class ec.vector.FloatVectorSpecies

flush() - Method in class ec.neat.NEATNetwork

flush() - Method in class ec.neat.NEATNode

Put all the field into initial status, this is useful in flushing the whole network.

flush() - Method in class ec.util.Output

Flushes the logs

flushBack() - Method in class ec.neat.NEATNode

Old flush code, used in C++ version.

ForceBreedingPipeline - Class in ec.breed

ForceBreedingPipeline has one source.

ForceBreedingPipeline() - Constructor for class ec.breed.ForceBreedingPipeline

FOUND - Static variable in class ec.exchange.IslandExchange

Found signal

FOUND_TIMEOUT - Static variable in class ec.exchange.IslandExchange

How long we sleep between checking for FOUND messages

frontLog - Variable in class ec.multiobjective.MultiObjectiveStatistics

The pareto front log

frozen - Variable in class ec.neat.NEATGene

Is this gene frozen, a frozen gene's weight cannot get mutated in breeding procedure.

frozen - Variable in class ec.neat.NEATNode

When it's true, the node cannot be mutated.

FullBuilder - Class in ec.gp.koza

FullBuilder is a GPNodeBuilder which implements the FULL tree building method described in Koza I/II.

FullBuilder() - Constructor for class ec.gp.koza.FullBuilder

fullNode(EvolutionState, int, int, GPType, int, GPNodeParent, int, GPFunctionSet) - Method in class ec.gp.koza.KozaBuilder

A private recursive method which builds a FULL-style tree for newRootedTree(...)

funcnodes - Variable in class ec.gp.build.Uniform

FUNCTION - Static variable in class ec.gp.ge.GrammarParser

functionset - Variable in class ec.gp.GPTreeConstraints

The function set for nodes in the tree

functionSetFor(String, EvolutionState) - Static method in class ec.gp.GPFunctionSet

Returns the function set for a given name.

functionSetRepository - Variable in class ec.gp.GPInitializer

functionsets - Variable in class ec.gp.build.Uniform

functionType - Variable in class ec.neat.NEATNode

The activation function, use sigmoid for default, but can use some other choice, like ReLU.

G

gatherExtraPopStatistics(EvolutionState, int) - Method in class ec.simple.SimpleShortStatistics

gatherExtraSubpopStatistics(EvolutionState, int, int) - Method in class ec.gp.koza.KozaShortStatistics

gatherExtraSubpopStatistics(EvolutionState, int, int) - Method in class ec.simple.SimpleShortStatistics

gatherFirstSets(GrammarNode, GrammarNode) - Method in class ec.gp.ge.GrammarParser

Generate the FIRST-SET for each production rule and store them in the global hash-table, this runs a DFS on the grammar tree, the returned ArrayList is discarded and the FIRST-SETs are organized in a hash-map called "ruleToFirstSet" as follows -- rule-0 --> {FIRST-SET-0} rule-1 --> {FIRST-SET-1} , , rule-(n-1) --> {FIRST-SET-(n-1)}

gatherFollowSets(GrammarNode, GrammarNode) - Method in class ec.gp.ge.GrammarParser

We do not have any example grammar to test with FOLLOW-SETs, so the FOLLOW-SET is empty, we need to test with a grammar that contains post-fix notations; this needs to be implemented properly with a new grammar.

gatherNodeString(EvolutionState, int, GPNode, int) - Method in class ec.gp.ge.GESpecies

Used by the above function

gatherPredictSets(GrammarNode, GrammarNode) - Method in class ec.gp.ge.GrammarParser

Populate the PREDICT-SET from the FIRST-SETs and the FOLLOW-SETs, as we do not have FOLLOW-SET, so FIRST-SET == PREDICT-SET; this needs to be implemented, when the FOLLOW-SETs are done properly.

GAUSSIAN - Enum constant in enum class ec.neat.NEATSpecies.MutationType

gaussMutationStdev - Variable in class ec.vector.FloatVectorSpecies

Standard deviation for Gaussian Mutation, per gene.

gaussMutationStdev(int) - Method in class ec.vector.FloatVectorSpecies

GEDefaults - Class in ec.gp.ge

A static class that returns the base for "default values" which GE-style operators use, rather than making the user specify them all on a per- species basis.

GEDefaults() - Constructor for class ec.gp.ge.GEDefaults

GEIndividual - Class in ec.gp.ge

GEIndividual is a simple subclass of IntegerVectorIndividual which not only prints out (for humans) the Individual as a int vector but also prints out the Individual's tree representation.

GEIndividual() - Constructor for class ec.gp.ge.GEIndividual

genCovarMatrix - Variable in class ec.eda.amalgam.AMALGAMSpecies

Gene - Class in ec.vector

Gene is an abstract superclass of objects which may be used in the genome array of GeneVectorIndividuals.

Gene() - Constructor for class ec.vector.Gene

GeneDuplicationPipeline - Class in ec.vector.breed

GeneDuplicationPipeline is designed to duplicate a sequence of genes from the chromosome and append them to the end of the chromosome.

GeneDuplicationPipeline() - Constructor for class ec.vector.breed.GeneDuplicationPipeline

genePrototype - Variable in class ec.vector.GeneVectorSpecies

generateMax - Variable in class ec.breed.GenerationSwitchPipeline

generateMax - Variable in class ec.breed.MultiBreedingPipeline

generation - Variable in class ec.EvolutionState

The current generation of the population in the run.

generation - Variable in class ec.neat.NEATIndividual

Tells which generation this individual is from.

generationBoundary - Variable in class ec.steadystate.SteadyStateEvolutionState

Did we just start a new generation?

generationBoundaryStatistics(EvolutionState) - Method in class ec.Statistics

STEADY-STATE: called each time the generation count increments

generationBoundaryStatistics(EvolutionState) - Method in interface ec.steadystate.SteadyStateStatisticsForm

Called when the generation count increments

generationSize - Variable in class ec.steadystate.SteadyStateEvolutionState

how big is a generation? Set to the size of subpopulation 0 of the initial population.

generationSwitch - Variable in class ec.breed.GenerationSwitchPipeline

GenerationSwitchPipeline - Class in ec.breed

GenerationSwitchPipeline is a simple BreedingPipeline which switches its source depending on the generation.

GenerationSwitchPipeline() - Constructor for class ec.breed.GenerationSwitchPipeline

geneticNodeLabel - Variable in class ec.neat.NEATNode

Distinguish the input node, hidden or output node.

GeneVectorIndividual - Class in ec.vector

GeneVectorIndividual is a VectorIndividual whose genome is an array of Genes.

GeneVectorIndividual() - Constructor for class ec.vector.GeneVectorIndividual

GeneVectorSpecies - Class in ec.vector

GeneVectorSpecies is a subclass of VectorSpecies with special constraints for GeneVectorIndividuals.

GeneVectorSpecies() - Constructor for class ec.vector.GeneVectorSpecies

genome - Variable in class ec.vector.BitVectorIndividual

genome - Variable in class ec.vector.ByteVectorIndividual

genome - Variable in class ec.vector.DoubleVectorIndividual

genome - Variable in class ec.vector.FloatVectorIndividual

genome - Variable in class ec.vector.GeneVectorIndividual

genome - Variable in class ec.vector.IntegerVectorIndividual

genome - Variable in class ec.vector.LongVectorIndividual

genome - Variable in class ec.vector.ShortVectorIndividual

genomeIncreaseProbability - Variable in class ec.vector.VectorSpecies

With what probability would our genome be at least 1 larger than it is now during initialization?

genomeLength() - Method in class ec.vector.BitVectorIndividual

genomeLength() - Method in class ec.vector.ByteVectorIndividual

genomeLength() - Method in class ec.vector.DoubleVectorIndividual

genomeLength() - Method in class ec.vector.FloatVectorIndividual

genomeLength() - Method in class ec.vector.GeneVectorIndividual

genomeLength() - Method in class ec.vector.IntegerVectorIndividual

genomeLength() - Method in class ec.vector.LongVectorIndividual

genomeLength() - Method in class ec.vector.ShortVectorIndividual

genomeLength() - Method in class ec.vector.VectorIndividual

Returns the length of the gene array.

genomeResizeAlgorithm - Variable in class ec.vector.VectorSpecies

How should we reset the genome?

genomeSize - Variable in class ec.vector.VectorSpecies

How big of a genome should we create on initialization?

genotypeToString() - Method in class ec.Individual

Print to a string the genotype of the Individual in a fashion intended to be parsed in again via parseGenotype(...).

genotypeToString() - Method in class ec.neat.NEATIndividual

This method is used to output a individual that is same as the format in start genome file.

genotypeToString() - Method in class ec.vector.BitVectorIndividual

genotypeToString() - Method in class ec.vector.ByteVectorIndividual

genotypeToString() - Method in class ec.vector.DoubleVectorIndividual

genotypeToString() - Method in class ec.vector.FloatVectorIndividual

genotypeToString() - Method in class ec.vector.GeneVectorIndividual

genotypeToString() - Method in class ec.vector.IntegerVectorIndividual

genotypeToString() - Method in class ec.vector.LongVectorIndividual

genotypeToString() - Method in class ec.vector.ShortVectorIndividual

genotypeToStringForHumans() - Method in class ec.Individual

Print to a string the genotype of the Individual in a fashion readable by humans, and not intended to be parsed in again.

genotypeToStringForHumans() - Method in class ec.vector.BitVectorIndividual

genotypeToStringForHumans() - Method in class ec.vector.ByteVectorIndividual

genotypeToStringForHumans() - Method in class ec.vector.DoubleVectorIndividual

genotypeToStringForHumans() - Method in class ec.vector.FloatVectorIndividual

genotypeToStringForHumans() - Method in class ec.vector.GeneVectorIndividual

genotypeToStringForHumans() - Method in class ec.vector.IntegerVectorIndividual

genotypeToStringForHumans() - Method in class ec.vector.LongVectorIndividual

genotypeToStringForHumans() - Method in class ec.vector.ShortVectorIndividual

GEProblem - Class in ec.gp.ge

GEProblem is a special replacement for Problem which performs GE mapping.

GEProblem() - Constructor for class ec.gp.ge.GEProblem

GESpecies - Class in ec.gp.ge

GESpecies generates GPIndividuals from GEIndividuals through the application of a grammar parse graph computed by the GrammarParser.

GESpecies() - Constructor for class ec.gp.ge.GESpecies

get() - Method in class ec.gp.ADFStack

Returns an ADFContext from the stack's reserve, or creates one fresh if there are none in reserve.

get(int) - Method in class ec.util.IntBag

getActivation() - Method in class ec.neat.NEATNode

Return the activation status of this node.

getAllComponents() - Method in class ec.eval.MasterProblem

getAllowedComponents(ConstructiveIndividual) - Method in class ec.eval.MasterProblem

getArbitraryComponent(EvolutionState, int) - Method in class ec.eval.MasterProblem

getArgument(int) - Method in class ec.gp.ge.GrammarFunctionNode

Returna given argument.

getAuxilliaryFitnessNames() - Method in class ec.multiobjective.MultiObjectiveFitness

Returns auxilliary fitness value names to be printed by the statistics object.

getAuxilliaryFitnessNames() - Method in class ec.multiobjective.nsga2.NSGA2MultiObjectiveFitness

getAuxilliaryFitnessNames() - Method in class ec.multiobjective.spea2.SPEA2MultiObjectiveFitness

getAuxilliaryFitnessValues() - Method in class ec.multiobjective.MultiObjectiveFitness

Returns auxilliary fitness values to be printed by the statistics object.

getAuxilliaryFitnessValues() - Method in class ec.multiobjective.nsga2.NSGA2MultiObjectiveFitness

getAuxilliaryFitnessValues() - Method in class ec.multiobjective.spea2.SPEA2MultiObjectiveFitness

getBestSoFar() - Method in class ec.simple.SimpleShortStatistics

getBestSoFar() - Method in class ec.simple.SimpleStatistics

getBoolean(Parameter, Parameter, boolean) - Method in class ec.util.ParameterDatabase

Searches down through databases to find a given parameter; If the parameter does not exist, defaultValue is returned.

getChild(int) - Method in class ec.util.ReflectedObject

getChild(Object, int) - Method in class ec.util.ParameterDatabaseTreeModel

getChild(Object, int) - Method in class ec.util.ReflectedObject

getChildCount(Object) - Method in class ec.util.ParameterDatabaseTreeModel

getChildCount(Object) - Method in class ec.util.ReflectedObject

getChildren() - Method in class ec.util.ReflectedObject

getChoice(int) - Method in class ec.gp.ge.GrammarRuleNode

Returns a given choice.

getClassForParameter(Parameter, Parameter, Class) - Method in class ec.util.ParameterDatabase

Searches down through databases to find a given parameter.

getComponentFromString(String) - Method in class ec.eval.MasterProblem

getContext() - Method in class ec.Fitness

Treat the Individual[] you receive from this as read-only.

getDouble(Parameter, Parameter) - Method in class ec.util.ParameterDatabase

getDouble(Parameter, Parameter, double) - Method in class ec.util.ParameterDatabase

Searches down through databases to find a given parameter, whose value must be a double >= minValue.

getDouble(Parameter, Parameter, double, double) - Method in class ec.util.ParameterDatabase

Searches down through databases to find a given parameter, whose value must be a double >= minValue and invalid input: '<'= maxValue.

getDoubles(Parameter, Parameter, double) - Method in class ec.util.ParameterDatabase

Searches down through databases to find a given parameter, whose value must be a space- or tab-delimited list of doubles, each of which is >= minValue, and which must be at least 1 number long.

getDoubles(Parameter, Parameter, double, int) - Method in class ec.util.ParameterDatabase

Searches down through databases to find a given parameter, whose value must be a space- or tab-delimited list of doubles, each of which is >= minValue, and which must be exactly expectedLength (> 0) long.

getDoublesUnconstrained(Parameter, Parameter) - Method in class ec.util.ParameterDatabase

Searches down through databases to find a given parameter, whose value must be a space- or tab-delimited list of doubles, and which must be at least 1 number long.

getDoublesUnconstrained(Parameter, Parameter, int) - Method in class ec.util.ParameterDatabase

Searches down through databases to find a given parameter, whose value must be a space- or tab-delimited list of doubles, and which must be exactly expectedLength (> 0) long.

getDoublesWithMax(Parameter, Parameter, double, double) - Method in class ec.util.ParameterDatabase

Searches down through databases to find a given parameter, whose value must be a space- or tab-delimited list of doubles, each of which is >= minValue and invalid input: '<'= maxValue, and which must be at least 1 number long.

getDoublesWithMax(Parameter, Parameter, double, double, int) - Method in class ec.util.ParameterDatabase

Searches down through databases to find a given parameter, whose value must be a space- or tab-delimited list of doubles, each of which is >= minValue and invalid input: '<'= maxValue, and which must be exactly expectedLength (> 0) long.

getDoubleWithDefault(Parameter, Parameter, double) - Method in class ec.util.ParameterDatabase

Searches down through databases to find a given parameter, which must be a float.

getDoubleWithMax(Parameter, Parameter, double, double) - Method in class ec.util.ParameterDatabase

Searches down through databases to find a given parameter, whose value must be a double >= minValue and invalid input: '<'= maxValue.

getField(int) - Method in class ec.util.ReflectedObject

getFields() - Method in class ec.util.ReflectedObject

getFile(Parameter, Parameter) - Method in class ec.util.ParameterDatabase

Searches down through the databases to find a given parameter, whose value must be an absolute or relative path name.

getFloat(Parameter, Parameter) - Method in class ec.util.ParameterDatabase

getFloat(Parameter, Parameter, double) - Method in class ec.util.ParameterDatabase

Searches down through databases to find a given parameter, whose value must be a float >= minValue.

getFloat(Parameter, Parameter, double, double) - Method in class ec.util.ParameterDatabase

Searches down through databases to find a given parameter, whose value must be a float >= minValue and invalid input: '<'= maxValue.

getFloatWithDefault(Parameter, Parameter, double) - Method in class ec.util.ParameterDatabase

Searches down through databases to find a given parameter, which must be a float.

getFloatWithMax(Parameter, Parameter, double, double) - Method in class ec.util.ParameterDatabase

Searches down through databases to find a given parameter, whose value must be a float >= minValue and invalid input: '<'= maxValue.

getFlush() - Method in class ec.util.Output

getGeneInnovationNumberSup() - Method in class ec.neat.NEATIndividual

Get the upperbound for the innovation number, used in Initializer.

getGenome() - Method in class ec.vector.BitVectorIndividual

getGenome() - Method in class ec.vector.ByteVectorIndividual

getGenome() - Method in class ec.vector.DoubleVectorIndividual

getGenome() - Method in class ec.vector.FloatVectorIndividual

getGenome() - Method in class ec.vector.GeneVectorIndividual

getGenome() - Method in class ec.vector.IntegerVectorIndividual

getGenome() - Method in class ec.vector.LongVectorIndividual

getGenome() - Method in class ec.vector.ShortVectorIndividual

getGenome() - Method in class ec.vector.VectorIndividual

Returns the gene array.

getGPNodePrototype() - Method in class ec.gp.ge.GrammarFunctionNode

Returns the prototype without cloning it first.

getHead() - Method in class ec.gp.ge.GrammarNode

getIndex(int) - Method in interface ec.spatial.Space

Functionality: retrieve the index for a specific threanum.

getIndex(int) - Method in class ec.spatial.Spatial1DSubpopulation

getIndexOfChild(Object, Object) - Method in class ec.util.ReflectedObject

getIndexRandomNeighbor(EvolutionState, int, int) - Method in interface ec.spatial.Space

Input: the maximum distance for neighbors.

getIndexRandomNeighbor(EvolutionState, int, int) - Method in class ec.spatial.Spatial1DSubpopulation

Returns a the index of a random neighbor.

getInnovation(NEATInnovation) - Method in class ec.neat.NEATSpecies

getInstanceForParameter(Parameter, Parameter, Class) - Method in class ec.util.ParameterDatabase

Searches down through databases to find a given parameter, whose value must be a full Class name, and the class must be a descendent of but not equal to mustCastTosuperclass .

getInstanceForParameterEq(Parameter, Parameter, Class) - Method in class ec.util.ParameterDatabase

Searches down through databases to find a given parameter, whose value must be a full Class name, and the class must be a descendent, or equal to, mustCastTosuperclass .

getInt(Parameter, Parameter) - Method in class ec.util.ParameterDatabase

Searches down through databases to find a given parameter, whose value must be an integer.

getInt(Parameter, Parameter, int) - Method in class ec.util.ParameterDatabase

Searches down through databases to find a given parameter, whose value must be an integer >= minValue.

getInterpreter(EvolutionState, GPIndividual, int) - Method in class ec.gp.push.PushProblem

Builds a Push Interpreter suitable for interpreting the Program given in getProgram().

getInts(Parameter, Parameter, int) - Method in class ec.util.ParameterDatabase

Searches down through databases to find a given parameter, whose value must be a space- or tab-delimited list of ints, each of which is >= minValue, and which must be at least 1 number long.

getInts(Parameter, Parameter, int, int) - Method in class ec.util.ParameterDatabase

Searches down through databases to find a given parameter, whose value must be a space- or tab-delimited list of ints, each of which is >= minValue, and which must be exactly expectedLength (> 0) long.

getIntsUnconstrained(Parameter, Parameter) - Method in class ec.util.ParameterDatabase

Searches down through databases to find a given parameter, whose value must be a space- or tab-delimited list of ints, and which must be at least 1 number long.

getIntsUnconstrained(Parameter, Parameter, int) - Method in class ec.util.ParameterDatabase

Searches down through databases to find a given parameter, whose value must be a space- or tab-delimited list of ints, and which must be exactly expectedLength (> 0) long.

getIntsWithMax(Parameter, Parameter, int, int) - Method in class ec.util.ParameterDatabase

Searches down through databases to find a given parameter, whose value must be a space- or tab-delimited list of ints, each of which is >= minValue and invalid input: '<'= maxValue, and which must be at least 1 number long.

getIntsWithMax(Parameter, Parameter, int, int, int) - Method in class ec.util.ParameterDatabase

Searches down through databases to find a given parameter, whose value must be a space- or tab-delimited list of ints, each of which is >= minValue and invalid input: '<'= maxValue, and which must be exactly expectedLength (> 0) long.

getIntWithDefault(Parameter, Parameter, int) - Method in class ec.util.ParameterDatabase

Searches down through databases to find a given parameter, which must be an integer.

getIntWithMax(Parameter, Parameter, int, int) - Method in class ec.util.ParameterDatabase

Searches down through databases to find a given parameter, whose value must be an integer >= minValue and invalid input: '<'= maxValue.

getJobFilePrefix() - Method in class ec.display.ControlPanel

getKey() - Method in class ec.eda.dovs.CornerMap.Pair

getKeyFromNode(EvolutionState, int, GPNode, int) - Method in class ec.gp.ge.GESpecies

getLabel() - Method in class ec.util.ParameterDatabase

Returns a String describing the location of the ParameterDatabase holding this parameter, or "" if there is none.

getLocalHost() - Static method in class ec.util.LocalHost

Returns an InetAddress object encapsulating what is most likely the machine's LAN IP address.

getLocation(Parameter) - Method in class ec.util.ParameterDatabase

getLocation(String) - Method in class ec.util.ParameterDatabase

getLog(int) - Method in class ec.util.Output

Returns the given log.

getLong(Parameter, Parameter) - Method in class ec.util.ParameterDatabase

Searches down through databases to find a given parameter, whose value must be a long.

getLong(Parameter, Parameter, long) - Method in class ec.util.ParameterDatabase

Searches down through databases to find a given parameter, whose value must be a long >= minValue.

getLong(Parameter, Parameter, long, long) - Method in class ec.util.ParameterDatabase

Use getLongWithMax(...) instead.

getLongWithDefault(Parameter, Parameter, long) - Method in class ec.util.ParameterDatabase

Searches down through databases to find a given parameter, which must be a long.

getLongWithMax(Parameter, Parameter, long, long) - Method in class ec.util.ParameterDatabase

Searches down through databases to find a given parameter, whose value must be a long >= minValue and = invalid input: '<' maxValue.

getMarginalDistribution(int) - Method in class ec.eda.pbil.PBILSpecies

getMatchingIndex() - Method in class ec.util.Lexer

Returns the index of the regular expression which matched the most recent token.

getMatchingPosition() - Method in class ec.util.Lexer

Returns the position in the String just beyond the most recent token.

getMatchingRule() - Method in class ec.util.Lexer

Returns the regular expression which matched the most recent token.

getNextEvaluatedIndividual() - Method in class ec.eval.MasterProblem

This method blocks until an individual is available from the slaves (which will cause evaluatedIndividualAvailable() to return true), at which time it returns the individual.

getNextEvaluatedIndividual(EvolutionState) - Method in class ec.steadystate.SteadyStateEvaluator

Returns an evaluated individual is in the queue and ready to come back to us.

getNodeIdSup() - Method in class ec.neat.NEATIndividual

Get the upperbound for the node id, used in Initializer.

getNumArguments() - Method in class ec.gp.ge.GrammarFunctionNode

Returns the number of arguments.

getNumChildren() - Method in class ec.util.ReflectedObject

getNumChoices() - Method in class ec.gp.ge.GrammarRuleNode

Returns the current number of choices to the node.

getNumFields() - Method in class ec.util.ReflectedObject

getNumJobs() - Method in class ec.display.ControlPanel

getNumObjectives() - Method in class ec.multiobjective.MultiObjectiveFitness

getObjective(int) - Method in class ec.multiobjective.MultiObjectiveFitness

getObjectives() - Method in class ec.multiobjective.MultiObjectiveFitness

Returns the objectives as an array.

getOutputResults() - Method in class ec.neat.NEATNetwork

Produces an array of activation results, one per output node.

getOutstandingWorkers() - Method in class ec.util.ThreadPool

Returns the total number of outstanding workers (those working on something right now).

getParameter() - Method in class ec.util.ParameterDatabaseEvent

getPooledWorkers() - Method in class ec.util.ThreadPool

Returns the total number of pooled workers (those not working on something right now).

getProbability(Object) - Method in class ec.BreedingSource

getProbability(Object) - Method in interface ec.util.RandomChoiceChooser

Returns obj's probability

getProbability(Object) - Method in interface ec.util.RandomChoiceChooserD

Returns obj's probability

getProgram(EvolutionState, GPIndividual) - Method in class ec.gp.push.PushProblem

Produces a Push Program from the provided GP Individual's tree.

getRandomIndividual(int, int, EvolutionState, int) - Method in class ec.select.TournamentSelection

Produces the index of a (typically uniformly distributed) randomly chosen individual to fill the tournament.

getRandomIndividual(int, int, EvolutionState, int) - Method in class ec.spatial.SpatialTournamentSelection

getRankings(ArrayList<Individual>) - Static method in class ec.multiobjective.MultiObjectiveFitness

Returns the Pareto rank for each individual.

getReferencePoint() - Method in class ec.multiobjective.HypervolumeStatistics

getRegexes() - Method in class ec.gp.ge.GrammarParser

Returns the regular expressions to use for tokenizing these rules.

getResource(Parameter, Parameter) - Method in class ec.util.ParameterDatabase

Searches down through the databases to find a given parameter, whose value must be an absolute or relative path name.

getRoot() - Method in class ec.util.ReflectedObject

gets_n_percent - Variable in class ec.select.GreedyOverselection

getSeed(int, int) - Method in class ec.display.ControlPanel

getShadowedValues(Parameter) - Method in class ec.util.ParameterDatabase

getSortedParetoFront(ArrayList<Individual>) - Static method in class ec.multiobjective.MultiObjectiveFitness

Returns the Pareto Front of the provided Individuals, sorted by objective 0, breaking ties with objective 1, and so on...

getStore() - Method in class ec.util.Output

getString(Parameter, Parameter) - Method in class ec.util.ParameterDatabase

Searches down through databases to find a given parameter.

getStringWithDefault(Parameter, Parameter, String) - Method in class ec.util.ParameterDatabase

Searches down through databases to find a given parameter.

getSubpopulationOfEvaluatedIndividual() - Method in class ec.steadystate.SteadyStateEvaluator

Returns the subpopulation of the last evaluated individual returned by getNextEvaluatedIndividual, or potentially -1 if getNextEvaluatedIndividual was never called or hasn't returned an individual yet.

getThreadCount(String) - Method in class ec.display.ControlPanel

getThrowsErrors() - Method in class ec.util.Output

getTimeDelayActivation() - Method in class ec.neat.NEATNode

Return the last step activation if this node is active at last step.

getTotalWorkers() - Method in class ec.util.ThreadPool

Returns the total number of workers, both pooled and outstanding (working on something).

getTournamentSizeToUse(MersenneTwisterFast) - Method in class ec.select.TournamentSelection

Returns a tournament size to use, at random, based on base size and probability of picking the size plus one.

getType() - Method in class ec.util.ParameterDatabaseEvent

getValue() - Method in class ec.display.ParameterValue

getValue() - Method in class ec.eda.dovs.CornerMap.Pair

getValue() - Method in class ec.util.ParameterDatabaseEvent

getValue(int) - Method in interface ec.util.Indexed

Throws an IndexOutOfBoundsException if index is inappropriate.

getValue(int) - Method in class ec.util.IntBag

getVerbosity() - Method in class ec.util.Output

Returns the Output object's general verbosity

getVisibleLeaves() - Method in class ec.util.ParameterDatabaseTreeModel

globalBest - Variable in class ec.pso.PSOBreeder

globalBestFitness - Variable in class ec.pso.PSOBreeder

globalCoeff - Variable in class ec.pso.PSOBreeder

GP_PREAMBLE - Static variable in class ec.gp.ge.GEIndividual

GPAtomicType - Class in ec.gp

A GPAtomicType is a simple, atomic GPType.

GPAtomicType() - Constructor for class ec.gp.GPAtomicType

Don't use this constructor unless you call setup(...) immediately after it.

GPAtomicType(String) - Constructor for class ec.gp.GPAtomicType

Use this constructor for GPAtomic Type unless you know what you're doing

GPBreedDefaults - Class in ec.gp.breed

A static class that returns the base for "default values" which various GP breeding operators use, rather than making the user specify them all on a per- species basis.

GPBreedDefaults() - Constructor for class ec.gp.breed.GPBreedDefaults

GPBreedingPipeline - Class in ec.gp

A GPBreedingPipeline is a BreedingPipeline which produces only members of some subclass of GPSpecies.

GPBreedingPipeline() - Constructor for class ec.gp.GPBreedingPipeline

GPBuildDefaults - Class in ec.gp.build

GPBuildDefaults() - Constructor for class ec.gp.build.GPBuildDefaults

GPData - Class in ec.gp

GPData is the parent class of data transferred between GPNodes.

GPData() - Constructor for class ec.gp.GPData

GPDefaults - Class in ec.gp

A static class that returns the base for "default values" which GP-style operators use, rather than making the user specify them all on a per- species basis.

GPDefaults() - Constructor for class ec.gp.GPDefaults

GPFunctionSet - Class in ec.gp

GPFunctionSet is a Clique which represents a set of GPNode prototypes forming a standard function set for forming certain trees in individuals.

GPFunctionSet() - Constructor for class ec.gp.GPFunctionSet

GPIndividual - Class in ec.gp

GPIndividual is an Individual used for GP evolution runs.

GPIndividual() - Constructor for class ec.gp.GPIndividual

GPInitializer - Class in ec.gp

GPInitializer is a SimpleInitializer which sets up all the Cliques, ( the initial [tree/node]constraints, types, and function sets) for the GP system.

GPInitializer() - Constructor for class ec.gp.GPInitializer

GPKozaDefaults - Class in ec.gp.koza

A static class that returns the base for "default values" which Koza-style operators use, rather than making the user specify them all on a per- species basis.

GPKozaDefaults() - Constructor for class ec.gp.koza.GPKozaDefaults

GPNode - Class in ec.gp

GPNode is a GPNodeParent which is the abstract superclass of all GP function nodes in trees.

GPNode() - Constructor for class ec.gp.GPNode

GPNodeBuilder - Class in ec.gp

GPNodeBuilder is a Prototype which defines the superclass for objects which create ("grow") GP trees, whether for population initialization, subtree mutation, or whatnot.

GPNodeBuilder() - Constructor for class ec.gp.GPNodeBuilder

GPNodeConstraints - Class in ec.gp

A GPNodeConstraints is a Clique which defines constraint information common to many different GPNode functions, namely return types, child types, and number of children.

GPNodeConstraints() - Constructor for class ec.gp.GPNodeConstraints

GPNodeGatherer - Class in ec.gp

GPNodeGatherer is a small container object for the GPNode.nodeInPosition(...) method and GPNode.numNodes(...) method.

GPNodeGatherer() - Constructor for class ec.gp.GPNodeGatherer

GPNodeParent - Interface in ec.gp

GPNodeParent is a Prototype which identifies objects which may be parents of GPNodes, namely: GPTrees and GPNodes.

GPNODEPRINTTAB - Static variable in class ec.gp.GPNode

GPNodeSelector - Interface in ec.gp

GPNodeSelector is a Prototype which describes algorithms which select random nodes out of trees, typically marking them for mutation, crossover, or whatnot.

GPProblem - Class in ec.gp

A GPProblem is a Problem which is meant to efficiently handle GP evaluation.

GPProblem() - Constructor for class ec.gp.GPProblem

GPSetType - Class in ec.gp

A GPSetType is a GPType which contains GPAtomicTypes in a set, and is used as a generic GP type.

GPSetType() - Constructor for class ec.gp.GPSetType

You should not construct new types.

gpspecies - Variable in class ec.gp.ge.GESpecies

The GPSpecies subsidiary to GESpecies.

GPSpecies - Class in ec.gp

GPSpecies is a simple individual which is suitable as a species for GP subpopulations.

GPSpecies() - Constructor for class ec.gp.GPSpecies

GPTree - Class in ec.gp

GPTree is a GPNodeParent which holds the root GPNode of a tree of GPNodes.

GPTree() - Constructor for class ec.gp.GPTree

GPTreeConstraints - Class in ec.gp

A GPTreeConstraints is a Clique which defines constraint information common to many different GPTree trees, namely the tree type, builder, and function set.

GPTreeConstraints() - Constructor for class ec.gp.GPTreeConstraints

GPType - Class in ec.gp

GPType is a Clique which represents types in Strongly-Typed Genetic Programming (STGP).

GPType() - Constructor for class ec.gp.GPType

grammar - Variable in class ec.gp.ge.GESpecies

The parsed grammars.

GrammarFunctionNode - Class in ec.gp.ge

A GrammarNode representing a GPNode in the GE Grammar.

GrammarFunctionNode(GPFunctionSet, String) - Constructor for class ec.gp.ge.GrammarFunctionNode

Determines the GPNode from the function set by the name.

GrammarFunctionNode(String) - Constructor for class ec.gp.ge.GrammarFunctionNode

GrammarNode - Class in ec.gp.ge

The abstract superclass of nodes used by GrammarParser to construct a parse graph to generate GEIndividuals.

GrammarNode(String) - Constructor for class ec.gp.ge.GrammarNode

grammarParser - Variable in class ec.gp.ge.GESpecies

Parser for each grammar -- khaled

GrammarParser - Class in ec.gp.ge

A GrammarParser is the basic class for parsing a GE ruleset into a parse graph of GrammarNodes.

GrammarParser() - Constructor for class ec.gp.ge.GrammarParser

GrammarRuleNode - Class in ec.gp.ge

A GrammarNode representing a Rule in the GE Grammar.

GrammarRuleNode(String) - Constructor for class ec.gp.ge.GrammarRuleNode

GreedyOverselection - Class in ec.select

GreedyOverselection is a SelectionMethod which implements Koza-style fitness-proportionate greedy overselection.

GreedyOverselection() - Constructor for class ec.select.GreedyOverselection

GroupedProblemForm - Interface in ec.coevolve

GroupedProblemForm.java

groupSize - Variable in class ec.coevolve.CompetitiveEvaluator

GrowBuilder - Class in ec.gp.koza

GrowBuilder is a GPNodeBuilder which implements the GROW tree building method described in Koza I/II.

GrowBuilder() - Constructor for class ec.gp.koza.GrowBuilder

growNode(EvolutionState, int, int, GPType, int, GPNodeParent, int, GPFunctionSet) - Method in class ec.gp.koza.KozaBuilder

A private function which recursively returns a GROW tree to newRootedTree(...)

gt(long, long) - Method in interface ec.util.SortComparatorL

Returns true if a > b, else false

gt(Object, Object) - Method in interface ec.util.SortComparator

Returns true if a > b, else false

H

HalfBuilder - Class in ec.gp.koza

HalfBuilder is a GPNodeBuilder which implements the RAMPED HALF-AND-HALF tree building method described in Koza I/II.

HalfBuilder() - Constructor for class ec.gp.koza.HalfBuilder

hasGene(ArrayList<Gene>, Gene) - Method in class ec.neat.NEATIndividual

Test if a genome has certain gene.

hashCode() - Method in class ec.gp.ge.GrammarNode

As usual

hashCode() - Method in class ec.gp.GPIndividual

hashCode() - Method in class ec.Individual

Returns a hashcode for the individual, such that individuals which are equals(...) each other always return the same hash code.

hashCode() - Method in class ec.neat.NEATGene

"Placeholder" method for generating a hashcode.

hashCode() - Method in class ec.neat.NEATIndividual

hashCode() - Method in class ec.neat.NEATInnovation

hashCode() - Method in class ec.neat.NEATNode

hashCode() - Method in class ec.pso.Particle

hashCode() - Method in class ec.rule.Rule

Rulerates a hash code for this rule -- the rule for this is that the hash code must be the same for two rules that are equal to each other genetically.

hashCode() - Method in class ec.rule.RuleIndividual

hashCode() - Method in class ec.rule.RuleSet

The hash code for the rule set.

hashCode() - Method in class ec.util.IIntPoint

hashCode() - Method in class ec.vector.BitVectorIndividual

hashCode() - Method in class ec.vector.ByteVectorIndividual

hashCode() - Method in class ec.vector.DoubleVectorIndividual

hashCode() - Method in class ec.vector.FloatVectorIndividual

hashCode() - Method in class ec.vector.Gene

Generates a hash code for this gene -- the rule for this is that the hash code must be the same for two genes that are equal to each other genetically.

hashCode() - Method in class ec.vector.GeneVectorIndividual

hashCode() - Method in class ec.vector.IntegerVectorIndividual

hashCode() - Method in class ec.vector.LongVectorIndividual

hashCode() - Method in class ec.vector.ShortVectorIndividual

hasInnovation(NEATInnovation) - Method in class ec.neat.NEATSpecies

hasLarger(CornerMap.Pair) - Method in class ec.eda.dovs.CornerMap

Test if we have another key value pair after parameter pair

hasNewGeneration() - Method in class ec.neat.NEATSubspecies

Test if newGenIndividuals list is empty.

hasPath(EvolutionState, NEATNode, NEATNode, int) - Static method in class ec.neat.NEATNetwork

This checks a POTENTIAL link between start from fromNode to toNode to use count and threshold to jump out in the case of an infinite loop.

hasPath(EvolutionState, NEATNode, NEATNode, HashSet<NEATNode>, int, int, boolean[]) - Static method in class ec.neat.NEATNetwork

The helper function to check if there is a path from fromNode to toNode.

hasSmaller(CornerMap.Pair) - Method in class ec.eda.dovs.CornerMap

Test if we have another key value pair before parameter pair

HIDDEN - Enum constant in enum class ec.neat.NEATNode.NodePlace

highestFitness - Variable in class ec.neat.NEATSpecies

Used for delta coding, stagnation detector.

highestLastChanged - Variable in class ec.neat.NEATSpecies

Used for delta coding, If too high, leads to delta coding.

highFit - Variable in class ec.neat.NEATIndividual

debug variable, highest fitness of champion

hits - Variable in class ec.gp.koza.KozaFitness

This auxillary measure is used in some problems for additional information.

homologous - Variable in class ec.gp.breed.SizeFairCrossoverPipeline

HyperboxSpecies - Class in ec.eda.dovs

HyperboxSpecies is a DOVSSpecies which contains method for updating promising sample area and also sample from that area.

HyperboxSpecies() - Constructor for class ec.eda.dovs.HyperboxSpecies

hypervolume(ArrayList<Individual>) - Method in class ec.multiobjective.HypervolumeStatistics

Compute the hypervolume of the Pareto front induced by a collection of points, relative to the reference point that was provided to this class's setup() method.

hypervolume(ArrayList<Individual>, double[]) - Static method in class ec.multiobjective.HypervolumeStatistics

Compute the hypervolume of the Pareto front induced by a collection of points, relative to the provided reference point.

HypervolumeStatistics - Class in ec.multiobjective

Measures the hypervolume of a population's Pareto front.

HypervolumeStatistics() - Constructor for class ec.multiobjective.HypervolumeStatistics

I

i_prototype - Variable in class ec.Species

The prototypical individual for this species.

iAmServer - Variable in class ec.exchange.IslandExchange

whether the server should be running on the current island or not

IIntPoint - Class in ec.util

An immutable 2-dimensional point.

IIntPoint(int, int) - Constructor for class ec.util.IIntPoint

immigrantsSelectionMethod - Variable in class ec.exchange.IslandExchange

the selection method for immigrants

includeSelf - Variable in class ec.pso.PSOBreeder

inclusiveHypervolume(Individual) - Method in class ec.multiobjective.HypervolumeStatistics

Compute the hypervolume covered by a single individual, relative to the reference point that was provided to this class's setup() method.

inclusiveHypervolume(Individual, double[]) - Static method in class ec.multiobjective.HypervolumeStatistics

Compute the hypervolume covered by a single individual, relative to the provided reference point.

incomingGenes - Variable in class ec.neat.NEATNode

A list of incoming links, it is used to get activation status of the nodes on the other ends.

incrementEvaluations(int) - Method in class ec.EvolutionState

ind - Variable in class ec.steadystate.QueueIndividual

Indexed - Interface in ec.util

A simple interface (simpler than List) for accessing random-access objects without changing their size.

indices - Variable in class ec.gp.push.Terminal

For each PushInstruction, a pointer into instructions which gives the name of that instruction.

indices - Variable in class ec.select.SUSSelection

An array of pointers to individuals in the population, shuffled along with the fitnesses array.

individual - Variable in class ec.breed.RepeatPipeline

individual - Variable in class ec.neat.NEATNetwork

The neat individual we belong to

Individual - Class in ec

An Individual is an item in the EC population stew which is evaluated and assigned a fitness which determines its likelihood of selection.

