File Activity Report

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Total commits: 428
Total number of files changed: 697

Filename	Number of Times Changed
pom.xml	146
.gitlab-ci.yml	86
samples/pom.xml	77
core/pom.xml	63
gp/pom.xml	63
extras/pom.xml	53
moo/pom.xml	52
neat/pom.xml	38
gpu/pom.xml	38
core/src/main/java/net/bmahe/genetics4j/core/EASystem.java	31
README.md	27
samples/src/main/java/net/bmahe/genetics4j/samples/symbolicregression/SymbolicRegressionWithMOO.java	22
core/src/test/java/net/bmahe/genetics4j/core/selection/TournamentSelectionPolicyHandlerTest.java	20
samples/src/main/java/net/bmahe/genetics4j/samples/TSVExample.java	20
core/src/test/java/net/bmahe/genetics4j/core/selection/RouletteWheelSelectionPolicyHandlerTest.java	19
samples/src/main/java/net/bmahe/genetics4j/samples/SimpleTest.java	19
core/src/main/java/net/bmahe/genetics4j/core/selection/RouletteWheelSelectionPolicyHandler.java	17
core/src/main/java/net/bmahe/genetics4j/core/selection/TournamentSelectionPolicyHandler.java	17
samples/src/main/java/net/bmahe/genetics4j/samples/symbolicregression/SymbolicRegressionWithConstantParsimonyPressure.java	17
core/src/test/java/net/bmahe/genetics4j/core/selection/RandomSelectionPolicyHandlerTest.java	16
core/src/main/java/net/bmahe/genetics4j/core/termination/Terminations.java	15
core/src/test/java/net/bmahe/genetics4j/core/mutation/SupersimpleTest.java	15
core/src/main/java/net/bmahe/genetics4j/core/selection/RandomSelectionPolicyHandler.java	14
core/src/main/java/net/bmahe/genetics4j/core/EASystemFactory.java	14
core/src/main/java/net/bmahe/genetics4j/core/spec/EAExecutionContext.java	14
gp/src/test/java/net/bmahe/genetics4j/gp/mutation/ProgramRulesApplicatorMutatorTest.java	14
core/src/main/java/net/bmahe/genetics4j/core/mutation/SwapMutationPolicyHandler.java	13
src/site/asciidoc/index.adoc	13
samples/src/main/java/net/bmahe/genetics4j/samples/symbolicregression/SymbolicRegressionWithMOOSPEA2.java	13
core/src/main/java/net/bmahe/genetics4j/core/spec/EAConfiguration.java	13
gp/src/main/java/net/bmahe/genetics4j/gp/spec/GPEAExecutionContexts.java	13
moo/src/main/java/net/bmahe/genetics4j/moo/nsga2/impl/TournamentNSGA2Selector.java	13
gp/src/test/java/net/bmahe/genetics4j/gp/SimpleGPTest.java	13
samples/src/site/site.xml	12
core/src/main/java/net/bmahe/genetics4j/core/combination/multipointcrossover/IntChromosomeMultiPointCrossover.java	12
core/src/main/java/net/bmahe/genetics4j/core/mutation/RandomMutationPolicyHandler.java	12
core/src/main/java/net/bmahe/genetics4j/core/spec/EvolutionResult.java	12
core/src/test/java/net/bmahe/genetics4j/core/combination/ordercrossover/IntChromosomeOrderCrossoverTest.java	12
neat/src/main/java/net/bmahe/genetics4j/neat/combination/NeatChromosomeCombinator.java	12
moo/src/test/java/net/bmahe/genetics4j/moo/nsga2/impl/NSGA2SelectorTest.java	12
gp/src/main/java/net/bmahe/genetics4j/gp/mutation/ProgramRandomMutatePolicyHandler.java	12
core/src/main/java/net/bmahe/genetics4j/core/GeneticSystem.java	11
core/src/main/java/net/bmahe/genetics4j/core/Genotype.java	11
core/src/main/java/net/bmahe/genetics4j/core/chromosomes/factory/ChromosomeFactoryProvider.java	11
core/src/main/java/net/bmahe/genetics4j/core/combination/multipointcrossover/BitChromosomeMultiPointCrossover.java	11
core/src/main/java/net/bmahe/genetics4j/core/spec/GeneticSystemDescriptor.java	11
core/src/test/java/net/bmahe/genetics4j/core/combination/singlepointcrossover/IntChromosomeSinglePointCrossoverTest.java	11
core/src/main/java/net/bmahe/genetics4j/core/mutation/MultiMutationsPolicyHandler.java	11
core/src/test/java/net/bmahe/genetics4j/core/selection/ProportionalTournamentSelectionPolicyHandlerTest.java	11
core/src/main/java/net/bmahe/genetics4j/core/chromosomes/TreeNode.java	11
gp/src/test/java/net/bmahe/genetics4j/gp/combination/ProgramRandomCombineHandlerTest.java	11
core/src/main/java/net/bmahe/genetics4j/core/Population.java	11
neat/src/main/java/net/bmahe/genetics4j/neat/selection/NeatSelectorImpl.java	11
moo/src/main/java/net/bmahe/genetics4j/moo/nsga2/impl/NSGA2Selector.java	11
gp/src/main/java/net/bmahe/genetics4j/gp/mutation/ProgramRandomPrunePolicyHandler.java	11
core/src/main/java/net/bmahe/genetics4j/core/spec/AbstractEAExecutionContext.java	11
gp/src/test/java/net/bmahe/genetics4j/gp/mutation/ProgramRandomMutatePolicyHandlerTest.java	11
gp/src/test/java/net/bmahe/genetics4j/gp/mutation/ProgramRandomPruneMutatorTest.java	11
gp/src/test/java/net/bmahe/genetics4j/gp/mutation/ProgramRandomPrunePolicyHandlerTest.java	11
samples/src/main/java/net/bmahe/genetics4j/samples/symbolicregression/SymbolicRegressionWithDoubleTournament.java	11
samples/src/main/java/net/bmahe/genetics4j/samples/FitnessSharingExample.java	10