Individual() - Constructor for class ec.Individual

INDIVIDUAL_INDEX_PREAMBLE - Static variable in class ec.Subpopulation

IndividualPortrayal - Class in ec.display.portrayal

individualReplaced(SteadyStateEvolutionState, int, int, int) - Method in class ec.BreedingPipeline

individualReplaced(SteadyStateEvolutionState, int, int, int) - Method in class ec.parsimony.BucketTournamentSelection

individualReplaced(SteadyStateEvolutionState, int, int, int) - Method in class ec.parsimony.DoubleTournamentSelection

individualReplaced(SteadyStateEvolutionState, int, int, int) - Method in class ec.parsimony.RatioBucketTournamentSelection

individualReplaced(SteadyStateEvolutionState, int, int, int) - Method in class ec.select.FirstSelection

individualReplaced(SteadyStateEvolutionState, int, int, int) - Method in class ec.select.RandomSelection

individualReplaced(SteadyStateEvolutionState, int, int, int) - Method in class ec.select.TournamentSelection

individualReplaced(SteadyStateEvolutionState, int, int, int) - Method in class ec.steadystate.SteadyStateBreeder

Called whenever individuals have been replaced by new individuals in the population.

individualReplaced(SteadyStateEvolutionState, int, int, int) - Method in interface ec.steadystate.SteadyStateBSourceForm

Called whenever an individual has been replaced by another in the population.

individuals - Variable in class ec.neat.NEATSubspecies

The individuals within this species

individuals - Variable in class ec.Subpopulation

The subpopulation's individuals.

individualsBredStatistics(SteadyStateEvolutionState, Individual[]) - Method in class ec.Statistics

STEADY-STATE: called each time new individuals are bred during the steady-state process.

individualsBredStatistics(SteadyStateEvolutionState, Individual[]) - Method in interface ec.steadystate.SteadyStateStatisticsForm

Called each time new individuals are bred during the steady-state process.

individualsEvaluatedStatistics(SteadyStateEvolutionState, Individual[], Individual[], int[], int[]) - Method in class ec.Statistics

STEADY-STATE: called each time new individuals are evaluated during the steady-state process.

individualsEvaluatedStatistics(SteadyStateEvolutionState, Individual[], Individual[], int[], int[]) - Method in interface ec.steadystate.SteadyStateStatisticsForm

Called each time new individuals are evaluated during the steady-state process, NOT including the initial generation's individuals.

INDS_PRODUCED - Static variable in class ec.breed.BufferedBreedingPipeline

INDS_PRODUCED - Static variable in class ec.gp.breed.SizeFairCrossoverPipeline

INDS_PRODUCED - Static variable in class ec.gp.koza.CrossoverPipeline

INDS_PRODUCED - Static variable in class ec.gp.koza.MutationPipeline

INDS_PRODUCED - Static variable in class ec.rule.breed.RuleCrossoverPipeline

INDS_PRODUCED - Static variable in class ec.rule.breed.RuleMutationPipeline

INDS_PRODUCED - Static variable in class ec.SelectionMethod

indsToDieSelectionMethod - Variable in class ec.exchange.IslandExchange

the selection method for individuals to be replaced by immigrants

informantCoeff - Variable in class ec.pso.PSOBreeder

init - Variable in class ec.gp.GPTreeConstraints

The builder for the tree

INITIAL_STACK_SIZE - Static variable in class ec.gp.ADFStack

initialError(String, boolean) - Static method in class ec.util.Output

Prints an initial error to System.err.

initialError(String, Parameter, boolean) - Static method in class ec.util.Output

Prints an initial error to System.err.

initialError(String, Parameter, Parameter, boolean) - Static method in class ec.util.Output

Prints an initial error to System.err.

InitializationPipeline - Class in ec.breed

InitializationPipeline is a BreedingPipeline which simply generates a new random inidividual.

InitializationPipeline() - Constructor for class ec.breed.InitializationPipeline

initialize(ParameterDatabase, int) - Static method in class ec.Evolve

Initializes an evolutionary run given the parameters and a random seed adjustment (added to each random seed).

initialize(ParameterDatabase, int, Output) - Static method in class ec.Evolve

Initializes an evolutionary run given the parameters and a random seed adjustment (added to each random seed), with the Output pre-constructed.

initializeContacts(EvolutionState) - Method in class ec.eval.MasterProblem

Initialize contacts with the slaves

initializeContacts(EvolutionState) - Method in class ec.Evaluator

Called to set up remote evaluation network contacts when the run is started.

initializeContacts(EvolutionState) - Method in class ec.exchange.InterPopulationExchange

Initializes contacts with other processes, if that's what you're doing.

initializeContacts(EvolutionState) - Method in class ec.exchange.IslandExchange

Initializes contacts with other processes, if that's what you're doing.

initializeContacts(EvolutionState) - Method in class ec.Exchanger

Initializes contacts with other processes, if that's what you're doing.

initializeContacts(EvolutionState) - Method in class ec.gp.ge.GEProblem

initializeContacts(EvolutionState) - Method in class ec.Problem

Called to set up remote evaluation network contacts when the run is started.

initializeContacts(EvolutionState) - Method in class ec.simple.SimpleExchanger

Doesn't do anything.

initializeGenomeSegmentsByEndIndices(EvolutionState, Parameter, Parameter, int) - Method in class ec.vector.VectorSpecies

Looks up genome segments using end indices.

initializeGenomeSegmentsByStartIndices(EvolutionState, Parameter, Parameter, int) - Method in class ec.vector.VectorSpecies

Looks up genome segments using start indices.

initializer - Variable in class ec.EvolutionState

The population initializer, a singleton object.

Initializer - Class in ec

The Initializer is a singleton object whose job is to initialize the population at the beginning of the run.

Initializer() - Constructor for class ec.Initializer

initialMessage(String) - Static method in class ec.util.Output

Prints an initial message to System.err.

initialPopulation(EvolutionState, int) - Method in class ec.eda.dovs.DOVSInitializer

In DOVS, we provide the algorithm with a start individual from file, this start individual is the start search point of the DOVS algorithm.

initialPopulation(EvolutionState, int) - Method in class ec.Initializer

Creates and returns a new initial population for the evolutionary run.

initialPopulation(EvolutionState, int) - Method in class ec.neat.NEATInitializer

In NEAT, we provide the algorithm with a start individual from file, after read the start individual from file, we populate the subpopulation with mutated version of that template individual.

initialPopulation(EvolutionState, int) - Method in class ec.simple.SimpleInitializer

Creates, populates, and returns a new population by making a new population, calling setup(...) on it, and calling populate(...) on it, assuming an unthreaded environment (thread 0).

initialReps - Variable in class ec.eda.dovs.DOVSSpecies

Base value of number evaluation for each individual.

initialSize - Variable in class ec.Subpopulation

initial expected size of the subpopulation

initialWarning(String) - Static method in class ec.util.Output

Prints an initial warning to System.err.

initialWarning(String, Parameter) - Static method in class ec.util.Output

Prints an initial warning to System.err.

initialWarning(String, Parameter, Parameter) - Static method in class ec.util.Output

Prints an initial warning to System.err.

initScheme - Variable in class ec.gp.ge.GESpecies

innerLevel - Variable in class ec.neat.NEATNode

The depth of current node in current network, this field is used in counting max depth in a network.

inNode - Variable in class ec.neat.NEATGene

The actual in node this gene connect to.

inNodeId - Variable in class ec.neat.NEATGene

The id of the in node, this is useful in reading a gene from file, we will use this id to find the actual node after we finish reading the genome file.

inNodeId - Variable in class ec.neat.NEATInnovation

Two nodes specify where the link innovation took place : this is the input node.

innovationNum1 - Variable in class ec.neat.NEATInnovation

The number assigned to the innovation.

innovationNum2 - Variable in class ec.neat.NEATInnovation

If this is a new node innovation,then there are 2 innovations (links) added for the new node.

innovationNumber - Variable in class ec.EvolutionState

Global birthday tracker number for genes in representations such as NEAT.

innovationNumber - Variable in class ec.neat.NEATGene

The innovation number of this link.

innovationPrototype - Variable in class ec.neat.NEATSpecies

The prototypical innovation for individuals in this species.

innovations - Variable in class ec.neat.NEATSpecies

A Hashmap for easy tracking the innovation within species.

innovationType - Variable in class ec.neat.NEATInnovation

Either NEWNODE (0) or NEWLINK (1).

inNumericalTypeRange(double) - Method in class ec.vector.FloatVectorSpecies

inNumericalTypeRange(double) - Method in class ec.vector.IntegerVectorSpecies

inNumericalTypeRange(long) - Method in class ec.vector.IntegerVectorSpecies

input - Variable in class ec.gp.GPProblem

The GPProblem's GPData

input - Variable in class ec.util.DataPipe

The input stream

INPUT - Enum constant in enum class ec.neat.NEATNode.NodePlace

inputs - Variable in class ec.neat.NEATNetwork

A list of input nodes for this network.

inReserve - Variable in class ec.gp.ADFStack

insert(int, Individual) - Method in class ec.eda.dovs.CornerMap

Insert a key and value pair into CornerMap

inssort(byte[]) - Static method in class ec.util.QuickSort

Insertion Sort

inssort(char[]) - Static method in class ec.util.QuickSort

Insertion Sort

inssort(double[]) - Static method in class ec.util.QuickSort

Insertion Sort

inssort(float[]) - Static method in class ec.util.QuickSort

Insertion Sort

inssort(int[]) - Static method in class ec.util.QuickSort

Insertion Sort

inssort(int[], SortComparatorL) - Static method in class ec.util.QuickSort

Insertion Sort

inssort(long[]) - Static method in class ec.util.QuickSort

Insertion Sort

inssort(long[], SortComparatorL) - Static method in class ec.util.QuickSort

Insertion Sort

inssort(short[]) - Static method in class ec.util.QuickSort

Insertion Sort

inssort(Object[], SortComparator) - Static method in class ec.util.QuickSort

Insertion Sort

instructions - Variable in class ec.gp.push.Terminal

Names of all the Push instructions I can be set to.

IntBag - Class in ec.util

Maintains a simple array (objs) of ints and the number of ints (numObjs) in the array (the array can be bigger than this number).

IntBag() - Constructor for class ec.util.IntBag

IntBag(int) - Constructor for class ec.util.IntBag

Creates an IntBag with a given initial capacity.

IntBag(int[]) - Constructor for class ec.util.IntBag

Creates an IntBag with the given elements.

IntBag(IntBag) - Constructor for class ec.util.IntBag

Adds the ints from the other IntBag without copying them.

INTEGER_ERC - Static variable in class ec.gp.push.Terminal

IntegerVectorIndividual - Class in ec.vector

IntegerVectorIndividual is a VectorIndividual whose genome is an array of ints.

IntegerVectorIndividual() - Constructor for class ec.vector.IntegerVectorIndividual

IntegerVectorSpecies - Class in ec.vector

IntegerVectorSpecies is a subclass of VectorSpecies with special constraints for integral vectors, namely ByteVectorIndividual, ShortVectorIndividual, IntegerVectorIndividual, and LongVectorIndividual.

IntegerVectorSpecies() - Constructor for class ec.vector.IntegerVectorSpecies

InternalCrossoverPipeline - Class in ec.gp.breed

InternalCrossoverPipeline picks two subtrees from somewhere within an individual, and crosses them over.

InternalCrossoverPipeline() - Constructor for class ec.gp.breed.InternalCrossoverPipeline

InterPopulationExchange - Class in ec.exchange

InterPopulationExchange is an Exchanger which implements a simple exchanger between subpopulations.

InterPopulationExchange() - Constructor for class ec.exchange.InterPopulationExchange

interrupt() - Method in interface ec.util.ThreadPool.Worker

interspeciesMateRate - Variable in class ec.neat.NEATSpecies

Probability of doing interspecies crossover.

intForNode(GPNode) - Method in class ec.gp.build.Uniform

invsqrtC - Variable in class ec.eda.cmaes.CMAESSpecies

C^{-1/2}.

isCompleteSolution(ConstructiveIndividual) - Method in class ec.eval.MasterProblem

isEmpty() - Method in class ec.util.IntBag

isFloatStackEmpty(Interpreter) - Method in class ec.gp.push.PushProblem

Tests to see if the interpreter's float stack is empty.

isGroupedProblem() - Method in class ec.eval.MasterProblem

Returns true if the underlying class returns true for isGroupedProblem()

isGroupedProblem() - Method in class ec.gp.ge.GEProblem

isGroupedProblem() - Method in class ec.Problem

Returns true if this method is meant to be a grouped problem.

isIdeal - Variable in class ec.simple.SimpleFitness

isIdealFitness() - Method in class ec.Fitness

Should return true if this is a good enough fitness to end the run

isIdealFitness() - Method in class ec.gp.koza.KozaFitness

isIdealFitness() - Method in class ec.multiobjective.MultiObjectiveFitness

Returns true if this fitness is the "ideal" fitness.

isIdealFitness() - Method in class ec.simple.SimpleFitness

isIdealFitness(EvolutionState, Individual) - Method in class ec.steadystate.SteadyStateEvaluator

The SimpleEvaluator determines that a run is complete by asking each individual in each population if he's optimal; if he finds an individual somewhere that's optimal, he signals that the run is complete.

isInRange() - Method in class ec.vector.ByteVectorIndividual

Returns true if each gene value is within is specified [min,max] range.

isInRange() - Method in class ec.vector.DoubleVectorIndividual

Returns true if each gene value is within is specified [min,max] range.

isInRange() - Method in class ec.vector.FloatVectorIndividual

Returns true if each gene value is within is specified [min,max] range.

isInRange() - Method in class ec.vector.IntegerVectorIndividual

Returns true if each gene value is within is specified [min,max] range.

isInRange() - Method in class ec.vector.LongVectorIndividual

Returns true if each gene value is within is specified [min,max] range.

isInRange() - Method in class ec.vector.ShortVectorIndividual

Returns true if each gene value is within is specified [min,max] range.

isIntStackEmpty(Interpreter) - Method in class ec.gp.push.PushProblem

Tests to see if the interpreter's int stack is empty.

IslandExchange - Class in ec.exchange

IslandExchange is an Exchanger which implements a simple but quite functional asynchronous island model for doing massive parallel distribution of evolution across beowulf clusters.

IslandExchange() - Constructor for class ec.exchange.IslandExchange

isLeaf(Object) - Method in class ec.util.ReflectedObject

isLoggingToSystemOut - Variable in class ec.util.Log

isMaximizing() - Method in class ec.multiobjective.MultiObjectiveFitness

isMaximizing(int) - Method in class ec.multiobjective.MultiObjectiveFitness

isRecurrent - Variable in class ec.neat.NEATGene

Is the link this gene represent a recurrent link.

isTraversed - Variable in class ec.neat.NEATNode

Indicate if this node has been traversed in max depth counting.

isValid(DoubleVectorIndividual) - Method in class ec.eda.amalgam.AMALGAMSpecies

isValidated(int[][], Object) - Method in class ec.vector.breed.ListCrossoverPipeline

A hook called by ListCrossoverPipeline to allow subclasses to further validate children crossover points.

isViolated(ConstructiveIndividual, Component) - Method in class ec.eval.MasterProblem

iterator() - Method in class ec.gp.GPNode

Returns an iterator over all the GPNodes in the subtree rooted by this GPNode.

iterator(int) - Method in class ec.gp.GPNode

Returns an iterator over all the GPNodes in the subtree rooted by this GPNode, filtered by the provided nodesearch option (either NODSEARCH_TERMINALS, NODESEARCH_NONTERMINALS, or NODESEARCH_ALL)

iterator(GPNodeGatherer) - Method in class ec.gp.GPNode

Returns an iterator over all the GPNodes in the subtree rooted by this GPNode, filtered by the provided GPNodeGatherer.

J

job - Variable in class ec.EvolutionState

Current job iteration variables, set by Evolve.

Job - Class in ec.eval

Job.java This class stores information regarding a job submitted to a Slave: the individuals, the subpopulations in which they are stored, a scratch array for the individuals used internally, and various coevolutionary information (whether we should only count victories single-elimination-tournament style; which individuals should have their fitnesses updated).

Job() - Constructor for class ec.eval.Job

join(RuleSet) - Method in class ec.rule.RuleSet

Makes a copy of the rules in another RuleSet and adds the rule copies.

join(ThreadPool.Worker) - Method in class ec.util.ThreadPool

If the thread is presently running a Runnable of any kind, blocks until the Runnable has finished running.

join(ThreadPool.Worker, Runnable) - Method in class ec.util.ThreadPool

Joins the given thread running the given Runnable.

join(Object[]) - Method in class ec.pso.Particle

join(Object[]) - Method in class ec.vector.BitVectorIndividual

Joins the n pieces and sets the genome to their concatenation.

join(Object[]) - Method in class ec.vector.ByteVectorIndividual

Joins the n pieces and sets the genome to their concatenation.

join(Object[]) - Method in class ec.vector.DoubleVectorIndividual

Joins the n pieces and sets the genome to their concatenation.

join(Object[]) - Method in class ec.vector.FloatVectorIndividual

Joins the n pieces and sets the genome to their concatenation.

join(Object[]) - Method in class ec.vector.GeneVectorIndividual

Joins the n pieces and sets the genome to their concatenation.

join(Object[]) - Method in class ec.vector.IntegerVectorIndividual

Joins the n pieces and sets the genome to their concatenation.

join(Object[]) - Method in class ec.vector.LongVectorIndividual

Joins the n pieces and sets the genome to their concatenation.

join(Object[]) - Method in class ec.vector.ShortVectorIndividual

Joins the n pieces and sets the genome to their concatenation.

join(Object[]) - Method in class ec.vector.VectorIndividual

Joins the n pieces and sets the genome to their concatenation.

joinAll() - Method in class ec.util.ThreadPool

Waits until there are no outstanding workers: all pool workers are in the pool.

K

key - Variable in class ec.eda.dovs.CornerMap.Pair

KEY_PARENTS - Static variable in class ec.gp.breed.InternalCrossoverPipeline

KEY_PARENTS - Static variable in class ec.gp.breed.MutateAllNodesPipeline

KEY_PARENTS - Static variable in class ec.gp.breed.SizeFairCrossoverPipeline

KEY_PARENTS - Static variable in class ec.gp.koza.CrossoverPipeline

KEY_PARENTS - Static variable in class ec.rule.breed.RuleCrossoverPipeline

KEY_PARENTS - Static variable in class ec.SelectionMethod

KEY_PARENTS - Static variable in class ec.vector.breed.ListCrossoverPipeline

KEY_PARENTS - Static variable in class ec.vector.breed.VectorCrossoverPipeline

killAll() - Method in class ec.util.ThreadPool

Waits until there are no outstanding workers: all pool workers are in the pool.

killPooled() - Method in class ec.util.ThreadPool

Kills all unused workers in the pool.

KozaBuilder - Class in ec.gp.koza

KozaBuilder() - Constructor for class ec.gp.koza.KozaBuilder

KozaFitness - Class in ec.gp.koza

KozaFitness is a Fitness which stores an individual's fitness as described in Koza I.

KozaFitness() - Constructor for class ec.gp.koza.KozaFitness

KozaNodeSelector - Class in ec.gp.koza

KozaNodeSelector is a GPNodeSelector which picks nodes in trees a-la Koza I, with the addition of having a probability of always picking the root.

KozaNodeSelector() - Constructor for class ec.gp.koza.KozaNodeSelector

KozaShortStatistics - Class in ec.gp.koza

A Koza-style statistics generator, intended to be easily parseable with awk or other Unix tools.

KozaShortStatistics() - Constructor for class ec.gp.koza.KozaShortStatistics

kthNNDistance - Variable in class ec.multiobjective.spea2.SPEA2MultiObjectiveFitness

SPEA2 NN distance

L

l - Variable in class ec.util.DecodeReturn

Stores booleans (0=false), bytes, chars, shorts, ints, longs

lambda - Variable in class ec.eda.cmaes.CMAESSpecies

The individuals generated from the distribution.

lambda - Variable in class ec.es.MuCommaLambdaBreeder

LARGE_NUMBER - Static variable in class ec.eda.dovs.HyperboxSpecies

lastActivation - Variable in class ec.neat.NEATNode

Holds the previous step's activation for recurrence.

lastEigenDecompositionGeneration - Variable in class ec.eda.cmaes.CMAESSpecies

The most recent generation where an eigendecomposition on C was performed into B and D

lastIndex - Variable in class ec.select.SUSSelection

The index in the array of the last individual selected.

lastTime - Variable in class ec.simple.SimpleShortStatistics

Lexer - Class in ec.util

A simple line-by-line String tokenizer.

Lexer(CharSequence, String[]) - Constructor for class ec.util.Lexer

Builds a Lexer for the given input with the provided regular expressions.

LexicaseSelection - Class in ec.select

LexicaseSelection() - Constructor for class ec.select.LexicaseSelection

LexicographicTournamentSelection - Class in ec.parsimony

Does a simple tournament selection, limited to the subpopulation it's working in at the time.

LexicographicTournamentSelection() - Constructor for class ec.parsimony.LexicographicTournamentSelection

lightClone() - Method in class ec.gp.GPIndividual

Like clone(), but doesn't force the GPTrees to deep-clone themselves.

lightClone() - Method in class ec.gp.GPNode

lightClone() - Method in class ec.gp.GPTree

Like clone() but doesn't copy the tree.

likelihood - Variable in class ec.BreedingPipeline

lineDistance - Variable in class ec.vector.VectorSpecies

How far along the long a child can be located for line or intermediate recombination

lineNumber - Variable in class ec.util.DecodeReturn

The Line number, if it has been posted.

list(PrintWriter) - Method in class ec.util.ParameterDatabase

Prints out all the parameters in the database, but not shadowed parameters.

list(PrintWriter, boolean) - Method in class ec.util.ParameterDatabase

Prints out all the parameters in the database.

listAccessed(PrintWriter) - Method in class ec.util.ParameterDatabase

Prints out all the parameters marked as accessed ("gotten" by some getFoo(...) method), plus their values.

ListCrossoverPipeline - Class in ec.vector.breed

ListCrossoverPipeline is a crossover pipeline for vector individuals whose length may be lengthened or shortened.

ListCrossoverPipeline() - Constructor for class ec.vector.breed.ListCrossoverPipeline

listGotten(PrintWriter) - Method in class ec.util.ParameterDatabase

Prints out all the parameters marked as used, plus their values.

listNotAccessed(PrintWriter) - Method in class ec.util.ParameterDatabase

Prints out all the parameters NOT marked as used, plus their values.

listNotGotten(PrintWriter) - Method in class ec.util.ParameterDatabase

Prints out all the parameters NOT marked as used, plus their values.

loadDomain(EvolutionState, Parameter) - Method in class ec.eval.MetaProblem

loadElites(EvolutionState, Population) - Method in class ec.multiobjective.nsga2.NSGA2Breeder

Extract the elite individuals from the current population and both place in newpop and replace the current population with the archive.

loadElites(EvolutionState, Population) - Method in class ec.multiobjective.spea2.SPEA2Breeder

Extract the elite individuals from the current population and both place in newpop and replace the current population with the archive.

loadElites(EvolutionState, Population) - Method in class ec.simple.SimpleBreeder

A protected helper function for breedPopulation which loads elites into a subpopulation.

loadInds - Variable in class ec.Population

loadInds - Variable in class ec.Subpopulation

loadParameterDatabase(String[]) - Static method in class ec.Evolve

Loads a ParameterDatabase from checkpoint if "-params" is in the command-line arguments.

loadParameters() - Method in class ec.display.ControlPanel

loadParametersForGene(EvolutionState, int, Parameter, Parameter, String) - Method in class ec.vector.BitVectorSpecies

Called when VectorSpecies is setting up per-gene and per-segment parameters.

loadParametersForGene(EvolutionState, int, Parameter, Parameter, String) - Method in class ec.vector.FloatVectorSpecies

loadParametersForGene(EvolutionState, int, Parameter, Parameter, String) - Method in class ec.vector.IntegerVectorSpecies

loadParametersForGene(EvolutionState, int, Parameter, Parameter, String) - Method in class ec.vector.VectorSpecies

Called when VectorSpecies is setting up per-gene and per-segment parameters.

loadSensors(double[]) - Method in class ec.neat.NEATNetwork

Takes an array of sensor values and loads it into SENSOR inputs ONLY.

LocalHost - Class in ec.util

Modified from apache mail-archives.

LocalHost() - Constructor for class ec.util.LocalHost

lock - Variable in class ec.eval.MetaProblem

Acquire this lock before accessing bestUnderlyingIndividual

Log - Class in ec.util

Defines a log to which Output outputs.

Log(int, boolean) - Constructor for class ec.util.Log

Creates a log on stdout (descriptor == Log.D_STDOUT) or stderr (descriptor == Log.D_STDERR).

Log(File, boolean, boolean) - Constructor for class ec.util.Log

Creates a log to a given filename; this file may or may not be appended to on restart, depending on _appendOnRestart.

Log(File, boolean, boolean, boolean) - Constructor for class ec.util.Log

Creates a log to a given filename; this file may or may not be appended to on restart, depending on _appendOnRestart.

Log(Writer, LogRestarter, boolean, boolean) - Constructor for class ec.util.Log

Creates a log on a given Writer and custom LogRestarter.

LogRestarter - Class in ec.util

A LogRestarter is an abstract superclass of objects which are capable of restarting logs after a computer failure.

LogRestarter() - Constructor for class ec.util.LogRestarter

LongVectorIndividual - Class in ec.vector

LongVectorIndividual is a VectorIndividual whose genome is an array of longs.

LongVectorIndividual() - Constructor for class ec.vector.LongVectorIndividual

lowerBound(int) - Method in class ec.eda.dovs.CornerMap

This returns the smallest element whose key is equal to or bigger than the argument "key".

LPAREN - Static variable in class ec.gp.ge.GrammarParser

lt(long, long) - Method in interface ec.util.SortComparatorL

Returns true if a invalid input: '<' b, else false

lt(Object, Object) - Method in interface ec.util.SortComparator

Returns true if a invalid input: '<' b, else false

M

main(String[]) - Static method in class ec.display.Console

main(String[]) - Static method in class ec.eval.Slave

main(String[]) - Static method in class ec.Evolve

Top-level evolutionary loop.

main(String[]) - Static method in class ec.exchange.IslandExchange

main(String[]) - Static method in class ec.gp.ge.GrammarParser

A simple testing facility.

main(String[]) - Static method in class ec.util.MersenneTwister

Tests the code.

main(String[]) - Static method in class ec.util.MersenneTwisterFast

Tests the code.

main(String[]) - Static method in class ec.util.ParameterDatabase

Test the ParameterDatabase

main(String[]) - Static method in class ec.util.ThreadPool

make(int, EvolutionState, int) - Method in class ec.parsimony.DoubleTournamentSelection

Produces the index of a person selected from among several by a tournament.

makeBar(int, double[]) - Method in class ec.display.chart.BarChartStatistics

makeChart() - Method in class ec.display.chart.BarChartStatistics

makeChart() - Method in class ec.display.chart.ChartableStatistics

makeChart() - Method in class ec.display.chart.PieChartStatistics

makeChart() - Method in class ec.display.chart.XYSeriesChartStatistics

makeCompressingInputStream(InputStream) - Static method in class ec.util.Output

Returns a compressing input stream using JZLib (http://www.jcraft.com/jzlib/).

makeCompressingOutputStream(OutputStream) - Static method in class ec.util.Output

Returns a compressing output stream using JZLib (http://www.jcraft.com/jzlib/).

makeCTree(boolean, boolean, boolean) - Method in class ec.gp.GPNode

Producess a String consisting of the tree in pseudo-C form, given that the parent already will wrap the expression in parentheses (or not).

makeGraphvizSubtree(String) - Method in class ec.gp.GPNode

Produces the inner code for a graphviz subtree.

makeGraphvizTree() - Method in class ec.gp.GPNode

Produces the Graphviz code for a Graphviz tree of the subtree rooted at this node.

makeLatexTree() - Method in class ec.gp.GPNode

Produces the LaTeX code for a LaTeX tree of the subtree rooted at this node, using the epic and fancybox packages, as described in sections 10.5.2 (page 307) and 10.1.3 (page 278) of The LaTeX Companion, respectively.

makeLispTree() - Method in class ec.gp.GPNode

makeLispTree(StringBuilder) - Method in class ec.gp.GPNode

Produces a tree for human consumption in Lisp form similar to that generated by printTreeForHumans().

makeSector(int, double[]) - Method in class ec.display.chart.PieChartStatistics

makeTree(EvolutionState, int[], GPTree, int, int, int, HashMap) - Method in class ec.gp.ge.GESpecies

makeTree, edits the tree that its given by adding a root (and all subtrees attached)

makeTrees(EvolutionState, int[], GPTree[], int, HashMap) - Method in class ec.gp.ge.GESpecies

makeTrees(EvolutionState, GEIndividual, GPTree[], int, HashMap) - Method in class ec.gp.ge.GESpecies

creates all of an individual's trees

manhattanObjectiveDistance(MultiObjectiveFitness) - Method in class ec.multiobjective.MultiObjectiveFitness

Returns the Manhattan difference between two Fitnesses in Objective space.

map(EvolutionState, double[], FloatVectorSpecies, int) - Method in class ec.eval.MetaProblem

map(EvolutionState, GEIndividual, int, HashMap) - Method in class ec.gp.ge.GESpecies

Returns a dummy GPIndividual with a single tree which was built by mapping over the elements of the given GEIndividual.

markReproducableIndividuals(double) - Method in class ec.neat.NEATSubspecies

Mark the individual who can reproduce for this generation.

masterproblem - Variable in class ec.Evaluator

MasterProblem - Class in ec.eval

MasterProblem.java

MasterProblem() - Constructor for class ec.eval.MasterProblem

mateMultipoint(EvolutionState, int, NEATIndividual, boolean) - Method in class ec.neat.NEATIndividual

Doing crossover from two parent at multiple points in the genome.

mateMultipointAvgProb - Variable in class ec.neat.NEATSpecies

Probability of doing multipoint crossover with averaging two genes.

mateMultipointProb - Variable in class ec.neat.NEATSpecies

Probability of doing multipoint crossover.

mateOnlyProb - Variable in class ec.neat.NEATSpecies

Probability of mating without mutation.

mateSinglepoint(EvolutionState, int, NEATIndividual) - Method in class ec.neat.NEATIndividual

Deprecated.

mateSinglepointProb - Variable in class ec.neat.NEATSpecies

Probability of doing single point crossover (not in used in this implementation, always set to 0).

MAX_TRIES_BEFORE_WARNING - Static variable in class ec.eda.cmaes.CMAESSpecies

maxarity - Variable in class ec.gp.build.Uniform

maxChildProduction() - Method in class ec.BreedingPipeline

Returns the maximum among the typicalIndsProduced() for any children -- a function that's useful internally, not very useful for you to call externally.

maxCrossoverPercentage - Variable in class ec.vector.breed.ListCrossoverPipeline

maxDepth - Variable in class ec.gp.breed.InternalCrossoverPipeline

The deepest tree the pipeline is allowed to form.

maxDepth - Variable in class ec.gp.breed.SizeFairCrossoverPipeline

The deepest tree the pipeline is allowed to form.

maxDepth - Variable in class ec.gp.build.PTC1

The largest maximum tree depth PTC1 can specify -- should be big.

maxDepth - Variable in class ec.gp.build.PTC2

The largest maximum tree depth GROW can specify -- should be big.

maxDepth - Variable in class ec.gp.koza.CrossoverPipeline

The deepest tree the pipeline is allowed to form.

maxDepth - Variable in class ec.gp.koza.KozaBuilder

The largest maximum tree depth RAMPED HALF-AND-HALF can specify.

maxDepth() - Method in class ec.neat.NEATNetwork

Find the maximum number of neurons between an output and an input.

maxFitnessEver - Variable in class ec.neat.NEATSubspecies

The max fitness the an individual in this subspecies ever achieved.

maxFloatERC - Static variable in class ec.gp.push.Terminal

maxGene - Variable in class ec.vector.FloatVectorSpecies

Max-gene value, per gene.

maxGene - Variable in class ec.vector.IntegerVectorSpecies

Max-gene value, per gene.

maxGene(int) - Method in class ec.vector.FloatVectorSpecies

maxGene(int) - Method in class ec.vector.IntegerVectorSpecies

maxGeneratable - Variable in class ec.breed.GenerationSwitchPipeline

maxGeneratable - Variable in class ec.breed.MultiBreedingPipeline

maximize - Variable in class ec.multiobjective.MultiObjectiveFitness

Maximization.

MAXIMUM_INTEGER_IN_DOUBLE - Static variable in class ec.vector.DoubleVectorIndividual

MAXIMUM_SHORT_IN_FLOAT - Static variable in class ec.vector.FloatVectorIndividual

maximumMuLambdaDivisor() - Method in class ec.es.MuCommaLambdaBreeder

lambda should be no SMALLER than mu times this value.

maximumMuLambdaDivisor() - Method in class ec.es.MuPlusLambdaBreeder

maximumNoImprovementStretch - Variable in class ec.eda.amalgam.AMALGAMSpecies

maxInitialSize - Variable in class ec.vector.VectorSpecies

What's the largest legal genome?

maxIntegerERC - Static variable in class ec.gp.push.Terminal

maxNetworkDepth - Variable in class ec.neat.NEATSpecies

how deep a node can be in the network, measured by number of parents

maxObjective - Variable in class ec.multiobjective.MultiObjectiveFitness

Desired maximum fitness values.

MAXPRINTBYTES - Static variable in class ec.gp.GPNode

maxSize - Variable in class ec.gp.GPNodeBuilder

the minium possible size -- if unused, it's 0

maxSize - Variable in class ec.gp.koza.CrossoverPipeline

The largest tree (measured as a nodecount) the pipeline is allowed to form.

maxSize - Variable in class ec.gp.koza.MutationPipeline

The largest tree (measured as a nodecount) the pipeline is allowed to form.

maxSize - Variable in class ec.rule.RuleSetConstraints

maxtreesize - Variable in class ec.gp.build.Uniform

mean - Variable in class ec.eda.amalgam.AMALGAMSpecies

The mean of the distribution.

mean - Variable in class ec.eda.dovs.DOVSFitness

Mean fitness value of the current individual.

meanShift - Variable in class ec.eda.amalgam.AMALGAMSpecies

merge(EvolutionState, Fitness) - Method in class ec.Fitness

Merges the other fitness into this fitness.

merge(EvolutionState, Individual) - Method in class ec.Individual

Replaces myself with the other Individual, while merging our evaluation results together.

merge(GrammarRuleNode) - Method in class ec.gp.ge.GrammarRuleNode

Adds to this node all the choices of another node.

MERGE_BEST - Static variable in class ec.simple.SimpleEvaluator

MERGE_MEAN - Static variable in class ec.simple.SimpleEvaluator

MERGE_MEDIAN - Static variable in class ec.simple.SimpleEvaluator

mergeForm - Variable in class ec.simple.SimpleEvaluator

MersenneTwister - Class in ec.util

MersenneTwister and MersenneTwisterFast

MersenneTwister() - Constructor for class ec.util.MersenneTwister

Constructor using the default seed.

MersenneTwister(int[]) - Constructor for class ec.util.MersenneTwister

Constructor using an array of integers as seed.

MersenneTwister(long) - Constructor for class ec.util.MersenneTwister

Constructor using a given seed.

MersenneTwisterFast - Class in ec.util

MersenneTwister and MersenneTwisterFast

MersenneTwisterFast() - Constructor for class ec.util.MersenneTwisterFast

Constructor using the default seed.

MersenneTwisterFast(int[]) - Constructor for class ec.util.MersenneTwisterFast

Constructor using an array of integers as seed.

MersenneTwisterFast(long) - Constructor for class ec.util.MersenneTwisterFast

Constructor using a given seed.

message() - Static method in class ec.util.Version

message(String) - Method in class ec.util.Output

Posts a message.

MetaProblem - Class in ec.eval

MetaProblem is a special class for implenting so-called "Meta-Evolutionary Algorithms", a topic related to "HyperHeuristics".

MetaProblem() - Constructor for class ec.eval.MetaProblem

MIN_QUEUE_SIZE - Static variable in class ec.gp.build.PTC2

minChildProduction() - Method in class ec.BreedingPipeline

Returns the minimum among the typicalIndsProduced() for any children -- a function that's useful internally, not very useful for you to call externally.

minChildSize - Variable in class ec.vector.breed.ListCrossoverPipeline

minCrossoverPercentage - Variable in class ec.vector.breed.ListCrossoverPipeline

minDepth - Variable in class ec.gp.koza.KozaBuilder

The smallest maximum tree depth RAMPED HALF-AND-HALF can specify.

minFloatERC - Static variable in class ec.gp.push.Terminal

minGene - Variable in class ec.vector.FloatVectorSpecies

Min-gene value, per gene.

minGene - Variable in class ec.vector.IntegerVectorSpecies

Min-gene value, per gene.

minGene(int) - Method in class ec.vector.FloatVectorSpecies

minGene(int) - Method in class ec.vector.IntegerVectorSpecies

minimumJavaVersion - Static variable in class ec.util.Version

minInitialSize - Variable in class ec.vector.VectorSpecies

What's the smallest legal genome?

minIntegerERC - Static variable in class ec.gp.push.Terminal

minObjective - Variable in class ec.multiobjective.MultiObjectiveFitness

Desired minimum fitness values.

minSize - Variable in class ec.gp.GPNodeBuilder

minSize - Variable in class ec.rule.RuleSetConstraints

Misc - Class in ec.util

Miscellaneous static utility methods.

modifyParameters(EvolutionState, ParameterDatabase, int, Individual) - Method in class ec.eval.MetaProblem

Override this method to revise the provided parameter database to reflect the "parameters" specified in the given meta-individual.

modulo - Variable in class ec.exchange.IslandExchange

how often to send individuals

modulus - Variable in class ec.simple.SimpleShortStatistics

monitor - Variable in class ec.eval.MasterProblem

mostPromisingAreaSamples(EvolutionState, int) - Method in class ec.eda.dovs.DOVSSpecies

Sample from the most promising area to get new generation of individual for evaluation.

mostPromisingAreaSamples(EvolutionState, int) - Method in class ec.eda.dovs.HyperboxSpecies

Sample from the hyperbox to get new samples for evaluation.

moveFromSubstack(int) - Method in class ec.gp.ADFStack

Moves n items onto the stack (popss them off the substack and pushes them onto the stack).

moveOntoSubstack(int) - Method in class ec.gp.ADFStack

Moves n items onto the substack (pops them off the stack and pushes them onto the substack).

mu - Variable in class ec.eda.cmaes.CMAESSpecies

The truncated individuals used to update the distribution.

mu - Variable in class ec.es.MuCommaLambdaBreeder

MuCommaLambdaBreeder - Class in ec.es

MuCommaLambdaBreeder is a Breeder which, together with ESSelection, implements the (mu,lambda) breeding strategy and gathers the comparison data you can use to implement a 1/5-rule mutation mechanism.

MuCommaLambdaBreeder() - Constructor for class ec.es.MuCommaLambdaBreeder

mueff - Variable in class ec.eda.cmaes.CMAESSpecies

The "mu_{eff}" constant in CMA-ES.

MULTI_FITNESS_POSTAMBLE - Static variable in class ec.multiobjective.MultiObjectiveFitness

MultiBreedingPipeline - Class in ec.breed

MultiBreedingPipeline is a BreedingPipeline stores some n child sources; each time it must produce an individual or two, it picks one of these sources at random and has it do the production.

MultiBreedingPipeline() - Constructor for class ec.breed.MultiBreedingPipeline

MultiObjectiveDefaults - Class in ec.multiobjective

MultiObjectiveDefaults() - Constructor for class ec.multiobjective.MultiObjectiveDefaults

MultiObjectiveFitness - Class in ec.multiobjective

MultiObjectiveFitness is a subclass of Fitness which implements basic multi-objective mechanisms suitable for being used with a variety of multi-objective selection mechanisms, including ones using pareto-optimality.

MultiObjectiveFitness() - Constructor for class ec.multiobjective.MultiObjectiveFitness

MultiObjectiveStatistics - Class in ec.multiobjective

MultiObjectiveStatistics() - Constructor for class ec.multiobjective.MultiObjectiveStatistics

MultipleVectorCrossoverPipeline - Class in ec.vector.breed

MultipleVectorCrossoverPipeline is a BreedingPipeline which implements a uniform (any point) crossover between multiple vectors.

MultipleVectorCrossoverPipeline() - Constructor for class ec.vector.breed.MultipleVectorCrossoverPipeline

MultiPopCoevolutionaryEvaluator - Class in ec.coevolve

MultiPopCoevolutionaryEvaluator.java

MultiPopCoevolutionaryEvaluator() - Constructor for class ec.coevolve.MultiPopCoevolutionaryEvaluator

MultiSelection - Class in ec.select

MultiSelection is a SelectionMethod which stores some n subordinate SelectionMethods.

MultiSelection() - Constructor for class ec.select.MultiSelection

MuPlusLambdaBreeder - Class in ec.es

MuPlusLambdaBreeder is a subclass of MuCommaLambdaBreeder which, together with ESSelection, implements the (mu + lambda) breeding strategy and gathers the comparison data you can use to implement a 1/5-rule mutation mechanism.

MuPlusLambdaBreeder() - Constructor for class ec.es.MuPlusLambdaBreeder

mutate(EvolutionState, int) - Method in class ec.rule.Rule

Mutate the rule.

mutate(EvolutionState, int) - Method in class ec.rule.RuleIndividual

Mutates the Individual.

mutate(EvolutionState, int) - Method in class ec.rule.RuleSet

Mutates rules in the RuleSet independently with the given probability.

mutate(EvolutionState, int) - Method in class ec.vector.Gene

Mutate the gene.

mutateAddLink(EvolutionState, int) - Method in class ec.neat.NEATIndividual

Try to add a new gene (link) into the current genome.

mutateAddLinkProb - Variable in class ec.neat.NEATSpecies

Probability of doing add-link mutation.

mutateAddNode(EvolutionState, int) - Method in class ec.neat.NEATIndividual

Add a new node into this individual.

mutateAddNodeProb - Variable in class ec.neat.NEATSpecies

Probability of doing add-node mutation.

MutateAllNodesPipeline - Class in ec.gp.breed

MutateAllNodesPipeline implements the AllNodes mutation algorithm described in Kumar Chellapilla, "A Preliminary Investigation into Evolving Modular Programs without Subtree Crossover", GP98.

MutateAllNodesPipeline() - Constructor for class ec.gp.breed.MutateAllNodesPipeline

MutateDemotePipeline - Class in ec.gp.breed

MutateDemotePipeline works very similarly to the DemoteNode algorithm described in Kumar Chellapilla, "A Preliminary Investigation into Evolving Modular Programs without Subtree Crossover", GP98, and is also similar to the "insertion" operator found in Una-May O'Reilly's thesis, "An Analysis of Genetic Programming".

MutateDemotePipeline() - Constructor for class ec.gp.breed.MutateDemotePipeline

mutateERC(EvolutionState, int) - Method in class ec.gp.ERC

Mutates the node's "value".

MutateERCPipeline - Class in ec.gp.breed

MutateERCPipeline works very similarly to the "Gaussian" algorithm described in Kumar Chellapilla, "A Preliminary Investigation into Evolving Modular Programs without Subtree Crossover", GP98.

MutateERCPipeline() - Constructor for class ec.gp.breed.MutateERCPipeline

mutateERCs(GPNode, EvolutionState, int) - Method in class ec.gp.breed.MutateERCPipeline

mutateGeneReenable() - Method in class ec.neat.NEATIndividual

Reenable a gene if it's disabled.

mutateGeneReenableProb - Variable in class ec.neat.NEATSpecies

Probability of reenable a disabled gene.

mutateLinkWeights(EvolutionState, int, NEATSpecies, double, double, NEATSpecies.MutationType) - Method in class ec.neat.NEATIndividual

Mutate the weights of the genes

mutateLinkWeightsProb - Variable in class ec.neat.NEATSpecies

Probability of doing link weight mutate.

MutateOneNodePipeline - Class in ec.gp.breed

MutateOneNodesPipeline implements the OneNode mutation algorithm described in Kumar Chellapilla, "A Preliminary Investigation into Evolving Modular Programs without Subtree Crossover", GP98.

MutateOneNodePipeline() - Constructor for class ec.gp.breed.MutateOneNodePipeline

mutateOnlyProb - Variable in class ec.neat.NEATSpecies

Probility of a non-mating reproduction.

MutatePromotePipeline - Class in ec.gp.breed

MutatePromotePipeline works very similarly to the PromoteNode algorithm described in Kumar Chellapilla, "A Preliminary Investigation into Evolving Modular Programs without Subtree Crossover", GP98, and is also similar to the "deletion" operator found in Una-May O'Reilly's thesis, "An Analysis of Genetic Programming".

MutatePromotePipeline() - Constructor for class ec.gp.breed.MutatePromotePipeline

MutateSwapPipeline - Class in ec.gp.breed

MutateSwapPipeline works very similarly to the Swap algorithm described in Kumar Chellapilla, "A Preliminary Investigation into Evolving Modular Programs without Subtree Crossover", GP98.

MutateSwapPipeline() - Constructor for class ec.gp.breed.MutateSwapPipeline

mutateToggleEnable(EvolutionState, int, int) - Method in class ec.neat.NEATIndividual

Randomly enable or disable a gene.

mutateToggleEnableProb - Variable in class ec.neat.NEATSpecies

Probability of changing the enable status of gene.

mutationDistributionIndex - Variable in class ec.vector.FloatVectorSpecies

The distribution index for Polynomial Mutation, per gene.

mutationDistributionIndex(int) - Method in class ec.vector.FloatVectorSpecies

mutationIsBounded - Variable in class ec.vector.FloatVectorSpecies

Whether mutation is bounded to the min- and max-gene values, per gene.

mutationIsBounded - Variable in class ec.vector.IntegerVectorSpecies

Whether mutation is bounded to the min- and max-gene values, per gene.

mutationIsBounded(int) - Method in class ec.vector.FloatVectorSpecies

mutationIsBounded(int) - Method in class ec.vector.IntegerVectorSpecies

mutationNumber - Variable in class ec.neat.NEATGene

The mutation number of this gene, Used to see how much mutation has changed.

MutationPipeline - Class in ec.gp.koza

MutationPipeline is a GPBreedingPipeline which implements a strongly-typed version of the "Point Mutation" operator as described in Koza I.

MutationPipeline() - Constructor for class ec.gp.koza.MutationPipeline

mutationProbability - Variable in class ec.vector.VectorSpecies

Probability that a gene will mutate, per gene.

mutationProbability(int) - Method in class ec.vector.VectorSpecies

mutationType - Variable in class ec.vector.BitVectorSpecies

Mutation type, per gene.

mutationType - Variable in class ec.vector.FloatVectorSpecies

Mutation type, per gene.

mutationType - Variable in class ec.vector.IntegerVectorSpecies

Mutation type, per gene.

mutationType(int) - Method in class ec.vector.BitVectorSpecies

mutationType(int) - Method in class ec.vector.FloatVectorSpecies

mutationType(int) - Method in class ec.vector.IntegerVectorSpecies

mutDiffCoeff - Variable in class ec.neat.NEATSpecies

Coefficient for mutational difference genes in compatibility computation.

mybase - Variable in class ec.BreedingPipeline

My parameter base -- I keep it around so I can print some messages that are useful with it (not deep cloned)

N

N_BUCKETS_DEFAULT - Static variable in class ec.parsimony.BucketTournamentSelection

Default number of buckets

N_RULES - Static variable in class ec.rule.RuleSet

The message to appear when printing the rule set

name - Variable in class ec.gp.ADF

The "function name" of the ADF, to distinguish it from other GP functions you might provide.

name - Variable in class ec.gp.ADFArgument

The "function name" of the ADFArgument, to distinguish it from other GP functions you might provide.

name - Variable in class ec.gp.GPFunctionSet

Name of the GPFunctionSet

name - Variable in class ec.gp.GPNodeConstraints

The name of the GPNodeConstraints object -- this is NOT the name of the GPNode

name - Variable in class ec.gp.GPTreeConstraints

name - Variable in class ec.gp.GPType

The name of the type

name - Variable in class ec.rule.RuleConstraints

The name of the RuleConstraints object

name - Variable in class ec.rule.RuleSetConstraints

The name of the RuleSetConstraints object

name - Static variable in class ec.util.Version

name() - Method in class ec.gp.ADF

name() - Method in class ec.gp.ADFArgument

name() - Method in class ec.gp.ERC

Returns the lowercase "name" of this ERC function class, some simple, short name which distinguishes this class from other ERC function classes you're using.

name() - Method in class ec.gp.GPNode

Returns a Lisp-like atom for the node and any nodes of the same class.

name() - Method in class ec.gp.push.Terminal

NEATBreeder - Class in ec.neat

NEATBreeder is a Breeder which overrides the breedPopulation method to first mark the individuals in each subspecies that are allow to reproduce, and replace the population with new individuals in each subspecies.

NEATBreeder() - Constructor for class ec.neat.NEATBreeder

NEATDefaults - Class in ec.neat

NEATDefaults is the basic defaults class for the neat package.

NEATDefaults() - Constructor for class ec.neat.NEATDefaults

NEATGene - Class in ec.neat

NEATGene is the combination of class Gene and class Link in original code.

NEATGene() - Constructor for class ec.neat.NEATGene

NEATIndividual - Class in ec.neat

NEATIndividual is GeneVectorIndividual with NEATNetwork as phenotype.

NEATIndividual() - Constructor for class ec.neat.NEATIndividual

NEATInitializer - Class in ec.neat

NEATInitializer is a SimpleInitializer which ensures that the subpopulations are all create from an existing template individual read from file.

NEATInitializer() - Constructor for class ec.neat.NEATInitializer

NEATInnovation - Class in ec.neat

NEATInnovation is a class for recording the innovation information during the evolution of neat.

NEATInnovation() - Constructor for class ec.neat.NEATInnovation

NEATNetwork - Class in ec.neat

NEATNetwork is the phenotype of NEATIndividual.

NEATNetwork() - Constructor for class ec.neat.NEATNetwork

NEATNode - Class in ec.neat

NEATNode is the class to represent node in network, it stores status of the node in that network.

NEATNode() - Constructor for class ec.neat.NEATNode

NEATNode.FunctionType - Enum Class in ec.neat

The activation function is used in for hidden node.

NEATNode.NodePlace - Enum Class in ec.neat

The place this node could be.

NEATNode.NodeType - Enum Class in ec.neat

The type of a node.

NEATSpecies - Class in ec.neat

NEATSpecies is a GeneVectorSpecies which implements NEAT algorithm.

NEATSpecies() - Constructor for class ec.neat.NEATSpecies

NEATSpecies.MutationType - Enum Class in ec.neat

NEATSubspecies - Class in ec.neat

NEATSubspecies is the actual Species in original code.

NEATSubspecies() - Constructor for class ec.neat.NEATSubspecies

neighborhood - Variable in class ec.pso.Particle

neighborhood - Variable in class ec.pso.PSOBreeder

neighborhoodBestFitness - Variable in class ec.pso.Particle

neighborhoodBestGenome - Variable in class ec.pso.Particle

neighborhoodSize - Variable in class ec.pso.PSOBreeder

networkPrototype - Variable in class ec.neat.NEATSpecies

The prototypical network.

NEURON - Enum constant in enum class ec.neat.NEATNode.NodeType

newGenerationFirst() - Method in class ec.neat.NEATSubspecies

Return the first individual in newGenIndividuals list.

newGenIndividuals - Variable in class ec.neat.NEATSubspecies

The next generation individuals within this species

newIndividual(EvolutionState, int) - Method in class ec.eda.amalgam.AMALGAMSpecies

newIndividual(EvolutionState, int) - Method in class ec.eda.cmaes.CMAESSpecies

newIndividual(EvolutionState, int) - Method in class ec.eda.pbil.PBILSpecies

newIndividual(EvolutionState, int) - Method in class ec.gp.ge.GESpecies

This is an ugly hack to simulate the "Sensible Initialization", First we create a GPIndividual, then reverse-map it to GEIndividuals, We do not need to call IntegerVectorSpecies.newIndividual() since it is overriden by the GPSpecies.newIndividual(); Moreover, as in the case for non-identical representations (i,e, GP-GE island models etc,), the grammar rules, tree constraints, ERC's etc, are supposed to be identical across all islands, so we are using the same "gpspecies" inside this class.

newIndividual(EvolutionState, int) - Method in class ec.gp.GPSpecies

newIndividual(EvolutionState, int) - Method in class ec.rule.RuleSpecies

newIndividual(EvolutionState, int) - Method in class ec.Species

Provides a brand-new individual to fill in a population.

newIndividual(EvolutionState, int) - Method in class ec.vector.VectorSpecies

newIndividual(EvolutionState, int, ArrayList<NEATNode>, ArrayList<Gene>) - Method in class ec.neat.NEATSpecies

Create a new individual with given nodes and genes

newIndividual(EvolutionState, DataInput) - Method in class ec.gp.GPSpecies

newIndividual(EvolutionState, DataInput) - Method in class ec.Species

Provides an individual read from a DataInput source, including the fitness.

newIndividual(EvolutionState, LineNumberReader) - Method in class ec.gp.GPSpecies

newIndividual(EvolutionState, LineNumberReader) - Method in class ec.Species

Provides an individual read from a stream, including the fitness; the individual will appear as it was written by printIndividual(...).

newIndividuals - Variable in class ec.es.MuCommaLambdaBreeder

newIndividuals - Variable in class ec.simple.SimpleBreeder

newLinkTries - Variable in class ec.neat.NEATSpecies

Number of tries mutateAddLink will attempt to find an open link.

newNodeId - Variable in class ec.neat.NEATInnovation

If a new node was created, this is its node id.

newNodeTries - Variable in class ec.neat.NEATSpecies

Number of tries mutateAddNode will attempt to build a new node.

newRootedTree(EvolutionState, GPType, int, GPNodeParent, GPFunctionSet, int, int) - Method in class ec.gp.build.PTC1

newRootedTree(EvolutionState, GPType, int, GPNodeParent, GPFunctionSet, int, int) - Method in class ec.gp.build.PTC2

newRootedTree(EvolutionState, GPType, int, GPNodeParent, GPFunctionSet, int, int) - Method in class ec.gp.build.RandomBranch

newRootedTree(EvolutionState, GPType, int, GPNodeParent, GPFunctionSet, int, int) - Method in class ec.gp.build.RandTree

newRootedTree(EvolutionState, GPType, int, GPNodeParent, GPFunctionSet, int, int) - Method in class ec.gp.build.Uniform

newRootedTree(EvolutionState, GPType, int, GPNodeParent, GPFunctionSet, int, int) - Method in class ec.gp.GPNodeBuilder

newRootedTree(EvolutionState, GPType, int, GPNodeParent, GPFunctionSet, int, int) - Method in class ec.gp.koza.FullBuilder

newRootedTree(EvolutionState, GPType, int, GPNodeParent, GPFunctionSet, int, int) - Method in class ec.gp.koza.GrowBuilder

newRootedTree(EvolutionState, GPType, int, GPNodeParent, GPFunctionSet, int, int) - Method in class ec.gp.koza.HalfBuilder

newRootedTree(EvolutionState, GPType, int, GPNodeParent, GPFunctionSet, int, int) - Method in class ec.gp.push.PushBuilder

newWeight - Variable in class ec.neat.NEATInnovation

If a link is added, this is its weight.

next(int) - Method in class ec.util.MersenneTwister

Returns an integer with bits bits filled with a random number.

nextBoolean() - Method in class ec.util.MersenneTwister

This method is missing from jdk 1.0.x and below.

nextBoolean() - Method in class ec.util.MersenneTwisterFast

nextBoolean(double) - Method in class ec.util.MersenneTwister

This generates a coin flip with a probability probability of returning true, else returning false.

nextBoolean(double) - Method in class ec.util.MersenneTwisterFast

This generates a coin flip with a probability probability of returning true, else returning false.

nextBoolean(float) - Method in class ec.util.MersenneTwister

This generates a coin flip with a probability probability of returning true, else returning false.

nextBoolean(float) - Method in class ec.util.MersenneTwisterFast

This generates a coin flip with a probability probability of returning true, else returning false.

nextByte() - Method in class ec.util.MersenneTwister

For completeness' sake, though it's not in java.util.Random.

nextByte() - Method in class ec.util.MersenneTwisterFast

nextBytes(byte[]) - Method in class ec.util.MersenneTwister

A bug fix for all versions of the JDK.

nextBytes(byte[]) - Method in class ec.util.MersenneTwisterFast

nextChar() - Method in class ec.util.MersenneTwister

For completeness' sake, though it's not in java.util.Random.

nextChar() - Method in class ec.util.MersenneTwisterFast

nextDouble() - Method in class ec.util.MersenneTwister

A bug fix for versions of JDK 1.1 and below.

nextDouble() - Method in class ec.util.MersenneTwisterFast

Returns a random double in the half-open range from [0.0,1.0).

nextDouble(boolean, boolean) - Method in class ec.util.MersenneTwister

Returns a double in the range from 0.0 to 1.0, possibly inclusive of 0.0 and 1.0 themselves.

nextDouble(boolean, boolean) - Method in class ec.util.MersenneTwisterFast

Returns a double in the range from 0.0 to 1.0, possibly inclusive of 0.0 and 1.0 themselves.

nextFloat() - Method in class ec.util.MersenneTwister

A bug fix for versions of JDK 1.1 and below.

nextFloat() - Method in class ec.util.MersenneTwisterFast

Returns a random float in the half-open range from [0.0f,1.0f).

nextFloat(boolean, boolean) - Method in class ec.util.MersenneTwister

Returns a float in the range from 0.0f to 1.0f, possibly inclusive of 0.0f and 1.0f themselves.

nextFloat(boolean, boolean) - Method in class ec.util.MersenneTwisterFast

Returns a float in the range from 0.0f to 1.0f, possibly inclusive of 0.0f and 1.0f themselves.

nextGaussian() - Method in class ec.util.MersenneTwister

A bug fix for all JDK code including 1.2.

nextGaussian() - Method in class ec.util.MersenneTwisterFast

nextInnovationNumber() - Method in class ec.neat.NEATSpecies

nextInt() - Method in class ec.util.MersenneTwisterFast

nextInt(int) - Method in class ec.util.MersenneTwister

This method is missing from JDK 1.1 and below.

nextInt(int) - Method in class ec.util.MersenneTwisterFast

Returns an integer drawn uniformly from 0 to n-1.

nextLong() - Method in class ec.util.MersenneTwisterFast

Returns a long drawn uniformly from 0 to n-1.

nextLong(long) - Method in class ec.util.MersenneTwister

This method is for completness' sake.

nextLong(long) - Method in class ec.util.MersenneTwisterFast

Returns a long drawn uniformly from 0 to n-1.

nextShort() - Method in class ec.util.MersenneTwister

For completeness' sake, though it's not in java.util.Random.

nextShort() - Method in class ec.util.MersenneTwisterFast

nextSubpopulationSize(EvolutionState, int) - Method in class ec.simple.SimpleBreeder

Returns the next subpopulation size.

nextToken() - Method in class ec.util.Lexer

Returns the next token as a string.

nextToken(boolean) - Method in class ec.util.Lexer

Returns the next token as a string.

NO_LOGS - Static variable in class ec.util.Output

When passed to print functions, doesn't do any printing

NO_PROBABILITY - Static variable in class ec.BreedingSource

NO_SIZE_LIMIT - Static variable in class ec.gp.koza.CrossoverPipeline

NO_SIZE_LIMIT - Static variable in class ec.gp.koza.MutationPipeline

NO_TREENUM - Static variable in class ec.gp.GPTree

nodeConstraintRepository - Variable in class ec.gp.GPInitializer

nodeConstraints - Variable in class ec.gp.GPInitializer

nodeEquals(GPNode) - Method in class ec.gp.ADF

Determines node equality by comparing the class, associated tree, and function name of the nodes.

nodeEquals(GPNode) - Method in class ec.gp.ERC

Implement this to do ERC-to-ERC comparisons.

nodeEquals(GPNode) - Method in class ec.gp.GPNode

Returns true if I am the "genetically" identical to this node, and our children arrays are the same length, though we may have different parents and children.

nodeEquals(GPNode) - Method in class ec.gp.push.Terminal

nodeEquivalentTo(GPNode) - Method in class ec.gp.GPNode

Returns true if I and the provided node are the same kind of node -- that is, we could have both been cloned() and reset() from the same prototype node.

nodeHashCode() - Method in class ec.gp.ADF

Returns name.hashCode() + class.hashCode() + associatedTree.

nodeHashCode() - Method in class ec.gp.ERC

Implement this to hash ERCs, along with other nodes, in such a way that two "equal" ERCs will usually hash to the same value.

nodeHashCode() - Method in class ec.gp.GPNode

Returns a hashcode usually associated with all nodes that are equal to you (using nodeEquals(...)).

nodeId - Variable in class ec.neat.NEATNode

Node id for this node.

nodeInPosition(int, int) - Method in class ec.gp.GPNode

Returns the p'th node, constrained by nodesearch, in the subtree for which this GPNode is root.

nodeInPosition(int, GPNodeGatherer) - Method in class ec.gp.GPNode

Returns the p'th node, constrained by nodesearch, in the subtree for which this GPNode is root.

nodePrototype - Variable in class ec.neat.NEATSpecies

The prototypical node for individuals in this species.

nodes - Variable in class ec.gp.GPFunctionSet

The nodes that our GPTree can use: nodes[type][thenodes].

nodes - Variable in class ec.gp.koza.KozaNodeSelector

The number of nodes in the tree, -1 if unknown.

nodes - Variable in class ec.neat.NEATIndividual

All the node of this individual.

nodes - Variable in class ec.neat.NEATNetwork

A list of all nodes for this network.

nodes_h - Variable in class ec.gp.GPFunctionSet

The nodes that our GPTree can use: arrays of nodes hashed by type.

nodesByArity - Variable in class ec.gp.GPFunctionSet

Nodes == a given arity, that is: nodesByArity[type][arity][thenodes]

nodesByName - Variable in class ec.gp.GPFunctionSet

The nodes that our GPTree can use, hashed by name().

NODESEARCH_ALL - Static variable in class ec.gp.GPNode

NODESEARCH_NONTERMINALS - Static variable in class ec.gp.GPNode

NODESEARCH_TERMINALS - Static variable in class ec.gp.GPNode

nodeselect - Variable in class ec.gp.breed.MutateAllNodesPipeline

How the pipeline chooses a subtree to mutate

nodeselect - Variable in class ec.gp.breed.MutateERCPipeline

How the pipeline chooses a subtree to mutate

nodeselect - Variable in class ec.gp.breed.MutateOneNodePipeline

How the pipeline chooses a subtree to mutate

nodeselect - Variable in class ec.gp.koza.MutationPipeline

How the pipeline chooses a subtree to mutate

nodeselect0 - Variable in class ec.gp.breed.InternalCrossoverPipeline

How the pipeline chooses the first subtree

nodeselect1 - Variable in class ec.gp.breed.InternalCrossoverPipeline

How the pipeline chooses the second subtree

nodeselect1 - Variable in class ec.gp.breed.SizeFairCrossoverPipeline

How the pipeline selects a node from individual 1

nodeselect1 - Variable in class ec.gp.koza.CrossoverPipeline

How the pipeline selects a node from individual 1

nodeselect2 - Variable in class ec.gp.breed.SizeFairCrossoverPipeline

How the pipeline selects a node from individual 2

nodeselect2 - Variable in class ec.gp.koza.CrossoverPipeline

How the pipeline selects a node from individual 2

noImprovementStretch - Variable in class ec.eda.amalgam.AMALGAMSpecies

Nonterminal - Class in ec.gp.push

ECJ implements Push's s-expressions as trees of nonterminals and terminals.

Nonterminal() - Constructor for class ec.gp.push.Nonterminal

nonterminalProbabilities(int) - Method in class ec.gp.build.PTCFunctionSet

nonterminalProbabilities(int) - Method in interface ec.gp.build.PTCFunctionSetForm

Returns an organized distribution (see ec.util.RandomChoice) of likelihoods that various nonterminals in the function set will be chosen over other nonterminals with the same return type.

nonterminalProbability - Variable in class ec.gp.koza.KozaNodeSelector

The probability a nonterminal must be chosen.

nonterminals - Variable in class ec.gp.GPFunctionSet

The nonterminals our GPTree can use: nonterminals[type][thenodes].

nonterminals - Variable in class ec.gp.koza.KozaNodeSelector

The number of nonterminals in the tree, -1 if unknown.

nonterminals_h - Variable in class ec.gp.GPFunctionSet

The nonterminals our GPTree can use: arrays of nonterminals hashed by type.

nonterminalSelectionProbabilities(int) - Method in class ec.gp.build.PTCFunctionSet

nonterminalSelectionProbabilities(int) - Method in interface ec.gp.build.PTCFunctionSetForm

Returns an array (by return type) of the probability that PTC1 must pick a nonterminal over a terminal in order to guarantee the expectedTreeSize.

nonterminalsOverArity - Variable in class ec.gp.GPFunctionSet

Nonterminals >= a given arity, that is: nonterminalsOverArity[type][arity][thenodes] -- this will be O(n^2).

nonterminalsUnderArity - Variable in class ec.gp.GPFunctionSet

Nonterminals invalid input: '<'= a given arity, that is: nonterminalsUnderArity[type][arity][thenodes] -- this will be O(n^2).

NOSIZEGIVEN - Static variable in class ec.gp.GPNodeBuilder

Produces a new rooted tree of GPNodes whose root's return type is swap-compatible with type.

NOT_SET - Static variable in class ec.select.BestSelection

NOT_SET - Static variable in class ec.simple.SimpleBreeder

notifyMonitor(Object) - Method in class ec.eval.SlaveMonitor

NSGA2_RANK_PREAMBLE - Static variable in class ec.multiobjective.nsga2.NSGA2MultiObjectiveFitness

NSGA2_SPARSITY_PREAMBLE - Static variable in class ec.multiobjective.nsga2.NSGA2MultiObjectiveFitness

NSGA2Breeder - Class in ec.multiobjective.nsga2

This SimpleBreeder subclass breeds a set of children from the Population, then joins the original Population with the children in a (mu+mu) fashion.

NSGA2Breeder() - Constructor for class ec.multiobjective.nsga2.NSGA2Breeder

NSGA2Breeder.BreedingState - Enum Class in ec.multiobjective.nsga2

We use a state variable to make sure that the nextSubpopulationSize() method is only called at the appropriate time.

NSGA2MultiObjectiveFitness - Class in ec.multiobjective.nsga2

NSGA2MultiObjectiveFitness is a subclass of MultiObjeciveFitness which adds auxiliary fitness measures (sparsity, rank) largely used by MultiObjectiveStatistics.

NSGA2MultiObjectiveFitness() - Constructor for class ec.multiobjective.nsga2.NSGA2MultiObjectiveFitness

NUM_INDIVIDUALS_PREAMBLE - Static variable in class ec.Subpopulation

NUM_SOURCES - Static variable in class ec.breed.BufferedBreedingPipeline

NUM_SOURCES - Static variable in class ec.breed.CheckingPipeline

NUM_SOURCES - Static variable in class ec.breed.FirstCopyPipeline

NUM_SOURCES - Static variable in class ec.breed.GenerationSwitchPipeline

NUM_SOURCES - Static variable in class ec.breed.InitializationPipeline

NUM_SOURCES - Static variable in class ec.breed.RepeatPipeline

NUM_SOURCES - Static variable in class ec.breed.ReproductionPipeline

NUM_SOURCES - Static variable in class ec.breed.UniquePipeline

NUM_SOURCES - Static variable in class ec.gp.breed.InternalCrossoverPipeline

NUM_SOURCES - Static variable in class ec.gp.breed.MutateAllNodesPipeline

NUM_SOURCES - Static variable in class ec.gp.breed.MutateDemotePipeline

NUM_SOURCES - Static variable in class ec.gp.breed.MutateERCPipeline

NUM_SOURCES - Static variable in class ec.gp.breed.MutateOneNodePipeline

NUM_SOURCES - Static variable in class ec.gp.breed.MutatePromotePipeline

NUM_SOURCES - Static variable in class ec.gp.breed.MutateSwapPipeline

NUM_SOURCES - Static variable in class ec.gp.breed.RehangPipeline

NUM_SOURCES - Static variable in class ec.gp.breed.SizeFairCrossoverPipeline

NUM_SOURCES - Static variable in class ec.gp.koza.CrossoverPipeline

NUM_SOURCES - Static variable in class ec.gp.koza.MutationPipeline

NUM_SOURCES - Static variable in class ec.rule.breed.RuleCrossoverPipeline

NUM_SOURCES - Static variable in class ec.rule.breed.RuleMutationPipeline

NUM_SOURCES - Static variable in class ec.vector.breed.GeneDuplicationPipeline

NUM_SOURCES - Static variable in class ec.vector.breed.ListCrossoverPipeline

NUM_SOURCES - Static variable in class ec.vector.breed.VectorCrossoverPipeline

NUM_SOURCES - Static variable in class ec.vector.breed.VectorMutationPipeline

NUM_SUBPOPS_PREAMBLE - Static variable in class ec.Population

numAtomicTypes - Variable in class ec.gp.GPInitializer

numCharts - Variable in class ec.display.StatisticsChartPane

numChildPermutations(GPInitializer, int, GPNode, int, int, int) - Method in class ec.gp.build.Uniform

NUMCHILDPERMUTATIONS - Variable in class ec.gp.build.Uniform

numComponents() - Method in class ec.eval.MasterProblem

numCurrent - Variable in class ec.coevolve.MultiPopCoevolutionaryEvaluator

numDuplicateRetries - Variable in class ec.breed.UniquePipeline

numDuplicateRetries - Variable in class ec.Subpopulation

Do we allow duplicates?

numElites(EvolutionState, int) - Method in class ec.multiobjective.nsga2.NSGA2Breeder

numElites(EvolutionState, int) - Method in class ec.multiobjective.spea2.SPEA2Breeder

Return the number of individuals that we aim to see in the elitist archive.

numElites(EvolutionState, int) - Method in class ec.simple.SimpleBreeder

NUMERIC_CONSTANT - Static variable in class ec.gp.ge.GrammarParser

numEvaluations - Variable in class ec.EvolutionState

The number of evaluations the evolutionary computation system will run until it ends (up to the next generation boundary), or UNDEFINED

numfuncnodes - Variable in class ec.gp.build.Uniform

numGenerations - Variable in class ec.EvolutionState

The number of generations the evolutionary computation system will run until it ends, or UNDEFINED

numGuru - Variable in class ec.coevolve.MultiPopCoevolutionaryEvaluator

numInds - Variable in class ec.breed.ForceBreedingPipeline

numLogs() - Method in class ec.util.Output

Returns the number of logs currently posted.

numNodeConstraints - Variable in class ec.gp.GPInitializer

numNodes(int) - Method in class ec.gp.GPNode

Returns the number of nodes, constrained by nodesearch, in the subtree for which this GPNode is root.

numNodes(GPNodeGatherer) - Method in class ec.gp.GPNode

Returns the number of nodes, constrained by g.test(...) in the subtree for which this GPNode is root.

numObjs - Variable in class ec.util.IntBag

numOfObservations - Variable in class ec.eda.dovs.DOVSFitness

Number of evaluation have been performed on this individual.

numOfObservations() - Method in class ec.eda.dovs.DOVSFitness

Return the number of simulation have done with current individual.

numOfTotalSamples - Variable in class ec.eda.dovs.DOVSSpecies

This is for future using.

numPrev - Variable in class ec.coevolve.MultiPopCoevolutionaryEvaluator

numRead() - Method in class ec.util.DataPipe

Returns the number of elements read from the buffer so far (after the last reset()).

numRuleConstraints - Variable in class ec.rule.RuleInitializer

numRules - Variable in class ec.rule.RuleSet

How many rules are there used in the rules array

numRules() - Method in class ec.rule.RuleSet

How many rules are there used in the rules array

numRuleSetConstraints - Variable in class ec.rule.RuleInitializer

numRulesForReset(RuleSet, EvolutionState, int) - Method in class ec.rule.RuleSetConstraints

Returns a stochastic value picked to specify the number of rules to generate when calling reset() on this kind of Rule.

numSetTypes - Variable in class ec.gp.GPInitializer

numShuffled - Variable in class ec.coevolve.MultiPopCoevolutionaryEvaluator

numSources() - Method in class ec.breed.BufferedBreedingPipeline

numSources() - Method in class ec.breed.CheckingPipeline

numSources() - Method in class ec.breed.FirstCopyPipeline

numSources() - Method in class ec.breed.ForceBreedingPipeline

numSources() - Method in class ec.breed.GenerationSwitchPipeline

numSources() - Method in class ec.breed.InitializationPipeline

numSources() - Method in class ec.breed.MultiBreedingPipeline

numSources() - Method in class ec.breed.RepeatPipeline

numSources() - Method in class ec.breed.ReproductionPipeline

numSources() - Method in class ec.breed.UniquePipeline

numSources() - Method in class ec.BreedingPipeline

Returns the number of sources to this pipeline.

numSources() - Method in class ec.gp.breed.InternalCrossoverPipeline

numSources() - Method in class ec.gp.breed.MutateAllNodesPipeline

numSources() - Method in class ec.gp.breed.MutateDemotePipeline

numSources() - Method in class ec.gp.breed.MutateERCPipeline

numSources() - Method in class ec.gp.breed.MutateOneNodePipeline

numSources() - Method in class ec.gp.breed.MutatePromotePipeline

numSources() - Method in class ec.gp.breed.MutateSwapPipeline

numSources() - Method in class ec.gp.breed.RehangPipeline

numSources() - Method in class ec.gp.breed.SizeFairCrossoverPipeline

numSources() - Method in class ec.gp.koza.CrossoverPipeline

numSources() - Method in class ec.gp.koza.MutationPipeline

numSources() - Method in class ec.rule.breed.RuleCrossoverPipeline

Returns 2

numSources() - Method in class ec.rule.breed.RuleMutationPipeline

Returns 1

numSources() - Method in class ec.vector.breed.GeneDuplicationPipeline

numSources() - Method in class ec.vector.breed.ListCrossoverPipeline

numSources() - Method in class ec.vector.breed.MultipleVectorCrossoverPipeline

Returns the number of parents

numSources() - Method in class ec.vector.breed.VectorCrossoverPipeline

Returns 2

numSources() - Method in class ec.vector.breed.VectorMutationPipeline

Returns 1

numTests - Variable in class ec.simple.SimpleEvaluator

numTreeConstraints - Variable in class ec.gp.GPInitializer

numTreesOfType(GPInitializer, int, int, int) - Method in class ec.gp.build.Uniform

NUMTREESOFTYPE - Variable in class ec.gp.build.Uniform

numTreesRootedByNode(GPInitializer, int, GPNode, int) - Method in class ec.gp.build.Uniform

NUMTREESROOTEDBYNODE - Variable in class ec.gp.build.Uniform

numTries - Variable in class ec.gp.breed.InternalCrossoverPipeline

How many times the pipeline attempts to pick nodes until it gives up.

numTries - Variable in class ec.gp.breed.SizeFairCrossoverPipeline

How many times the pipeline attempts to pick nodes until it gives up.

numTries - Variable in class ec.gp.koza.CrossoverPipeline

How many times the pipeline attempts to pick nodes until it gives up.

numTries - Variable in class ec.vector.breed.ListCrossoverPipeline

numWritten() - Method in class ec.util.DataPipe

Returns the number of elements written to the buffer so far (after the last reset()).

O

objectives - Variable in class ec.multiobjective.MultiObjectiveFitness

The various fitnesses.

objs - Variable in class ec.util.IntBag

obtainERC(EvolutionState, int, int, GPNode, HashMap) - Method in class ec.gp.ge.GESpecies

Loads an ERC from the ERCBank given the value in the genome.

offset - Variable in class ec.exchange.IslandExchange

after how many generations to start sending individuals

offset - Variable in class ec.select.SUSSelection

The floating point value to consider for the next selected individual.

OKAY - Static variable in class ec.exchange.IslandExchange

Okay signal

oldInnovationNum - Variable in class ec.neat.NEATInnovation

If a new node was created, this is the innovation number of the gene's link it is being stuck inside.

oneShot - Static variable in class ec.eval.Slave

onStack - Variable in class ec.gp.ADFStack

onSubstack - Variable in class ec.gp.ADFStack

optimalIndex - Variable in class ec.eda.dovs.DOVSSpecies

This integer indicate the index of optimal individual in the visited array.

organizeDistribution(double[]) - Static method in class ec.util.RandomChoice

Same as organizeDistribution(probabilities, false);

organizeDistribution(double[], boolean) - Static method in class ec.util.RandomChoice

Normalizes probabilities, then converts them into continuing sums.

organizeDistribution(float[]) - Static method in class ec.util.RandomChoice

Same as organizeDistribution(probabilities, false);

organizeDistribution(float[], boolean) - Static method in class ec.util.RandomChoice

Normalizes probabilities, then converts them into continuing sums.

organizeDistribution(Object[], RandomChoiceChooser) - Static method in class ec.util.RandomChoice

Same as organizeDistribution(objs, chooser, false);

organizeDistribution(Object[], RandomChoiceChooserD) - Static method in class ec.util.RandomChoice

Same as organizeDistribution(objs, chooser, false);

organizeDistribution(Object[], RandomChoiceChooserD, boolean) - Static method in class ec.util.RandomChoice

Normalizes the probabilities associated with an array of objects, then converts them into continuing sums.

organizeDistribution(Object[], RandomChoiceChooser, boolean) - Static method in class ec.util.RandomChoice

Normalizes the probabilities associated with an array of objects, then converts them into continuing sums.

outgoingIds - Variable in class ec.exchange.IslandExchange

outNode - Variable in class ec.neat.NEATGene

The actual out node this gene connect to.

outNodeId - Variable in class ec.neat.NEATGene

The id of the in node, this is useful in reading a gene from file, we will use this id to find the actual node after we finish reading the genome file.

outNodeId - Variable in class ec.neat.NEATInnovation

Two nodes specify where the link innovation took place : this is the output node.

outOfBoundsRetries - Variable in class ec.vector.FloatVectorSpecies

The number of times Polynomial Mutation or Gaussian Mutation retry for valid numbers until they get one.

outOfRangeRetryLimitReached(EvolutionState) - Method in class ec.vector.FloatVectorSpecies

output - Variable in class ec.EvolutionState

The output and logging facility (threadsafe).

output - Variable in class ec.util.DataPipe

The output stream

Output - Class in ec.util

Outputs and logs system messages, errors, and other various items printed as a result of a run.

Output(boolean) - Constructor for class ec.util.Output

Creates a new, verbose, empty Output object.

Output(boolean, int) - Constructor for class ec.util.Output

Creates a new, verbose, empty Output object.

OUTPUT - Enum constant in enum class ec.neat.NEATNode.NodePlace

Output.OutputExitException - Exception Class in ec.util

OutputException - Exception Class in ec.util

Thrown whenever a problem occurs when attempting to output to a Log.

OutputException(String) - Constructor for exception class ec.util.OutputException

OutputExitException(String) - Constructor for exception class ec.util.Output.OutputExitException

outputOff() - Method in class ec.neat.NEATNetwork

Check if not all output are active.

outputs - Variable in class ec.neat.NEATNetwork

A list of output nodes for this network.

override - Variable in class ec.neat.NEATNode

Indicates if the value of current node has been override by method other than network's activation.

overrideOutput(double) - Method in class ec.neat.NEATNode

Force an output value on the node.

overrideValue - Variable in class ec.neat.NEATNode

Contains the activation value that will override this node's activation.

owner - Variable in class ec.gp.GPTree

the owner of the GPTree

ownId - Variable in class ec.exchange.IslandExchange

the id of the current island

P

P_A - Static variable in class ec.eda.dovs.DOVSSpecies

p_add - Variable in class ec.rule.RuleSetConstraints

P_ADD_NODE_MAX_GENOME_LENGTH - Static variable in class ec.neat.NEATSpecies

P_ADD_PROB - Static variable in class ec.rule.RuleSetConstraints

P_ADF - Static variable in class ec.gp.ADF

P_ADF - Static variable in class ec.gp.ADFStack

P_ADFARGUMENT - Static variable in class ec.gp.ADFArgument

P_ADFCONTEXT - Static variable in class ec.gp.ADFContext

P_ADFSTACK - Static variable in class ec.gp.ADFStack

P_AGE_SIGNIFICANCE - Static variable in class ec.neat.NEATSpecies

P_ALPHA - Static variable in class ec.eda.pbil.PBILSpecies

P_ALPHA_AMS - Static variable in class ec.eda.amalgam.AMALGAMSpecies

P_ALTERNATIVE_GENERATOR - Static variable in class ec.eda.cmaes.CMAESSpecies

P_ALTERNATIVE_GENERATOR_TRIES - Static variable in class ec.eda.cmaes.CMAESSpecies

P_ALTERNATIVE_TERMINATION - Static variable in class ec.eda.amalgam.AMALGAMSpecies

P_ALTERNATIVE_TERMINATION - Static variable in class ec.eda.cmaes.CMAESSpecies

P_AMALGAM - Static variable in class ec.eda.amalgam.AMALGAMDefaults

P_AMALGAM_SPECIES - Static variable in class ec.eda.amalgam.AMALGAMSpecies

P_ANNEALED - Static variable in class ec.select.AnnealedSelection

Default base

P_ARGUMENT - Static variable in class ec.gp.ADFArgument

P_ASSOCIATEDTREE - Static variable in class ec.gp.ADF

P_ATOMIC - Static variable in class ec.gp.GPInitializer

P_B - Static variable in class ec.eda.dovs.DOVSSpecies

P_B - Static variable in class ec.eda.pbil.PBILSpecies

P_BABIES_STOLEN - Static variable in class ec.neat.NEATSpecies

P_BEST - Static variable in class ec.select.BestSelection

Default base

P_BITVECTORINDIVIDUAL - Static variable in class ec.vector.BitVectorIndividual

P_BOLTZMANN - Static variable in class ec.select.BoltzmannSelection

Default base

P_BREED - Static variable in class ec.breed.BreedDefaults

P_BREED - Static variable in class ec.gp.breed.GPBreedDefaults

P_BREEDER - Static variable in class ec.EvolutionState

P_BREEDTHREADS - Static variable in class ec.Evolve

breedthreads parameter

P_BUCKETS - Static variable in class ec.parsimony.BucketTournamentSelection

The number of buckets

P_BUFFERED - Static variable in class ec.breed.BufferedBreedingPipeline

P_BUFSIZE - Static variable in class ec.breed.BufferedBreedingPipeline

P_BUILD - Static variable in class ec.gp.build.GPBuildDefaults

P_BUILDER - Static variable in class ec.gp.koza.MutationPipeline

P_BYTEVECTORINDIVIDUAL - Static variable in class ec.vector.ByteVectorIndividual

P_C1 - Static variable in class ec.eda.cmaes.CMAESSpecies

P_CACHE - Static variable in class ec.select.AnnealedSelection

P_CACHE - Static variable in class ec.select.TopSelection

P_CC - Static variable in class ec.eda.cmaes.CMAESSpecies

P_CHATTY - Static variable in class ec.exchange.InterPopulationExchange

Whether or not we're chatty

P_CHATTY - Static variable in class ec.exchange.IslandExchange

Whether or not we're chatty

P_CHECK - Static variable in class ec.breed.CheckingPipeline

P_CHECKPOINT - Static variable in class ec.EvolutionState

P_CHECKPOINTDIRECTORY - Static variable in class ec.EvolutionState

P_CHECKPOINTMODULO - Static variable in class ec.EvolutionState

P_CHECKPOINTPREFIX - Static variable in class ec.EvolutionState

P_CHILD - Static variable in class ec.gp.GPNodeConstraints

P_CHILD - Static variable in class ec.Statistics

P_CHUNK_SIZE - Static variable in class ec.simple.SimpleEvaluator

P_CHUNKSIZE - Static variable in class ec.vector.VectorSpecies

P_CLIENT_PORT - Static variable in class ec.exchange.IslandExchange

The client port

P_CLONE_PIPELINE_AND_POPULATION - Static variable in class ec.simple.SimpleBreeder

P_CLONE_PROBLEM - Static variable in class ec.simple.SimpleEvaluator

P_CMAES - Static variable in class ec.eda.cmaes.CMAESDefaults

P_CMAES_SPECIES - Static variable in class ec.eda.cmaes.CMAESSpecies

P_CMU - Static variable in class ec.eda.cmaes.CMAESSpecies

P_COMPAT_THRESH - Static variable in class ec.neat.NEATSpecies

P_COMPETE_STYLE - Static variable in class ec.coevolve.CompetitiveEvaluator

P_COMPRESS - Static variable in class ec.simple.SimpleShortStatistics

P_COMPRESS - Static variable in class ec.simple.SimpleStatistics

compress?