core/src/main/java/net/bmahe/genetics4j/core/combination/singlepointcrossover/IntChromosomeSinglePointCrossover.java	10
core/src/test/java/net/bmahe/genetics4j/core/combination/multipointcrossover/BitChromosomeMultiPointCrossoverTest.java	10
core/src/test/java/net/bmahe/genetics4j/core/combination/multipointcrossover/IntChromosomeMultiPointCrossoverTest.java	10
core/src/test/java/net/bmahe/genetics4j/core/combination/singlepointcrossover/BitChromosomeSinglePointCrossoverTest.java	10
samples/src/main/java/net/bmahe/genetics4j/samples/QuickStart.java	10
core/src/main/java/net/bmahe/genetics4j/core/selection/MultiSelectionsPolicyHandler.java	10
core/src/test/java/net/bmahe/genetics4j/core/replacement/DeleteNLastImplTest.java	10
core/src/main/java/net/bmahe/genetics4j/core/selection/DoubleTournamentSelector.java	10
core/src/main/java/net/bmahe/genetics4j/core/selection/MultiTournamentsSelectionPolicyHandler.java	10
moo/src/main/java/net/bmahe/genetics4j/moo/spea2/replacement/SPEA2ReplacementStrategyImplementor.java	10
neat/src/main/java/net/bmahe/genetics4j/neat/chromosomes/NeatChromosome.java	10
neat/src/main/java/net/bmahe/genetics4j/neat/mutation/chromosome/NeatChromosomeAddConnection.java	10
gpu/src/main/java/net/bmahe/genetics4j/gpu/spec/fitness/SingleKernelFitness.java	10
moo/src/test/java/net/bmahe/genetics4j/moo/nsga2/impl/NSGA2SelectionPolicyHandlerTest.java	10
moo/src/test/java/net/bmahe/genetics4j/moo/nsga2/impl/TournamentNSGA2SelectionPolicyHandlerTest.java	10
moo/src/test/java/net/bmahe/genetics4j/moo/nsga2/impl/TournamentNSGA2SelectorTest.java	10
gp/src/main/java/net/bmahe/genetics4j/gp/mutation/ProgramRandomMutateMutator.java	10
gp/src/main/java/net/bmahe/genetics4j/gp/mutation/ProgramRulesApplicatorMutator.java	10
gp/src/test/java/net/bmahe/genetics4j/gp/mutation/ProgramRandomMutateMutatorTest.java	10
gp/src/test/java/net/bmahe/genetics4j/gp/mutation/ProgramRulesApplicatorPolicyHandlerTest.java	10
core/src/main/java/net/bmahe/genetics4j/core/evaluation/FitnessEvaluatorSync.java	9
core/src/test/java/net/bmahe/genetics4j/core/replacement/ElitismImplTest.java	9
samples/src/main/java/net/bmahe/genetics4j/samples/symbolicregression/SymbolicRegressionWithProportionalTournament.java	9
core/src/main/java/net/bmahe/genetics4j/core/Fitness.java	9
core/src/main/java/net/bmahe/genetics4j/core/GeneticSystemFactory.java	9
core/src/main/java/net/bmahe/genetics4j/core/combination/singlepointcrossover/BitChromosomeSinglePointCrossover.java	9
core/src/test/java/net/bmahe/genetics4j/core/mutation/chromosome/randommutation/IntChromosomeRandomMutationHandlerTest.java	9
core/src/main/java/net/bmahe/genetics4j/core/combination/ordercrossover/IntChromosomeOrderCrossover.java	9
core/src/main/java/net/bmahe/genetics4j/core/evolutionlisteners/EvolutionListenerLogTopN.java	9
core/src/site/asciidoc/docs/introduction.adoc	9
gp/src/test/java/net/bmahe/genetics4j/gp/program/ProgramHelperTest.java	9
core/src/main/java/net/bmahe/genetics4j/core/mutation/MutationPolicyHandlerResolver.java	9
core/src/main/java/net/bmahe/genetics4j/core/util/ChromosomeResolverUtils.java	9
core/src/main/java/net/bmahe/genetics4j/core/replacement/ElitismImpl.java	9
core/src/main/java/net/bmahe/genetics4j/core/mutation/CreepMutationPolicyHandler.java	9
core/src/main/java/net/bmahe/genetics4j/core/selection/ProportionalTournamentSelector.java	9
core/src/test/java/net/bmahe/genetics4j/core/selection/MultiTournamentsSelectionPolicyHandlerTest.java	9
samples/src/main/java/net/bmahe/genetics4j/samples/symbolicregression/SymbolicRegressionWithEnforcedMaxDepth.java	9
core/src/main/java/net/bmahe/genetics4j/core/chromosomes/TreeChromosome.java	9
core/src/main/java/net/bmahe/genetics4j/core/combination/erx/IntEdgeRecombinationCrossover.java	9
core/src/main/java/net/bmahe/genetics4j/core/mutation/PartialMutationPolicyHandler.java	9
gp/src/main/java/net/bmahe/genetics4j/gp/mutation/ProgramRulesApplicatorPolicyHandler.java	9
gpu/src/main/java/net/bmahe/genetics4j/gpu/spec/fitness/MultiStageFitness.java	9
neat/src/main/java/net/bmahe/genetics4j/neat/NeatEAExecutionContexts.java	9
neat/src/main/java/net/bmahe/genetics4j/neat/chromosomes/factory/NeatConnectedChromosomeFactory.java	9
neat/src/main/java/net/bmahe/genetics4j/neat/combination/NeatCombinationHandler.java	9
samples/src/main/java/net/bmahe/genetics4j/samples/neat/Main.java	9
gpu/src/main/java/net/bmahe/genetics4j/gpu/GPUFitnessEvaluator.java	9
neat/src/test/java/net/bmahe/genetics4j/neat/combination/NeatChromosomeCombinatorTest.java	9
gp/src/main/java/net/bmahe/genetics4j/gp/combination/ProgramRandomCombineHandler.java	9
gp/src/main/java/net/bmahe/genetics4j/gp/math/Terminals.java	9