P_COMPRESSED_COMMUNICATION - Static variable in class ec.exchange.IslandExchange

Whether the communication is compressed or not

P_CONSTRAINTS - Static variable in class ec.rule.Rule

P_CONSTRAINTS - Static variable in class ec.rule.RuleSet

The constraint for the rule set

P_CONSTRAINTS_SIZE - Static variable in class ec.eda.dovs.DOVSSpecies

P_CONTEXT - Static variable in class ec.gp.ADFStack

P_COOLING_RATE - Static variable in class ec.select.BoltzmannSelection

Cooling rate parameter

P_COVARIANCE - Static variable in class ec.eda.cmaes.CMAESSpecies

P_Cr - Static variable in class ec.de.DEBreeder

P_CROSSOVER - Static variable in class ec.gp.koza.CrossoverPipeline

P_CROSSOVER - Static variable in class ec.rule.breed.RuleCrossoverPipeline

P_CROSSOVER - Static variable in class ec.vector.breed.MultipleVectorCrossoverPipeline

default base

P_CROSSOVER - Static variable in class ec.vector.breed.VectorCrossoverPipeline

P_CROSSOVER_DISTRIBUTION_INDEX - Static variable in class ec.vector.VectorSpecies

P_CROSSOVERPROB - Static variable in class ec.rule.breed.RuleCrossoverPipeline

P_CROSSOVERPROB - Static variable in class ec.vector.VectorSpecies

P_CROSSOVERTYPE - Static variable in class ec.vector.VectorSpecies

P_CS - Static variable in class ec.eda.cmaes.CMAESSpecies

P_CUTDOWN - Static variable in class ec.select.AnnealedSelection

P_DAMPS - Static variable in class ec.eda.cmaes.CMAESSpecies

P_DATA - Static variable in class ec.gp.GPProblem

p_database - Variable in class ec.eval.MetaProblem

A prototypical parameter database for the underlying (base-level) evolutionary computation system.

P_DEBUG_INFO - Static variable in class ec.eval.MasterProblem

P_DEFAULT_SUBPOP - Static variable in class ec.Population

p_del - Variable in class ec.rule.RuleSetConstraints

P_DEL_PROB - Static variable in class ec.rule.RuleSetConstraints

P_DELIMITER - Static variable in class ec.simple.SimpleShortStatistics

P_DELTA_AMS - Static variable in class ec.eda.amalgam.AMALGAMSpecies

P_DESELECTOR - Static variable in class ec.steadystate.SteadyStateBreeder

P_DEST - Static variable in class ec.exchange.InterPopulationExchange

The prefix for destinations

P_DEST_FOR_SUBPOP - Static variable in class ec.exchange.InterPopulationExchange

The number of destinations from current island

P_DISJOINT_COEFF - Static variable in class ec.neat.NEATSpecies

P_DO_DEPTH - Static variable in class ec.gp.koza.KozaShortStatistics

P_DO_DESCRIPTION - Static variable in class ec.simple.SimpleStatistics

P_DO_FINAL - Static variable in class ec.simple.SimpleStatistics

P_DO_GENERATION - Static variable in class ec.simple.SimpleStatistics

P_DO_HEADER - Static variable in class ec.simple.SimpleShortStatistics

P_DO_HYPERVOLUME - Static variable in class ec.multiobjective.MultiObjectiveStatistics

P_DO_MESSAGE - Static variable in class ec.simple.SimpleStatistics

P_DO_PER_GENERATION_DESCRIPTION - Static variable in class ec.simple.SimpleStatistics

P_DO_SIZE - Static variable in class ec.simple.SimpleShortStatistics

P_DO_SUBPOPS - Static variable in class ec.simple.SimpleShortStatistics

P_DO_TIME - Static variable in class ec.simple.SimpleShortStatistics

P_DOLENGTHFIRST - Static variable in class ec.parsimony.DoubleTournamentSelection

P_DOUBLEVECTORINDIVIDUAL - Static variable in class ec.vector.DoubleVectorIndividual

P_DOVS - Static variable in class ec.eda.dovs.DOVSDefaults

P_DOVS_SPECIES - Static variable in class ec.eda.dovs.DOVSSpecies

P_DROPOFF_AGE - Static variable in class ec.neat.NEATSpecies

P_DUPLICATE_RETRIES - Static variable in class ec.vector.VectorSpecies

P_DUPLICATION - Static variable in class ec.vector.breed.GeneDuplicationPipeline

P_EC - Static variable in class ec.ECDefaults

P_ELITE - Static variable in class ec.simple.SimpleBreeder

P_ELITE_FRAC - Static variable in class ec.simple.SimpleBreeder

P_EMPTY_AT_GEN - Static variable in class ec.steadystate.SteadyStateEvolutionState

P_EQUALSIZE - Static variable in class ec.gp.koza.MutationPipeline

P_ES - Static variable in class ec.es.ESDefaults

P_ESSELECT - Static variable in class ec.es.ESSelection

P_ETA_DEC - Static variable in class ec.eda.amalgam.AMALGAMSpecies

P_ETA_SHIFT - Static variable in class ec.eda.amalgam.AMALGAMSpecies

P_ETA_SIGMA - Static variable in class ec.eda.amalgam.AMALGAMSpecies

P_EVALCOMPRESSION - Static variable in class ec.eval.Slave

P_EVALCOMPRESSION - Static variable in class ec.eval.SlaveMonitor

P_EVALMASTERHOST - Static variable in class ec.eval.Slave

P_EVALMASTERPORT - Static variable in class ec.eval.Slave

P_EVALMASTERPORT - Static variable in class ec.eval.SlaveMonitor

P_EVALNODELAY - Static variable in class ec.eval.Slave

P_EVALNODELAY - Static variable in class ec.eval.SlaveMonitor

P_EVALRECVBUFFER - Static variable in class ec.eval.Slave

P_EVALRECVBUFFER - Static variable in class ec.eval.SlaveMonitor

P_EVALSENDBUFER - Static variable in class ec.eval.Slave

P_EVALSENDBUFER - Static variable in class ec.eval.SlaveMonitor

P_EVALSLAVENAME - Static variable in class ec.eval.Slave

P_EVALTHREADS - Static variable in class ec.Evolve

evalthreads parameter

P_EVALUATIONS - Static variable in class ec.EvolutionState

P_EVALUATOR - Static variable in class ec.EvolutionState

P_EXCESS_COEFF - Static variable in class ec.neat.NEATSpecies

P_EXCHANGER - Static variable in class ec.EvolutionState

P_EXPECTED - Static variable in class ec.gp.build.PTC1

P_EXTRA_BEHAVIOR - Static variable in class ec.Subpopulation

P_F - Static variable in class ec.de.DEBreeder

P_FILE - Static variable in class ec.eval.MetaProblem

P_FILE - Static variable in class ec.gp.ge.GESpecies

P_FILE - Static variable in class ec.Population

P_FILE - Static variable in class ec.Subpopulation

P_FINISHER - Static variable in class ec.EvolutionState

P_FIRST - Static variable in class ec.select.FirstSelection

default base

P_FIRST_COPY - Static variable in class ec.breed.FirstCopyPipeline

P_FITNESS - Static variable in class ec.Fitness

base parameter for defaults

P_FITNESS - Static variable in class ec.Species

P_FITNESSPROPORTIONATE - Static variable in class ec.select.FitProportionateSelection

Default base

P_FLOAT - Static variable in class ec.gp.push.Terminal

P_FloatVectorIndividual - Static variable in class ec.vector.FloatVectorIndividual

P_FNOISE - Static variable in class ec.de.Best1BinDEBreeder

P_FORCE - Static variable in class ec.breed.ForceBreedingPipeline

P_FULL - Static variable in class ec.simple.SimpleShortStatistics

P_FULLBUILDER - Static variable in class ec.gp.koza.FullBuilder

P_FUNC - Static variable in class ec.gp.GPFunctionSet

P_FUNC - Static variable in class ec.gp.push.Terminal

P_FUNCTIONNAME - Static variable in class ec.gp.ADF

P_FUNCTIONNAME - Static variable in class ec.gp.ADFArgument

P_FUNCTIONSET - Static variable in class ec.gp.GPTreeConstraints

P_FUNCTIONSETS - Static variable in class ec.gp.GPInitializer

P_GE - Static variable in class ec.gp.ge.GEDefaults

P_GEN_MAX - Static variable in class ec.breed.GenerationSwitchPipeline

P_GEN_MAX - Static variable in class ec.breed.MultiBreedingPipeline

P_GEN_MAX - Static variable in class ec.breed.UniquePipeline

P_GENE - Static variable in class ec.neat.NEATGene

P_GENE - Static variable in class ec.vector.Gene

P_GENE - Static variable in class ec.vector.GeneVectorSpecies

P_GENERATIONS - Static variable in class ec.EvolutionState

P_GENEVECTORINDIVIDUAL - Static variable in class ec.vector.GeneVectorIndividual

P_GENOMESIZE - Static variable in class ec.vector.VectorSpecies

P_GEOMETRIC_PROBABILITY - Static variable in class ec.vector.VectorSpecies

P_GESPECIES - Static variable in class ec.gp.ge.GESpecies

P_GETS - Static variable in class ec.select.GreedyOverselection

P_GLOBAL_COEFFICIENT - Static variable in class ec.pso.PSOBreeder

P_GP - Static variable in class ec.gp.GPDefaults

P_GPDATA - Static variable in class ec.gp.GPData

P_GPPROBLEM - Static variable in class ec.gp.GPProblem

P_GPSPECIES - Static variable in class ec.gp.ge.GESpecies

P_GPSPECIES - Static variable in class ec.gp.GPSpecies

P_GREEDY - Static variable in class ec.select.GreedyOverselection

P_GROUP_SIZE - Static variable in class ec.coevolve.CompetitiveEvaluator

P_GROWBUILDER - Static variable in class ec.gp.koza.GrowBuilder

P_HALFBUILDER - Static variable in class ec.gp.koza.HalfBuilder

P_HOMOLOGOUS - Static variable in class ec.gp.breed.SizeFairCrossoverPipeline

P_IAMSLAVE - Static variable in class ec.Evaluator

P_INCLUDE_SELF - Static variable in class ec.pso.PSOBreeder

P_IND_COMPETES - Static variable in class ec.spatial.SpatialTournamentSelection

Some models assume an individual is always selected to compete for breeding a child that would take its location in space.

P_INDIVIDUAL - Static variable in class ec.Individual

A reasonable parameter base element for individuals

P_INDIVIDUAL - Static variable in class ec.Species

P_INFORMANT_COEFFICIENT - Static variable in class ec.pso.PSOBreeder

P_INIT - Static variable in class ec.breed.InitializationPipeline

P_INIT - Static variable in class ec.gp.GPTreeConstraints

P_INITIAL_REPETITION - Static variable in class ec.eda.dovs.DOVSSpecies

P_INITIALIZER - Static variable in class ec.EvolutionState

P_INITSCHEME - Static variable in class ec.gp.ge.GESpecies

P_INNOVATION - Static variable in class ec.neat.NEATInnovation

P_INNOVATION - Static variable in class ec.neat.NEATSpecies

P_INNOVATIONNUMBER - Static variable in class ec.EvolutionState

P_INSTRUCTION - Static variable in class ec.gp.push.PushInstruction

P_INSTRUCTION - Static variable in class ec.gp.push.Terminal

P_INTEGER - Static variable in class ec.gp.push.Terminal

P_INTEGERVECTORINDIVIDUAL - Static variable in class ec.vector.IntegerVectorIndividual

P_INTERNALCROSSOVER - Static variable in class ec.gp.breed.InternalCrossoverPipeline

P_INTERSPECIES_MATE_PROB - Static variable in class ec.neat.NEATSpecies

P_IS_SERVER - Static variable in class ec.exchange.IslandExchange

Whether the server is also on this island

P_JOB_SIZE - Static variable in class ec.eval.MasterProblem

P_K - Static variable in class ec.multiobjective.spea2.SPEA2Breeder

P_KILL_PROPORTION - Static variable in class ec.parsimony.TarpeianStatistics

one in n individuals are killed

P_KOZA - Static variable in class ec.gp.koza.GPKozaDefaults

P_KOZAFITNESS - Static variable in class ec.gp.koza.KozaFitness

P_LAMBDA - Static variable in class ec.eda.cmaes.CMAESSpecies

P_LAMBDA - Static variable in class ec.es.MuCommaLambdaBreeder

P_LEXICASESELECT - Static variable in class ec.select.LexicaseSelection

P_LIKELIHOOD - Static variable in class ec.BreedingPipeline

Indicates the probability that the Breeding Pipeline will perform its mutative action instead of just doing reproduction.

P_LINEDISTANCE - Static variable in class ec.vector.VectorSpecies

P_LIST_CROSSOVER - Static variable in class ec.vector.breed.ListCrossoverPipeline

P_LONGVECTORINDIVIDUAL - Static variable in class ec.vector.LongVectorIndividual

P_MASTERPROBLEM - Static variable in class ec.Evaluator

P_MATE_MULTIPOINT_AVG_PROB - Static variable in class ec.neat.NEATSpecies

P_MATE_MULTIPOINT_PROB - Static variable in class ec.neat.NEATSpecies

P_MATE_ONLY_PROB - Static variable in class ec.neat.NEATSpecies

P_MATE_SINGLE_POINT_PROB - Static variable in class ec.neat.NEATSpecies

P_MAX - Static variable in class ec.gp.push.Terminal

P_MAX_CROSSOVER_PERCENT - Static variable in class ec.vector.breed.ListCrossoverPipeline

P_MAX_NETWORK_DEPTH - Static variable in class ec.neat.NEATSpecies

P_MAXDEPTH - Static variable in class ec.gp.breed.InternalCrossoverPipeline

P_MAXDEPTH - Static variable in class ec.gp.breed.MutateDemotePipeline

P_MAXDEPTH - Static variable in class ec.gp.breed.SizeFairCrossoverPipeline

P_MAXDEPTH - Static variable in class ec.gp.build.PTC1

P_MAXDEPTH - Static variable in class ec.gp.build.PTC2

P_MAXDEPTH - Static variable in class ec.gp.koza.CrossoverPipeline

P_MAXDEPTH - Static variable in class ec.gp.koza.KozaBuilder

P_MAXDEPTH - Static variable in class ec.gp.koza.MutationPipeline

P_MAXGENE - Static variable in class ec.vector.FloatVectorSpecies

P_MAXGENE - Static variable in class ec.vector.IntegerVectorSpecies

P_MAXIMIZE - Static variable in class ec.multiobjective.MultiObjectiveFitness

Is higher better?

P_MAXIMUMNUMBEROFCONCURRENTJOBSPERSLAVE - Static variable in class ec.eval.SlaveMonitor

P_MAXOBJECTIVE - Static variable in class ec.multiobjective.MultiObjectiveFitness

parameter for max fitness values

P_MAXSIZE - Static variable in class ec.gp.GPNodeBuilder

P_MAXSIZE - Static variable in class ec.gp.koza.CrossoverPipeline

P_MAXSIZE - Static variable in class ec.gp.koza.MutationPipeline

P_MAXSIZE - Static variable in class ec.rule.RuleSetConstraints

P_MEAN - Static variable in class ec.eda.cmaes.CMAESSpecies

P_MEMBER - Static variable in class ec.gp.GPSetType

P_MERGE - Static variable in class ec.simple.SimpleEvaluator

P_MIN - Static variable in class ec.gp.push.Terminal

P_MIN_CHILD_SIZE - Static variable in class ec.vector.breed.ListCrossoverPipeline

P_MIN_CROSSOVER_PERCENT - Static variable in class ec.vector.breed.ListCrossoverPipeline

P_MINDEPTH - Static variable in class ec.gp.koza.KozaBuilder

P_MINGENE - Static variable in class ec.vector.FloatVectorSpecies

P_MINGENE - Static variable in class ec.vector.IntegerVectorSpecies

P_MINOBJECTIVE - Static variable in class ec.multiobjective.MultiObjectiveFitness

parameter for min fitness values

P_MINSIZE - Static variable in class ec.gp.GPNodeBuilder

P_MINSIZE - Static variable in class ec.rule.RuleSetConstraints

P_MODULO - Static variable in class ec.exchange.InterPopulationExchange

The parameter for the modulo (how many generations should pass between consecutive sendings of individuals

P_MU - Static variable in class ec.eda.cmaes.CMAESSpecies

P_MU - Static variable in class ec.es.MuCommaLambdaBreeder

P_MU_FRACTION - Static variable in class ec.es.MuCommaLambdaBreeder

P_MULTI - Static variable in class ec.multiobjective.MultiObjectiveDefaults

P_MULTIBREED - Static variable in class ec.breed.GenerationSwitchPipeline

P_MULTIBREED - Static variable in class ec.breed.MultiBreedingPipeline

P_MULTISELECT - Static variable in class ec.select.MultiSelection

P_MUT_DIFF_COEFF - Static variable in class ec.neat.NEATSpecies

P_MUTATE_ADD_LINK_PROB - Static variable in class ec.neat.NEATSpecies

P_MUTATE_ADD_NODE_PROB - Static variable in class ec.neat.NEATSpecies

P_MUTATE_GENE_REENABLE_PROB - Static variable in class ec.neat.NEATSpecies

P_MUTATE_LINK_WEIGHT_PROB - Static variable in class ec.neat.NEATSpecies

P_MUTATE_ONLY_PROB - Static variable in class ec.neat.NEATSpecies

P_MUTATE_TOGGLE_ENABLE_PROB - Static variable in class ec.neat.NEATSpecies

P_MUTATEALLNODES - Static variable in class ec.gp.breed.MutateAllNodesPipeline

P_MUTATEDEMOTE - Static variable in class ec.gp.breed.MutateDemotePipeline

P_MUTATEERC - Static variable in class ec.gp.breed.MutateERCPipeline

P_MUTATEONENODE - Static variable in class ec.gp.breed.MutateOneNodePipeline

P_MUTATEPROMOTE - Static variable in class ec.gp.breed.MutatePromotePipeline

P_MUTATESWAP - Static variable in class ec.gp.breed.MutateSwapPipeline

P_MUTATION - Static variable in class ec.gp.koza.MutationPipeline

P_MUTATION - Static variable in class ec.rule.breed.RuleMutationPipeline

P_MUTATION - Static variable in class ec.vector.breed.VectorMutationPipeline

P_MUTATION_BOUNDED - Static variable in class ec.vector.FloatVectorSpecies

P_MUTATION_BOUNDED - Static variable in class ec.vector.IntegerVectorSpecies

P_MUTATION_DISTRIBUTION_INDEX - Static variable in class ec.vector.FloatVectorSpecies

P_MUTATIONPROB - Static variable in class ec.vector.VectorSpecies

P_MUTATIONTYPE - Static variable in class ec.vector.BitVectorSpecies

P_MUTATIONTYPE - Static variable in class ec.vector.FloatVectorSpecies

P_MUTATIONTYPE - Static variable in class ec.vector.IntegerVectorSpecies

P_MUZZLE - Static variable in class ec.eval.MetaProblem

P_MUZZLE - Static variable in class ec.eval.Slave

P_MUZZLE - Static variable in class ec.Statistics

P_N - Static variable in class ec.select.BestSelection

P_N_FRACTION - Static variable in class ec.select.BestSelection

P_N_SIZE - Static variable in class ec.spatial.SpatialTournamentSelection

The size of the neighborhood from where parents are selected.

P_NAME - Static variable in class ec.gp.GPFunctionSet

P_NAME - Static variable in class ec.gp.GPNodeConstraints

P_NAME - Static variable in class ec.gp.GPTreeConstraints

P_NAME - Static variable in class ec.gp.GPType

P_NAME - Static variable in class ec.rule.RuleConstraints

P_NAME - Static variable in class ec.rule.RuleSetConstraints

The size of a byte

P_NEAT - Static variable in class ec.neat.NEATDefaults

P_NEIGHBORHOOD - Static variable in class ec.pso.PSOBreeder

P_NEIGHBORHOOD_SIZE - Static variable in class ec.pso.PSOBreeder

P_NETWORK - Static variable in class ec.neat.NEATNetwork

P_NETWORK - Static variable in class ec.neat.NEATSpecies

P_NEW_LINK_TRIES - Static variable in class ec.neat.NEATSpecies

P_NEW_NODE_TRIES - Static variable in class ec.neat.NEATSpecies

P_NIS_MAX - Static variable in class ec.eda.amalgam.AMALGAMSpecies

P_NODE - Static variable in class ec.gp.GPNode

P_NODE - Static variable in class ec.neat.NEATNode

P_NODE - Static variable in class ec.neat.NEATSpecies

P_NODECONSTRAINTS - Static variable in class ec.gp.GPInitializer

P_NODECONSTRAINTS - Static variable in class ec.gp.GPNode

P_NODESELECTOR - Static variable in class ec.gp.GPBreedingPipeline

Standard parameter for node-selectors associated with a GPBreedingPipeline

P_NODESELECTOR - Static variable in class ec.gp.koza.KozaNodeSelector

P_NONTERMINAL_PROBABILITY - Static variable in class ec.gp.koza.KozaNodeSelector

P_NORMALIZE - Static variable in class ec.multiobjective.spea2.SPEA2Breeder

P_NUM_GURU - Static variable in class ec.coevolve.MultiPopCoevolutionaryEvaluator

P_NUM_IND - Static variable in class ec.coevolve.MultiPopCoevolutionaryEvaluator

P_NUM_INSTRUCTIONS - Static variable in class ec.gp.push.Terminal

P_NUM_PARAMS - Static variable in class ec.eval.MetaProblem

P_NUM_RAND_IND - Static variable in class ec.coevolve.MultiPopCoevolutionaryEvaluator

P_NUM_SEGMENTS - Static variable in class ec.vector.IntegerVectorSpecies

P_NUM_SEGMENTS - Static variable in class ec.vector.VectorSpecies

P_NUM_SHUFFLED - Static variable in class ec.coevolve.MultiPopCoevolutionaryEvaluator

P_NUM_TESTS - Static variable in class ec.simple.SimpleEvaluator

P_NUM_TRIES - Static variable in class ec.gp.breed.InternalCrossoverPipeline

P_NUM_TRIES - Static variable in class ec.gp.breed.MutateDemotePipeline

P_NUM_TRIES - Static variable in class ec.gp.breed.MutatePromotePipeline

P_NUM_TRIES - Static variable in class ec.gp.breed.MutateSwapPipeline

P_NUM_TRIES - Static variable in class ec.gp.breed.RehangPipeline

P_NUM_TRIES - Static variable in class ec.gp.breed.SizeFairCrossoverPipeline

P_NUM_TRIES - Static variable in class ec.gp.koza.CrossoverPipeline

P_NUM_TRIES - Static variable in class ec.gp.koza.MutationPipeline

P_NUM_TRIES - Static variable in class ec.vector.breed.ListCrossoverPipeline

P_NUM_VALS - Static variable in class ec.eval.MetaProblem

P_NUMCHILDREN - Static variable in class ec.Statistics

P_NUMINDS - Static variable in class ec.breed.ForceBreedingPipeline

P_NUMOBJECTIVES - Static variable in class ec.multiobjective.MultiObjectiveFitness

parameter for size of objectives

P_NUMRULESETS - Static variable in class ec.rule.RuleIndividual

P_NUMSELECTS - Static variable in class ec.select.MultiSelection

P_NUMSIZES - Static variable in class ec.gp.GPNodeBuilder

P_NUMSIZES - Static variable in class ec.rule.RuleSetConstraints

P_NUMSOURCES - Static variable in class ec.BreedingPipeline

Standard parameter for number of sources (only used if numSources returns DYNAMIC_SOURCES)

P_NUMTIMES - Static variable in class ec.breed.CheckingPipeline

P_NUMTREES - Static variable in class ec.gp.GPIndividual

P_OFFSET - Static variable in class ec.exchange.InterPopulationExchange

How many generations to pass at the beginning of the evolution before the first emigration from the current subpopulation

P_ONESHOT - Static variable in class ec.eval.Slave

Should slave go into an infinite loop looking for new masters after the master has quit, or not?

P_OUT_OF_BOUNDS_RETRIES - Static variable in class ec.de.DEBreeder

P_OUTOFBOUNDS_RETRIES - Static variable in class ec.vector.FloatVectorSpecies

P_OVER_EVAL - Static variable in class ec.coevolve.CompetitiveEvaluator

P_OWN_ID - Static variable in class ec.exchange.IslandExchange

The id of the island

P_PARAM - Static variable in class ec.eval.MetaProblem

P_PARAMETER_MISSING - Static variable in class ec.eda.amalgam.AMALGAMSpecies

P_PARETO_FRONT_FILE - Static variable in class ec.multiobjective.MultiObjectiveStatistics

front file parameter

P_PARSER - Static variable in class ec.gp.ge.GESpecies

P_PARSER - Static variable in class ec.gp.ge.GrammarParser

P_PASSES - Static variable in class ec.gp.ge.GESpecies

P_PBIL_SPECIES - Static variable in class ec.eda.pbil.PBILSpecies

P_PERSONAL_COEFFICIENT - Static variable in class ec.pso.PSOBreeder

P_PF - Static variable in class ec.de.Rand1EitherOrDEBreeder

P_PICKGROWPROBABILITY - Static variable in class ec.gp.koza.HalfBuilder

P_PICKWORST - Static variable in class ec.parsimony.BucketTournamentSelection

If the worst individual should be picked in the tournament

P_PICKWORST - Static variable in class ec.parsimony.DoubleTournamentSelection

P_PICKWORST - Static variable in class ec.parsimony.RatioBucketTournamentSelection

if the worst individual should be picked in the tournament

P_PICKWORST - Static variable in class ec.select.BestSelection

P_PICKWORST - Static variable in class ec.select.TournamentSelection

P_PICKWORST2 - Static variable in class ec.parsimony.DoubleTournamentSelection

P_PIPE - Static variable in class ec.Species

P_POLYNOMIAL_ALTERNATIVE - Static variable in class ec.vector.FloatVectorSpecies

P_POP - Static variable in class ec.Initializer

parameter for a new population

P_PRINT_STYLE - Static variable in class ec.gp.GPTree

P_PRINTACCESSEDPARAMETERS - Static variable in class ec.Evolve

P_PRINTALLPARAMETERS - Static variable in class ec.Evolve

P_PRINTUNACCESSEDPARAMETERS - Static variable in class ec.Evolve

P_PRINTUNUSEDPARAMETERS - Static variable in class ec.Evolve

P_PRINTUSEDPARAMETERS - Static variable in class ec.Evolve

P_PROB - Static variable in class ec.BreedingSource

P_PROBABILITY - Static variable in class ec.gp.GPNodeConstraints

P_PROBABILITY - Static variable in class ec.parsimony.ProportionalTournamentSelection

The parameter for the probability of having the tournament based on fitness

p_problem - Variable in class ec.Evaluator

P_PROBLEM - Static variable in class ec.Evaluator

P_PROBLEM - Static variable in class ec.gp.ge.GEProblem

P_PROBLEM - Static variable in class ec.Problem

P_PROPORTIONAL_TOURNAMENT - Static variable in class ec.parsimony.ProportionalTournamentSelection

default base

P_PTC1 - Static variable in class ec.gp.build.PTC1

P_PTC2 - Static variable in class ec.gp.build.PTC2

P_PUSH - Static variable in class ec.gp.push.PushDefaults

P_PUSHBUILDER - Static variable in class ec.gp.push.PushBuilder

P_QUITONRUNCOMPLETE - Static variable in class ec.EvolutionState

P_RAND_ORDER_PROB - Static variable in class ec.rule.RuleSetConstraints

P_RANDOM - Static variable in class ec.select.RandomSelection

default base

P_RANDOM_WALK_PROBABILITY - Static variable in class ec.vector.FloatVectorSpecies

P_RANDOM_WALK_PROBABILITY - Static variable in class ec.vector.IntegerVectorSpecies

P_RANDOMBRANCH - Static variable in class ec.gp.build.RandomBranch

P_RANDOMBRANCH - Static variable in class ec.gp.build.RandTree

p_randorder - Variable in class ec.rule.RuleSetConstraints

P_RATIO - Static variable in class ec.parsimony.RatioBucketTournamentSelection

The value of RATIO: each step, the worse 1/RATIO individuals are assigned the same fitness

P_RATIO_BUCKET_TOURNAMENT - Static variable in class ec.parsimony.RatioBucketTournamentSelection

default base

P_RECUR_ONLY_PROB - Static variable in class ec.neat.NEATSpecies

P_REEVALUATE_ELITES - Static variable in class ec.simple.SimpleBreeder

P_REEVALUATE_INDIVIDUALS - Static variable in class ec.eval.MetaProblem

P_REFERENCE_POINT - Static variable in class ec.multiobjective.HypervolumeStatistics

P_REFERENCE_POINT - Static variable in class ec.multiobjective.MultiObjectiveStatistics

P_REHANG - Static variable in class ec.gp.breed.RehangPipeline

P_REPEAT - Static variable in class ec.breed.RepeatPipeline

P_REPLACEMENT_PROBABILITY - Static variable in class ec.steadystate.SteadyStateEvolutionState

P_REPRODUCE - Static variable in class ec.breed.ReproductionPipeline

P_RESCHEDULELOSTJOBS - Static variable in class ec.eval.SlaveMonitor

P_RESETMAXSIZE - Static variable in class ec.rule.RuleSetConstraints

P_RESETMINSIZE - Static variable in class ec.rule.RuleSetConstraints

P_RESETSIZE - Static variable in class ec.rule.RuleSetConstraints

P_RESTART_TYPE - Static variable in class ec.evolve.RandomRestarts

P_RESTART_UPPERBOUND - Static variable in class ec.evolve.RandomRestarts

P_RETRIES - Static variable in class ec.breed.UniquePipeline

P_RETRIES - Static variable in class ec.Subpopulation

P_RETURNINDIVIDUALS - Static variable in class ec.eval.Slave

P_RETURNS - Static variable in class ec.gp.GPNodeConstraints

P_RETURNS - Static variable in class ec.gp.GPTreeConstraints

P_ROOT_PROBABILITY - Static variable in class ec.gp.koza.KozaNodeSelector

P_RULE - Static variable in class ec.rule.Rule

P_RULE - Static variable in class ec.rule.RuleDefaults

P_RULE - Static variable in class ec.rule.RuleSetConstraints

num rulesets

P_RULECONSTRAINTS - Static variable in class ec.rule.RuleInitializer

P_RULESET - Static variable in class ec.rule.RuleIndividual

P_RULESET - Static variable in class ec.rule.RuleSet

P_RULESETCONSTRAINTS - Static variable in class ec.rule.RuleInitializer

P_RULESPECIES - Static variable in class ec.rule.RuleSpecies

P_RUNEVOLVE - Static variable in class ec.eval.Slave

Should slave run its own evolutionary process?

P_RUNS - Static variable in class ec.eval.MetaProblem

P_RUNTIME - Static variable in class ec.eval.Slave

Time to run evolution on the slaves in seconds

P_SCALED_FITNESS_FLOOR - Static variable in class ec.select.SigmaScalingSelection

Scaled fitness floor

P_SEED - Static variable in class ec.Evolve

seed parameter

P_SEGMENT - Static variable in class ec.vector.IntegerVectorSpecies

P_SEGMENT - Static variable in class ec.vector.VectorSpecies

P_SEGMENT_END - Static variable in class ec.vector.IntegerVectorSpecies

P_SEGMENT_END - Static variable in class ec.vector.VectorSpecies

P_SEGMENT_START - Static variable in class ec.vector.IntegerVectorSpecies

P_SEGMENT_START - Static variable in class ec.vector.VectorSpecies

P_SEGMENT_TYPE - Static variable in class ec.vector.IntegerVectorSpecies

P_SEGMENT_TYPE - Static variable in class ec.vector.VectorSpecies

P_SELECT - Static variable in class ec.select.MultiSelection

P_SELECT - Static variable in class ec.select.SelectDefaults

P_SELECT_METHOD - Static variable in class ec.exchange.InterPopulationExchange

The selection method for sending individuals to other islands

P_SELECT_METHOD - Static variable in class ec.exchange.IslandExchange

The selection method for sending individuals to other islands

P_SELECT_TO_DIE_METHOD - Static variable in class ec.exchange.InterPopulationExchange

The selection method for deciding individuals to be replaced by immigrants

P_SELECT_TO_DIE_METHOD - Static variable in class ec.exchange.IslandExchange

The selection method for deciding individuals to be replaced by immigrants

P_SELECTION_METHOD_CURRENT - Static variable in class ec.coevolve.MultiPopCoevolutionaryEvaluator

P_SELECTION_METHOD_PREV - Static variable in class ec.coevolve.MultiPopCoevolutionaryEvaluator

P_SEQUENTIAL_BREEDING - Static variable in class ec.simple.SimpleBreeder

P_SERVER_ADDRESS - Static variable in class ec.exchange.IslandExchange

The server address

P_SERVER_PORT - Static variable in class ec.exchange.IslandExchange

The server port

P_SET - Static variable in class ec.gp.GPInitializer

P_SET_RANDOM - Static variable in class ec.eval.MetaProblem

P_SHORTVECTORINDIVIDUAL - Static variable in class ec.vector.ShortVectorIndividual

P_SHUFFLE - Static variable in class ec.select.SUSSelection

P_SIGMA - Static variable in class ec.eda.cmaes.CMAESSpecies

P_SIGMA_SCALING - Static variable in class ec.select.SigmaScalingSelection

Default base

P_SILENT - Static variable in class ec.eval.Slave

P_SILENT - Static variable in class ec.Evolve

Should we muzzle stdout and stderr?

P_SILENT - Static variable in class ec.Statistics

P_SILENT_FILE - Static variable in class ec.Statistics

P_SILENT_FRONT_FILE - Static variable in class ec.multiobjective.MultiObjectiveStatistics

P_SILENT_PRINT - Static variable in class ec.Statistics

P_SIMPLE - Static variable in class ec.simple.SimpleDefaults

P_SIZE - Static variable in class ec.exchange.InterPopulationExchange

The number of emigrants to be sent

P_SIZE - Static variable in class ec.gp.GPFunctionSet

P_SIZE - Static variable in class ec.gp.GPInitializer

P_SIZE - Static variable in class ec.gp.GPNodeBuilder

P_SIZE - Static variable in class ec.gp.GPNodeConstraints

P_SIZE - Static variable in class ec.gp.GPSetType

P_SIZE - Static variable in class ec.gp.GPTreeConstraints

P_SIZE - Static variable in class ec.parsimony.BucketTournamentSelection

Tournament size parameter

P_SIZE - Static variable in class ec.parsimony.DoubleTournamentSelection

size parameter

P_SIZE - Static variable in class ec.parsimony.RatioBucketTournamentSelection

size parameter

P_SIZE - Static variable in class ec.Population

P_SIZE - Static variable in class ec.rule.RuleInitializer

P_SIZE - Static variable in class ec.select.BestSelection

P_SIZE - Static variable in class ec.select.TournamentSelection

size parameter

P_SIZE2 - Static variable in class ec.parsimony.DoubleTournamentSelection

P_SIZEFAIR - Static variable in class ec.gp.breed.SizeFairCrossoverPipeline

P_SOURCE - Static variable in class ec.BreedingPipeline

Standard parameter for individual-selectors associated with a BreedingPipeline

P_SPATIAL - Static variable in class ec.spatial.SpatialDefaults

P_SPECIES - Static variable in class ec.neat.NEATSpecies

P_SPECIES - Static variable in class ec.Subpopulation

P_STACK - Static variable in class ec.gp.GPProblem

P_START - Static variable in class ec.evolve.RandomRestarts

P_STARTING_TEMPERATURE - Static variable in class ec.select.BoltzmannSelection

Starting temperature parameter

P_STATE - Static variable in class ec.Evolve

state parameter

P_STATISTICS - Static variable in class ec.EvolutionState

P_STATISTICS_FILE - Static variable in class ec.simple.SimpleShortStatistics

P_STATISTICS_FILE - Static variable in class ec.simple.SimpleStatistics

log file parameter

P_STATISTICS_MODULUS - Static variable in class ec.simple.SimpleShortStatistics

P_STDEV - Static variable in class ec.vector.FloatVectorSpecies

P_STEADYSTATE - Static variable in class ec.steadystate.SteadyStateDefaults

P_STOCHASTIC - Static variable in class ec.eda.dovs.DOVSSpecies

P_STUB - Static variable in class ec.breed.StubPipeline

P_STUB_PIPELINE - Static variable in class ec.breed.StubPipeline

P_SUBPOP - Static variable in class ec.coevolve.MultiPopCoevolutionaryEvaluator

P_SUBPOP - Static variable in class ec.exchange.InterPopulationExchange

The subpopulation delimiter

P_SUBPOP - Static variable in class ec.Population

P_SUBPOPSIZE - Static variable in class ec.Subpopulation

P_SUBPOPULATION - Static variable in class ec.Subpopulation

P_SUBSPECIES - Static variable in class ec.neat.NEATSpecies

P_SUBSPECIES - Static variable in class ec.neat.NEATSubspecies

P_SURVIVIAL_THRESH - Static variable in class ec.neat.NEATSpecies

P_SUS - Static variable in class ec.select.SUSSelection

Default base

P_SWITCHAT - Static variable in class ec.breed.GenerationSwitchPipeline

P_TAU - Static variable in class ec.eda.amalgam.AMALGAMSpecies

P_TEMPERATURE - Static variable in class ec.select.AnnealedSelection

P_TERMINAL_PROBABILITY - Static variable in class ec.gp.koza.KozaNodeSelector

P_THETA_SDR - Static variable in class ec.eda.amalgam.AMALGAMSpecies

P_TITLE - Static variable in class ec.display.chart.ChartableStatistics

P_TOP - Static variable in class ec.select.GreedyOverselection

P_TOP - Static variable in class ec.select.TopSelection

Default base

P_TOROIDAL - Static variable in class ec.spatial.Spatial1DSubpopulation

This parameter stipulates whether the world is toroidal or not.

P_TOSS - Static variable in class ec.gp.breed.SizeFairCrossoverPipeline

P_TOSS - Static variable in class ec.gp.koza.CrossoverPipeline

P_TOSS - Static variable in class ec.rule.breed.RuleCrossoverPipeline

P_TOSS - Static variable in class ec.vector.breed.ListCrossoverPipeline

P_TOSS - Static variable in class ec.vector.breed.VectorCrossoverPipeline

P_TOURNAMENT - Static variable in class ec.parsimony.BucketTournamentSelection

Default base

P_TOURNAMENT - Static variable in class ec.parsimony.DoubleTournamentSelection

default base

P_TOURNAMENT - Static variable in class ec.parsimony.LexicographicTournamentSelection

default base

P_TOURNAMENT - Static variable in class ec.select.TournamentSelection

default base

P_TREE - Static variable in class ec.gp.GPBreedingPipeline

Standard parameter for tree fixing

P_TREE - Static variable in class ec.gp.GPIndividual

P_TREE - Static variable in class ec.gp.GPTree

P_TREECONSTRAINTS - Static variable in class ec.gp.GPInitializer

P_TREECONSTRAINTS - Static variable in class ec.gp.GPTree

P_TRUEDISTRIBUTION - Static variable in class ec.gp.build.Uniform

P_TYPE - Static variable in class ec.eval.MetaProblem

P_TYPE - Static variable in class ec.gp.GPInitializer

P_TYPE - Static variable in class ec.spatial.SpatialTournamentSelection

Selection procedure.

P_UNIFORM - Static variable in class ec.gp.build.Uniform

P_UNIFORM_MAX - Static variable in class ec.vector.VectorSpecies

P_UNIFORM_MIN - Static variable in class ec.vector.VectorSpecies

P_UNIQUE - Static variable in class ec.breed.UniquePipeline

P_USEC - Static variable in class ec.gp.GPTree

P_USEGRAPHVIZ - Static variable in class ec.gp.GPTree

P_USELATEX - Static variable in class ec.gp.GPTree

P_USEOPS - Static variable in class ec.gp.GPTree

P_USEVARS - Static variable in class ec.gp.GPTree

P_VAL - Static variable in class ec.eval.MetaProblem

P_VARIANCE_TOLERANCE - Static variable in class ec.eda.amalgam.AMALGAMSpecies

P_VECTOR - Static variable in class ec.vector.VectorDefaults

P_VECTORSPECIES - Static variable in class ec.vector.VectorSpecies

P_VELOCITY_COEFFICIENT - Static variable in class ec.pso.PSOBreeder

P_WARM_UP - Static variable in class ec.eda.dovs.DOVSSpecies

P_WEIGHT_MUT_POWER - Static variable in class ec.neat.NEATSpecies

P_WEIGHTS - Static variable in class ec.eda.cmaes.CMAESSpecies

P_XAXIS - Static variable in class ec.display.chart.ChartableStatistics

p_y - Variable in class ec.gp.build.PTCFunctionSet

cache of nonterminal selection probabilities -- dense array [size-1][type].

P_YAXIS - Static variable in class ec.display.chart.ChartableStatistics

Pair() - Constructor for class ec.eda.dovs.CornerMap.Pair

param - Variable in class ec.util.Parameter

ParamClassLoadException - Exception Class in ec.util

This exception is thrown by the Parameter Database when it fails to locate and load a class specified by a given parameter as requested.

ParamClassLoadException(String) - Constructor for exception class ec.util.ParamClassLoadException

Parameter - Class in ec.util

A Parameter is an object which the ParameterDatabase class uses as a key to associate with strings, forming a key-value pair.

Parameter(String) - Constructor for class ec.util.Parameter

Creates a new parameter from the single path item in s.

Parameter(String[]) - Constructor for class ec.util.Parameter

Creates a new parameter by joining the path items in s into a single path.

Parameter(String, String[]) - Constructor for class ec.util.Parameter

Creates a new parameter from the path item in s, plus the path items in s2.

ParameterDatabase - Class in ec.util

This extension of the Properties class allows you to set, get, and delete Parameters in a hierarchical tree-like database.

ParameterDatabase() - Constructor for class ec.util.ParameterDatabase

Creates an empty parameter database.

ParameterDatabase(File) - Constructor for class ec.util.ParameterDatabase

Creates a new parameter database tree from a given database file and its parent files.

ParameterDatabase(File, String[]) - Constructor for class ec.util.ParameterDatabase

Creates a new parameter database from a given database file and argv list.

ParameterDatabase(InputStream) - Constructor for class ec.util.ParameterDatabase

Creates a new parameter database loaded from the given stream.

ParameterDatabase(String, Class) - Constructor for class ec.util.ParameterDatabase

Creates a new parameter database loaded from a parameter file located relative to a class file, wherever the class file may be (such as in a jar).

ParameterDatabase(String, Class, String[]) - Constructor for class ec.util.ParameterDatabase

Creates a new parameter database from a given database file and argv list.

ParameterDatabase(Dictionary) - Constructor for class ec.util.ParameterDatabase

Creates a new parameter database from the given Dictionary.

ParameterDatabaseEvent - Class in ec.util

ParameterDatabaseEvent(Object, Parameter, String, int) - Constructor for class ec.util.ParameterDatabaseEvent

For ParameterDatabase events.

ParameterDatabaseTreeModel - Class in ec.util

ParameterDatabaseTreeModel(TreeNode) - Constructor for class ec.util.ParameterDatabaseTreeModel

ParameterDatabaseTreeModel(TreeNode, boolean) - Constructor for class ec.util.ParameterDatabaseTreeModel

parameters - Variable in class ec.EvolutionState

The parameter database (threadsafe).

ParametersPanel - Class in ec.display

ParametersPanel(Console) - Constructor for class ec.display.ParametersPanel

This is the default constructor

ParameterValue - Class in ec.display

ParameterValue(String) - Constructor for class ec.display.ParameterValue

parent - Variable in class ec.gp.GPNode

The GPNode's parent.

parentPopulation - Variable in class ec.es.MuCommaLambdaBreeder

parents - Variable in class ec.breed.RepeatPipeline

parents - Variable in class ec.gp.breed.SizeFairCrossoverPipeline

Temporary holding place for parents

parents - Variable in class ec.gp.koza.CrossoverPipeline

Temporary holding place for parents

parents - Variable in class ec.vector.breed.ListCrossoverPipeline

parentType(GPInitializer) - Method in class ec.gp.GPNode

Returns the argument type of the slot that I fit into in my parent.

paretoDominates(MultiObjectiveFitness) - Method in class ec.multiobjective.MultiObjectiveFitness

Returns true if I'm better than _fitness.

parseGenotype(EvolutionState, LineNumberReader) - Method in class ec.gp.GPIndividual

parseGenotype(EvolutionState, LineNumberReader) - Method in class ec.Individual

This method is used only by the default version of readIndividual(state,reader), and it is intended to be overridden to parse in that part of the individual that was outputted in the genotypeToString() method.

parseGenotype(EvolutionState, LineNumberReader) - Method in class ec.neat.NEATIndividual

This method is used to read a gene in start genome from file.

parseGenotype(EvolutionState, LineNumberReader) - Method in class ec.rule.RuleIndividual

Overridden for the RuleIndividual genotype.

parseGenotype(EvolutionState, LineNumberReader) - Method in class ec.vector.BitVectorIndividual

parseGenotype(EvolutionState, LineNumberReader) - Method in class ec.vector.ByteVectorIndividual

parseGenotype(EvolutionState, LineNumberReader) - Method in class ec.vector.DoubleVectorIndividual

parseGenotype(EvolutionState, LineNumberReader) - Method in class ec.vector.FloatVectorIndividual

parseGenotype(EvolutionState, LineNumberReader) - Method in class ec.vector.GeneVectorIndividual

parseGenotype(EvolutionState, LineNumberReader) - Method in class ec.vector.IntegerVectorIndividual

parseGenotype(EvolutionState, LineNumberReader) - Method in class ec.vector.LongVectorIndividual

parseGenotype(EvolutionState, LineNumberReader) - Method in class ec.vector.ShortVectorIndividual

parseNodes(EvolutionState, LineNumberReader) - Method in class ec.neat.NEATIndividual

Create the nodes from the reader, and calls readNode method on each node.

parser_prototype - Variable in class ec.gp.ge.GESpecies

The prototypical parser used to parse the grammars.

parseRules(EvolutionState, BufferedReader, GPFunctionSet) - Method in class ec.gp.ge.GrammarParser

Parses the rules from a grammar and returns the resulting GrammarRuleNode root.

parseSexp(ArrayList, GrammarParser) - Method in class ec.gp.ge.GESpecies

The LL(1) parsing algorithm to parse the lisp tree, the lisp tree is actually fed as a flattened list, the parsing code uses the "exact" (and as-is) procedure described in the dragon book.

Particle - Class in ec.pso

Particle is a DoubleVectorIndividual with additional statistical information necessary to perform Particle Swarm Optimization.

Particle() - Constructor for class ec.pso.Particle

partitionIntoParetoFront(ArrayList<Individual>, ArrayList<Individual>, ArrayList<Individual>) - Static method in class ec.multiobjective.MultiObjectiveFitness

Divides an array of Individuals into the Pareto front and the "nonFront" (everyone else).

partitionIntoRanks(ArrayList<Individual>) - Static method in class ec.multiobjective.MultiObjectiveFitness

Divides inds into pareto front ranks (each an ArrayList), and returns them, in order, stored in an ArrayList.

passes - Variable in class ec.gp.ge.GESpecies

The number of passes permitted through the genome if we're wrapping.

pathLength(int) - Method in class ec.gp.GPNode

Returns the path length of the tree, which is the sum of all paths from all nodes to the root.

PBILBreeder - Class in ec.eda.pbil

PBILBreeder is a Breeder which overrides the breedPopulation method to first update PBIL's internal distribution, then replace all the individuals in the population with new samples generated from the distribution.

PBILBreeder() - Constructor for class ec.eda.pbil.PBILBreeder

PBILSpecies - Class in ec.eda.pbil

PBILSpecies is an IntegerVectorSpecies which implements a faithful version of the PBIL algorithm.

PBILSpecies() - Constructor for class ec.eda.pbil.PBILSpecies

pc - Variable in class ec.eda.cmaes.CMAESSpecies

The p_c evolution path vector.

pdf - Variable in class ec.display.chart.ChartableStatistics

PDF - Static variable in class ec.display.chart.ChartableStatistics

performCoevolutionaryEvaluation(EvolutionState, Population, GroupedProblemForm) - Method in class ec.coevolve.MultiPopCoevolutionaryEvaluator

personalBestFitness - Variable in class ec.pso.Particle

personalBestGenome - Variable in class ec.pso.Particle

personalCoeff - Variable in class ec.pso.PSOBreeder

PF - Variable in class ec.de.Rand1EitherOrDEBreeder

pickFromDistribution(double[], double) - Static method in class ec.util.RandomChoice

Picks a random item from an array of probabilities, normalized and summed as follows: For example, if four probabilities are {0.3, 0.2, 0.1, 0.4}, then they should get normalized and summed by the outside owners as: {0.3, 0.5, 0.6, 1.0}.

pickFromDistribution(double[], double, int) - Static method in class ec.util.RandomChoice

Picks a random item from an array of probabilities, normalized and summed as follows: For example, if four probabilities are {0.3, 0.2, 0.1, 0.4}, then they should get normalized and summed by the outside owners as: {0.3, 0.5, 0.6, 1.0}.

pickFromDistribution(float[], float) - Static method in class ec.util.RandomChoice

Picks a random item from an array of probabilities, normalized and summed as follows: For example, if four probabilities are {0.3, 0.2, 0.1, 0.4}, then they should get normalized and summed by the outside owners as: {0.3, 0.5, 0.6, 1.0}.

pickFromDistribution(float[], float, int) - Static method in class ec.util.RandomChoice

Picks a random item from an array of probabilities, normalized and summed as follows: For example, if four probabilities are {0.3, 0.2, 0.1, 0.4}, then they should get normalized and summed by the outside owners as: {0.3, 0.5, 0.6, 1.0}.

pickFromDistribution(Object[], RandomChoiceChooserD, double) - Static method in class ec.util.RandomChoice

Picks a random item from an array of objects, each with an associated probability that is accessed by taking an object and passing it to chooser.getProbability(obj).

pickFromDistribution(Object[], RandomChoiceChooserD, double, int) - Static method in class ec.util.RandomChoice

Picks a random item from an array of objects, each with an associated probability that is accessed by taking an object and passing it to chooser.getProbability(obj).

pickFromDistribution(Object[], RandomChoiceChooser, float) - Static method in class ec.util.RandomChoice

Picks a random item from an array of objects, each with an associated probability that is accessed by taking an object and passing it to chooser.getProbability(obj).

pickFromDistribution(Object[], RandomChoiceChooser, float, int) - Static method in class ec.util.RandomChoice

Picks a random item from an array of objects, each with an associated probability that is accessed by taking an object and passing it to chooser.getProbability(obj).

pickGrowProbability - Variable in class ec.gp.koza.HalfBuilder

The likelihood of using GROW over FULL.

pickNode(EvolutionState, int, int, GPIndividual, GPTree) - Method in interface ec.gp.GPNodeSelector

Picks a node at random from tree and returns it.

pickNode(EvolutionState, int, int, GPIndividual, GPTree) - Method in class ec.gp.koza.KozaNodeSelector

pickRandom(BreedingSource[], double) - Static method in class ec.BreedingSource

Picks a random source from an array of sources, with their probabilities normalized and summed as follows: For example, if four breeding source probabilities are {0.3, 0.2, 0.1, 0.4}, then they should get normalized and summed by the outside owners as: {0.3, 0.5, 0.6, 1.0}.

pickSize(EvolutionState, int) - Method in class ec.gp.GPNodeBuilder

Assuming that either minSize and maxSize, or sizeDistribution, is defined, picks a random size from minSize...maxSize inclusive, or randomly from sizeDistribution.

pickSize(EvolutionState, int) - Method in class ec.rule.RuleSetConstraints

Assuming that either resetMinSize and resetMaxSize, or sizeDistribution, is defined, picks a random size from resetMinSize...resetMaxSize inclusive, or randomly from sizeDistribution.

pickSize(EvolutionState, int, int, int) - Method in class ec.gp.build.Uniform

pickWorst - Variable in class ec.parsimony.BucketTournamentSelection

Do we pick the worst instead of the best?

pickWorst - Variable in class ec.parsimony.DoubleTournamentSelection

Do we pick the worst instead of the best?

pickWorst - Variable in class ec.parsimony.RatioBucketTournamentSelection

Do we pick the worst instead of the best?

pickWorst - Variable in class ec.select.BestSelection

Do we pick the worst instead of the best?

pickWorst - Variable in class ec.select.TournamentSelection

Do we pick the worst instead of the best?

pickWorst2 - Variable in class ec.parsimony.DoubleTournamentSelection

PieChartStatistics - Class in ec.display.chart

PieChartStatistics() - Constructor for class ec.display.chart.PieChartStatistics

PIPE - Static variable in class ec.gp.ge.GrammarParser

pipe_prototype - Variable in class ec.Species

The prototypical breeding pipeline for this species.

polynomialIsAlternative - Variable in class ec.vector.FloatVectorSpecies

Whether the Polynomial Mutation method is the "alternative" method, per gene.

polynomialIsAlternative(int) - Method in class ec.vector.FloatVectorSpecies

polynomialMutate(EvolutionState, MersenneTwisterFast, double, boolean, boolean) - Method in class ec.vector.DoubleVectorIndividual

This function is broken out to keep it identical to NSGA-II's mutation.c code.

polynomialMutate(EvolutionState, MersenneTwisterFast, float, boolean, boolean) - Method in class ec.vector.FloatVectorIndividual

This function is broken out to keep it identical to NSGA-II's mutation.c code.

pool - Static variable in class ec.eval.Slave

pool - Variable in class ec.simple.SimpleBreeder

pool - Variable in class ec.simple.SimpleEvaluator

pop() - Method in class ec.util.IntBag

Returns 0 if the IntBag is empty, else removes and returns the topmost int.

pop() - Method in class ec.util.Parameter

Returns a new parameter with one path item popped off the end.

pop(int) - Method in class ec.gp.ADFStack

Pops off n items from the stack, if possible.

popChampion - Variable in class ec.neat.NEATIndividual

Marks the best individual in current generation of the population.

popChampionChild - Variable in class ec.neat.NEATIndividual

Marks the duplicate child of a champion (for tracking purposes).

popn(int) - Method in class ec.util.Parameter

Returns a new parameter with n path items popped off the end.

populate(EvolutionState, int) - Method in class ec.Population

Populates the population with new random individuals.

populate(EvolutionState, int) - Method in class ec.Subpopulation

populatePredictiveParseTable(GrammarNode) - Method in class ec.gp.ge.GrammarParser

Now populate the predictive-parse table, this procedure reads hash-maps/tables for the grammar-rule indices, PREDICT-SETs etc, and assigns the corresponding values in the predictive-parse table.

population - Variable in class ec.EvolutionState

The current population.

Population - Class in ec

A Population is the repository for all the Individuals being bred or evaluated in the evolutionary run at a given time.

Population() - Constructor for class ec.Population

populationStagnation(EvolutionState, int, ArrayList<NEATSubspecies>) - Method in class ec.neat.NEATSpecies

Determine if the whole subpopulation get into stagnation.

portrayIndividual(EvolutionState, Individual) - Method in class ec.display.portrayal.IndividualPortrayal

portrayIndividual(EvolutionState, Individual) - Method in class ec.display.portrayal.SimpleIndividualPortrayal

pos - Variable in class ec.util.DecodeReturn

The DecodeReturn new position in the string.

possiblyRestoreFromCheckpoint(String[]) - Static method in class ec.Evolve

Restores an EvolutionState from checkpoint if "-checkpoint FILENAME" is in the command-line arguments.

postAnnouncements - Variable in class ec.util.Log

Should the log post announcements?

postBreedingExchangePopulation(EvolutionState) - Method in class ec.exchange.InterPopulationExchange

postBreedingExchangePopulation(EvolutionState) - Method in class ec.exchange.IslandExchange

postBreedingExchangePopulation(EvolutionState) - Method in class ec.Exchanger

Performs exchanges after the population has been bred but before it has been evaluated, once every generation (or pseudogeneration).

postBreedingExchangePopulation(EvolutionState) - Method in class ec.simple.SimpleExchanger

Simply returns state.population.

postBreedingStatistics(EvolutionState) - Method in class ec.simple.SimpleShortStatistics

postBreedingStatistics(EvolutionState) - Method in class ec.Statistics

GENERATIONAL: Called immediately after breeding occurs.

postCheckpointStatistics(EvolutionState) - Method in class ec.Statistics

Called immediately after checkpointing occurs.

postCheckpointStatistics(EvolutionState) - Method in interface ec.steadystate.SteadyStateStatisticsForm

Called immediately after checkpointing occurs.

postEvaluationGlobalUpdate(EvolutionState) - Method in class ec.Evaluator

Called to update some state by considering the current population.

postEvaluationLocalUpdate(EvolutionState, Individual, int) - Method in class ec.Evaluator

Called to update some state by considering a single Individual.

postEvaluationStatistics(EvolutionState) - Method in class ec.multiobjective.HypervolumeStatistics

postEvaluationStatistics(EvolutionState) - Method in class ec.multiobjective.MultiObjectiveStatistics

postEvaluationStatistics(EvolutionState) - Method in class ec.simple.SimpleShortStatistics

Prints out the statistics, but does not end with a println -- this lets overriding methods print additional statistics on the same line

postEvaluationStatistics(EvolutionState) - Method in class ec.simple.SimpleStatistics

postEvaluationStatistics(EvolutionState) - Method in class ec.Statistics

GENERATIONAL: Called immediately after evaluation occurs.

postEvolution(EvolutionStateEvent) - Method in interface ec.display.EvolutionStateListener

postEvolution(EvolutionStateEvent) - Method in class ec.display.SubpopulationPanel

postInitializationStatistics(EvolutionState) - Method in class ec.gp.koza.KozaShortStatistics

postInitializationStatistics(EvolutionState) - Method in class ec.simple.SimpleShortStatistics

postInitializationStatistics(EvolutionState) - Method in class ec.simple.SimpleStatistics

postInitializationStatistics(EvolutionState) - Method in class ec.Statistics

GENERATIONAL: Called immediately after population initialization occurs.

postPostBreedingExchangeStatistics(EvolutionState) - Method in class ec.Statistics

Called immediately after the post-breeding exchange occurs.

postPostBreedingExchangeStatistics(EvolutionState) - Method in interface ec.steadystate.SteadyStateStatisticsForm

Called immediately after the post-breeding exchange occurs.

postPreBreedingExchangeStatistics(EvolutionState) - Method in class ec.Statistics

Called immediately after the pre-breeding exchange occurs.

postPreBreedingExchangeStatistics(EvolutionState) - Method in interface ec.steadystate.SteadyStateStatisticsForm

Called immediately after the pre-breeding exchange occurs.

postProcess(EvolutionState) - Method in class ec.multiobjective.nsga2.NSGA2Breeder

postProcess(EvolutionState) - Method in class ec.multiobjective.spea2.SPEA2Breeder

postProcess(EvolutionState) - Method in class ec.simple.SimpleBreeder

A hook to do final modifications as necessary to the population after breeding has concluded.

postProcess(Population, Population, EvolutionState) - Method in class ec.es.MuCommaLambdaBreeder

A hook for Mu+Lambda, not used in Mu,Lambda

postProcess(Population, Population, EvolutionState) - Method in class ec.es.MuPlusLambdaBreeder

postProcessFunctionSet() - Method in class ec.gp.GPFunctionSet

Sets up the arrays based on the hashtables

postprocessIndividual(EvolutionState, int) - Method in class ec.rule.RuleIndividual

Called by pipelines after they've modified the individual and it might need to be "fixed" -- basically a hook for you to override.

postprocessPopulation(EvolutionState, Population, boolean[], boolean) - Method in interface ec.coevolve.GroupedProblemForm

Finish processing the population (such as fitness information) after evaluation.

postprocessPopulation(EvolutionState, Population, boolean[], boolean) - Method in class ec.eval.MasterProblem

postprocessPopulation(EvolutionState, Population, boolean[], boolean) - Method in class ec.gp.ge.GEProblem

postprocessRules(EvolutionState, int) - Method in class ec.rule.RuleSet

Should be called by pipelines to "fix up" the rulesets after they have been mutated or crossed over.

postProcessSetType(int) - Method in class ec.gp.GPSetType

Sets up the packed and sparse arrays based on the hashtable

postProcessTypes() - Method in class ec.gp.GPInitializer

Assigns unique integers to each atomic type, and sets up compatibility arrays for set types.

preBreedingExchangePopulation(EvolutionState) - Method in class ec.exchange.InterPopulationExchange

preBreedingExchangePopulation(EvolutionState) - Method in class ec.exchange.IslandExchange

preBreedingExchangePopulation(EvolutionState) - Method in class ec.Exchanger

Performs exchanges after the population has been evaluated but before it has been bred, once every generation (or pseudogeneration).

preBreedingExchangePopulation(EvolutionState) - Method in class ec.simple.SimpleExchanger

Simply returns state.population.

preBreedingStatistics(EvolutionState) - Method in class ec.simple.SimpleShortStatistics

preBreedingStatistics(EvolutionState) - Method in class ec.Statistics

GENERATIONAL: Called immediately before breeding occurs.

preCheckpointStatistics(EvolutionState) - Method in class ec.Statistics

Called immediately before checkpointing occurs.

preCheckpointStatistics(EvolutionState) - Method in interface ec.steadystate.SteadyStateStatisticsForm

Called immediately before checkpointing occurs.

preEvaluationStatistics(EvolutionState) - Method in class ec.evolve.RandomRestarts

Checks the clock; if it's time to restart, we repopulate the population.

preEvaluationStatistics(EvolutionState) - Method in class ec.parsimony.TarpeianStatistics

Marks a proportion (killProportion) of individuals with above-average size (within their own subpopulation) to a minimum value.

preEvaluationStatistics(EvolutionState) - Method in class ec.simple.SimpleShortStatistics

preEvaluationStatistics(EvolutionState) - Method in class ec.Statistics

GENERATIONAL: Called immediately before evaluation occurs.

preInitializationStatistics(EvolutionState) - Method in class ec.simple.SimpleShortStatistics

preInitializationStatistics(EvolutionState) - Method in class ec.Statistics

Called immediately before population initialization occurs.

prepareADF(ADF, GPProblem) - Method in class ec.gp.ADFContext

Increases arguments to accommodate space if necessary.

prepareADM(ADM) - Method in class ec.gp.ADFContext

Sets adf to a

prepareDEBreeder(EvolutionState) - Method in class ec.de.DEBreeder

preparePipeline(Object) - Method in class ec.BreedingPipeline

preparePipeline(Object) - Method in class ec.BreedingSource

A hook which should be passed to all your subsidiary breeding sources.

preparePipeline(Object) - Method in class ec.select.MultiSelection

prepareStatistics(EvolutionState) - Method in class ec.gp.koza.KozaShortStatistics

prepareStatistics(EvolutionState) - Method in class ec.simple.SimpleShortStatistics

prepareToBreed(EvolutionState, int) - Method in class ec.steadystate.SteadyStateBreeder

prepareToEvaluate(EvolutionState, int) - Method in class ec.eval.MasterProblem

prepareToEvaluate(EvolutionState, int) - Method in class ec.gp.ge.GEProblem

prepareToEvaluate(EvolutionState, int) - Method in class ec.Problem

May be called by the Evaluator prior to a series of individuals to evaluate, and then ended with a finishEvaluating(...).

prepareToEvaluate(EvolutionState, int) - Method in class ec.steadystate.SteadyStateEvaluator

prepareToProduce(EvolutionState, int, int) - Method in class ec.breed.BufferedBreedingPipeline

prepareToProduce(EvolutionState, int, int) - Method in class ec.breed.FirstCopyPipeline

prepareToProduce(EvolutionState, int, int) - Method in class ec.breed.RepeatPipeline

prepareToProduce(EvolutionState, int, int) - Method in class ec.breed.UniquePipeline

prepareToProduce(EvolutionState, int, int) - Method in class ec.BreedingPipeline

prepareToProduce(EvolutionState, int, int) - Method in class ec.BreedingSource

Called before produce(...), usually once a generation, or maybe only once if you're doing steady-state evolution, to let the breeding source "warm up" prior to producing.

prepareToProduce(EvolutionState, int, int) - Method in class ec.es.ESSelection

prepareToProduce(EvolutionState, int, int) - Method in class ec.parsimony.BucketTournamentSelection

Prepare to produce: create the buckets!!!!

prepareToProduce(EvolutionState, int, int) - Method in class ec.parsimony.RatioBucketTournamentSelection

Prepare to produce: create the buckets!!!!

prepareToProduce(EvolutionState, int, int) - Method in class ec.select.AnnealedSelection

prepareToProduce(EvolutionState, int, int) - Method in class ec.select.BestSelection

prepareToProduce(EvolutionState, int, int) - Method in class ec.select.BoltzmannSelection

prepareToProduce(EvolutionState, int, int) - Method in class ec.select.FitProportionateSelection

prepareToProduce(EvolutionState, int, int) - Method in class ec.select.GreedyOverselection

prepareToProduce(EvolutionState, int, int) - Method in class ec.select.MultiSelection

prepareToProduce(EvolutionState, int, int) - Method in class ec.select.SigmaScalingSelection

prepareToProduce(EvolutionState, int, int) - Method in class ec.select.SUSSelection

prepareToProduce(EvolutionState, int, int) - Method in class ec.select.TopSelection

prepareToProduce(EvolutionState, int, int) - Method in class ec.SelectionMethod

A default version of prepareToProduce which does nothing.

prependParent(ParameterDatabase) - Method in class ec.util.ParameterDatabase

prePostBreedingExchangeStatistics(EvolutionState) - Method in class ec.Statistics

Called immediately before the post-breeding exchange occurs.

prePostBreedingExchangeStatistics(EvolutionState) - Method in interface ec.steadystate.SteadyStateStatisticsForm

Called immediately before the post-breeding exchange occurs.

prePreBreedingExchangeStatistics(EvolutionState) - Method in class ec.Statistics

Called immediately before the pre-breeding exchange occurs.

prePreBreedingExchangeStatistics(EvolutionState) - Method in interface ec.steadystate.SteadyStateStatisticsForm

Called immediately before the pre-breeding exchange occurs.

preprocess(EvolutionState, int) - Method in class ec.gp.build.Uniform

preprocessIndividual(EvolutionState, int) - Method in class ec.rule.RuleIndividual

Called by pipelines before they've modified the individual and it might need to be "fixed" -- basically a hook for you to override.

preprocessPopulation(EvolutionState, Population, boolean[], boolean) - Method in interface ec.coevolve.GroupedProblemForm

Set up the population pop (such as fitness information) prior to evaluation.

preprocessPopulation(EvolutionState, Population, boolean[], boolean) - Method in class ec.eval.MasterProblem

preprocessPopulation(EvolutionState, Population, boolean[], boolean) - Method in class ec.gp.ge.GEProblem

preprocessRules(EvolutionState, int) - Method in class ec.rule.RuleSet

Should be called by pipelines to "fix up" the rulesets before they have been mutated or crossed over.

previousLastActivation - Variable in class ec.neat.NEATNode

Holds the activation BEFORE the previous step's This is necessary for a special recurrent case when the inNode of a recurrent link is one time step ahead of the outNode.

previousPopulation - Variable in class ec.de.DEBreeder

the previous population is stored in order to have parents compete directly with their children

prevMean - Variable in class ec.eda.amalgam.AMALGAMSpecies

primeGenerator(MersenneTwisterFast) - Static method in class ec.Evolve

Primes the generator.

print(String, int) - Method in class ec.util.Output

Prints a non-announcement message to a given log.

print(String, int[]) - Method in class ec.util.Output

Prints a non-announcement message to the given logs, with a certain verbosity.

print(String, int, int) - Method in class ec.util.Output

Prints a non-announcement message to a given log, with a certain verbosity.

print(String, int, int[]) - Method in class ec.util.Output

Prints a non-announcement message to the given logs, with a certain verbosity.

print(String, int, Log) - Method in class ec.util.Output

Prints a non-announcement message to a given log, with a certain verbosity.

PRINT_PARAMS - Static variable in class ec.util.ParameterDatabase

PRINT_STYLE_C - Static variable in class ec.gp.GPTree

PRINT_STYLE_DOT - Static variable in class ec.gp.GPTree

PRINT_STYLE_LATEX - Static variable in class ec.gp.GPTree

PRINT_STYLE_LISP - Static variable in class ec.gp.GPTree

printExtraPopStatisticsAfter(EvolutionState) - Method in class ec.simple.SimpleShortStatistics

printExtraPopStatisticsBefore(EvolutionState) - Method in class ec.gp.koza.KozaShortStatistics

printExtraPopStatisticsBefore(EvolutionState) - Method in class ec.simple.SimpleShortStatistics

printExtraSubpopStatisticsAfter(EvolutionState, int) - Method in class ec.simple.SimpleShortStatistics

printExtraSubpopStatisticsBefore(EvolutionState, int) - Method in class ec.gp.koza.KozaShortStatistics

printExtraSubpopStatisticsBefore(EvolutionState, int) - Method in class ec.simple.SimpleShortStatistics

printFitness(EvolutionState, int) - Method in class ec.Fitness

Should print the fitness out in a computer-readable fashion, with a verbosity of Output.V_NO_GENERAL.

printFitness(EvolutionState, int, int) - Method in class ec.Fitness

Should print the fitness out in a computer-readable fashion, using state.output.println(...,verbosity,log).

printFitness(EvolutionState, PrintWriter) - Method in class ec.Fitness

Should print the fitness out in a computer-readable fashion, using writer.println(...).

printFitnessForHumans(EvolutionState, int) - Method in class ec.Fitness

Should print the fitness out fashion pleasing for humans to read, with a verbosity of Output.V_NO_GENERAL.

printFitnessForHumans(EvolutionState, int, int) - Method in class ec.Fitness

Should print the fitness out fashion pleasing for humans to read, using state.output.println(...,verbosity,log).

printGene(EvolutionState, int, int) - Method in class ec.vector.Gene

Prints the gene in a way that can be read by readGene().

printGene(EvolutionState, PrintWriter) - Method in class ec.vector.Gene

Prints the gene in a way that can be read by readGene().

printGeneForHumans(EvolutionState, int, int) - Method in class ec.vector.Gene

Nice printing.

printGeneToString() - Method in class ec.neat.NEATGene

This method is used to output a gene that is same as the format in start genome file.

printGeneToString() - Method in class ec.vector.Gene

Prints the gene to a string in a fashion readable by readGeneFromString and parseable by readGene(state, reader).

printGeneToStringForHumans() - Method in class ec.neat.NEATGene

printGeneToStringForHumans() - Method in class ec.vector.Gene

Prints the gene to a string in a human-readable fashion.

printIndividual(EvolutionState, int) - Method in class ec.gp.GPIndividual

printIndividual(EvolutionState, int) - Method in class ec.Individual

Should print the individual in a way that can be read by computer, including its fitness, with a verbosity of Output.V_NO_GENERAL.

printIndividual(EvolutionState, int) - Method in class ec.pso.Particle

printIndividual(EvolutionState, int) - Method in class ec.rule.RuleIndividual

printIndividual(EvolutionState, int, int) - Method in class ec.Individual

Should print the individual in a way that can be read by computer, including its fitness, using state.output.println(...,verbosity,log) You can get fitness to print itself at the appropriate time by calling fitness.printFitness(state,log,verbosity);

printIndividual(EvolutionState, PrintWriter) - Method in class ec.gp.GPIndividual

printIndividual(EvolutionState, PrintWriter) - Method in class ec.Individual

Should print the individual in a way that can be read by computer, including its fitness.

printIndividual(EvolutionState, PrintWriter) - Method in class ec.pso.Particle

printIndividual(EvolutionState, PrintWriter) - Method in class ec.rule.RuleIndividual

Overridden for the RuleIndividual genotype, writing each ruleset in turn.

printIndividualForHumans(EvolutionState, int) - Method in class ec.gp.ge.GEIndividual

printIndividualForHumans(EvolutionState, int) - Method in class ec.gp.GPIndividual

printIndividualForHumans(EvolutionState, int) - Method in class ec.Individual

Should print the individual out in a pleasing way for humans, with a verbosity of Output.V_NO_GENERAL.

printIndividualForHumans(EvolutionState, int) - Method in class ec.rule.RuleIndividual

printIndividualForHumans(EvolutionState, int, int) - Method in class ec.Individual

Should print the individual out in a pleasing way for humans, including its fitness, using state.output.println(...,verbosity,log) You can get fitness to print itself at the appropriate time by calling fitness.printFitnessForHumans(state,log,verbosity);

println(String, int) - Method in class ec.util.Output

Prints a non-announcement message to the given logs, with a verbosity of V_NO_GENERAL.

println(String, int, boolean) - Method in class ec.util.Output

Prints a message to a given log.

println(String, int, int) - Method in class ec.util.Output

Prints a non-announcement message to the given logs, with a certain verbosity.

println(String, int, int[]) - Method in class ec.util.Output

Prints a non-announcement message to the given logs, with a certain verbosity.

printNode(EvolutionState, int) - Method in class ec.gp.GPNode

Prints out a COMPUTER-readable and Lisp-like atom for the node, which is also suitable for readNode to read, and returns the number of bytes in the string that you sent to the log (use print(), not println()).

printNode(EvolutionState, int, int) - Method in class ec.gp.GPNode

Prints out a COMPUTER-readable and Lisp-like atom for the node, which is also suitable for readNode to read, and returns the number of bytes in the string that you sent to the log (use print(), not println()).

printNode(EvolutionState, PrintWriter) - Method in class ec.gp.GPNode

Prints out a COMPUTER-readable and Lisp-like atom for the node, which is also suitable for readNode to read, and returns the number of bytes in the string that you sent to the log (use print(), not println()).

printNodeForHumans(EvolutionState, int) - Method in class ec.gp.GPNode

Prints out a human-readable and Lisp-like atom for the node, and returns the number of bytes in the string that you sent to the log (use print(), not println()).

printNodeForHumans(EvolutionState, int, int) - Method in class ec.gp.GPNode

Prints out a human-readable and Lisp-like atom for the node, and returns the number of bytes in the string that you sent to the log (use print(), not println()).

printNodeToString() - Method in class ec.neat.NEATNode

This method is used to output a gene that is same as the format in start genome file.

printPopulation(EvolutionState, int) - Method in class ec.Population

Prints an entire population in a form readable by humans but also parseable by the computer using readPopulation(EvolutionState, LineNumberReader), with a verbosity of Output.V_NO_GENERAL.

printPopulation(EvolutionState, int, int) - Method in class ec.Population

Prints an entire population in a form readable by humans but also parseable by the computer using readPopulation(EvolutionState, LineNumberReader).

printPopulation(EvolutionState, PrintWriter) - Method in class ec.Population

Prints an entire population in a form readable by humans but also parseable by the computer using readPopulation(EvolutionState, LineNumberReader).

printPopulationForHumans(EvolutionState, int) - Method in class ec.Population

Prints an entire population in a form readable by humans, with a verbosity of Output.V_NO_GENERAL.

printPopulationForHumans(EvolutionState, int, int) - Method in class ec.Population

Prints an entire population in a form readable by humans.

printRootedTree(EvolutionState, int, int) - Method in class ec.gp.GPNode

Prints out the tree on a single line, with no ending \n, in a fashion that can be read in later by computer.

printRootedTree(EvolutionState, int, int, int) - Method in class ec.gp.GPNode

Prints out the tree on a single line, with no ending \n, in a fashion that can be read in later by computer.

printRootedTree(EvolutionState, PrintWriter, int) - Method in class ec.gp.GPNode

Prints out the tree on a single line, with no ending \n, in a fashion that can be read in later by computer.

printRootedTreeForHumans(EvolutionState, int, int, int) - Method in class ec.gp.GPNode

Prints out the tree in a readable Lisp-like multi-line fashion.

printRootedTreeForHumans(EvolutionState, int, int, int, int) - Method in class ec.gp.GPNode

Prints out the tree in a readable Lisp-like multi-line fashion.

printRule(EvolutionState, int) - Method in class ec.rule.Rule

Prints the rule in a way that can be read by readRule().

printRule(EvolutionState, int, int) - Method in class ec.rule.Rule

Prints the rule in a way that can be read by readRule().

printRule(EvolutionState, PrintWriter) - Method in class ec.rule.Rule

Prints the rule in a way that can be read by readRule().

printRuleForHumans(EvolutionState, int) - Method in class ec.rule.Rule

Nice printing.

printRuleForHumans(EvolutionState, int, int) - Method in class ec.rule.Rule

Nice printing.

printRuleSet(EvolutionState, int) - Method in class ec.rule.RuleSet

Prints the rule set such that the computer can read it later

printRuleSet(EvolutionState, int, int) - Method in class ec.rule.RuleSet

Prints the rule set such that the computer can read it later

printRuleSet(EvolutionState, PrintWriter) - Method in class ec.rule.RuleSet

Prints the rule set such that the computer can read it later

printRuleSetForHumans(EvolutionState, int) - Method in class ec.rule.RuleSet

Prints out the rule set in a readable fashion.

printRuleSetForHumans(EvolutionState, int, int) - Method in class ec.rule.RuleSet

Prints out the rule set in a readable fashion.

printRuleToString() - Method in class ec.rule.Rule

Prints the rule to a string in a fashion readable by readRuleFromString.

printRuleToString(EvolutionState) - Method in class ec.rule.Rule

Prints the rule to a string in a fashion readable by readRuleFromString.

printRuleToStringForHumans() - Method in class ec.rule.Rule

Nice printing to a string.

printState - Variable in class ec.util.ParameterDatabase

printStyle - Variable in class ec.gp.GPTree

The print style of the GPTree.

printSubpopulation(EvolutionState, int) - Method in class ec.Subpopulation

Prints an entire subpopulation in a form readable by humans but also parseable by the computer using readSubpopulation(EvolutionState, LineNumberReader) with a verbosity of Output.V_NO_GENERAL.

printSubpopulation(EvolutionState, int, int) - Method in class ec.Subpopulation

Prints an entire subpopulation in a form readable by humans but also parseable by the computer using readSubpopulation(EvolutionState, LineNumberReader).

printSubpopulation(EvolutionState, PrintWriter) - Method in class ec.Subpopulation

Prints an entire subpopulation in a form readable by humans but also parseable by the computer using readSubpopulation(EvolutionState, LineNumberReader).

printSubpopulationForHumans(EvolutionState, int) - Method in class ec.Subpopulation

printSubpopulationForHumans(EvolutionState, int, int) - Method in class ec.Subpopulation

Prints an entire subpopulation in a form readable by humans.

printTerminalsAsVariablesInC - Variable in class ec.gp.GPTree

When using c to print for humans, do we print terminals as variables? (as opposed to zero-argument functions)?

printTree(EvolutionState, int) - Method in class ec.gp.GPTree

Prints out the tree in single-line fashion suitable for reading in later by computer.

printTree(EvolutionState, int, int) - Method in class ec.gp.GPTree

Prints out the tree in single-line fashion suitable for reading in later by computer.

printTree(EvolutionState, PrintWriter) - Method in class ec.gp.GPTree

Prints out the tree in single-line fashion suitable for reading in later by computer.

printTreeForHumans(EvolutionState, int) - Method in class ec.gp.GPTree

Prints out the tree in a readable Lisp-like fashion.

printTreeForHumans(EvolutionState, int, int) - Method in class ec.gp.GPTree

Prints out the tree in a readable Lisp-like fashion.

printTrees(EvolutionState, int) - Method in class ec.gp.GPIndividual

Prints just the trees of the GPIndividual.

printTwoArgumentNonterminalsAsOperatorsInC - Variable in class ec.gp.GPTree

When using c to print for humans, do we print two-argument nonterminals in operator form "a op b"? (as opposed to functions "op(a, b)")?

probability - Variable in class ec.BreedingSource

The probability that this BreedingSource will be chosen to breed over other BreedingSources.

probabilityOfPickingSizePlusOne - Variable in class ec.select.BestSelection

Probablity of picking the size plus one.

probabilityOfPickingSizePlusOne - Variable in class ec.select.TournamentSelection

Probablity of picking the size plus one

probabilityOfSelection - Variable in class ec.gp.GPNodeConstraints

Probability of selection -- an auxillary measure mostly used by PTC1/PTC2 right now

probabilityOfSelection - Variable in class ec.parsimony.DoubleTournamentSelection

What's our probability of selection? If 1.0, we always pick the "good" individual.

probabilityOfSelection2 - Variable in class ec.parsimony.DoubleTournamentSelection

problem - Variable in class ec.eval.MasterProblem

problem - Variable in class ec.gp.ge.GEProblem

Problem - Class in ec

Problem is a prototype which defines the problem against which we will evaluate individuals in a population.