gp/src/main/java/net/bmahe/genetics4j/gp/mutation/ProgramRandomPruneMutator.java	9
samples/src/main/java/net/bmahe/genetics4j/samples/symbolicregression/SymbolicRegressionUtils.java	9
core/src/main/java/net/bmahe/genetics4j/core/combination/singlepointcrossover/DoubleChromosomeSinglePointCrossover.java	8
core/src/test/java/net/bmahe/genetics4j/core/selection/SelectiveRefinementTournamentSelectorTest.java	8
extras/src/main/java/net/bmahe/genetics4j/extras/evolutionlisteners/CSVEvolutionListener.java	8
core/src/test/java/net/bmahe/genetics4j/core/EASystemTest.java	8
core/src/main/java/net/bmahe/genetics4j/core/chromosomes/IntChromosome.java	8
core/src/main/java/net/bmahe/genetics4j/core/selection/SelectionPolicyHandler.java	8
core/src/main/java/net/bmahe/genetics4j/core/evolutionlisteners/EvolutionListener.java	8
gp/src/main/java/net/bmahe/genetics4j/gp/utils/TreeNodeUtils.java	8
samples/src/main/java/net/bmahe/genetics4j/samples/clustering/Clustering.java	8
gp/src/main/java/net/bmahe/genetics4j/gp/mutation/NodeReplacementPolicyHandler.java	8
gp/src/test/java/net/bmahe/genetics4j/gp/mutation/NodeReplacementMutatorTest.java	8
gp/src/test/java/net/bmahe/genetics4j/gp/mutation/NodeReplacementPolicyHandlerTest.java	8
core/src/main/java/net/bmahe/genetics4j/core/spec/AbstractEAConfiguration.java	8
core/src/main/java/net/bmahe/genetics4j/core/selection/Selector.java	8
core/src/test/java/net/bmahe/genetics4j/core/evolutionlisteners/DefaultEvolutionListenerTest.java	8
core/src/test/java/net/bmahe/genetics4j/core/PopulationIteratorTest.java	8
core/src/main/java/net/bmahe/genetics4j/core/combination/multipointcrossover/DoubleChromosomeMultiPointCrossover.java	8
core/src/main/java/net/bmahe/genetics4j/core/combination/AllCasesGenotypeCombinator.java	8
gp/src/main/java/net/bmahe/genetics4j/gp/combination/ProgramChromosomeCombinator.java	8
gp/src/main/java/net/bmahe/genetics4j/gp/math/SimplificationRules.java	8
gp/src/test/java/net/bmahe/genetics4j/gp/InputSpecTest.java	8
gp/src/main/java/net/bmahe/genetics4j/gp/mutation/TrimTreePolicyHandler.java	8
moo/src/test/java/net/bmahe/genetics4j/moo/ParetoUtilsTest.java	8
neat/src/main/java/net/bmahe/genetics4j/neat/FeedForwardNetwork.java	8
neat/src/main/java/net/bmahe/genetics4j/neat/NeatUtils.java	8
neat/src/main/java/net/bmahe/genetics4j/neat/spec/selection/NeatSelection.java	8
core/src/main/java/net/bmahe/genetics4j/core/selection/TournamentSelector.java	8
gpu/src/main/java/net/bmahe/genetics4j/gpu/opencl/OpenCLExecutionContext.java	8
gpu/src/main/java/net/bmahe/genetics4j/gpu/opencl/model/Device.java	8
gpu/src/main/java/net/bmahe/genetics4j/gpu/spec/Program.java	8
gpu/src/main/java/net/bmahe/genetics4j/gpu/spec/fitness/ResultExtractor.java	8
core/src/test/java/net/bmahe/genetics4j/core/chromosomes/TreeNodeTest.java	8
gp/src/test/java/net/bmahe/genetics4j/gp/utils/ProgramUtilsTest.java	8
gp/src/test/java/net/bmahe/genetics4j/gp/utils/TreeNodeUtilsTest.java	8
moo/src/main/java/net/bmahe/genetics4j/moo/FitnessVector.java	8
moo/src/main/java/net/bmahe/genetics4j/moo/nsga2/impl/TournamentNSGA2SelectionPolicyHandler.java	8
moo/src/main/java/net/bmahe/genetics4j/moo/nsga2/spec/NSGA2Selection.java	8
moo/src/main/java/net/bmahe/genetics4j/moo/nsga2/spec/TournamentNSGA2Selection.java	8
neat/src/test/java/net/bmahe/genetics4j/neat/selection/NeatSelectorImplTest.java	8
core/src/main/java/net/bmahe/genetics4j/core/combination/multipointarithmetic/DoubleChromosomeMultiPointArithmetic.java	8
core/src/main/java/net/bmahe/genetics4j/core/combination/singlepointarithmetic/SinglePointArithmeticCombinationHandler.java	8
core/src/test/java/net/bmahe/genetics4j/core/combination/multipointarithmetic/DoubleChromosomeMultiPointArithmeticTest.java	8
core/src/test/java/net/bmahe/genetics4j/core/combination/multipointarithmetic/IntChromosomeMultiPointArithmeticTest.java	8
core/src/test/java/net/bmahe/genetics4j/core/combination/singlepointarithmetic/DoubleChromosomeSinglePointArithmeticTest.java	8
core/src/test/java/net/bmahe/genetics4j/core/combination/singlepointarithmetic/IntChromosomeSinglePointArithmeticTest.java	8
samples/src/main/java/net/bmahe/genetics4j/samples/neat/RecurrentParityExample.java	8
gp/src/main/java/net/bmahe/genetics4j/gp/Operation.java	8
gp/src/test/java/net/bmahe/genetics4j/gp/chromosomes/factory/ProgramTreeChromosomeFactoryTest.java	8
gp/src/test/java/net/bmahe/genetics4j/gp/combination/ProgramChromosomeCombinatorTest.java	8
core/src/main/java/net/bmahe/genetics4j/core/combination/ChromosomeCombinatorResolver.java	8
core/src/main/java/net/bmahe/genetics4j/core/combination/multicombinations/MultiChromosomeCombinations.java	8