Problem() - Constructor for class ec.Problem

process(EvolutionState, int, String, int, Individual) - Method in class ec.Exchanger

Typically called by preBreedingExchangePopulation prior to migrating an individual.

produce(int, int, int, int, Individual[], EvolutionState, int, HashMap<String, Object>) - Method in class ec.select.FirstSelection

produce(int, int, int, int, Individual[], EvolutionState, int, HashMap<String, Object>) - Method in class ec.select.RandomSelection

produce(int, int, int, ArrayList<Individual>, EvolutionState, int, HashMap<String, Object>) - Method in class ec.breed.BufferedBreedingPipeline

produce(int, int, int, ArrayList<Individual>, EvolutionState, int, HashMap<String, Object>) - Method in class ec.breed.CheckingPipeline

produce(int, int, int, ArrayList<Individual>, EvolutionState, int, HashMap<String, Object>) - Method in class ec.breed.FirstCopyPipeline

produce(int, int, int, ArrayList<Individual>, EvolutionState, int, HashMap<String, Object>) - Method in class ec.breed.ForceBreedingPipeline

produce(int, int, int, ArrayList<Individual>, EvolutionState, int, HashMap<String, Object>) - Method in class ec.breed.GenerationSwitchPipeline

produce(int, int, int, ArrayList<Individual>, EvolutionState, int, HashMap<String, Object>) - Method in class ec.breed.InitializationPipeline

produce(int, int, int, ArrayList<Individual>, EvolutionState, int, HashMap<String, Object>) - Method in class ec.breed.MultiBreedingPipeline

produce(int, int, int, ArrayList<Individual>, EvolutionState, int, HashMap<String, Object>) - Method in class ec.breed.RepeatPipeline

produce(int, int, int, ArrayList<Individual>, EvolutionState, int, HashMap<String, Object>) - Method in class ec.breed.ReproductionPipeline

produce(int, int, int, ArrayList<Individual>, EvolutionState, int, HashMap<String, Object>) - Method in class ec.breed.UniquePipeline

produce(int, int, int, ArrayList<Individual>, EvolutionState, int, HashMap<String, Object>) - Method in class ec.BreedingSource

Produces n individuals from the given subpopulation and puts them into inds[start...start+n-1], where n = Min(Max(q,min),max), where q is the "typical" number of individuals the BreedingSource produces in one shot, and returns n.

produce(int, int, int, ArrayList<Individual>, EvolutionState, int, HashMap<String, Object>) - Method in class ec.gp.breed.InternalCrossoverPipeline

produce(int, int, int, ArrayList<Individual>, EvolutionState, int, HashMap<String, Object>) - Method in class ec.gp.breed.MutateAllNodesPipeline

produce(int, int, int, ArrayList<Individual>, EvolutionState, int, HashMap<String, Object>) - Method in class ec.gp.breed.MutateDemotePipeline

produce(int, int, int, ArrayList<Individual>, EvolutionState, int, HashMap<String, Object>) - Method in class ec.gp.breed.MutateERCPipeline

produce(int, int, int, ArrayList<Individual>, EvolutionState, int, HashMap<String, Object>) - Method in class ec.gp.breed.MutateOneNodePipeline

produce(int, int, int, ArrayList<Individual>, EvolutionState, int, HashMap<String, Object>) - Method in class ec.gp.breed.MutatePromotePipeline

produce(int, int, int, ArrayList<Individual>, EvolutionState, int, HashMap<String, Object>) - Method in class ec.gp.breed.MutateSwapPipeline

produce(int, int, int, ArrayList<Individual>, EvolutionState, int, HashMap<String, Object>) - Method in class ec.gp.breed.RehangPipeline

produce(int, int, int, ArrayList<Individual>, EvolutionState, int, HashMap<String, Object>) - Method in class ec.gp.breed.SizeFairCrossoverPipeline

produce(int, int, int, ArrayList<Individual>, EvolutionState, int, HashMap<String, Object>) - Method in class ec.gp.koza.CrossoverPipeline

produce(int, int, int, ArrayList<Individual>, EvolutionState, int, HashMap<String, Object>) - Method in class ec.gp.koza.MutationPipeline

produce(int, int, int, ArrayList<Individual>, EvolutionState, int, HashMap<String, Object>) - Method in class ec.rule.breed.RuleCrossoverPipeline

produce(int, int, int, ArrayList<Individual>, EvolutionState, int, HashMap<String, Object>) - Method in class ec.rule.breed.RuleMutationPipeline

produce(int, int, int, ArrayList<Individual>, EvolutionState, int, HashMap<String, Object>) - Method in class ec.SelectionMethod

produce(int, int, int, ArrayList<Individual>, EvolutionState, int, HashMap<String, Object>) - Method in class ec.vector.breed.GeneDuplicationPipeline

produce(int, int, int, ArrayList<Individual>, EvolutionState, int, HashMap<String, Object>) - Method in class ec.vector.breed.ListCrossoverPipeline

produce(int, int, int, ArrayList<Individual>, EvolutionState, int, HashMap<String, Object>) - Method in class ec.vector.breed.MultipleVectorCrossoverPipeline

produce(int, int, int, ArrayList<Individual>, EvolutionState, int, HashMap<String, Object>) - Method in class ec.vector.breed.VectorCrossoverPipeline

produce(int, int, int, ArrayList<Individual>, EvolutionState, int, HashMap<String, Object>) - Method in class ec.vector.breed.VectorMutationPipeline

produce(int, EvolutionState, int) - Method in class ec.es.ESSelection

produce(int, EvolutionState, int) - Method in class ec.parsimony.BucketTournamentSelection

produce(int, EvolutionState, int) - Method in class ec.parsimony.DoubleTournamentSelection

Produces the index of a person selected from among several by a tournament.

produce(int, EvolutionState, int) - Method in class ec.parsimony.RatioBucketTournamentSelection

produce(int, EvolutionState, int) - Method in class ec.select.AnnealedSelection

produce(int, EvolutionState, int) - Method in class ec.select.BestSelection

produce(int, EvolutionState, int) - Method in class ec.select.FirstSelection

produce(int, EvolutionState, int) - Method in class ec.select.FitProportionateSelection

produce(int, EvolutionState, int) - Method in class ec.select.GreedyOverselection

produce(int, EvolutionState, int) - Method in class ec.select.LexicaseSelection

produce(int, EvolutionState, int) - Method in class ec.select.MultiSelection

produce(int, EvolutionState, int) - Method in class ec.select.RandomSelection

produce(int, EvolutionState, int) - Method in class ec.select.SUSSelection

produce(int, EvolutionState, int) - Method in class ec.select.TopSelection

produce(int, EvolutionState, int) - Method in class ec.select.TournamentSelection

produce(int, EvolutionState, int) - Method in class ec.SelectionMethod

An alternative form of "produce" special to Selection Methods; selects an individual from the given subpopulation and returns its position in that subpopulation.

produce(SelectionMethod, int, int, EvolutionState, int) - Method in class ec.spatial.SpatialMultiPopCoevolutionaryEvaluator

produceCurrent(int, EvolutionState, int) - Method in class ec.coevolve.MultiPopCoevolutionaryEvaluator

Selects one individual from the given subpopulation.

producePrevious(int, EvolutionState, int) - Method in class ec.coevolve.MultiPopCoevolutionaryEvaluator

Selects one individual from the previous subpopulation.

produces(EvolutionState, Population, int, int) - Method in class ec.BreedingPipeline

produces(EvolutionState, Population, int, int) - Method in class ec.BreedingSource

Returns true if this BreedingSource, when attached to the given subpopulation, will produce individuals of the subpopulation's species.

produces(EvolutionState, Population, int, int) - Method in class ec.gp.GPBreedingPipeline

Returns true if s is a GPSpecies.

produces(EvolutionState, Population, int, int) - Method in class ec.select.MultiSelection

produces(EvolutionState, Population, int, int) - Method in class ec.SelectionMethod

A default version of produces -- this method always returns true under the assumption that the selection method works with all Fitnesses.

produceWithoutCloning(int, int, int, ArrayList<Individual>, EvolutionState, int, HashMap<String, Object>) - Method in class ec.es.ESSelection

produceWithoutCloning(int, int, int, ArrayList<Individual>, EvolutionState, int, HashMap<String, Object>) - Method in class ec.SelectionMethod

ProportionalTournamentSelection - Class in ec.parsimony

This selection method adds parsimony pressure to the regular tournament selection.

ProportionalTournamentSelection() - Constructor for class ec.parsimony.ProportionalTournamentSelection

Prototype - Interface in ec

Prototype classes typically have one or a few prototype instances created during the course of a run.

ps - Variable in class ec.eda.cmaes.CMAESSpecies

The p_{\sigma} evolution path vector.

PS_NONE - Static variable in class ec.util.ParameterDatabase

PS_PRINT_PARAMS - Static variable in class ec.util.ParameterDatabase

PS_UNKNOWN - Static variable in class ec.util.ParameterDatabase

PSOBreeder - Class in ec.pso

PSOBreeder is a simple single-threaded Breeder which performs Particle Swarm Optimization using the Particle class as individuals.

PSOBreeder() - Constructor for class ec.pso.PSOBreeder

PTC1 - Class in ec.gp.build

PTC1 implements the "Strongly-typed Probabilistic Tree Creation 1 (PTC1)" algorithm described in

PTC1() - Constructor for class ec.gp.build.PTC1

PTC2 - Class in ec.gp.build

PTC2 implements the "Strongly-typed Probabilistic Tree Creation 2 (PTC2)" algorithm described in

PTC2() - Constructor for class ec.gp.build.PTC2

PTCFunctionSet - Class in ec.gp.build

PTCFunctionSet is a GPFunctionSet which adheres to PTCFunctionSetForm, and thus can be used with the PTC1 and PTC2 methods.

PTCFunctionSet() - Constructor for class ec.gp.build.PTCFunctionSet

PTCFunctionSetForm - Interface in ec.gp.build

PTCFunctionSetForm defines the methods that the PTC1 and PTC2 tree-creation algorithms require of function sets.

push(int) - Method in class ec.util.IntBag

Synonym for add(obj) -- try to use add instead unless you want to think of the IntBag as a stack.

push(ADFContext) - Method in class ec.gp.ADFStack

Pushes an ADFContext onto the main stack.

push(String) - Method in class ec.util.Parameter

Returns a new parameter with s added to the end of the current path items.

push(String[]) - Method in class ec.util.Parameter

Returns a new parameter with the path items in s added to the end of the current path items.

PushBuilder - Class in ec.gp.push

PushBuilder implements the Push-style tree building algorithm, which permits nonterminals of arbitrary arity.

PushBuilder() - Constructor for class ec.gp.push.PushBuilder

PushDefaults - Class in ec.gp.push

PushDefaults() - Constructor for class ec.gp.push.PushDefaults

PushInstruction - Class in ec.gp.push

PushInstruction encapsulates a custom Push instruction.

PushInstruction() - Constructor for class ec.gp.push.PushInstruction

pushOntoFloatStack(Interpreter, float) - Method in class ec.gp.push.PushProblem

Pushes a value onto the top of the float stack of the interpreter.

pushOntoIntStack(Interpreter, int) - Method in class ec.gp.push.PushProblem

Pushes a value onto the top of the int stack of the interpreter.

PushProblem - Class in ec.gp.push

A PushProblem contains useful methods to help you create an interpreter, write out the ECJ GP tree to a string, build a Push Program around this string, load the interpreter with all your custom instructions, and run the Push Program on the interpreter.

PushProblem() - Constructor for class ec.gp.push.PushProblem

Q

q_ny - Variable in class ec.gp.build.PTCFunctionSet

nonterminal probabilities[type][thenodes], in organized form

q_ty - Variable in class ec.gp.build.PTCFunctionSet

terminal probabilities[type][thenodes], in organized form

qsort(byte[]) - Static method in class ec.util.QuickSort

Non-Recursive QuickSort

qsort(char[]) - Static method in class ec.util.QuickSort

Non-Recursive QuickSort

qsort(double[]) - Static method in class ec.util.QuickSort

Non-Recursive QuickSort

qsort(float[]) - Static method in class ec.util.QuickSort

Non-Recursive QuickSort

qsort(int[]) - Static method in class ec.util.QuickSort

Non-Recursive QuickSort

qsort(int[], SortComparatorL) - Static method in class ec.util.QuickSort

Non-Recursive QuickSort

qsort(long[]) - Static method in class ec.util.QuickSort

Non-Recursive QuickSort

qsort(long[], SortComparatorL) - Static method in class ec.util.QuickSort

Non-Recursive QuickSort

qsort(short[]) - Static method in class ec.util.QuickSort

Non-Recursive QuickSort

qsort(Object[], SortComparator) - Static method in class ec.util.QuickSort

Non-Recursive QuickSort

QueueIndividual - Class in ec.steadystate

QueueIndividual(Individual, int) - Constructor for class ec.steadystate.QueueIndividual

QuickSort - Class in ec.util

Implementations of various center-pivot QuickSort routines in Java, and (if you really want 'em) Insertion Sort routines as well.

QuickSort() - Constructor for class ec.util.QuickSort

quitOnRunComplete - Variable in class ec.EvolutionState

Whether or not the system should prematurely quit when Evaluator returns true for runComplete(...) (that is, when the system found an ideal individual.

R

R_FAILURE - Static variable in class ec.EvolutionState

"The evolution run has quit, failing to find a perfect individual."

R_NOTDONE - Static variable in class ec.EvolutionState

"The evolution run has not quit

R_SUCCESS - Static variable in class ec.EvolutionState

"The evolution run has quit, finding a perfect individual."

Rand1EitherOrDEBreeder - Class in ec.de

Rand1EitherOrDEBreeder is a differential evolution breeding operator.

Rand1EitherOrDEBreeder() - Constructor for class ec.de.Rand1EitherOrDEBreeder

random - Variable in class ec.EvolutionState

An array of random number generators, indexed by the thread number you were given (or, if you're not in a multithreaded area, use 0).

RandomBranch - Class in ec.gp.build

RandomBranch implements the Random_Branch tree generation method described in

RandomBranch() - Constructor for class ec.gp.build.RandomBranch

RandomChoice - Class in ec.util

RandomChoice organizes arrays of floats into distributions which can be used to pick randomly from.

RandomChoice() - Constructor for class ec.util.RandomChoice

RandomChoiceChooser - Interface in ec.util

Used by RandomChoice to pick objects by probability from a distribution.

RandomChoiceChooserD - Interface in ec.util

Used by RandomChoice to pick objects by probability from a distribution.

randomizeOrder(EvolutionState, ArrayList<Individual>) - Method in class ec.coevolve.CompetitiveEvaluator

randomizeRulesOrder(EvolutionState, int) - Method in class ec.rule.RuleSet

Randomizes the order of the rules in the rule set.

RandomRestarts - Class in ec.evolve

A special Statistics class which performs random restarts on the population, effectively reininitializing the population and starting over again.

RandomRestarts() - Constructor for class ec.evolve.RandomRestarts

randomSeedOffset - Variable in class ec.EvolutionState

An amount to add to each random number generator seed to "offset" it -- often this is simply the job number.

RandomSelection - Class in ec.select

Picks a random individual in the subpopulation.

RandomSelection() - Constructor for class ec.select.RandomSelection

randomValueFromClosedInterval(byte, byte, MersenneTwisterFast) - Method in class ec.vector.ByteVectorIndividual

Returns a random value from between min and max inclusive.

randomValueFromClosedInterval(int, int, MersenneTwisterFast) - Method in class ec.vector.IntegerVectorIndividual

Returns a random value from between min and max inclusive.

randomValueFromClosedInterval(long, long, MersenneTwisterFast) - Method in class ec.vector.LongVectorIndividual

Returns a random value from between min and max inclusive.

randomValueFromClosedInterval(short, short, MersenneTwisterFast) - Method in class ec.vector.LongVectorIndividual

Returns a random value from between min and max inclusive.

randomValueFromClosedInterval(short, short, MersenneTwisterFast) - Method in class ec.vector.ShortVectorIndividual

Returns a random value from between min and max inclusive.

randomWalkProbability - Variable in class ec.vector.FloatVectorSpecies

The continuation probability for Integer Random Walk Mutation, per gene.

randomWalkProbability - Variable in class ec.vector.IntegerVectorSpecies

The continuation probability for Integer Random Walk Mutation, per gene.

randomWalkProbability(int) - Method in class ec.vector.FloatVectorSpecies

randomWalkProbability(int) - Method in class ec.vector.IntegerVectorSpecies

RandTree - Class in ec.gp.build

RandTree() - Constructor for class ec.gp.build.RandTree

RandTree.ArityObject - Class in ec.gp.build

rank - Variable in class ec.multiobjective.nsga2.NSGA2MultiObjectiveFitness

Pareto front rank measure (lower ranks are better)

ratio - Variable in class ec.parsimony.RatioBucketTournamentSelection

The value of RATIO

RatioBucketTournamentSelection - Class in ec.parsimony

Does a tournament selection, limited to the subpopulation it's working in at the time.

RatioBucketTournamentSelection() - Constructor for class ec.parsimony.RatioBucketTournamentSelection

rawFitness() - Method in class ec.gp.koza.KozaFitness

Returns the raw fitness metric.

readBooleanWithPreamble(String, EvolutionState, LineNumberReader) - Static method in class ec.util.Code

Finds the next nonblank line, skips past an expected preamble, and reads in a boolean value ("true" or "false") if there is one, and returns it.

readByteWithPreamble(String, EvolutionState, LineNumberReader) - Static method in class ec.util.Code

Finds the next nonblank line, skips past an expected preamble, and reads in a byte if there is one, and returns it.

readCharacterWithPreamble(String, EvolutionState, LineNumberReader) - Static method in class ec.util.Code

Finds the next nonblank line, skips past an expected preamble, and reads in a character if there is one, and returns it.

readDoubleWithPreamble(String, EvolutionState, LineNumberReader) - Static method in class ec.util.Code

Finds the next nonblank line, skips past an expected preamble, and reads in a double if there is one, and returns it.

readFitness(EvolutionState, DataInput) - Method in class ec.Fitness

Reads the binary form of an individual from a DataInput.

readFitness(EvolutionState, DataInput) - Method in class ec.gp.koza.KozaFitness

readFitness(EvolutionState, DataInput) - Method in class ec.multiobjective.MultiObjectiveFitness

readFitness(EvolutionState, DataInput) - Method in class ec.multiobjective.nsga2.NSGA2MultiObjectiveFitness

readFitness(EvolutionState, DataInput) - Method in class ec.multiobjective.spea2.SPEA2MultiObjectiveFitness

readFitness(EvolutionState, DataInput) - Method in class ec.simple.SimpleFitness

readFitness(EvolutionState, LineNumberReader) - Method in class ec.Fitness

Reads in the fitness from a form outputted by fitnessToString() and thus printFitnessForHumans(...).

readFitness(EvolutionState, LineNumberReader) - Method in class ec.gp.koza.KozaFitness

readFitness(EvolutionState, LineNumberReader) - Method in class ec.multiobjective.MultiObjectiveFitness

readFitness(EvolutionState, LineNumberReader) - Method in class ec.multiobjective.nsga2.NSGA2MultiObjectiveFitness

readFitness(EvolutionState, LineNumberReader) - Method in class ec.multiobjective.spea2.SPEA2MultiObjectiveFitness

readFitness(EvolutionState, LineNumberReader) - Method in class ec.simple.SimpleFitness

Presently does not decode the fact that the fitness is ideal or not

readFloatWithPreamble(String, EvolutionState, LineNumberReader) - Static method in class ec.util.Code

Finds the next nonblank line, skips past an expected preamble, and reads in a float if there is one, and returns it.

readGene(EvolutionState, DataInput) - Method in class ec.vector.Gene

Override this if you need to read rules in from a binary stream

readGene(EvolutionState, LineNumberReader) - Method in class ec.vector.Gene

Reads a gene printed by printGene(...).

readGeneFromString(String, EvolutionState) - Method in class ec.neat.NEATGene

This method is used to read a gene in start genome from file.

readGeneFromString(String, EvolutionState) - Method in class ec.vector.Gene

Reads a gene from a string, which may contain a final '\n'.

readGenotype(EvolutionState, DataInput) - Method in class ec.gp.GPIndividual

Overridden for the GPIndividual genotype.

readGenotype(EvolutionState, DataInput) - Method in class ec.Individual

Reads in the genotypic information from a DataInput, erasing the previous genotype of this Individual.

readGenotype(EvolutionState, DataInput) - Method in class ec.rule.RuleIndividual

Overridden for the RuleIndividual genotype.

readGenotype(EvolutionState, DataInput) - Method in class ec.vector.BitVectorIndividual

readGenotype(EvolutionState, DataInput) - Method in class ec.vector.ByteVectorIndividual

readGenotype(EvolutionState, DataInput) - Method in class ec.vector.DoubleVectorIndividual

readGenotype(EvolutionState, DataInput) - Method in class ec.vector.FloatVectorIndividual

readGenotype(EvolutionState, DataInput) - Method in class ec.vector.GeneVectorIndividual

readGenotype(EvolutionState, DataInput) - Method in class ec.vector.IntegerVectorIndividual

readGenotype(EvolutionState, DataInput) - Method in class ec.vector.LongVectorIndividual

readGenotype(EvolutionState, DataInput) - Method in class ec.vector.ShortVectorIndividual

readIndividual(EvolutionState, DataInput) - Method in class ec.Individual

Reads the binary form of an individual from a DataInput, erasing the previous information stored in this Individual.

readIndividual(EvolutionState, DataInput) - Method in class ec.pso.Particle

readIndividual(EvolutionState, LineNumberReader) - Method in class ec.Individual

Reads in the individual from a form printed by printIndividual(), erasing the previous information stored in this Individual.

readIndividual(EvolutionState, LineNumberReader) - Method in class ec.pso.Particle

readIntegerWithPreamble(String, EvolutionState, LineNumberReader) - Static method in class ec.util.Code

Finds the next nonblank line, skips past an expected preamble, and reads in an integer if there is one, and returns it.

readLongWithPreamble(String, EvolutionState, LineNumberReader) - Static method in class ec.util.Code

Finds the next nonblank line, skips past an expected preamble, and reads in a long if there is one, and returns it.

readNode(EvolutionState, DataInput) - Method in class ec.gp.ADF

readNode(EvolutionState, DataInput) - Method in class ec.gp.ADFArgument

readNode(EvolutionState, DataInput) - Method in class ec.gp.ERC

To successfully read from a DataOutput, you must override this to read your specific ERC data in.

readNode(EvolutionState, DataInput) - Method in class ec.gp.GPNode

Override this to read any additional node-specific information from dataInput besides: the number of arguments, the specific node class, the children, and the parent.

readNode(EvolutionState, LineNumberReader) - Method in class ec.neat.NEATNode

Reads a Node printed by printNode(...).

readNode(DecodeReturn) - Method in class ec.gp.ERC

readNode(DecodeReturn) - Method in class ec.gp.GPNode

Reads the node symbol, advancing the DecodeReturn to the first character in the string beyond the node symbol, and returns a new, empty GPNode of the appropriate class representing that symbol, else null if the node symbol is not of the correct type for your GPNode class.

readNodeFromString(String, EvolutionState) - Method in class ec.neat.NEATNode

This method is used to read a node in start genome from file.

readPopulation(EvolutionState, DataInput) - Method in class ec.Population

Reads a population in binary form, from the format generated by writePopulation(...).

readPopulation(EvolutionState, LineNumberReader) - Method in class ec.Population

Reads a population from the format generated by printPopulation(....).

readRootedTree(int, DecodeReturn, GPType, GPFunctionSet, GPNodeParent, int, EvolutionState) - Static method in class ec.gp.GPNode

Reads the node and its children from the form printed out by printRootedTree.

readRootedTree(EvolutionState, DataInput, GPType, GPFunctionSet, GPNodeParent, int) - Static method in class ec.gp.GPNode

readRule(EvolutionState, DataInput) - Method in class ec.rule.Rule

Override this if you need to read rules in from a binary stream

readRule(EvolutionState, LineNumberReader) - Method in class ec.rule.Rule

Reads a rule printed by printRule(...).

readRuleFromString(String, EvolutionState) - Method in class ec.rule.Rule

Reads a rule from a string, which may contain a final '\n'.

readRuleSet(EvolutionState, DataInput) - Method in class ec.rule.RuleSet

Reads RuleSets in from a binary stream

readRuleSet(EvolutionState, LineNumberReader) - Method in class ec.rule.RuleSet

Reads the rule set

readShortWithPreamble(String, EvolutionState, LineNumberReader) - Static method in class ec.util.Code

Finds the next nonblank line, skips past an expected preamble, and reads in a short if there is one, and returns it.

readState(DataInputStream) - Method in class ec.util.MersenneTwister

Reads the entire state of the MersenneTwister RNG from the stream

readState(DataInputStream) - Method in class ec.util.MersenneTwisterFast

Reads the entire state of the MersenneTwister RNG from the stream

readStringWithPreamble(String, EvolutionState, LineNumberReader) - Static method in class ec.util.Code

Finds the next nonblank line, skips past an expected preamble, and reads in a string if there is one, and returns it.

readSubpopulation(EvolutionState, DataInput) - Method in class ec.Subpopulation

Reads a subpopulation in binary form, from the format generated by writeSubpopulation(...).

readSubpopulation(EvolutionState, LineNumberReader) - Method in class ec.Subpopulation

Reads a subpopulation from the format generated by printSubpopulation(....).

readTree(EvolutionState, DataInput) - Method in class ec.gp.GPTree

readTree(EvolutionState, LineNumberReader) - Method in class ec.gp.GPTree

Reads in the tree from a form printed by printTree.

readTrials(EvolutionState, DataInput) - Method in class ec.Fitness

Reads trials in from DataInput.

receiveAdditionalData(EvolutionState, DataInputStream) - Method in class ec.eval.MasterProblem

This method is called on a MasterProblem by the Slave.

receiveAdditionalData(EvolutionState, DataInputStream) - Method in class ec.Problem

This method is called on a Problem by the Slave.

recordObservation(EvolutionState, double) - Method in class ec.eda.dovs.DOVSFitness

Record the result of the new simulation.

recurFlag - Variable in class ec.neat.NEATInnovation

Is the link innovation a recurrent link.

recurOnlyProb - Variable in class ec.neat.NEATSpecies

Probability of forcing selection of ONLY links that are naturally recurrent.

reevaluateElites - Variable in class ec.simple.SimpleBreeder

reevaluateIndividuals - Variable in class ec.eval.MetaProblem

Whether to reevaluate individuals if and when they appear for evaluation in the future.

ReflectedObject - Class in ec.util

ReflectedObject(Object) - Constructor for class ec.util.ReflectedObject

ReflectedObject(Object, Class, String, Object) - Constructor for class ec.util.ReflectedObject

registerSlave(EvolutionState, Socket, Problem, boolean, int, int, int) - Method in class ec.eval.SlaveMonitor

Registers a new slave with the monitor.

RehangPipeline - Class in ec.gp.breed

RehangPipeline picks a nonterminal node other than the root and "rehangs" it as a new root.

RehangPipeline() - Constructor for class ec.gp.breed.RehangPipeline

reinitializeContacts(EvolutionState) - Method in class ec.eval.MasterProblem

Reinitialize contacts with the slaves

reinitializeContacts(EvolutionState) - Method in class ec.Evaluator

Called to reinitialize remote evaluation network contacts when the run is restarted from checkpoint.

reinitializeContacts(EvolutionState) - Method in class ec.exchange.InterPopulationExchange

Initializes contacts with other processes, if that's what you're doing.

reinitializeContacts(EvolutionState) - Method in class ec.exchange.IslandExchange

Initializes contacts with other processes, if that's what you're doing.

reinitializeContacts(EvolutionState) - Method in class ec.Exchanger

Initializes contacts with other processes, if that's what you're doing.

reinitializeContacts(EvolutionState) - Method in class ec.gp.ge.GEProblem

reinitializeContacts(EvolutionState) - Method in class ec.Problem

Called to reinitialize remote evaluation network contacts when the run is restarted from checkpoint.

reinitializeContacts(EvolutionState) - Method in class ec.simple.SimpleExchanger

Doesn't do anything.

remove(int) - Method in class ec.util.IntBag

Removes the int at the given index, moving the topmost int into its position.

remove(Parameter) - Method in class ec.util.ParameterDatabase

Removes a parameter from the topmost database.

removeDeeply(Parameter) - Method in class ec.util.ParameterDatabase

removeLog(int) - Method in class ec.util.Output

Removes the given log.

removeNondestructively(int) - Method in class ec.util.IntBag

Removes the int at the given index, shifting the other ints down.

removePoorFitnessIndividuals() - Method in class ec.neat.NEATSubspecies

Remove the individuals from current subspecies who have been mark as eliminate the remain individuals will be allow to reproduce

removeRandomRule(EvolutionState, int) - Method in class ec.rule.RuleSet

Removes a randomly-chosen rule from the rule set and returns it.

removeRule(int) - Method in class ec.rule.RuleSet

Removes a rule from the rule set and returns it.

removeTreeModelListener(TreeModelListener) - Method in class ec.util.ReflectedObject

reopen() - Method in class ec.util.Log

Forces a file-based log to reopen, erasing its previous contents.

reopen(int) - Method in class ec.util.Output

Forces a file-based log to reopen, erasing its previous contents.

reopen(int[]) - Method in class ec.util.Output

Forces one or more file-based logs to reopen, erasing their previous contents.

reopen(Log) - Method in class ec.util.LogRestarter

RepeatPipeline - Class in ec.breed

RepeatPipeline is a BreedingPipeline which, after prepareToProduce() is called, produces a single individual from its single source, then repeatedly clones that child to fulfill requests to produce().

RepeatPipeline() - Constructor for class ec.breed.RepeatPipeline

repetition - Variable in class ec.eda.dovs.DOVSSpecies

This value will be updated at each generation to determine how many evaluation is needed for one individual.

replacementProbability - Variable in class ec.steadystate.SteadyStateEvolutionState

When a new individual arrives, with what probability should it directly replace the existing "marked for death" individual, as opposed to only replacing it if it's superior?

replaceWith(GPNode) - Method in class ec.gp.GPNode

Replaces the node with another node in its position in the tree.

repOK() - Method in class ec.util.IIntPoint

repostAnnouncementsOnRestart - Variable in class ec.util.Log

Should the log repost all announcements on restart

reproduce(EvolutionState, int, int, ArrayList<NEATSubspecies>) - Method in class ec.neat.NEATSubspecies

Where the actual reproduce is happening, it will grab the candidate parents, and calls the crossover or mutation method on these parents individuals.

ReproductionPipeline - Class in ec.breed

ReproductionPipeline is a BreedingPipeline which simply makes a copy of the individuals it recieves from its source.

ReproductionPipeline() - Constructor for class ec.breed.ReproductionPipeline

reserve - Variable in class ec.gp.ADFStack

reset() - Method in class ec.eda.dovs.DOVSFitness

Reset the fitness to initial status.

reset() - Method in class ec.gp.ADFStack

Pops off all items on the stack and the substack.

reset() - Method in interface ec.gp.GPNodeSelector

Resets the Node Selector before a new series of pickNode() if need be.

reset() - Method in class ec.gp.koza.KozaNodeSelector

reset() - Method in class ec.neat.NEATSubspecies

Reset the status of the current subspecies.

reset() - Method in class ec.util.DataPipe

Reset the buffer.

reset(double, int, int, boolean, int, double) - Method in class ec.neat.NEATGene

Reset the gene with given parameters.

reset(int, int, boolean) - Method in class ec.neat.NEATInnovation

When we have a new innovation, we clone an existing NEATInnovation instance, and change its information with this reset method.

reset(int, int, int) - Method in class ec.neat.NEATInnovation

When we have a new innovation, we clone an existing NEATInnovation instance, and change its information with this reset method.

reset(int, int, int, double, boolean) - Method in class ec.neat.NEATInnovation

When we have a new innovation, we clone an existing NEATInnovation instance, and change its information with this reset method.

reset(int, int, int, int, int, int) - Method in class ec.neat.NEATInnovation

When we have a new innovation, we clone an existing NEATInnovation instance, and change its information with this reset method.

reset(EvolutionState, int) - Method in class ec.neat.NEATGene

reset(EvolutionState, int) - Method in class ec.neat.NEATIndividual

Initializes an individual with minimal structure.

reset(EvolutionState, int) - Method in class ec.pso.Particle

reset(EvolutionState, int) - Method in class ec.rule.Rule

The reset method randomly reinitializes the rule.

reset(EvolutionState, int) - Method in class ec.rule.RuleIndividual

reset(EvolutionState, int) - Method in class ec.rule.RuleSet

A reset method for randomly reinitializing the RuleSet

reset(EvolutionState, int) - Method in class ec.vector.BitVectorIndividual

Initializes the individual by randomly flipping the bits

reset(EvolutionState, int) - Method in class ec.vector.ByteVectorIndividual

Initializes the individual by randomly choosing Integers uniformly from mingene to maxgene.

reset(EvolutionState, int) - Method in class ec.vector.DoubleVectorIndividual

Initializes the individual by randomly choosing doubles uniformly from mingene to maxgene.

reset(EvolutionState, int) - Method in class ec.vector.FloatVectorIndividual

Initializes the individual by randomly choosing floats uniformly from mingene to maxgene.

reset(EvolutionState, int) - Method in class ec.vector.Gene

The reset method randomly reinitializes the gene.

reset(EvolutionState, int) - Method in class ec.vector.GeneVectorIndividual

Initializes the individual by calling reset(...) on each gene.

reset(EvolutionState, int) - Method in class ec.vector.IntegerVectorIndividual

Initializes the individual by randomly choosing Integers uniformly from mingene to maxgene.

reset(EvolutionState, int) - Method in class ec.vector.LongVectorIndividual

Initializes the individual by randomly choosing Longs uniformly from mingene to maxgene.

reset(EvolutionState, int) - Method in class ec.vector.ShortVectorIndividual

Initializes the individual by randomly choosing Integers uniformly from mingene to maxgene.

reset(EvolutionState, int) - Method in class ec.vector.VectorIndividual

Initializes the individual.

reset(EvolutionState, int, int) - Method in class ec.vector.VectorIndividual

Initializes the individual to a new size.

reset(NEATNode.NodeType, int, NEATNode.NodePlace) - Method in class ec.neat.NEATNode

Reset the node to initial status.

reset(String) - Method in class ec.util.DecodeReturn

Use this to reuse your DecodeReturn for another string

reset(String, int) - Method in class ec.util.DecodeReturn

Use this to reuse your DecodeReturn for another string

reset(ArrayList<NEATNode>, ArrayList<Gene>) - Method in class ec.neat.NEATIndividual

Reset the individual with given nodes and genome

resetEachGeneration - Variable in class ec.breed.UniquePipeline

resetFromCheckpoint() - Method in class ec.EvolutionState

This method is called after a checkpoint is restored from but before the run starts up again.

resetInterpreter(Interpreter) - Method in class ec.gp.push.PushProblem

Clears the Interpreter's stacks so it is ready to execute another program.

resetMaxSize - Variable in class ec.rule.RuleSetConstraints

resetMinSize - Variable in class ec.rule.RuleSetConstraints

resetNode(EvolutionState, int) - Method in class ec.gp.ERC

Remember to override this to randomize your ERC after it has been cloned.

resetNode(EvolutionState, int) - Method in class ec.gp.GPNode

Starts a node in a new life immediately after it has been cloned.

resetNode(EvolutionState, int) - Method in class ec.gp.push.Terminal

resize(int) - Method in class ec.util.IntBag

restart() - Method in class ec.util.Log

Restarts a log after a system restart from checkpoint.

restart() - Method in class ec.util.Output

restart(Log) - Method in class ec.util.LogRestarter

restarter - Variable in class ec.util.Log

The log's restarter

restoreFromCheckpoint(String) - Static method in class ec.util.Checkpoint

Returns an EvolutionState object read from a checkpoint file whose filename is checkpoint

retries - Variable in class ec.de.DEBreeder

returntype - Variable in class ec.gp.GPNodeConstraints

The return type for a GPNode

reverse() - Method in class ec.util.IntBag

Reverses order of the elements in the IntBag

reverseMap(EvolutionState, GPIndividual, int) - Method in class ec.gp.ge.GESpecies

Reverse of the original map() function, takes a GPIndividual and returns a corresponding GEIndividual; The GPIndividual may contain more than one trees, and such cases are handled accordingly, see the 3rd bullet below -- NOTE: This reverse mapping is only valid for S-expression trees ; This procedure supports ERC for the current population (not for population /subpopulation from other islands); However, that could be done by merging all ERCBanks from all the sub-populations but that is not done yet ; Support for the ADF's are done as follows -- suppose in one GPIndividual, there are N trees -- T1, T2, ,,, Tn and each of them follows n different grammars G1, G2, ,,, Gn respectively; now if they are reverse-mapped to int arrays, there will be n int arrays A1[], A2[], ,,, An[]; and suppose the i-th tree Ti is reverse mapped to int array Ai[] and morevoer Ai[] is the longest among all the arrays (Bj[]s); so Bi[] is sufficient to build all ADF trees Tjs.

ROOT_D - Variable in class ec.gp.build.Uniform

ROOT_D_ZERO - Variable in class ec.gp.build.Uniform

rootedTreeEquals(GPNode) - Method in class ec.gp.GPNode

Returns true if the two rooted trees are "genetically" equal, though they may have different parents.

rootedTreeHashCode() - Method in class ec.gp.GPNode

Returns a hashcode associated with all the nodes in the tree.

rootParent() - Method in class ec.gp.GPNode

Returns the root ancestor of this node.

rootProbability - Variable in class ec.gp.koza.KozaNodeSelector

The probability the root must be chosen

RPAREN - Static variable in class ec.gp.ge.GrammarParser

Rule - Class in ec.rule

Rule is an abstract class for describing rules.

Rule() - Constructor for class ec.rule.Rule

RULE - Static variable in class ec.gp.ge.GrammarParser

ruleConstraintRepository - Variable in class ec.rule.RuleInitializer

ruleConstraints - Variable in class ec.rule.RuleInitializer

RuleConstraints - Class in ec.rule

RuleConstraints is a class for constraints applicable to rules.

RuleConstraints() - Constructor for class ec.rule.RuleConstraints

RuleCrossoverPipeline - Class in ec.rule.breed

RuleCrossoverPipeline is a BreedingPipeline which implements a simple default crossover for RuleIndividuals.

RuleCrossoverPipeline() - Constructor for class ec.rule.breed.RuleCrossoverPipeline

ruleCrossProbability - Variable in class ec.rule.breed.RuleCrossoverPipeline

What is the probability of a rule migrating?

RuleDefaults - Class in ec.rule

A static class that returns the base for "default values" which rule-style operators use, rather than making the user specify them all on a per- species basis.

RuleDefaults() - Constructor for class ec.rule.RuleDefaults

RuleIndividual - Class in ec.rule

RuleIndividual is an Individual with an array of RuleSets, each of which is a set of Rules.

RuleIndividual() - Constructor for class ec.rule.RuleIndividual

RuleInitializer - Class in ec.rule

A SimpleInitializer subclass designed to be used with rules.

RuleInitializer() - Constructor for class ec.rule.RuleInitializer

RuleMutationPipeline - Class in ec.rule.breed

RuleMutationPipeline is a BreedingPipeline which implements a simple default Mutation for RuleIndividuals.

RuleMutationPipeline() - Constructor for class ec.rule.breed.RuleMutationPipeline

rulePrototype - Variable in class ec.rule.RuleSetConstraints

The prototype of the Rule that will be used in the RuleSet (the RuleSet contains only rules with the specified prototype).

rules - Variable in class ec.rule.RuleSet

The rules in the rule set

RuleSet - Class in ec.rule

RuleSet is a set of Rules, implemented straightforwardly as an arbitrary-length array of Rules.

RuleSet() - Constructor for class ec.rule.RuleSet

ruleSetConstraintRepository - Variable in class ec.rule.RuleInitializer

ruleSetConstraints - Variable in class ec.rule.RuleInitializer

RuleSetConstraints - Class in ec.rule

RuleSetConstraints is an basic class for constraints applicable to rulesets.

RuleSetConstraints() - Constructor for class ec.rule.RuleSetConstraints

rulesets - Variable in class ec.rule.RuleIndividual

The individual's rulesets.

RuleSpecies - Class in ec.rule

RuleSpecies is a simple individual which is suitable as a species for rule sets subpopulations.

RuleSpecies() - Constructor for class ec.rule.RuleSpecies

run(int) - Method in class ec.EvolutionState

Starts the run.

runComplete - Variable in class ec.Evaluator

runComplete(EvolutionState) - Method in class ec.coevolve.CompetitiveEvaluator

runComplete(EvolutionState) - Method in class ec.coevolve.MultiPopCoevolutionaryEvaluator

runComplete(EvolutionState) - Method in class ec.Evaluator

Returns non-NULL if the Evaluator believes that the run is finished: perhaps an ideal individual has been found or some other run result has shortcircuited the run so that it should end prematurely right now.

runComplete(EvolutionState) - Method in class ec.exchange.InterPopulationExchange

Called after preBreedingExchangePopulation(...) to evaluate whether or not the exchanger wishes the run to shut down (with ec.EvolutionState.R_FAILURE).

runComplete(EvolutionState) - Method in class ec.exchange.IslandExchange

Called after preBreedingExchangePopulation(...) to evaluate whether or not the exchanger wishes the run to shut down (with ec.EvolutionState.R_FAILURE).

runComplete(EvolutionState) - Method in class ec.Exchanger

Called after preBreedingExchangePopulation(...) to evaluate whether or not the exchanger wishes the run to shut down (with ec.EvolutionState.R_FAILURE) -- returns a String (which will be printed out as a message) if the exchanger wants to shut down, else returns null if the exchanger does NOT want to shut down.

runComplete(EvolutionState) - Method in class ec.simple.SimpleEvaluator

The SimpleEvaluator determines that a run is complete by asking each individual in each population if he's optimal; if he finds an individual somewhere that's optimal, he signals that the run is complete.

runComplete(EvolutionState) - Method in class ec.simple.SimpleExchanger

Always returns null

runEvolve - Static variable in class ec.eval.Slave

runs - Variable in class ec.eval.MetaProblem

The number of base-level evolutionary runs to perform to evaluate an individual.

runTime - Static variable in class ec.eval.Slave

runtimeArguments - Variable in class ec.EvolutionState

The original runtime arguments passed to the Java process.

S

s - Variable in class ec.util.DecodeReturn

Stores strings, error messages

sbd - Variable in class ec.eda.cmaes.CMAESSpecies

bd x sigma

scanAt(int) - Method in class ec.util.DecodeReturn

Sets the DecodeReturn to begin scanning at _pos, which should be valid.

scheduleJobForEvaluation(EvolutionState, Job) - Method in class ec.eval.SlaveMonitor

Schedules a job for execution on one of the available slaves.

SEED_INCREMENT - Static variable in class ec.eval.SlaveMonitor

SelectDefaults - Class in ec.select

SelectDefaults() - Constructor for class ec.select.SelectDefaults

selectForDiversity(EvolutionState, Subpopulation) - Method in class ec.eda.amalgam.AMALGAMSpecies

SelectionMethod - Class in ec

A SelectionMethod is a BreedingSource which provides direct IMMUTABLE pointers to original individuals in an old population, not fresh mutable copies.

SelectionMethod() - Constructor for class ec.SelectionMethod

selects - Variable in class ec.select.MultiSelection

The MultiSelection's individuals

sendAdditionalData(EvolutionState, DataOutputStream) - Method in class ec.eval.MasterProblem

This method is called from the SlaveMonitor's accept() thread to optionally send additional data to the Slave via the dataOut stream.

sendAdditionalData(EvolutionState, DataOutputStream) - Method in class ec.Problem

This method is called from the SlaveMonitor's accept() thread to optionally send additional data to the Slave via the dataOut stream.

SENSOR - Enum constant in enum class ec.neat.NEATNode.NodeType

sensorLoad(double) - Method in class ec.neat.NEATNode

If this node is a sensor node, load this node with the given input

sequentialBreeding - Variable in class ec.Breeder

The flag to let the coevolutionary system know that we're doing sequential breeding.

seriesCollection - Variable in class ec.display.chart.XYSeriesChartStatistics

serverAddress - Variable in class ec.exchange.IslandExchange

The address of the server

serverPort - Variable in class ec.exchange.IslandExchange

The port of the server

serverThread - Variable in class ec.exchange.IslandExchange

The thread of the server (is different than null only for the island with the server)

servSock - Variable in class ec.eval.SlaveMonitor

The socket where slaves connect.

set - Variable in class ec.breed.UniquePipeline

set(int, int) - Method in class ec.util.IntBag

set(Parameter, String) - Method in class ec.util.ParameterDatabase

Sets a parameter in the topmost database to a given value, trimmed of whitespace.

SET - Static variable in class ec.util.ParameterDatabaseEvent

setCheckpoint(EvolutionState) - Static method in class ec.util.Checkpoint

Writes the evolution state out to a file.

setContext(Individual[]) - Method in class ec.Fitness

setContext(Individual[], int) - Method in class ec.Fitness

setFilePrefix(String) - Method in class ec.util.Output

setFitness(EvolutionState, double) - Method in class ec.gp.koza.KozaFitness

Do not use this function.

setFitness(EvolutionState, double) - Method in class ec.simple.SimpleFitness

Deprecated -- now redefined to set the fitness but ALWAYS say that it's not ideal.

setFitness(EvolutionState, double, boolean) - Method in class ec.simple.SimpleFitness

setFlush(boolean) - Method in class ec.util.Output

Sets whether the Output flushes its announcements.

setGeneration(EvolutionState) - Method in class ec.neat.NEATIndividual

Set the born generation of this individual.

setGenome(Object) - Method in class ec.pso.Particle

setGenome(Object) - Method in class ec.vector.BitVectorIndividual

setGenome(Object) - Method in class ec.vector.ByteVectorIndividual

setGenome(Object) - Method in class ec.vector.DoubleVectorIndividual

setGenome(Object) - Method in class ec.vector.FloatVectorIndividual

setGenome(Object) - Method in class ec.vector.GeneVectorIndividual

setGenome(Object) - Method in class ec.vector.IntegerVectorIndividual

setGenome(Object) - Method in class ec.vector.LongVectorIndividual

setGenome(Object) - Method in class ec.vector.ShortVectorIndividual

setGenome(Object) - Method in class ec.vector.VectorIndividual

Sets the gene array.

setGenomeLength(int) - Method in class ec.pso.Particle

setGenomeLength(int) - Method in class ec.vector.BitVectorIndividual

setGenomeLength(int) - Method in class ec.vector.ByteVectorIndividual

setGenomeLength(int) - Method in class ec.vector.DoubleVectorIndividual

setGenomeLength(int) - Method in class ec.vector.FloatVectorIndividual

setGenomeLength(int) - Method in class ec.vector.GeneVectorIndividual

setGenomeLength(int) - Method in class ec.vector.IntegerVectorIndividual

setGenomeLength(int) - Method in class ec.vector.LongVectorIndividual

setGenomeLength(int) - Method in class ec.vector.ShortVectorIndividual

setGenomeLength(int) - Method in class ec.vector.VectorIndividual

Sets the genome length.

setIndex(int, int) - Method in interface ec.spatial.Space

Input: a threadnumber (either for evaluation or for breeding), and an index in a subpopulation (the index in the subpopulation is, of course, associated with a location in the space) Functionality: stores the index and the threadnumber for further accesses to the getIndexRandomNeighbor method.

setIndex(int, int) - Method in class ec.spatial.Spatial1DSubpopulation

setInnovationNumber(int) - Method in class ec.neat.NEATSpecies

setMinimumFitness(EvolutionState, int, Individual) - Method in class ec.parsimony.TarpeianStatistics

Sets the fitness of an individual to the minimum fitness possible.

setObjectives(EvolutionState, double[]) - Method in class ec.multiobjective.MultiObjectiveFitness

setProbability(Object, double) - Method in class ec.BreedingSource

setProbability(Object, double) - Method in interface ec.util.RandomChoiceChooserD

Sets obj's probability

setProbability(Object, float) - Method in interface ec.util.RandomChoiceChooser

Sets obj's probability

setRunComplete(String) - Method in class ec.Evaluator

Requests that the Evaluator quit soon for a user-defined reason provided in the message.

setSeed(int[]) - Method in class ec.util.MersenneTwister

Sets the seed of the MersenneTwister using an array of integers.

setSeed(int[]) - Method in class ec.util.MersenneTwisterFast

Sets the seed of the MersenneTwister using an array of integers.

setSeed(long) - Method in class ec.util.MersenneTwister

Initalize the pseudo random number generator.

setSeed(long) - Method in class ec.util.MersenneTwisterFast

Initalize the pseudo random number generator.

setSeed(String, int, int) - Method in class ec.display.ControlPanel

setStandardizedFitness(EvolutionState, double) - Method in class ec.gp.koza.KozaFitness

Set the standardized fitness in the half-open interval [0.0,infinity) which is defined (NOTE: DIFFERENT FROM fitness()!!!) as 0.0 being the IDEAL and infinity being worse than the worst possible.

setStore(boolean) - Method in class ec.util.Output

Sets whether the Output stores its announcements.

setThrowsErrors(boolean) - Method in class ec.util.Output

setToBestOf(EvolutionState, Fitness[]) - Method in class ec.Fitness

Sets the fitness to be the same value as the best of the provided fitnesses.

setToBestOf(EvolutionState, Fitness[]) - Method in class ec.multiobjective.MultiObjectiveFitness

setToMeanOf(EvolutionState, Fitness[]) - Method in class ec.Fitness

Sets the fitness to be the same value as the mean of the provided fitnesses.

setToMeanOf(EvolutionState, Fitness[]) - Method in class ec.gp.koza.KozaFitness

setToMeanOf(EvolutionState, Fitness[]) - Method in class ec.multiobjective.MultiObjectiveFitness

setToMeanOf(EvolutionState, Fitness[]) - Method in class ec.simple.SimpleFitness

setToMedianOf(EvolutionState, Fitness[]) - Method in class ec.Fitness

Sets the fitness to be the median of the provided fitnesses.

setToMedianOf(EvolutionState, Fitness[]) - Method in class ec.multiobjective.MultiObjectiveFitness

setup(EvolutionState, Parameter) - Method in class ec.breed.BufferedBreedingPipeline

setup(EvolutionState, Parameter) - Method in class ec.breed.CheckingPipeline

setup(EvolutionState, Parameter) - Method in class ec.breed.FirstCopyPipeline

setup(EvolutionState, Parameter) - Method in class ec.breed.ForceBreedingPipeline

setup(EvolutionState, Parameter) - Method in class ec.breed.GenerationSwitchPipeline

setup(EvolutionState, Parameter) - Method in class ec.breed.InitializationPipeline

setup(EvolutionState, Parameter) - Method in class ec.breed.MultiBreedingPipeline

setup(EvolutionState, Parameter) - Method in class ec.breed.RepeatPipeline

setup(EvolutionState, Parameter) - Method in class ec.breed.ReproductionPipeline

setup(EvolutionState, Parameter) - Method in class ec.breed.StubPipeline

setup(EvolutionState, Parameter) - Method in class ec.breed.UniquePipeline

setup(EvolutionState, Parameter) - Method in class ec.BreedingPipeline

setup(EvolutionState, Parameter) - Method in class ec.BreedingSource

Sets up the BreedingPipeline.

setup(EvolutionState, Parameter) - Method in class ec.coevolve.CompetitiveEvaluator

setup(EvolutionState, Parameter) - Method in class ec.coevolve.MultiPopCoevolutionaryEvaluator

setup(EvolutionState, Parameter) - Method in class ec.de.Best1BinDEBreeder

setup(EvolutionState, Parameter) - Method in class ec.de.DEBreeder

setup(EvolutionState, Parameter) - Method in class ec.de.Rand1EitherOrDEBreeder

setup(EvolutionState, Parameter) - Method in class ec.display.chart.BarChartStatistics

setup(EvolutionState, Parameter) - Method in class ec.display.chart.ChartableStatistics

setup(EvolutionState, Parameter) - Method in class ec.display.chart.PieChartStatistics

setup(EvolutionState, Parameter) - Method in class ec.display.chart.TimeSeriesStatistics

setup(EvolutionState, Parameter) - Method in class ec.display.chart.XYSeriesChartStatistics

setup(EvolutionState, Parameter) - Method in class ec.display.portrayal.SimpleIndividualPortrayal

setup(EvolutionState, Parameter) - Method in class ec.display.StatisticsChartPane

setup(EvolutionState, Parameter) - Method in class ec.display.SubpopulationPanel

setup(EvolutionState, Parameter) - Method in class ec.eda.amalgam.AMALGAMBreeder

setup(EvolutionState, Parameter) - Method in class ec.eda.amalgam.AMALGAMSpecies

setup(EvolutionState, Parameter) - Method in class ec.eda.cmaes.CMAESBreeder

setup(EvolutionState, Parameter) - Method in class ec.eda.cmaes.CMAESSpecies

setup(EvolutionState, Parameter) - Method in class ec.eda.dovs.DOVSBreeder

setup(EvolutionState, Parameter) - Method in class ec.eda.dovs.DOVSFitness

setup(EvolutionState, Parameter) - Method in class ec.eda.dovs.DOVSSpecies

setup(EvolutionState, Parameter) - Method in class ec.eda.dovs.HyperboxSpecies

setup(EvolutionState, Parameter) - Method in class ec.eda.pbil.PBILBreeder

setup(EvolutionState, Parameter) - Method in class ec.eda.pbil.PBILSpecies

setup(EvolutionState, Parameter) - Method in class ec.es.MuCommaLambdaBreeder

setup(EvolutionState, Parameter) - Method in class ec.eval.MasterProblem

setup(EvolutionState, Parameter) - Method in class ec.eval.MetaProblem

setup(EvolutionState, Parameter) - Method in class ec.Evaluator

setup(EvolutionState, Parameter) - Method in class ec.EvolutionState

Unlike for other setup() methods, ignore the base; it will always be null.

setup(EvolutionState, Parameter) - Method in class ec.evolve.RandomRestarts

Gets the clock ticking.

setup(EvolutionState, Parameter) - Method in class ec.exchange.InterPopulationExchange

setup(EvolutionState, Parameter) - Method in class ec.exchange.IslandExchange

setup(EvolutionState, Parameter) - Method in class ec.Fitness

setup(EvolutionState, Parameter) - Method in class ec.gp.ADF

setup(EvolutionState, Parameter) - Method in class ec.gp.ADFArgument

setup(EvolutionState, Parameter) - Method in class ec.gp.ADFContext

setup(EvolutionState, Parameter) - Method in class ec.gp.ADFStack

setup(EvolutionState, Parameter) - Method in class ec.gp.breed.InternalCrossoverPipeline

setup(EvolutionState, Parameter) - Method in class ec.gp.breed.MutateAllNodesPipeline

setup(EvolutionState, Parameter) - Method in class ec.gp.breed.MutateDemotePipeline

setup(EvolutionState, Parameter) - Method in class ec.gp.breed.MutateERCPipeline

setup(EvolutionState, Parameter) - Method in class ec.gp.breed.MutateOneNodePipeline

setup(EvolutionState, Parameter) - Method in class ec.gp.breed.MutatePromotePipeline

setup(EvolutionState, Parameter) - Method in class ec.gp.breed.MutateSwapPipeline

setup(EvolutionState, Parameter) - Method in class ec.gp.breed.RehangPipeline

setup(EvolutionState, Parameter) - Method in class ec.gp.breed.SizeFairCrossoverPipeline

setup(EvolutionState, Parameter) - Method in class ec.gp.build.PTC1

setup(EvolutionState, Parameter) - Method in class ec.gp.build.PTC2

setup(EvolutionState, Parameter) - Method in class ec.gp.build.PTCFunctionSet

setup(EvolutionState, Parameter) - Method in class ec.gp.build.RandomBranch

setup(EvolutionState, Parameter) - Method in class ec.gp.build.RandTree

setup(EvolutionState, Parameter) - Method in class ec.gp.build.Uniform

setup(EvolutionState, Parameter) - Method in class ec.gp.ge.GEProblem

setup(EvolutionState, Parameter) - Method in class ec.gp.ge.GESpecies

setup(EvolutionState, Parameter) - Method in class ec.gp.ge.GrammarParser

setup(EvolutionState, Parameter) - Method in class ec.gp.GPData

setup(EvolutionState, Parameter) - Method in class ec.gp.GPFunctionSet

Must be done after GPType and GPNodeConstraints have been set up

setup(EvolutionState, Parameter) - Method in class ec.gp.GPIndividual

Sets up a prototypical GPIndividual with those features which it shares with other GPIndividuals in its species, and nothing more.

setup(EvolutionState, Parameter) - Method in class ec.gp.GPInitializer

setup(EvolutionState, Parameter) - Method in class ec.gp.GPNode

Sets up a prototypical GPNode with those features all nodes of that prototype share, and nothing more.

setup(EvolutionState, Parameter) - Method in class ec.gp.GPNodeBuilder

setup(EvolutionState, Parameter) - Method in class ec.gp.GPNodeConstraints

This must be called after the GPTypes have been set up.

setup(EvolutionState, Parameter) - Method in class ec.gp.GPProblem

setup(EvolutionState, Parameter) - Method in class ec.gp.GPSetType

setup(EvolutionState, Parameter) - Method in class ec.gp.GPSpecies

setup(EvolutionState, Parameter) - Method in class ec.gp.GPTree

Sets up a prototypical GPTree with those features it shares with other GPTrees in its position in its GPIndividual, and nothhing more.

setup(EvolutionState, Parameter) - Method in class ec.gp.GPTreeConstraints

This must be called after the GPTypes and GPFunctionSets have been set up.

setup(EvolutionState, Parameter) - Method in class ec.gp.GPType

setup(EvolutionState, Parameter) - Method in class ec.gp.koza.CrossoverPipeline

setup(EvolutionState, Parameter) - Method in class ec.gp.koza.HalfBuilder

setup(EvolutionState, Parameter) - Method in class ec.gp.koza.KozaBuilder

setup(EvolutionState, Parameter) - Method in class ec.gp.koza.KozaFitness

setup(EvolutionState, Parameter) - Method in class ec.gp.koza.KozaNodeSelector

setup(EvolutionState, Parameter) - Method in class ec.gp.koza.KozaShortStatistics

setup(EvolutionState, Parameter) - Method in class ec.gp.koza.MutationPipeline

setup(EvolutionState, Parameter) - Method in class ec.gp.push.PushBuilder

setup(EvolutionState, Parameter) - Method in class ec.gp.push.PushInstruction

setup(EvolutionState, Parameter) - Method in class ec.gp.push.Terminal

setup(EvolutionState, Parameter) - Method in class ec.Individual

This should be used to set up only those things which you share in common with all other individuals in your species; individual-specific items which make you you should be filled in by Species.newIndividual(...), and modified by breeders.

setup(EvolutionState, Parameter) - Method in class ec.multiobjective.HypervolumeStatistics

setup(EvolutionState, Parameter) - Method in class ec.multiobjective.MultiObjectiveFitness

Sets up.

setup(EvolutionState, Parameter) - Method in class ec.multiobjective.MultiObjectiveStatistics

setup(EvolutionState, Parameter) - Method in class ec.multiobjective.nsga2.NSGA2Breeder

setup(EvolutionState, Parameter) - Method in class ec.multiobjective.spea2.SPEA2Breeder

setup(EvolutionState, Parameter) - Method in class ec.neat.NEATBreeder

setup(EvolutionState, Parameter) - Method in class ec.neat.NEATGene

The setup method initializes a "meaningless" gene that does not specify any connection.

setup(EvolutionState, Parameter) - Method in class ec.neat.NEATIndividual

setup(EvolutionState, Parameter) - Method in class ec.neat.NEATInnovation

setup(EvolutionState, Parameter) - Method in class ec.neat.NEATNetwork

setup(EvolutionState, Parameter) - Method in class ec.neat.NEATNode

setup(EvolutionState, Parameter) - Method in class ec.neat.NEATSpecies

setup(EvolutionState, Parameter) - Method in class ec.neat.NEATSubspecies

setup(EvolutionState, Parameter) - Method in class ec.parsimony.BucketTournamentSelection

setup(EvolutionState, Parameter) - Method in class ec.parsimony.DoubleTournamentSelection

setup(EvolutionState, Parameter) - Method in class ec.parsimony.ProportionalTournamentSelection

setup(EvolutionState, Parameter) - Method in class ec.parsimony.RatioBucketTournamentSelection

setup(EvolutionState, Parameter) - Method in class ec.parsimony.TarpeianStatistics

setup(EvolutionState, Parameter) - Method in class ec.Population

setup(EvolutionState, Parameter) - Method in class ec.Problem

setup(EvolutionState, Parameter) - Method in interface ec.Prototype

Sets up the object by reading it from the parameters stored in state, built off of the parameter base base.

setup(EvolutionState, Parameter) - Method in class ec.pso.Particle

setup(EvolutionState, Parameter) - Method in class ec.pso.PSOBreeder

setup(EvolutionState, Parameter) - Method in class ec.rule.breed.RuleCrossoverPipeline

setup(EvolutionState, Parameter) - Method in class ec.rule.Rule

setup(EvolutionState, Parameter) - Method in class ec.rule.RuleConstraints

setup(EvolutionState, Parameter) - Method in class ec.rule.RuleIndividual

setup(EvolutionState, Parameter) - Method in class ec.rule.RuleInitializer

Sets up the RuleConstraints and RuleSetConstraints cliques.

setup(EvolutionState, Parameter) - Method in class ec.rule.RuleSet

setup(EvolutionState, Parameter) - Method in class ec.rule.RuleSetConstraints

setup(EvolutionState, Parameter) - Method in class ec.rule.RuleSpecies

setup(EvolutionState, Parameter) - Method in class ec.select.AnnealedSelection

setup(EvolutionState, Parameter) - Method in class ec.select.BestSelection

setup(EvolutionState, Parameter) - Method in class ec.select.BoltzmannSelection

setup(EvolutionState, Parameter) - Method in class ec.select.GreedyOverselection

setup(EvolutionState, Parameter) - Method in class ec.select.MultiSelection

setup(EvolutionState, Parameter) - Method in class ec.select.SigmaScalingSelection

setup(EvolutionState, Parameter) - Method in class ec.select.SUSSelection

setup(EvolutionState, Parameter) - Method in class ec.select.TopSelection

setup(EvolutionState, Parameter) - Method in class ec.select.TournamentSelection

setup(EvolutionState, Parameter) - Method in interface ec.Setup

Sets up the object by reading it from the parameters stored in state, built off of the parameter base base.

setup(EvolutionState, Parameter) - Method in class ec.simple.SimpleBreeder

setup(EvolutionState, Parameter) - Method in class ec.simple.SimpleEvaluator

setup(EvolutionState, Parameter) - Method in class ec.simple.SimpleExchanger

setup(EvolutionState, Parameter) - Method in class ec.simple.SimpleFinisher

setup(EvolutionState, Parameter) - Method in class ec.simple.SimpleFitness

setup(EvolutionState, Parameter) - Method in class ec.simple.SimpleInitializer

setup(EvolutionState, Parameter) - Method in class ec.simple.SimpleShortStatistics

setup(EvolutionState, Parameter) - Method in class ec.simple.SimpleStatistics

setup(EvolutionState, Parameter) - Method in class ec.spatial.Spatial1DSubpopulation

Read additional parameters for the spatially-embedded subpopulation.

setup(EvolutionState, Parameter) - Method in class ec.spatial.SpatialBreeder

setup(EvolutionState, Parameter) - Method in class ec.spatial.SpatialTournamentSelection

setup(EvolutionState, Parameter) - Method in class ec.Species

The default version of setup(...) loads requested pipelines and calls setup(...) on them and normalizes their probabilities.

setup(EvolutionState, Parameter) - Method in class ec.Statistics

setup(EvolutionState, Parameter) - Method in class ec.steadystate.SteadyStateBreeder

setup(EvolutionState, Parameter) - Method in class ec.steadystate.SteadyStateEvaluator

setup(EvolutionState, Parameter) - Method in class ec.steadystate.SteadyStateEvolutionState

setup(EvolutionState, Parameter) - Method in class ec.Subpopulation

setup(EvolutionState, Parameter) - Method in class ec.vector.BitVectorIndividual

setup(EvolutionState, Parameter) - Method in class ec.vector.BitVectorSpecies

setup(EvolutionState, Parameter) - Method in class ec.vector.breed.ListCrossoverPipeline

setup(EvolutionState, Parameter) - Method in class ec.vector.breed.MultipleVectorCrossoverPipeline

setup(EvolutionState, Parameter) - Method in class ec.vector.breed.VectorCrossoverPipeline

setup(EvolutionState, Parameter) - Method in class ec.vector.ByteVectorIndividual

setup(EvolutionState, Parameter) - Method in class ec.vector.DoubleVectorIndividual

setup(EvolutionState, Parameter) - Method in class ec.vector.FloatVectorIndividual

setup(EvolutionState, Parameter) - Method in class ec.vector.FloatVectorSpecies

setup(EvolutionState, Parameter) - Method in class ec.vector.Gene

setup(EvolutionState, Parameter) - Method in class ec.vector.GeneVectorIndividual

setup(EvolutionState, Parameter) - Method in class ec.vector.GeneVectorSpecies

setup(EvolutionState, Parameter) - Method in class ec.vector.IntegerVectorIndividual

setup(EvolutionState, Parameter) - Method in class ec.vector.IntegerVectorSpecies

setup(EvolutionState, Parameter) - Method in class ec.vector.LongVectorIndividual

setup(EvolutionState, Parameter) - Method in class ec.vector.ShortVectorIndividual

setup(EvolutionState, Parameter) - Method in class ec.vector.VectorSpecies

Setup - Interface in ec

Setup classes are classes which get set up once from user-supplied parameters prior to being used.

setupArities(EvolutionState, GPFunctionSet) - Method in class ec.gp.build.RandTree

setupConstraints(EvolutionState, Parameter) - Method in class ec.rule.RuleInitializer

Sets up all the RuleConstraints, loading them from the parameter file.

setupFunctionSets(EvolutionState, Parameter) - Method in class ec.gp.GPInitializer

setupGenome(EvolutionState, Parameter) - Method in class ec.vector.VectorSpecies

setupNodeConstraints(EvolutionState, Parameter) - Method in class ec.gp.GPInitializer

Sets up all the GPNodeConstraints, loading them from the parameter file.

setupPopulation(EvolutionState, int) - Method in class ec.eda.cmaes.CMAESInitializer

setupPopulation(EvolutionState, int) - Method in class ec.Initializer

Loads a Population from the parameter file, sets it up, and returns it.

setupPopulation(EvolutionState, int) - Method in class ec.simple.SimpleInitializer

setupProbabilities(BreedingSource[]) - Static method in class ec.BreedingSource

Normalizes and arranges the probabilities in sources so that they are usable by pickRandom(...).

setupRuleSetConstraints(EvolutionState, Parameter) - Method in class ec.rule.RuleInitializer

setupTreeConstraints(EvolutionState, Parameter) - Method in class ec.gp.GPInitializer

Sets up all the GPTreeConstraints, loading them from the parameter file.

setupTypes(EvolutionState, Parameter) - Method in class ec.gp.GPInitializer

Sets up all the types, loading them from the parameter file.

setValue(int, Object) - Method in interface ec.util.Indexed

Throws an IndexOutOfBoundsException if index is inappropriate, and IllegalArgumentException if the value is inappropriate.

setValue(int, Object) - Method in class ec.util.IntBag

setVerbosity(int) - Method in class ec.util.Output

Sets the Output object's general verbosity to v.

setVisibleLeaves(boolean) - Method in class ec.util.ParameterDatabaseTreeModel

shiftIndividual(EvolutionState, DoubleVectorIndividual) - Method in class ec.eda.amalgam.AMALGAMSpecies

ShortVectorIndividual - Class in ec.vector

ShortVectorIndividual is a VectorIndividual whose genome is an array of shorts.

ShortVectorIndividual() - Constructor for class ec.vector.ShortVectorIndividual

shouldBreedSubpop(EvolutionState, int, int) - Method in class ec.Breeder

Returns true if we're doing sequential breeding and it's the subpopulation's turn (round robin, one subpopulation per generation).

shouldBreedSubpop(EvolutionState, int, int) - Method in class ec.simple.SimpleBreeder

Returns true if we're doing sequential breeding and it's the subpopulation's turn (round robin, one subpopulation per generation).

shouldEvaluateSubpop(EvolutionState, int, int) - Method in class ec.coevolve.MultiPopCoevolutionaryEvaluator

Returns true if the subpopulation should be evaluated.

shrink(int) - Method in class ec.util.IntBag

Resizes the objs array to max(numObjs, desiredLength), unless that value is greater than or equal to objs.length, in which case no resizing is done (this operation only shrinks -- use resize() instead).

shuffle - Variable in class ec.select.SUSSelection

Should we shuffle first?

shuffle(EvolutionState, int[]) - Method in class ec.coevolve.MultiPopCoevolutionaryEvaluator

shuffle(GPNode[], EvolutionState, int) - Method in class ec.gp.push.PushBuilder

shuffle(MersenneTwisterFast) - Method in class ec.util.IntBag

Shuffles (randomizes the order of) the IntBag

shuffle(Random) - Method in class ec.util.IntBag

Shuffles (randomizes the order of) the IntBag

shutdown() - Method in class ec.eval.SlaveMonitor

Shuts down the slave monitor (also shuts down all slaves).

sigma - Variable in class ec.eda.cmaes.CMAESSpecies

The "sigma" scaling factor for the covariance matrix.

SigmaScalingSelection - Class in ec.select

Similar to FitProportionateSelection, but with adjustments to scale up/exaggerate differences in fitness for selection when true fitness values are very close to eachother across the population.

SigmaScalingSelection() - Constructor for class ec.select.SigmaScalingSelection

sigmoid(double) - Method in class ec.neat.NEATNode

The Sigmoid function.

SIGMOID - Enum constant in enum class ec.neat.NEATNode.FunctionType

SIGMOID_SLOPE - Static variable in class ec.neat.NEATNetwork

constant used for the sigmoid function

silent - Variable in class ec.util.Log

Should we write to this log at all?

silentFile - Variable in class ec.Statistics

silentFront - Variable in class ec.multiobjective.MultiObjectiveStatistics

silentPrint - Variable in class ec.Statistics

SimpleBreeder - Class in ec.simple

Breeds each subpopulation separately, with no inter-population exchange, and using a generational approach.

SimpleBreeder() - Constructor for class ec.simple.SimpleBreeder

SimpleDefaults - Class in ec.simple

SimpleDefaults() - Constructor for class ec.simple.SimpleDefaults

SimpleEvaluator - Class in ec.simple

The SimpleEvaluator is a simple, non-coevolved generational evaluator which evaluates every single member of every subpopulation individually in its own problem space.

SimpleEvaluator() - Constructor for class ec.simple.SimpleEvaluator

SimpleEvolutionState - Class in ec.simple

A SimpleEvolutionState is an EvolutionState which implements a simple form of generational evolution.

SimpleEvolutionState() - Constructor for class ec.simple.SimpleEvolutionState

SimpleExchanger - Class in ec.simple

A SimpleExchanger is a default Exchanger which, well, doesn't do anything.

SimpleExchanger() - Constructor for class ec.simple.SimpleExchanger

SimpleFinisher - Class in ec.simple

SimpleFinisher is a default Finisher which doesn't do anything.

SimpleFinisher() - Constructor for class ec.simple.SimpleFinisher

SimpleFitness - Class in ec.simple

A simple default fitness, consisting of a double floating-point value where fitness A is superior to fitness B if and only if A > B.

SimpleFitness() - Constructor for class ec.simple.SimpleFitness

SimpleGroupedEvaluator - Class in ec.simple

SimpleGroupedEvaluator() - Constructor for class ec.simple.SimpleGroupedEvaluator

SimpleIndividualPortrayal - Class in ec.display.portrayal

This portrayal uses a text pane to display the results of printIndividualForHumans().

SimpleIndividualPortrayal() - Constructor for class ec.display.portrayal.SimpleIndividualPortrayal

SimpleInitializer - Class in ec.simple

SimpleInitializer is a default Initializer which initializes a Population by calling the Population's populate(...) method.

SimpleInitializer() - Constructor for class ec.simple.SimpleInitializer

SimpleProblemForm - Interface in ec.simple

SimpleProblemForm is an interface which defines methods for Problems to implement simple, single-individual (non-coevolutionary) evaluation.

SimpleShortStatistics - Class in ec.simple

A Simple-style statistics generator, intended to be easily parseable with awk or other Unix tools.

SimpleShortStatistics() - Constructor for class ec.simple.SimpleShortStatistics

SimpleStatistics - Class in ec.simple

A basic Statistics class suitable for simple problem applications.

SimpleStatistics() - Constructor for class ec.simple.SimpleStatistics

simulatedBinaryCrossover(MersenneTwisterFast, DoubleVectorIndividual, double) - Method in class ec.vector.DoubleVectorIndividual

simulatedBinaryCrossover(MersenneTwisterFast, FloatVectorIndividual, float) - Method in class ec.vector.FloatVectorIndividual

Singleton - Interface in ec

A Singleton is a class for which there will be only one instance in the entire course of a run, and which will exist for pretty much the entire run.

size - Variable in class ec.exchange.IslandExchange

how many individuals to send each time

size - Variable in class ec.parsimony.BucketTournamentSelection

Size of the tournament

size - Variable in class ec.parsimony.DoubleTournamentSelection

Size of the tournament

size - Variable in class ec.parsimony.RatioBucketTournamentSelection

Size of the tournament

size - Variable in class ec.select.BestSelection

Base size of the tournament; this may change.

size - Variable in class ec.select.TournamentSelection

Base size of the tournament; this may change.

size() - Method in class ec.gp.GPIndividual

Returns the "size" of the individual, namely, the number of nodes in all of its subtrees.

size() - Method in class ec.Individual

Returns the "size" of the individual.

size() - Method in class ec.rule.RuleIndividual

size() - Method in class ec.util.DataPipe

Returns the total size of the buffer.

size() - Method in interface ec.util.Indexed

size() - Method in class ec.util.IntBag

size() - Method in class ec.vector.VectorIndividual

SIZE_OF_BYTE - Static variable in class ec.gp.GPInitializer

SIZE_OF_BYTE - Static variable in class ec.gp.GPNodeConstraints

SIZE_OF_BYTE - Static variable in class ec.gp.GPTreeConstraints

SIZE_OF_BYTE - Static variable in class ec.rule.RuleInitializer

size2 - Variable in class ec.parsimony.DoubleTournamentSelection

sizeDistribution - Variable in class ec.gp.GPNodeBuilder

the maximum possible size -- if unused, it's 0

sizeDistribution - Variable in class ec.rule.RuleSetConstraints

SizeFairCrossoverPipeline - Class in ec.gp.breed

SizeFairCrossover works similarly to one written in the paper "Size Fair and Homologous Tree Genetic Programming Crossovers" by Langdon (1998).

SizeFairCrossoverPipeline() - Constructor for class ec.gp.breed.SizeFairCrossoverPipeline

Slave - Class in ec.eval

Slave.java

Slave() - Constructor for class ec.eval.Slave

SlaveMonitor - Class in ec.eval

SlaveMonitor.java

SlaveMonitor(EvolutionState, boolean, MasterProblem) - Constructor for class ec.eval.SlaveMonitor

Simple constructor that initializes the data structures for keeping track of the state of each slave.

slaveNum - Static variable in class ec.eval.Slave

My unique slave number.

SLEEP_TIME - Static variable in class ec.eval.Slave

How long we sleep in between attempts to connect to the master (in milliseconds).

SLEEP_TIME - Static variable in class ec.exchange.IslandExchange

How long we sleep in between attempts to connect or look for signals

smaller(CornerMap.Pair) - Method in class ec.eda.dovs.CornerMap

Get a greatest key value pair from this CornerMap who is the immediate previous element of pair

sort() - Method in class ec.util.IntBag

Sorts the ints into ascending numerical order.

sort(Object, Comparator) - Method in class ec.util.ParameterDatabaseTreeModel

SortComparator - Interface in ec.util

The interface for passing objects to ec.util.QuickSort

SortComparatorL - Interface in ec.util

The interface for passing objects to ec.util.QuickSort

sortedFitOver - Variable in class ec.select.GreedyOverselection

sortedFitUnder - Variable in class ec.select.GreedyOverselection

sortedPop - Variable in class ec.select.BestSelection

Sorted, normalized, totalized fitnesses for the population

sortedPop - Variable in class ec.select.GreedyOverselection

Sorted population -- since I *have* to use an int-sized individual (short gives me only 16K), I might as well just have pointers to the population itself.

sortIndividuals() - Method in class ec.neat.NEATSubspecies

Sort the individuals in this subspecies, the one with highest fitness comes first.

sources - Variable in class ec.BreedingPipeline

Array of sources feeding the pipeline

sourcesAreProperForm(SteadyStateEvolutionState) - Method in class ec.BreedingPipeline

sourcesAreProperForm(SteadyStateEvolutionState) - Method in class ec.parsimony.BucketTournamentSelection

sourcesAreProperForm(SteadyStateEvolutionState) - Method in class ec.parsimony.DoubleTournamentSelection

sourcesAreProperForm(SteadyStateEvolutionState) - Method in class ec.parsimony.RatioBucketTournamentSelection

sourcesAreProperForm(SteadyStateEvolutionState) - Method in class ec.select.FirstSelection

sourcesAreProperForm(SteadyStateEvolutionState) - Method in class ec.select.RandomSelection

sourcesAreProperForm(SteadyStateEvolutionState) - Method in class ec.select.TournamentSelection

sourcesAreProperForm(SteadyStateEvolutionState) - Method in interface ec.steadystate.SteadyStateBSourceForm

Issue an error (not a fatal -- we guarantee that callers of this method will also call exitIfErrors) if any of your sources, or their sources, etc., are not of SteadyStateBSourceForm.

sourcesAreProperForm(SteadyStateEvolutionState, BreedingSource[]) - Method in class ec.steadystate.SteadyStateBreeder

Called to check to see if the breeding sources are correct -- if you use this method, you must call state.output.exitIfErrors() immediately afterwards.

Space - Interface in ec.spatial

In a spatially-embedded EA, the subpopulations of individuals are assumed to be spatially distributed in some sort of space, be it one-dimmensional, two- dimmensional, or whatever else.

sparsity - Variable in class ec.multiobjective.nsga2.NSGA2MultiObjectiveFitness

Sparsity along front rank measure (higher sparsity is better)

Spatial1DSubpopulation - Class in ec.spatial

A Spatial1DSubpopulation is an EC subpopulation that is additionally embedded into a one-dimmensional space.

Spatial1DSubpopulation() - Constructor for class ec.spatial.Spatial1DSubpopulation

SpatialBreeder - Class in ec.spatial

A slight modification of the simple breeder for spatially-embedded EAs.

SpatialBreeder() - Constructor for class ec.spatial.SpatialBreeder

SpatialDefaults - Class in ec.spatial

SpatialDefaults() - Constructor for class ec.spatial.SpatialDefaults

SpatialMultiPopCoevolutionaryEvaluator - Class in ec.spatial

SpatialMultiPopCoevolutionaryEvaluator implements a coevolutionary evaluator involving multiple spatially-embedded subpopulations.

SpatialMultiPopCoevolutionaryEvaluator() - Constructor for class ec.spatial.SpatialMultiPopCoevolutionaryEvaluator

SpatialTournamentSelection - Class in ec.spatial

A slight modification of the tournament selection procedure for use with spatially-embedded EAs.

SpatialTournamentSelection() - Constructor for class ec.spatial.SpatialTournamentSelection

spawnWithTemplate(EvolutionState, NEATSpecies, int, NEATIndividual) - Method in class ec.neat.NEATSpecies

Spawn a new individual with given individual as template.

SPEA2_DISTANCE_PREAMBLE - Static variable in class ec.multiobjective.spea2.SPEA2MultiObjectiveFitness

SPEA2_FITNESS_PREAMBLE - Static variable in class ec.multiobjective.spea2.SPEA2MultiObjectiveFitness

SPEA2_STRENGTH_PREAMBLE - Static variable in class ec.multiobjective.spea2.SPEA2MultiObjectiveFitness

SPEA2Breeder - Class in ec.multiobjective.spea2

This subclass of SimpleBreeder overrides the loadElites method to build an archive in the top elites[subpopnum] of each subpopulation.

SPEA2Breeder() - Constructor for class ec.multiobjective.spea2.SPEA2Breeder

SPEA2Breeder.BreedingState - Enum Class in ec.multiobjective.spea2

We use a state variable to make sure that the archive isn't built twice in a row.

SPEA2MultiObjectiveFitness - Class in ec.multiobjective.spea2

SPEA2MultiObjectiveFitness is a subclass of MultiObjectiveFitness which adds three auxiliary fitness measures used in SPEA2: strength S(i), kthNNDistance D(i), and a final fitness value R(i) + D(i).

SPEA2MultiObjectiveFitness() - Constructor for class ec.multiobjective.spea2.SPEA2MultiObjectiveFitness

speciate(EvolutionState, Individual) - Method in class ec.neat.NEATSpecies

Assign the individual into a species, if not found, create a new one

species - Variable in class ec.Individual

The species of the Individual.

species - Variable in class ec.Subpopulation

The species for individuals in this subpopulation.

Species - Class in ec

Species is a prototype which defines the features for a set of individuals in the population.