core/src/main/java/net/bmahe/genetics4j/core/combination/multipointcrossover/MultiPointCrossoverCombinationHandler.java	8
core/src/main/java/net/bmahe/genetics4j/core/combination/singlepointcrossover/SinglePointCrossoverHandler.java	8
core/src/test/java/net/bmahe/genetics4j/core/combination/singlepointcrossover/DoubleChromosomeSinglePointCrossoverTest.java	7
neat/src/test/java/net/bmahe/genetics4j/neat/mutation/chromosome/NeatChromosomeDeleteNodeMutationHandlerTest.java	7
core/src/main/java/net/bmahe/genetics4j/core/spec/selection/SelectiveRefinementTournament.java	7
src/site/site.xml	7
core/src/test/java/net/bmahe/genetics4j/core/evolutionlisteners/EvolutionListenerLogTopNTest.java	7
gp/src/test/java/net/bmahe/genetics4j/gp/program/GrowProgramGeneratorTest.java	7
core/src/main/java/net/bmahe/genetics4j/core/postevaluationprocess/FitnessSharing.java	7
core/src/main/java/net/bmahe/genetics4j/core/mutation/chromosome/randommutation/IntChromosomeRandomMutationHandler.java	7
core/src/main/java/net/bmahe/genetics4j/core/mutation/chromosome/swapmutation/BitChromosomeSwapMutationHandler.java	7
core/src/main/java/net/bmahe/genetics4j/core/mutation/chromosome/swapmutation/IntChromosomeSwapMutationHandler.java	7
core/src/main/java/net/bmahe/genetics4j/core/spec/GenotypeSpec.java	7
core/src/test/java/net/bmahe/genetics4j/core/chromosomes/IntChromosomeTest.java	7
core/src/test/java/net/bmahe/genetics4j/core/chromosomes/factory/ChromosomeFactoryProviderTest.java	7
core/src/test/java/net/bmahe/genetics4j/core/chromosomes/factory/IntChromosomeFactoryTest.java	7
core/src/main/java/net/bmahe/genetics4j/core/evolutionlisteners/SimpleEvolutionListener.java	7
gp/src/main/java/net/bmahe/genetics4j/gp/program/ProgramHelper.java	7
gp/src/test/java/net/bmahe/genetics4j/gp/program/FullProgramGeneratorTest.java	7
gp/src/test/java/net/bmahe/genetics4j/gp/program/StdProgramGeneratorTest.java	7
gp/src/main/java/net/bmahe/genetics4j/gp/mutation/NodeReplacementMutator.java	7
core/src/main/java/net/bmahe/genetics4j/core/selection/SelectionPolicyHandlerResolver.java	7
core/src/main/java/net/bmahe/genetics4j/core/evolutionlisteners/DefaultEvolutionListener.java	7
core/src/main/java/net/bmahe/genetics4j/core/replacement/DeleteNLastImpl.java	7
core/src/main/java/net/bmahe/genetics4j/core/replacement/GenerationalReplacementStrategyHandler.java	7
core/src/main/java/net/bmahe/genetics4j/core/util/DistributionUtils.java	7
core/src/test/java/net/bmahe/genetics4j/core/mutation/chromosome/creepmutation/DoubleChromosomeCreepMutationHandlerTest.java	7
core/src/test/java/net/bmahe/genetics4j/core/mutation/chromosome/creepmutation/IntChromosomeCreepMutationHandlerTest.java	7
core/src/test/java/net/bmahe/genetics4j/core/combination/multipointcrossover/DoubleChromosomeMultiPointCrossoverTest.java	7
core/src/main/java/net/bmahe/genetics4j/core/chromosomes/factory/DoubleChromosomeFactory.java	7
core/src/main/java/net/bmahe/genetics4j/core/selection/ProportionalTournamentSelectionPolicyHandler.java	7
core/src/main/java/net/bmahe/genetics4j/core/spec/selection/Tournament.java	7
core/src/test/java/net/bmahe/genetics4j/core/selection/DoubleTournamentSelectionPolicyHandlerTest.java	7
core/src/main/java/net/bmahe/genetics4j/core/combination/multipointarithmetic/FloatChromosomeMultiPointArithmetic.java	7
core/src/main/java/net/bmahe/genetics4j/core/combination/multipointcrossover/FloatChromosomeMultiPointCrossover.java	7
core/src/main/java/net/bmahe/genetics4j/core/combination/singlepointcrossover/FloatChromosomeSinglePointCrossover.java	7
core/src/test/java/net/bmahe/genetics4j/core/combination/multipointarithmetic/FloatChromosomeMultiPointArithmeticTest.java	7
core/src/test/java/net/bmahe/genetics4j/core/combination/singlepointarithmetic/FloatChromosomeSinglePointArithmeticTest.java	7
core/src/test/java/net/bmahe/genetics4j/core/combination/erx/IntEdgeRecombinationCrossoverTest.java	7
gp/src/main/java/net/bmahe/genetics4j/gp/spec/mutation/Rule.java	7
gp/src/test/java/net/bmahe/genetics4j/gp/OperationTest.java	7
gp/src/main/java/net/bmahe/genetics4j/gp/mutation/TrimTreeMutator.java	7
moo/src/main/java/net/bmahe/genetics4j/moo/ParetoUtils.java	7
neat/src/main/java/net/bmahe/genetics4j/neat/mutation/AddNodePolicyHandler.java	7
neat/src/main/java/net/bmahe/genetics4j/neat/mutation/chromosome/AbstractNeatChromosomeConnectionMutationHandler.java	7
neat/src/main/java/net/bmahe/genetics4j/neat/mutation/chromosome/NeatChromosomeAddNodeMutationHandler.java	7
neat/src/main/java/net/bmahe/genetics4j/neat/mutation/chromosome/NeatChromosomeConnectionWeightMutationHandler.java	7
neat/src/main/java/net/bmahe/genetics4j/neat/mutation/chromosome/NeatChromosomeRandomMutationHandler.java	7
neat/src/main/java/net/bmahe/genetics4j/neat/selection/NeatSelectionPolicyHandler.java	7
neat/src/main/java/net/bmahe/genetics4j/neat/spec/NeatChromosomeSpec.java	7
neat/src/main/java/net/bmahe/genetics4j/neat/spec/combination/NeatCombination.java	7
neat/src/test/java/net/bmahe/genetics4j/neat/FeedForwardNetworkTest.java	7
neat/src/test/java/net/bmahe/genetics4j/neat/NeatUtilsTest.java	7
gpu/src/main/java/net/bmahe/genetics4j/gpu/opencl/DeviceUtils.java	7
gpu/src/main/java/net/bmahe/genetics4j/gpu/spec/DeviceFilters.java	7
gpu/src/main/java/net/bmahe/genetics4j/gpu/spec/PlatformFilters.java	7
core/src/test/java/net/bmahe/genetics4j/core/termination/TerminationsTest.java	7
moo/src/main/java/net/bmahe/genetics4j/moo/nsga2/impl/NSGA2SelectionPolicyHandler.java	7
moo/src/test/java/net/bmahe/genetics4j/moo/FitnessVectorTest.java	7
moo/src/test/java/net/bmahe/genetics4j/moo/nsga2/impl/NSGA2UtilsTest.java	7
neat/src/test/java/net/bmahe/genetics4j/neat/mutation/chromosome/NeatChromosomeAddConnectionTest.java	7
neat/src/test/java/net/bmahe/genetics4j/neat/mutation/chromosome/NeatChromosomeAddNodeMutationHandlerTest.java	7
core/src/main/java/net/bmahe/genetics4j/core/combination/multipointarithmetic/IntChromosomeMultiPointArithmetic.java	7
core/src/main/java/net/bmahe/genetics4j/core/combination/multipointarithmetic/MultiPointArithmeticCombinationHandler.java	7
core/src/main/java/net/bmahe/genetics4j/core/combination/singlepointarithmetic/DoubleChromosomeSinglePointArithmetic.java	7
core/src/main/java/net/bmahe/genetics4j/core/combination/singlepointarithmetic/IntChromosomeSinglePointArithmetic.java	7
samples/src/main/java/net/bmahe/genetics4j/samples/clustering/FitnessUtils.java	7
core/src/test/java/net/bmahe/genetics4j/core/evaluation/FitnessEvaluatorVirtualThreadTest.java	7
gp/src/main/java/net/bmahe/genetics4j/gp/OperationFactories.java	7
core/src/test/java/net/bmahe/genetics4j/core/mutation/chromosome/randommutation/DoubleChromosomeRandomMutationHandlerTest.java	7
samples/src/main/java/net/bmahe/genetics4j/samples/symbolicregression/SymbolicRegressionWithTarpeianMethod.java	7
gp/src/test/java/net/bmahe/genetics4j/gp/math/CoefficientOperationTest.java	7
core/src/main/java/net/bmahe/genetics4j/core/combination/ordercrossover/IntOrderCrossoverHandler.java	7
neat/src/main/java/net/bmahe/genetics4j/neat/mutation/chromosome/NeatChromosomeDeleteNodeMutationHandler.java	6
neat/src/test/java/net/bmahe/genetics4j/neat/mutation/chromosome/NeatChromosomeDeleteConnectionTest.java	6
neat/src/test/java/net/bmahe/genetics4j/neat/combination/parentcompare/FitnessThenSizeComparisonHandlerTest.java	6
core/src/main/java/net/bmahe/genetics4j/core/evaluation/FitnessEvaluatorBulkAsync.java	6
core/src/test/java/net/bmahe/genetics4j/core/postevaluationprocess/FitnessSharingTest.java	6
gp/src/test/java/net/bmahe/genetics4j/gp/selection/DoubleTournamentSelectionPolicyHandlerTest.java	6
core/src/main/java/net/bmahe/genetics4j/core/chromosomes/BitChromosome.java	6
core/src/main/java/net/bmahe/genetics4j/core/chromosomes/factory/IntChromosomeFactory.java	6
core/src/main/java/net/bmahe/genetics4j/core/mutation/MutationPolicyHandler.java	6
core/src/main/java/net/bmahe/genetics4j/core/mutation/chromosome/randommutation/BitChromosomeRandomMutationHandler.java	6
core/src/test/java/net/bmahe/genetics4j/core/chromosomes/BitChromosomeTest.java	6
core/src/test/java/net/bmahe/genetics4j/core/chromosomes/factory/BitChromosomeFactoryTest.java	6
core/src/test/java/net/bmahe/genetics4j/core/mutation/RandomMutationPolicyHandlerTest.java	6
core/src/test/java/net/bmahe/genetics4j/core/mutation/chromosome/randommutation/BitChromosomeRandomMutationHandlerTest.java	6
core/src/main/java/net/bmahe/genetics4j/core/evolutionlisteners/EvolutionListeners.java	6
core/src/main/java/net/bmahe/genetics4j/core/termination/Termination.java	6
gp/src/main/java/net/bmahe/genetics4j/gp/program/RampedHalfAndHalfProgramGenerator.java	6
core/src/main/java/net/bmahe/genetics4j/core/replacement/DeleteNLastReplacementStrategyHandler.java	6
core/src/main/java/net/bmahe/genetics4j/core/replacement/ElitismReplacementStrategyHandler.java	6
core/src/main/java/net/bmahe/genetics4j/core/spec/replacement/Elitism.java	6
core/src/main/java/net/bmahe/genetics4j/core/mutation/chromosome/creepmutation/DoubleChromosomeCreepMutationHandler.java	6
core/src/main/java/net/bmahe/genetics4j/core/mutation/chromosome/creepmutation/IntChromosomeCreepMutationHandler.java	6
core/src/main/java/net/bmahe/genetics4j/core/chromosomes/DoubleChromosome.java	6
core/src/main/java/net/bmahe/genetics4j/core/spec/chromosome/DoubleChromosomeSpec.java	6
core/src/main/java/net/bmahe/genetics4j/core/combination/PickFirstParentHandler.java	6
core/src/test/java/net/bmahe/genetics4j/core/util/MultiIntCounterTest.java	6