Species() - Constructor for class ec.Species

split(int[], RuleSet[]) - Method in class ec.rule.RuleSet

Splits the rule set into n pieces, according to points, which *must* be sorted.

split(int[], Object[]) - Method in class ec.vector.BitVectorIndividual

Splits the genome into n pieces, according to points, which *must* be sorted.

split(int[], Object[]) - Method in class ec.vector.ByteVectorIndividual

Splits the genome into n pieces, according to points, which *must* be sorted.

split(int[], Object[]) - Method in class ec.vector.DoubleVectorIndividual

Splits the genome into n pieces, according to points, which *must* be sorted.

split(int[], Object[]) - Method in class ec.vector.FloatVectorIndividual

Splits the genome into n pieces, according to points, which *must* be sorted.

split(int[], Object[]) - Method in class ec.vector.GeneVectorIndividual

Splits the genome into n pieces, according to points, which *must* be sorted.

split(int[], Object[]) - Method in class ec.vector.IntegerVectorIndividual

Splits the genome into n pieces, according to points, which *must* be sorted.

split(int[], Object[]) - Method in class ec.vector.LongVectorIndividual

Splits the genome into n pieces, according to points, which *must* be sorted.

split(int[], Object[]) - Method in class ec.vector.ShortVectorIndividual

Splits the genome into n pieces, according to points, which *must* be sorted.

split(int[], Object[]) - Method in class ec.vector.VectorIndividual

Splits the genome into n pieces, according to points, which *must* be sorted.

split(EvolutionState, int, RuleSet[]) - Method in class ec.rule.RuleSet

Splits the rule set into a number of disjoint rule sets, copying the rules and adding them to the sets as appropriate.

splitIntoTwo(EvolutionState, int, RuleSet[], double) - Method in class ec.rule.RuleSet

Splits the rule set into a two disjoint rule sets, copying the rules and adding them to the sets as appropriate.

stack - Variable in class ec.gp.ADFStack

stack - Variable in class ec.gp.GPProblem

The GPProblem's stack

standardizedFitness - Variable in class ec.gp.koza.KozaFitness

This ranges from 0 (best) to infinity (worst).

standardizedFitness() - Method in class ec.gp.koza.KozaFitness

Returns the standardized fitness metric.

start - Variable in class ec.evolve.RandomRestarts

start(Runnable) - Method in class ec.util.ThreadPool

Start a thread on the given Runnable and returns it.

start(Runnable, int) - Method in class ec.util.ThreadPool

Start a thread on the given Runnable and returns it.

start(Runnable, int, String) - Method in class ec.util.ThreadPool

Start a thread on the given Runnable with a given thread name (for debugging purposes) and returns it.

start(Runnable, String) - Method in class ec.util.ThreadPool

Start a thread on the given Runnable with a given thread name (for debugging purposes).

startFresh() - Method in class ec.EvolutionState

startFresh() - Method in class ec.exchange.IslandExchange

startFresh() - Method in class ec.simple.SimpleEvolutionState

startFresh() - Method in class ec.steadystate.SteadyStateEvolutionState

startFromCheckpoint() - Method in class ec.EvolutionState

startFromCheckpoint() - Method in class ec.exchange.IslandExchange

state - Variable in class ec.eval.SlaveMonitor

stateEquals(MersenneTwister) - Method in class ec.util.MersenneTwister

Returns true if the MersenneTwister's current internal state is equal to another MersenneTwister.

stateEquals(MersenneTwisterFast) - Method in class ec.util.MersenneTwisterFast

Returns true if the MersenneTwisterFast's current internal state is equal to another MersenneTwisterFast.

statistics - Variable in class ec.EvolutionState

The population statistics, a singleton object.

Statistics - Class in ec

Statistics and its subclasses are Cliques which generate statistics during the run.

Statistics() - Constructor for class ec.Statistics

StatisticsChartPane - Class in ec.display

StatisticsChartPane() - Constructor for class ec.display.StatisticsChartPane

StatisticsChartPane(int) - Constructor for class ec.display.StatisticsChartPane

StatisticsChartPane(int, int) - Constructor for class ec.display.StatisticsChartPane

StatisticsChartPaneTab - Class in ec.display.chart

StatisticsChartPaneTab(ChartPanel) - Constructor for class ec.display.chart.StatisticsChartPaneTab

StatisticsChartPaneTab(ChartPanel, boolean) - Constructor for class ec.display.chart.StatisticsChartPaneTab

statisticslog - Variable in class ec.simple.SimpleShortStatistics

statisticslog - Variable in class ec.simple.SimpleStatistics

The Statistics' log

stDevRatioThresh - Variable in class ec.eda.amalgam.AMALGAMSpecies

SteadyStateBreeder - Class in ec.steadystate

This subclass of Breeder performs the evaluation portion of Steady-State Evolution and (in distributed form) Asynchronous Evolution.

SteadyStateBreeder() - Constructor for class ec.steadystate.SteadyStateBreeder

Do we allow duplicates?

SteadyStateBSourceForm - Interface in ec.steadystate

SteadyStateDefaults - Class in ec.steadystate

SteadyStateDefaults() - Constructor for class ec.steadystate.SteadyStateDefaults

SteadyStateEvaluator - Class in ec.steadystate

This subclass of Evaluator performs the evaluation portion of Steady-State Evolution and (in distributed form) Asynchronous Evolution.

SteadyStateEvaluator() - Constructor for class ec.steadystate.SteadyStateEvaluator

SteadyStateEvolutionState - Class in ec.steadystate

This subclass of EvolutionState implements basic Steady-State Evolution and (in distributed form) Asynchronous Evolution.

SteadyStateEvolutionState() - Constructor for class ec.steadystate.SteadyStateEvolutionState

SteadyStateExchangerForm - Interface in ec.steadystate

The SteadyStateExchangerForm is a badge which Exchanger subclasses may wear if they work properly with the SteadyStateEvolutionState mechanism.

SteadyStateStatisticsForm - Interface in ec.steadystate

This interface defines the hooks for SteadyStateEvolutionState objects to update themselves on.

stealBabies(EvolutionState, int, int, ArrayList<NEATSubspecies>) - Method in class ec.neat.NEATSpecies

Steal the babies from champion subspecies.

steps - Variable in class ec.select.SUSSelection

How many samples have been done?

stochastic - Variable in class ec.eda.dovs.DOVSSpecies

Is the problem a stochastic problem.

strength - Variable in class ec.multiobjective.spea2.SPEA2MultiObjectiveFitness

SPEA2 strength (# of nodes it dominates)

STRING_CONSTANT - Static variable in class ec.gp.ge.GrammarParser

stubPipeline - Variable in class ec.breed.StubPipeline

StubPipeline - Class in ec.breed

StubPipeline is a BreedingPipeline subclass which, during fillStubs(), fills all the stubs with its own stub pipeline.

StubPipeline() - Constructor for class ec.breed.StubPipeline

style - Variable in class ec.coevolve.CompetitiveEvaluator

STYLE_N_RANDOM_COMPETITORS_ONEWAY - Static variable in class ec.coevolve.CompetitiveEvaluator

STYLE_N_RANDOM_COMPETITORS_TWOWAY - Static variable in class ec.coevolve.CompetitiveEvaluator

STYLE_ROUND_ROBIN - Static variable in class ec.coevolve.CompetitiveEvaluator

STYLE_SINGLE_ELIMINATION - Static variable in class ec.coevolve.CompetitiveEvaluator

subpop - Variable in class ec.steadystate.QueueIndividual

SUBPOP_INDEX_PREAMBLE - Static variable in class ec.Population

subpops - Variable in class ec.Population

Subpopulation - Class in ec

Subpopulation is a group which is basically an array of Individuals.

Subpopulation() - Constructor for class ec.Subpopulation

SubpopulationPanel - Class in ec.display

SubpopulationPanel(Console, int) - Constructor for class ec.display.SubpopulationPanel

SubpopulationPanel(Console, int, boolean) - Constructor for class ec.display.SubpopulationPanel

subspecies - Variable in class ec.neat.NEATIndividual

The individual's subpecies

subspecies - Variable in class ec.neat.NEATSpecies

A list of the all the subspecies.

subspeciesPrototype - Variable in class ec.neat.NEATSpecies

The prototypical subspecies for individuals in this species.

substack - Variable in class ec.gp.ADFStack

sum - Variable in class ec.eda.dovs.DOVSFitness

Sum of the all the fitness value with all the evaluation.

sumSquared - Variable in class ec.eda.dovs.DOVSFitness

Sum of the all the squared fitness value with all the evaluation.

sumSquaredObjectiveDistance(MultiObjectiveFitness, boolean) - Method in class ec.multiobjective.MultiObjectiveFitness

Returns the sum of the squared difference between two Fitnesses in Objective space.

superChampionOffspring - Variable in class ec.neat.NEATIndividual

Number of reserved offspring for a population leader.

survivalThreshold - Variable in class ec.neat.NEATSpecies

Percent of ave fitness for survival.

SUSSelection - Class in ec.select

Picks individuals in a population using the Stochastic Universal Selection (SUS) process, using fitnesses as returned by their fitness() methods.

SUSSelection() - Constructor for class ec.select.SUSSelection

swapCompatibleWith(GPInitializer, GPNode) - Method in class ec.gp.GPNode

Returns true if I can swap into node's position.

SYNC - Static variable in class ec.exchange.IslandExchange

Synchronize signal

synchronous - Variable in class ec.exchange.IslandExchange

synchronous or asynchronous communication

systemMessage(String) - Method in class ec.util.Output

Posts a system message.

T

T_BOOLEAN - Static variable in class ec.util.DecodeReturn

T_BYTE - Static variable in class ec.util.DecodeReturn

T_CHAR - Static variable in class ec.util.DecodeReturn

T_CHARACTER - Static variable in class ec.util.DecodeReturn

Same as T_CHAR

T_DOUBLE - Static variable in class ec.util.DecodeReturn

T_ERROR - Static variable in class ec.util.DecodeReturn

The actual error is stored in the String slot

T_FLOAT - Static variable in class ec.util.DecodeReturn

T_INT - Static variable in class ec.util.DecodeReturn

T_INTEGER - Static variable in class ec.util.DecodeReturn

Same as T_INT

T_LONG - Static variable in class ec.util.DecodeReturn

T_SHORT - Static variable in class ec.util.DecodeReturn

T_STRING - Static variable in class ec.util.DecodeReturn

TarpeianStatistics - Class in ec.parsimony

This Statistics subclass implements Poli's "Tarpeian" method of parsimony control, whereby some kill-proportion of above-average-sized individuals in each subpopulation have their fitnesses set to a very bad value, and marks them as already evaluated (so the Evaluator can skip them).

TarpeianStatistics() - Constructor for class ec.parsimony.TarpeianStatistics

tau - Variable in class ec.eda.amalgam.AMALGAMSpecies

temp - Variable in class ec.eda.amalgam.AMALGAMSpecies

temp2 - Variable in class ec.eda.amalgam.AMALGAMSpecies

temp3 - Variable in class ec.eda.amalgam.AMALGAMSpecies

tempMatrix - Variable in class ec.eda.amalgam.AMALGAMSpecies

Terminal - Class in ec.gp.push

Terminal is the leaf node in Push trees and is used to represent Push instructions of all types.

Terminal() - Constructor for class ec.gp.push.Terminal

terminalProbabilities(int) - Method in class ec.gp.build.PTCFunctionSet

terminalProbabilities(int) - Method in interface ec.gp.build.PTCFunctionSetForm

Returns an organized distribution (see ec.util.RandomChoice) of likelihoods that various terminals in the function set will be chosen over other terminals with the same return type.

terminalProbability - Variable in class ec.gp.koza.KozaNodeSelector

The probability a terminal must be chosen

terminals - Variable in class ec.gp.GPFunctionSet

The terminals our GPTree can use: terminals[type][thenodes].

terminals - Variable in class ec.gp.koza.KozaNodeSelector

The number of terminals in the tree, -1 if unknown.

terminals_h - Variable in class ec.gp.GPFunctionSet

The terminals our GPTree can use: arrays of terminals hashed by type.

test(GPNode) - Method in class ec.gp.GPNodeGatherer

Returns true if thisNode is the kind of node to be considered in the gather count for nodeInPosition(...) and GPNode.numNodes(GPNodeGatherer).

ThreadPool - Class in ec.util

ThreadPool.java A simple, lightweight thread pool, for those who cannot or will not use Java's baroque java.util.concurrent package.

ThreadPool() - Constructor for class ec.util.ThreadPool

ThreadPool.Worker - Interface in ec.util

A Worker is a special kind of object which represents an underlying Worker thread usable in the ThreadPool.

timeAlive - Variable in class ec.neat.NEATIndividual

When playing in real-time allows knowing the maturity of an individual

timeCollection - Variable in class ec.display.chart.TimeSeriesStatistics

timeDelay - Variable in class ec.neat.NEATGene

Time delay of the link, used in network activation.

TimeSeriesStatistics - Class in ec.display.chart

TimeSeriesStatistics() - Constructor for class ec.display.chart.TimeSeriesStatistics

timeSinceLastImproved() - Method in class ec.neat.NEATSubspecies

Compute generations gap since last improvement

title - Variable in class ec.display.chart.ChartableStatistics

toArray() - Method in class ec.util.IntBag

toDoubleArray() - Method in class ec.util.IntBag

toIntArray() - Method in class ec.util.IIntPoint

toIntegerArray() - Method in class ec.util.IntBag

toLongArray() - Method in class ec.util.IntBag

toNewGeneration() - Method in class ec.neat.NEATSubspecies

After we finish the reproduce, the newGenIndividual list has the all the individuals that is ready for evalution in next generation.

top() - Method in class ec.util.IntBag

Returns 0 if the IntBag is empty, else returns the topmost int.

top() - Method in class ec.util.Parameter

Returns the path item at the far end of the parameter.

top(int) - Method in class ec.gp.ADFStack

Returns the nth item in the stack (0-indexed), or null if this goes to the bottom of the stack.

top_n_percent - Variable in class ec.select.GreedyOverselection

topOfFloatStack(Interpreter) - Method in class ec.gp.push.PushProblem

Returns the top of the interpreter's float stack.

topOfIntStack(Interpreter) - Method in class ec.gp.push.PushProblem

Returns the top of the interpreter's int stack.

TopSelection - Class in ec.select

Returns the single fittest individual in the population, breaking ties randomly.

TopSelection() - Constructor for class ec.select.TopSelection

toroidal - Variable in class ec.spatial.Spatial1DSubpopulation

tossSecondParent - Variable in class ec.gp.breed.SizeFairCrossoverPipeline

Should the pipeline discard the second parent after crossing over?

tossSecondParent - Variable in class ec.gp.koza.CrossoverPipeline

Should the pipeline discard the second parent after crossing over?

tossSecondParent - Variable in class ec.rule.breed.RuleCrossoverPipeline

Should the pipeline discard the second parent after crossing over?

tossSecondParent - Variable in class ec.vector.breed.ListCrossoverPipeline

tossSecondParent - Variable in class ec.vector.breed.VectorCrossoverPipeline

Should the pipeline discard the second parent after crossing over?

toString() - Method in class ec.display.ParameterValue

toString() - Method in class ec.gp.ADF

toString() - Method in class ec.gp.ADFArgument

toString() - Method in class ec.gp.ERC

This defaults to simply name() + "[" + encode() + "]".

toString() - Method in class ec.gp.ge.GrammarFunctionNode

A better toString() function -- khaled

toString() - Method in class ec.gp.ge.GrammarNode

toString() - Method in class ec.gp.ge.GrammarParser

toString() - Method in class ec.gp.ge.GrammarRuleNode

A better toString() function -- khaled

toString() - Method in class ec.gp.GPFunctionSet

Returns the name.

toString() - Method in class ec.gp.GPNode

Returns a Lisp-like atom for the node which can be read in again by computer.

toString() - Method in class ec.gp.GPNodeConstraints

toString() - Method in class ec.gp.GPTreeConstraints

toString() - Method in class ec.gp.GPType

Returns the type's name

toString() - Method in class ec.gp.push.Nonterminal

toString() - Method in class ec.Individual

Overridden here because hashCode() is not expected to return the pointer to the object.

toString() - Method in class ec.neat.NEATGene

This method convert the gene in to human readable format.

toString() - Method in class ec.neat.NEATIndividual

This method convert the individual in to human readable format.

toString() - Method in class ec.neat.NEATNode

This method convert the gene in to human readable format.

toString() - Method in class ec.rule.RuleConstraints

Converting the rule to a string ( the name )

toString() - Method in class ec.rule.RuleSetConstraints

Converting the rule to a string ( the name )

toString() - Method in class ec.util.DataPipe

toString() - Method in class ec.util.IIntPoint

toString() - Method in class ec.util.Parameter

toString() - Method in class ec.util.ParameterDatabase

toString() - Method in class ec.util.ReflectedObject

toStringForError() - Method in class ec.gp.GPNode

Returns a description of the node that can make it easy to identify in error messages (by default, at least its name and the tree it's found in).

toStringForHumans() - Method in class ec.gp.ERC

You might want to override this to return a special human-readable version of the erc value; otherwise this defaults to toString(); This should be something that resembles a LISP atom.

toStringForHumans() - Method in class ec.gp.GPNode

Returns a Lisp-like atom for the node which is intended for human consumption, and not to be read in again.

toStringForHumans() - Method in class ec.gp.push.Nonterminal

toStringForHumans() - Method in class ec.gp.push.Terminal

totalFitnessThisGen - Variable in class ec.simple.SimpleShortStatistics

totalIndsSoFar - Variable in class ec.simple.SimpleShortStatistics

totalIndsThisGen - Variable in class ec.simple.SimpleShortStatistics

totalSizeSoFar - Variable in class ec.simple.SimpleShortStatistics

totalSizeThisGen - Variable in class ec.simple.SimpleShortStatistics

TournamentSelection - Class in ec.select

Does a simple tournament selection, limited to the subpopulation it's working in at the time.

TournamentSelection() - Constructor for class ec.select.TournamentSelection

transferAdditionalData(EvolutionState) - Method in class ec.eval.MasterProblem

This method is called by a Slave to transfer data previously loaded via receiveAdditionalData() to a running EvolutionState at the beginning of evolution.

transferAdditionalData(EvolutionState) - Method in class ec.Problem

This method is called by a Slave to transfer data previously loaded via receiveAdditionalData() to a running EvolutionState at the beginning of evolution.

traverseTreeForDepth(GPNode, ArrayList, HashMap) - Method in class ec.gp.breed.SizeFairCrossoverPipeline

Recursively travel the tree so that depth and subtree below are computed only once and can be reused later.

TREE_UNFIXED - Static variable in class ec.gp.GPBreedingPipeline

Standard value for an unfixed tree

tree1 - Variable in class ec.gp.breed.InternalCrossoverPipeline

Is the first tree fixed? If not, this is -1

tree1 - Variable in class ec.gp.breed.SizeFairCrossoverPipeline

Is the first tree fixed? If not, this is -1

tree1 - Variable in class ec.gp.koza.CrossoverPipeline

Is the first tree fixed? If not, this is -1

tree2 - Variable in class ec.gp.breed.InternalCrossoverPipeline

Is the second tree fixed? If not, this is -1

tree2 - Variable in class ec.gp.breed.SizeFairCrossoverPipeline

Is the second tree fixed? If not, this is -1

tree2 - Variable in class ec.gp.koza.CrossoverPipeline

Is the second tree fixed? If not, this is -1

treeConstraintRepository - Variable in class ec.gp.GPInitializer

treeConstraints - Variable in class ec.gp.GPInitializer

treeEquals(GPTree) - Method in class ec.gp.GPTree

Returns true if I am "genetically" the same as tree, though we may have different owners.

treeHashCode() - Method in class ec.gp.GPTree

Returns a hash code for comparing different GPTrees.

treeNumber() - Method in class ec.gp.GPTree

An expensive function which determines my tree number -- only use for errors, etc.

trees - Variable in class ec.gp.GPIndividual

treetype - Variable in class ec.gp.GPTreeConstraints

The type of the root of the tree

trials - Variable in class ec.Fitness

Auxiliary variable, used by coevolutionary processes, to compute the number of trials used to compute this Fitness value.

truesizes - Variable in class ec.gp.build.Uniform

truncate(int) - Method in class ec.Subpopulation

Truncates the Subpopulation to a new size.

TRUNCATE - Static variable in class ec.Subpopulation

tweak(EvolutionState, double[], double, double, double, double, int) - Method in class ec.pso.Particle

type - Variable in class ec.gp.GPType

The preassigned integer value for the type

type - Variable in class ec.neat.NEATNode

Distinguish the Sensor node or other neuron node.

type - Variable in class ec.util.DecodeReturn

The DecodeReturn type

TYPE_RANDOM_WALK - Static variable in class ec.spatial.SpatialTournamentSelection

TYPE_UNIFORM - Static variable in class ec.spatial.SpatialTournamentSelection

typeFor(String, EvolutionState) - Static method in class ec.gp.GPType

Returns a type for a given name.

typeRepository - Variable in class ec.gp.GPInitializer

TODO Comment these members.

types - Variable in class ec.gp.GPInitializer

types_h - Variable in class ec.gp.GPSetType

The hashtable of types in the set

types_packed - Variable in class ec.gp.GPSetType

A packed, sorted array of atomic types in the set

types_sparse - Variable in class ec.gp.GPSetType

A sparse array of atomic types in the set

typicalIndsProduced() - Method in class ec.breed.BufferedBreedingPipeline

typicalIndsProduced() - Method in class ec.breed.ForceBreedingPipeline

Returns the max of typicalIndsProduced() of all its children

typicalIndsProduced() - Method in class ec.breed.GenerationSwitchPipeline

Returns the max of typicalIndsProduced() of all its children

typicalIndsProduced() - Method in class ec.breed.MultiBreedingPipeline

Returns the max of typicalIndsProduced() of all its children

typicalIndsProduced() - Method in class ec.BreedingPipeline

Returns the "typical" number of individuals produced -- by default this is the minimum typical number of individuals produced by any children sources of the pipeline.

typicalIndsProduced() - Method in class ec.BreedingSource

Returns the "typical" number of individuals generated with one call of produce(...).

typicalIndsProduced() - Method in class ec.gp.breed.SizeFairCrossoverPipeline

Returns 2 * minimum number of typical individuals produced by any sources, else 1* minimum number if tossSecondParent is true.

typicalIndsProduced() - Method in class ec.gp.koza.CrossoverPipeline

Returns 2 * minimum number of typical individuals produced by any sources, else 1* minimum number if tossSecondParent is true.

typicalIndsProduced() - Method in class ec.rule.breed.RuleCrossoverPipeline

Returns 2 (unless tossing the second sibling, in which case it returns 1)

typicalIndsProduced() - Method in class ec.rule.breed.RuleMutationPipeline

Returns 1

typicalIndsProduced() - Method in class ec.SelectionMethod

Returns 1 (the typical default value)

typicalIndsProduced() - Method in class ec.vector.breed.ListCrossoverPipeline

typicalIndsProduced() - Method in class ec.vector.breed.MultipleVectorCrossoverPipeline

Returns the minimum number of children that are produced per crossover

typicalIndsProduced() - Method in class ec.vector.breed.VectorCrossoverPipeline

Returns 2 * minimum number of typical individuals produced by any sources, else 1* minimum number if tossSecondParent is true.

U

UNDEFINED - Static variable in class ec.EvolutionState

Uniform - Class in ec.gp.build

Uniform implements the algorithm described in

Uniform() - Constructor for class ec.gp.build.Uniform

UniquePipeline - Class in ec.breed

UniquePipeline is a BreedingPipeline which tries very hard to guarantee that all the individuals it produces are unique from members of the original subpopulation.

UniquePipeline() - Constructor for class ec.breed.UniquePipeline

uniqueSamples(EvolutionState, ArrayList<Individual>) - Method in class ec.eda.dovs.DOVSSpecies

This method will take a candidate list and identify is there is redundant individual in it.

UNKNOWN_VALUE - Static variable in class ec.util.ParameterDatabase

unmarkElitesEvaluated(EvolutionState, Population) - Method in class ec.simple.SimpleBreeder

unregisterSlave(SlaveConnection) - Method in class ec.eval.SlaveMonitor

Unregisters a dead slave from the monitor.

update(EvolutionState, int, int, int) - Method in class ec.pso.Particle

updateDistribution(EvolutionState, Subpopulation) - Method in class ec.eda.amalgam.AMALGAMSpecies

updateDistribution(EvolutionState, Subpopulation) - Method in class ec.eda.cmaes.CMAESSpecies

Revises the CMA-ES distribution to reflect the current fitness results in the provided subpopulation.

updateDistribution(EvolutionState, Subpopulation) - Method in class ec.eda.pbil.PBILSpecies

Revises the PBIL distribution to reflect the current fitness results in the provided subpopulation.

updateIndividual(EvolutionState, Individual) - Method in class ec.Species

A hook for code that is run on every individual as soon as it is evaluated.

updateMostPromisingArea(EvolutionState) - Method in class ec.eda.dovs.DOVSSpecies

Define a most promising area for search of next genertion of individuals.

updateMostPromisingArea(EvolutionState) - Method in class ec.eda.dovs.HyperboxSpecies

Constructing a hyperbox, which defines the next search area.

updateSubpopulation(EvolutionState, Subpopulation) - Method in class ec.Species

A hook for code that is run on the entire subpopulation as soon as it has been evaluated.

updateSubspeciesMaxFitness() - Method in class ec.neat.NEATSubspecies

Update the maxFitnessEver variable.

UPPER_BOUND - Static variable in class ec.eda.dovs.HyperboxSpecies

upperbound - Variable in class ec.evolve.RandomRestarts

upperBound(int) - Method in class ec.eda.dovs.CornerMap

This method returns the smallest element whose key is bigger than (excluding equal to) "key",

useAltGenerator - Variable in class ec.eda.cmaes.CMAESSpecies

If, after trying altGeneratorTries to build an indiviual, we are still building one which violates min/max gene constraints, should we instead fill those violated genes with uniformly-selected values between the min and max?

useAltTermination - Variable in class ec.eda.amalgam.AMALGAMSpecies

useAltTermination - Variable in class ec.eda.cmaes.CMAESSpecies

Should we terminate when the eigenvalues get too small? If we don't, they might go negative and the eigendecomposition will fail.

useCompression - Variable in class ec.eval.SlaveMonitor

Indicates whether compression is used over the socket IO streams.

userAlphaAMS - Variable in class ec.eda.amalgam.AMALGAMSpecies

userEtaP - Variable in class ec.eda.amalgam.AMALGAMSpecies

userEtaS - Variable in class ec.eda.amalgam.AMALGAMSpecies

useTrueDistribution - Variable in class ec.gp.build.Uniform

usingElitism(int) - Method in class ec.simple.SimpleBreeder

V

V_ALIAS - Static variable in class ec.util.ParameterDatabase

V_ANY_POINT - Static variable in class ec.vector.VectorSpecies

V_AUTO - Static variable in class ec.simple.SimpleEvaluator

V_BEST - Static variable in class ec.simple.SimpleEvaluator

V_BOOLEAN - Static variable in class ec.eval.MetaProblem

V_C - Static variable in class ec.gp.GPTree

V_CENTER - Static variable in class ec.eda.cmaes.CMAESSpecies

V_CUTDOWN - Static variable in class ec.select.AnnealedSelection

V_DEFAULT - Static variable in class ec.util.ParameterDatabase

V_DOT - Static variable in class ec.gp.GPTree

V_EVALUATEGROUPED - Static variable in class ec.eval.Slave

V_EVALUATESIMPLE - Static variable in class ec.eval.Slave

V_FILL - Static variable in class ec.Subpopulation

V_FITNESS - Static variable in class ec.eval.Slave

V_FLIP_MUTATION - Static variable in class ec.vector.BitVectorSpecies

V_FLOAT - Static variable in class ec.eval.MetaProblem

V_GAUSS_MUTATION - Static variable in class ec.vector.FloatVectorSpecies

V_GEOMETRIC - Static variable in class ec.vector.VectorSpecies

V_IDENTITY - Static variable in class ec.eda.cmaes.CMAESSpecies

V_INDIVIDUAL - Static variable in class ec.eval.Slave

V_INTEGER - Static variable in class ec.eval.MetaProblem

V_INTEGER_RANDOM_WALK_MUTATION - Static variable in class ec.vector.FloatVectorSpecies

V_INTEGER_RESET_MUTATION - Static variable in class ec.vector.FloatVectorSpecies

V_INTERMED_RECOMB - Static variable in class ec.vector.VectorSpecies

V_LATEX - Static variable in class ec.gp.GPTree

V_LINE_RECOMB - Static variable in class ec.vector.VectorSpecies

V_LISP - Static variable in class ec.gp.GPTree

V_MEAN - Static variable in class ec.simple.SimpleEvaluator

V_MEDIAN - Static variable in class ec.simple.SimpleEvaluator

V_NEIGHBORHOOD_RANDOM - Static variable in class ec.pso.PSOBreeder

V_NEIGHBORHOOD_RANDOM_EACH_TIME - Static variable in class ec.pso.PSOBreeder

V_NEIGHBORHOOD_TOROIDAL - Static variable in class ec.pso.PSOBreeder

V_NO_ERRORS - Static variable in class ec.util.Output

Don't print warnings, messages, or simple errors

V_NO_GENERAL - Static variable in class ec.util.Output

The standard verbosity to use if you don't want common reporting (like statistics)

V_NO_MESSAGES - Static variable in class ec.util.Output

Don't print messages

V_NO_WARNINGS - Static variable in class ec.util.Output

Don't print warnings or messages

V_NOTHING - Static variable in class ec.eval.Slave

V_ONE_POINT - Static variable in class ec.vector.VectorSpecies

V_ONE_POINT_NO_NOP - Static variable in class ec.vector.VectorSpecies

V_POLYNOMIAL_MUTATION - Static variable in class ec.vector.FloatVectorSpecies

V_RANDOM - Static variable in class ec.eda.cmaes.CMAESSpecies

V_RANDOM_WALK - Static variable in class ec.spatial.SpatialTournamentSelection

V_RANDOM_WALK_MUTATION - Static variable in class ec.vector.IntegerVectorSpecies

V_RESET_MUTATION - Static variable in class ec.vector.BitVectorSpecies

V_RESET_MUTATION - Static variable in class ec.vector.FloatVectorSpecies

V_RESET_MUTATION - Static variable in class ec.vector.IntegerVectorSpecies

V_SAME - Static variable in class ec.BreedingPipeline

Indicates that a source is the exact same source as the previous source.

V_SCALED - Static variable in class ec.eda.cmaes.CMAESSpecies

V_SEED_TIME - Static variable in class ec.Evolve

'time' seed parameter value

V_SHUTDOWN - Static variable in class ec.eval.Slave

V_SIMULATED_BINARY - Static variable in class ec.vector.VectorSpecies

V_STUB - Static variable in class ec.BreedingPipeline

Indicates that the source will be filled later via a call to setStubs().

V_THREADS_AUTO - Static variable in class ec.Evolve

'auto' thread parameter value

V_TOTALLY_SILENT - Static variable in class ec.util.Output

No verbosity at all, not even system messages or fatal errors

V_TRUNCATE - Static variable in class ec.Subpopulation

V_TWO_POINT - Static variable in class ec.vector.VectorSpecies

V_TWO_POINT_NO_NOP - Static variable in class ec.vector.VectorSpecies

V_UNIFORM - Static variable in class ec.spatial.SpatialTournamentSelection

V_UNIFORM - Static variable in class ec.vector.VectorSpecies

V_VERBOSE - Static variable in class ec.util.Output

Total verbosity

V_WRAP - Static variable in class ec.Subpopulation

V_ZERO - Static variable in class ec.eda.cmaes.CMAESSpecies

valid(DoubleVectorIndividual) - Method in class ec.de.DEBreeder

Tests the Individual to see if its values are in range.

validateRules() - Method in class ec.gp.ge.GrammarParser

Checks that all grammar rules in ruleshashmap have at least one possible production

value - Variable in class ec.eda.dovs.CornerMap.Pair

valueForPathChanged(TreePath, Object) - Method in class ec.util.ReflectedObject

valueOf(String) - Static method in enum class ec.multiobjective.nsga2.NSGA2Breeder.BreedingState

Returns the enum constant of this class with the specified name.

valueOf(String) - Static method in enum class ec.multiobjective.spea2.SPEA2Breeder.BreedingState

Returns the enum constant of this class with the specified name.

valueOf(String) - Static method in enum class ec.neat.NEATNode.FunctionType

Returns the enum constant of this class with the specified name.

valueOf(String) - Static method in enum class ec.neat.NEATNode.NodePlace

Returns the enum constant of this class with the specified name.

valueOf(String) - Static method in enum class ec.neat.NEATNode.NodeType

Returns the enum constant of this class with the specified name.

valueOf(String) - Static method in enum class ec.neat.NEATSpecies.MutationType

Returns the enum constant of this class with the specified name.

values() - Static method in enum class ec.multiobjective.nsga2.NSGA2Breeder.BreedingState

Returns an array containing the constants of this enum class, in the order they are declared.

values() - Static method in enum class ec.multiobjective.spea2.SPEA2Breeder.BreedingState

Returns an array containing the constants of this enum class, in the order they are declared.

values() - Static method in enum class ec.neat.NEATNode.FunctionType

Returns an array containing the constants of this enum class, in the order they are declared.

values() - Static method in enum class ec.neat.NEATNode.NodePlace

Returns an array containing the constants of this enum class, in the order they are declared.

values() - Static method in enum class ec.neat.NEATNode.NodeType

Returns an array containing the constants of this enum class, in the order they are declared.

values() - Static method in enum class ec.neat.NEATSpecies.MutationType

Returns an array containing the constants of this enum class, in the order they are declared.

variance - Variable in class ec.eda.dovs.DOVSFitness

Variance of the fitness value of the current individual.

VectorCrossoverPipeline - Class in ec.vector.breed

VectorCrossoverPipeline is a BreedingPipeline which implements a simple default crossover for VectorIndividuals.

VectorCrossoverPipeline() - Constructor for class ec.vector.breed.VectorCrossoverPipeline

VectorDefaults - Class in ec.vector

Vector defaults is the basic defaults class for the Vector package.

VectorDefaults() - Constructor for class ec.vector.VectorDefaults

VectorIndividual - Class in ec.vector

VectorIndividual is the abstract superclass of simple individual representations which consist of vectors of values (booleans, integers, floating-point, etc.)

VectorIndividual() - Constructor for class ec.vector.VectorIndividual

VectorMutationPipeline - Class in ec.vector.breed

VectorMutationPipeline is a BreedingPipeline which implements a simple default Mutation for VectorIndividuals.

VectorMutationPipeline() - Constructor for class ec.vector.breed.VectorMutationPipeline

VectorSpecies - Class in ec.vector

VectorSpecies is a species which can create VectorIndividuals.

VectorSpecies() - Constructor for class ec.vector.VectorSpecies

velCoeff - Variable in class ec.pso.PSOBreeder

velocity - Variable in class ec.pso.Particle

verify(EvolutionState) - Method in class ec.gp.GPIndividual

Verification of validity of the GPIndividual -- strictly for debugging purposes only

verify(EvolutionState) - Method in class ec.gp.GPTree

Verification of validity of the tree -- strictly for debugging purposes only

verifyPoints(GPInitializer, GPNode, GPNode) - Method in class ec.gp.breed.SizeFairCrossoverPipeline

Returns true if inner1 can feasibly be swapped into inner2's position.

verifyPoints(GPInitializer, GPNode, GPNode) - Method in class ec.gp.koza.CrossoverPipeline

Returns true if inner1 can feasibly be swapped into inner2's position.

verifyPoints(GPNode, GPNode) - Method in class ec.gp.koza.MutationPipeline

Returns true if inner1 can feasibly be swapped into inner2's position

version - Static variable in class ec.util.Version

Version - Class in ec.util

Version is a static class which stores version information for this evolutionary computation system.

Version() - Constructor for class ec.util.Version

visited - Variable in class ec.eda.dovs.DOVSSpecies

This list contains all the sample we have visited during current algorithm run.

visitedIndexMap - Variable in class ec.eda.dovs.DOVSSpecies

Given a individual, return the index of this individual in ArrayList visited

W

waitForAllSlavesToFinishEvaluating(EvolutionState) - Method in class ec.eval.SlaveMonitor

This method returns only when all slaves have finished the jobs that they were assigned.

waitForIndividual() - Method in class ec.eval.SlaveMonitor

Blocks until an individual comes available

waitOnMonitor(Object) - Method in class ec.eval.SlaveMonitor

warmUp - Variable in class ec.eda.dovs.DOVSSpecies

warm up period for RMD sampling.

warnAboutNonterminal(boolean, GPType, boolean, EvolutionState) - Method in class ec.gp.GPNodeBuilder

If the given test is true, issues a warning that no terminal was found with a return type of the given type, and that an algorithm had requested one.

warnAboutNonTerminalWithType(GPType, boolean, EvolutionState) - Method in class ec.gp.GPNodeBuilder

Issues a warning that no nonterminal was found with a return type of the given type, and that an algorithm had requested one.

warnAboutNoTerminalWithType(GPType, boolean, EvolutionState) - Method in class ec.gp.GPNodeBuilder

Issues a warning that no terminal was found with a return type of the given type, and that an algorithm had requested one.

warning(String) - Method in class ec.util.Output

Posts a warning.

warning(String, Parameter) - Method in class ec.util.Output

Posts a warning.

warning(String, Parameter, Parameter) - Method in class ec.util.Output

Posts a warning.

warnOnce(String) - Method in class ec.util.Output

Posts a warning one time only.

warnOnce(String, Parameter) - Method in class ec.util.Output

warnOnce(String, Parameter, Parameter) - Method in class ec.util.Output

weight - Variable in class ec.neat.NEATGene

The weight of link this gene is represent.

weightMutationPower - Variable in class ec.neat.NEATSpecies

The Mutation power of the link's weights.

weights - Variable in class ec.eda.cmaes.CMAESSpecies

The ranked fitness weights for the mu individuals.

WRAP - Static variable in class ec.Subpopulation

writeFitness(EvolutionState, DataOutput) - Method in class ec.Fitness

Writes the binary form of an individual out to a DataOutput.

writeFitness(EvolutionState, DataOutput) - Method in class ec.gp.koza.KozaFitness

writeFitness(EvolutionState, DataOutput) - Method in class ec.multiobjective.MultiObjectiveFitness

writeFitness(EvolutionState, DataOutput) - Method in class ec.multiobjective.nsga2.NSGA2MultiObjectiveFitness

writeFitness(EvolutionState, DataOutput) - Method in class ec.multiobjective.spea2.SPEA2MultiObjectiveFitness

writeFitness(EvolutionState, DataOutput) - Method in class ec.simple.SimpleFitness

writeGene(EvolutionState, DataOutput) - Method in class ec.vector.Gene

Override this if you need to write rules out to a binary stream

writeGenotype(EvolutionState, DataOutput) - Method in class ec.gp.GPIndividual

Overridden for the GPIndividual genotype.

writeGenotype(EvolutionState, DataOutput) - Method in class ec.Individual

Writes the genotypic information to a DataOutput.

writeGenotype(EvolutionState, DataOutput) - Method in class ec.rule.RuleIndividual

Overridden for the RuleIndividual genotype, writing each ruleset in turn.

writeGenotype(EvolutionState, DataOutput) - Method in class ec.vector.BitVectorIndividual

writeGenotype(EvolutionState, DataOutput) - Method in class ec.vector.ByteVectorIndividual

writeGenotype(EvolutionState, DataOutput) - Method in class ec.vector.DoubleVectorIndividual

writeGenotype(EvolutionState, DataOutput) - Method in class ec.vector.FloatVectorIndividual

writeGenotype(EvolutionState, DataOutput) - Method in class ec.vector.GeneVectorIndividual

writeGenotype(EvolutionState, DataOutput) - Method in class ec.vector.IntegerVectorIndividual

writeGenotype(EvolutionState, DataOutput) - Method in class ec.vector.LongVectorIndividual

writeGenotype(EvolutionState, DataOutput) - Method in class ec.vector.ShortVectorIndividual

writeIndividual(EvolutionState, DataOutput) - Method in class ec.Individual

Writes the binary form of an individual out to a DataOutput.

writeIndividual(EvolutionState, DataOutput) - Method in class ec.pso.Particle

writeNode(EvolutionState, DataOutput) - Method in class ec.gp.ADF

writeNode(EvolutionState, DataOutput) - Method in class ec.gp.ADFArgument

writeNode(EvolutionState, DataOutput) - Method in class ec.gp.ERC

To successfully write to a DataOutput, you must override this to write your specific ERC data out.

writeNode(EvolutionState, DataOutput) - Method in class ec.gp.GPNode

Override this to write any additional node-specific information to dataOutput besides: the number of arguments, the specific node class, the children, and the parent.

writePopulation(EvolutionState, DataOutput) - Method in class ec.Population

Writes a population in binary form, in a format readable by readPopulation(EvolutionState, DataInput).

writer - Variable in class ec.util.Log

The log's writer

writeRootedTree(EvolutionState, GPType, GPFunctionSet, DataOutput) - Method in class ec.gp.GPNode

writeRule(EvolutionState, DataOutput) - Method in class ec.rule.Rule

Override this if you need to write rules out to a binary stream

writeRuleSet(EvolutionState, DataOutput) - Method in class ec.rule.RuleSet

Writes RuleSets out to a binary stream

writeState(DataOutputStream) - Method in class ec.util.MersenneTwister

Writes the entire state of the MersenneTwister RNG to the stream

writeState(DataOutputStream) - Method in class ec.util.MersenneTwisterFast

Writes the entire state of the MersenneTwister RNG to the stream

writeSubpopulation(EvolutionState, DataOutput) - Method in class ec.Subpopulation

Writes a subpopulation in binary form, in a format readable by readSubpopulation(EvolutionState, DataInput).

writeTree(EvolutionState, DataOutput) - Method in class ec.gp.GPTree

writeTrials(EvolutionState, DataOutput) - Method in class ec.Fitness

Writes trials out to DataOutput

X

x - Variable in class ec.util.IIntPoint

xAvgImp - Variable in class ec.eda.amalgam.AMALGAMSpecies

xlabel - Variable in class ec.display.chart.ChartableStatistics

xmean - Variable in class ec.eda.cmaes.CMAESSpecies

The mean of the distribution.

XYSeriesChartStatistics - Class in ec.display.chart

XYSeriesChartStatistics() - Constructor for class ec.display.chart.XYSeriesChartStatistics

Y

y - Variable in class ec.util.IIntPoint

ylabel - Variable in class ec.display.chart.ChartableStatistics

Z

zeroChildren - Variable in class ec.gp.GPNodeConstraints

A little memory optimization: if GPNodes have no children, they are welcome to use share this zero-sized array as their children array.

_

_functionsets - Variable in class ec.gp.build.Uniform

_truesizes - Variable in class ec.gp.build.Uniform

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