core/src/main/java/net/bmahe/genetics4j/core/mutation/chromosome/swapmutation/DoubleChromosomeSwapMutationHandler.java	6
core/src/main/java/net/bmahe/genetics4j/core/chromosomes/FloatChromosome.java	6
core/src/main/java/net/bmahe/genetics4j/core/combination/singlepointarithmetic/FloatChromosomeSinglePointArithmetic.java	6
core/src/test/java/net/bmahe/genetics4j/core/combination/multipointcrossover/FloatChromosomeMultiPointCrossoverTest.java	6
core/src/test/java/net/bmahe/genetics4j/core/combination/singlepointcrossover/FloatChromosomeSinglePointCrossoverTest.java	6
CLAUDE.md	6
core/src/main/java/net/bmahe/genetics4j/core/combination/erx/EdgeRecombinationCrossoverHandler.java	6
gp/src/test/java/net/bmahe/genetics4j/gp/OperationFactoriesTest.java	6
core/src/main/java/net/bmahe/genetics4j/core/selection/SelectAllPolicyHandler.java	6
moo/src/main/java/net/bmahe/genetics4j/moo/spea2/replacement/SPEA2ReplacementStrategyHandler.java	6
neat/src/main/java/net/bmahe/genetics4j/neat/Connection.java	6
neat/src/main/java/net/bmahe/genetics4j/neat/InnovationManager.java	6
neat/src/main/java/net/bmahe/genetics4j/neat/Species.java	6
neat/src/main/java/net/bmahe/genetics4j/neat/chromosomes/factory/NeatEmptyChromosomeFactory.java	6
neat/src/main/java/net/bmahe/genetics4j/neat/mutation/chromosome/NeatChromosomeSwitchStateHandler.java	6
neat/src/test/java/net/bmahe/genetics4j/neat/chromosomes/NeatChromosomeTest.java	6
neat/src/main/java/net/bmahe/genetics4j/neat/RecurrentNetwork.java	6
neat/src/test/java/net/bmahe/genetics4j/neat/RecurrentNetworkTest.java	6
gpu/src/main/java/net/bmahe/genetics4j/gpu/opencl/DeviceReader.java	6
gpu/src/main/java/net/bmahe/genetics4j/gpu/opencl/PlatformUtils.java	6
gpu/src/main/java/net/bmahe/genetics4j/gpu/opencl/model/Platform.java	6
gpu/src/main/java/net/bmahe/genetics4j/gpu/spec/GPUEAConfiguration.java	6
gpu/src/main/java/net/bmahe/genetics4j/gpu/spec/fitness/OpenCLFitness.java	6
gpu/src/main/java/net/bmahe/genetics4j/gpu/spec/fitness/cldata/CLData.java	6
gpu/src/test/java/net/bmahe/genetics4j/gpu/SimpleTest.java	6
core/src/main/java/net/bmahe/genetics4j/core/spec/EAExecutionContexts.java	6
core/src/test/java/net/bmahe/genetics4j/core/mutation/GenericMutatorImplTest.java	6
neat/src/test/java/net/bmahe/genetics4j/neat/combination/NeatCombinationHandlerTest.java	6
gp/src/main/java/net/bmahe/genetics4j/gp/utils/ProgramUtils.java	6
neat/src/test/java/net/bmahe/genetics4j/neat/mutation/chromosome/NeatChromosomeConnectionWeightMutationHandlerTest.java	6
neat/src/test/java/net/bmahe/genetics4j/neat/mutation/chromosome/NeatChromosomeCreepMutationHandlerTest.java	6
neat/src/test/java/net/bmahe/genetics4j/neat/mutation/chromosome/NeatChromosomeRandomMutationHandlerTest.java	6
neat/src/test/java/net/bmahe/genetics4j/neat/mutation/chromosome/NeatChromosomeSwitchStateHandlerTest.java	6
samples/src/main/java/net/bmahe/genetics4j/samples/neat/RecurrentControlExample.java	6
moo/src/main/java/net/bmahe/genetics4j/moo/nsga2/impl/TournamentNSGA2SelectionPolicyHandlerFactory.java	6
gp/src/main/java/net/bmahe/genetics4j/gp/postevaluationprocess/TarpeianMethod.java	6
neat/src/test/java/net/bmahe/genetics4j/neat/mutation/chromosome/AbstractNeatChromosomeConnectionMutationHandlerTest.java	6
core/src/main/java/net/bmahe/genetics4j/core/combination/multicombinations/MultiCombinationsHandler.java	6
neat/src/main/java/net/bmahe/genetics4j/neat/mutation/chromosome/NeatChromosomeDeleteConnection.java	5
neat/src/test/java/net/bmahe/genetics4j/neat/mutation/DeleteConnectionPolicyHandlerTest.java	5
neat/src/test/java/net/bmahe/genetics4j/neat/mutation/DeleteNodePolicyHandlerTest.java	5
neat/src/test/java/net/bmahe/genetics4j/neat/combination/parentcompare/FitnessComparisonHandlerTest.java	5
core/src/main/java/net/bmahe/genetics4j/core/evaluation/FitnessEvaluator.java	5
core/src/main/java/net/bmahe/genetics4j/core/spec/EAConfigurationBulkAsync.java	5
core/src/test/java/net/bmahe/genetics4j/core/GenotypeTest.java	5
core/src/test/java/net/bmahe/genetics4j/core/PopulationTest.java	5
core/src/main/java/net/bmahe/genetics4j/core/chromosomes/factory/BitChromosomeFactory.java	5
core/src/main/java/net/bmahe/genetics4j/core/combination/ChromosomeCombinator.java	5
core/src/main/java/net/bmahe/genetics4j/core/spec/mutation/SwapMutation.java	5
samples/src/main/resources/log4j2.xml	5
core/src/site/site.xml	5
gp/src/main/java/net/bmahe/genetics4j/gp/program/Program.java	5
gp/src/main/java/net/bmahe/genetics4j/gp/program/StdProgramGenerator.java	5
core/src/main/java/net/bmahe/genetics4j/core/util/GenotypeGenerator.java	5
core/src/main/java/net/bmahe/genetics4j/core/mutation/Mutator.java	5
core/src/main/java/net/bmahe/genetics4j/core/programming/math/Terminals.java	5
core/src/test/java/net/bmahe/genetics4j/core/programming/SimpleGPTest.java	5
core/src/main/java/net/bmahe/genetics4j/core/replacement/GenerationalReplacementImpl.java	5
core/src/test/java/net/bmahe/genetics4j/core/mutation/CreepMutationPolicyHandlerTest.java	5
core/src/test/java/net/bmahe/genetics4j/core/chromosomes/DoubleChromosomeTest.java	5
core/src/test/java/net/bmahe/genetics4j/core/chromosomes/factory/DoubleChromosomeFactoryTest.java	5
core/src/main/java/net/bmahe/genetics4j/core/util/MultiIntCounter.java	5
gpu/src/main/java/net/bmahe/genetics4j/gpu/opencl/KernelInfoUtils.java	5
core/src/test/java/net/bmahe/genetics4j/core/mutation/chromosome/creepmutation/FloatChromosomeCreepMutationHandlerTest.java	5
core/src/test/java/net/bmahe/genetics4j/core/mutation/chromosome/randommutation/FloatChromosomeRandomMutationHandlerTest.java	5
gp/src/main/java/net/bmahe/genetics4j/gp/chromosomes/factory/ProgramTreeChromosomeFactory.java	5
gpu/src/main/java/net/bmahe/genetics4j/gpu/spec/fitness/multistage/StageDescriptor.java	5
gp/src/main/java/net/bmahe/genetics4j/gp/spec/mutation/TrimTree.java	5
moo/src/main/java/net/bmahe/genetics4j/moo/spea2/replacement/SPEA2Utils.java	5
moo/src/main/java/net/bmahe/genetics4j/moo/spea2/spec/replacement/SPEA2Replacement.java	5
gp/src/main/java/net/bmahe/genetics4j/gp/program/MultiProgramGenerator.java	5
core/src/main/java/net/bmahe/genetics4j/core/PopulationIterator.java	5
neat/src/main/java/net/bmahe/genetics4j/neat/Activations.java	5
neat/src/main/java/net/bmahe/genetics4j/neat/mutation/AddConnectionPolicyHandler.java	5
neat/src/main/java/net/bmahe/genetics4j/neat/mutation/NeatConnectionWeightPolicyHandler.java	5
neat/src/main/java/net/bmahe/genetics4j/neat/mutation/NeatSwitchStatePolicyHandler.java	5
neat/src/test/java/net/bmahe/genetics4j/neat/ActivationsTest.java	5
gpu/src/main/java/net/bmahe/genetics4j/gpu/GPUEASystemFactory.java	5
gpu/src/main/java/net/bmahe/genetics4j/gpu/spec/GPUEAExecutionContext.java	5
gpu/src/main/java/net/bmahe/genetics4j/gpu/spec/fitness/SingleKernelFitnessDescriptor.java	5
gpu/src/main/java/net/bmahe/genetics4j/gpu/spec/fitness/cldata/LocalMemoryAllocators.java	5
gpu/src/main/java/net/bmahe/genetics4j/gpu/spec/fitness/cldata/ResultAllocators.java	5
gpu/src/main/java/net/bmahe/genetics4j/gpu/spec/fitness/kernelcontext/KernelExecutionContextComputers.java	5
samples/src/main/java/net/bmahe/genetics4j/samples/mixturemodel/ClusteringUtils.java	5
samples/src/main/java/net/bmahe/genetics4j/samples/mixturemodel/Main.java	5
samples/src/main/java/net/bmahe/genetics4j/samples/mixturemodel/MooCPU.java	5
samples/src/main/java/net/bmahe/genetics4j/samples/mixturemodel/MooGPU.java	5
samples/src/main/java/net/bmahe/genetics4j/samples/mixturemodel/SingleObjectiveMethod.java	5
core/src/main/java/net/bmahe/genetics4j/core/mutation/GenericMutatorImpl.java	5
neat/src/test/java/net/bmahe/genetics4j/neat/mutation/AddConnectionPolicyHandlerTest.java	5
neat/src/test/java/net/bmahe/genetics4j/neat/mutation/AddNodePolicyHandlerTest.java	5
neat/src/test/java/net/bmahe/genetics4j/neat/mutation/NeatConnectionWeightPolicyHandlerTest.java	5
neat/src/test/java/net/bmahe/genetics4j/neat/mutation/NeatSwitchStatePolicyHandlerTest.java	5
core/src/test/java/net/bmahe/genetics4j/core/chromosomes/TreeChromosomeTest.java	5
moo/src/main/java/net/bmahe/genetics4j/moo/nsga2/impl/NSGA2Utils.java	5
neat/src/test/java/net/bmahe/genetics4j/neat/NeatEAExecutionContextsTest.java	5
neat/src/test/java/net/bmahe/genetics4j/neat/selection/NeatSelectionPolicyHandlerTest.java	5
samples/src/main/java/net/bmahe/genetics4j/samples/clustering/IOUtils.java	5
core/src/main/java/net/bmahe/genetics4j/core/evaluation/FitnessEvaluatorVirtualThread.java	5
gp/src/main/java/net/bmahe/genetics4j/gp/InputSpec.java	5
gp/src/main/java/net/bmahe/genetics4j/gp/math/Functions.java	5
neat/src/main/java/net/bmahe/genetics4j/neat/NodeIdManager.java	5
core/src/main/java/net/bmahe/genetics4j/core/mutation/chromosome/randommutation/DoubleChromosomeRandomMutationHandler.java	5
neat/src/test/java/net/bmahe/genetics4j/neat/chromosomes/factory/NeatConnectedChromosomeFactoryTest.java	5
neat/src/test/java/net/bmahe/genetics4j/neat/chromosomes/factory/NeatEmptyChromosomeFactoryTest.java	5
core/src/main/java/net/bmahe/genetics4j/core/spec/combination/MultiCombinations.java	5
core/src/main/java/net/bmahe/genetics4j/core/spec/Optimization.java	5
neat/src/main/java/net/bmahe/genetics4j/neat/mutation/DeleteConnectionPolicyHandler.java	4
neat/src/main/java/net/bmahe/genetics4j/neat/mutation/DeleteNodePolicyHandler.java	4
core/src/main/java/net/bmahe/genetics4j/core/selection/SelectiveRefinementTournamentSelector.java	4
neat/src/main/java/net/bmahe/genetics4j/neat/combination/parentcompare/ChosenOtherChromosome.java	4
neat/src/main/java/net/bmahe/genetics4j/neat/combination/parentcompare/ParentComparisonHandlerLocator.java	4
core/src/main/java/net/bmahe/genetics4j/core/FitnessBulkAsync.java	4
extras/src/main/java/net/bmahe/genetics4j/extras/evolutionlisteners/EvolutionStep.java	4
gp/src/main/java/net/bmahe/genetics4j/gp/selection/DoubleTournamentSelector.java	4
samples/src/main/java/net/bmahe/genetics4j/samples/neat/RecurrentParityBenchmarkCLI.java	4
core/src/test/java/net/bmahe/genetics4j/core/FitnessTest.java	4
extras/src/test/java/net/bmahe/genetics4j/extras/evolutionlisteners/EvolutionStepTest.java	4
core/src/main/java/net/bmahe/genetics4j/core/util/BitChromosomeUtils.java	4
.gitignore	4
core/src/main/java/net/bmahe/genetics4j/core/chromosomes/Chromosome.java	4
core/src/main/java/net/bmahe/genetics4j/core/chromosomes/factory/ChromosomeFactory.java	4
core/src/main/java/net/bmahe/genetics4j/core/spec/chromosome/IntChromosomeSpec.java	4
core/src/main/java/net/bmahe/genetics4j/core/spec/selection/SelectionPolicy.java	4
core/src/main/java/net/bmahe/genetics4j/core/spec/selection/TournamentSelection.java	4
core/src/site/asciidoc/index.adoc	4
core/src/main/java/net/bmahe/genetics4j/core/spec/selection/MultiSelections.java	4
core/src/test/java/net/bmahe/genetics4j/core/util/GenotypeGeneratorTest.java	4
core/src/main/java/net/bmahe/genetics4j/core/spec/mutation/MultiMutations.java	4
core/src/main/java/net/bmahe/genetics4j/core/programming/OperationFactories.java	4
core/src/main/java/net/bmahe/genetics4j/core/programming/OperationFactory.java	4
core/src/test/java/net/bmahe/genetics4j/core/evolutionlisteners/EvolutionListenersTest.java	4
core/src/main/java/net/bmahe/genetics4j/core/spec/replacement/DeleteNLast.java	4
core/src/main/java/net/bmahe/genetics4j/core/selection/DoubleTournamentSelectionPolicyHandler.java	4
gpu/src/main/java/net/bmahe/genetics4j/gpu/opencl/model/KernelInfo.java	4
core/src/main/java/net/bmahe/genetics4j/core/chromosomes/factory/FloatChromosomeFactory.java	4
core/src/main/java/net/bmahe/genetics4j/core/mutation/chromosome/creepmutation/FloatChromosomeCreepMutationHandler.java	4
core/src/main/java/net/bmahe/genetics4j/core/mutation/chromosome/randommutation/FloatChromosomeRandomMutationHandler.java	4
core/src/main/java/net/bmahe/genetics4j/core/mutation/chromosome/swapmutation/FloatChromosomeSwapMutationHandler.java	4
core/src/main/java/net/bmahe/genetics4j/core/spec/chromosome/FloatChromosomeSpec.java	4
core/src/test/java/net/bmahe/genetics4j/core/chromosomes/FloatChromosomeTest.java	4
core/src/test/java/net/bmahe/genetics4j/core/chromosomes/factory/FloatChromosomeFactoryTest.java	4
gp/src/main/java/net/bmahe/genetics4j/gp/spec/mutation/ProgramApplyRules.java	4
gpu/src/main/java/net/bmahe/genetics4j/gpu/spec/fitness/multistage/MultiStageDescriptor.java	4
neat/src/main/java/net/bmahe/genetics4j/neat/ConnectionPair.java	4
neat/src/main/java/net/bmahe/genetics4j/neat/SpeciesIdGenerator.java	4
neat/src/main/java/net/bmahe/genetics4j/neat/mutation/chromosome/NeatChromosomeCreepMutationHandler.java	4
neat/src/test/java/net/bmahe/genetics4j/neat/InnovationManagerTest.java	4
gpu/src/main/java/net/bmahe/genetics4j/gpu/opencl/PlatformReader.java	4
gpu/src/main/java/net/bmahe/genetics4j/gpu/spec/fitness/cldata/DataLoader.java	4
gpu/src/main/java/net/bmahe/genetics4j/gpu/spec/fitness/cldata/DataLoaders.java	4
moo/src/main/java/net/bmahe/genetics4j/moo/MOOEAExecutionContexts.java	4
samples/src/main/java/net/bmahe/genetics4j/samples/symbolicregression/SymbolicRegressionWithSRT.java	4
core/src/test/java/net/bmahe/genetics4j/core/util/IndividualUtilsTest.java	4
samples/scripts/plot_fitness.py	4
gp/src/main/java/net/bmahe/genetics4j/gp/OperationFactory.java	4
gp/src/main/java/net/bmahe/genetics4j/gp/StdProgramGenerator.java	4
neat/src/main/java/net/bmahe/genetics4j/neat/NodeIdManagerRegistry.java	4
core/src/site/en/asciidoc/docs/introduction.adoc	4
neat/src/main/java/net/bmahe/genetics4j/neat/util/GraphvizFormatter.java	3
core/src/main/java/net/bmahe/genetics4j/core/selection/SelectiveRefinementTournamentPolicyHandler.java	3
core/src/main/java/net/bmahe/genetics4j/core/util/immutables/ImmutablesStyle.java	3
neat/src/main/java/net/bmahe/genetics4j/neat/combination/parentcompare/FitnessComparisonHandler.java	3
neat/src/main/java/net/bmahe/genetics4j/neat/combination/parentcompare/ParentComparisonHandler.java	3
gp/src/main/java/net/bmahe/genetics4j/gp/selection/DoubleTournamentSelectionPolicyHandler.java	3
gp/src/main/java/net/bmahe/genetics4j/gp/spec/selection/DoubleTournament.java	3
gp/src/main/java/net/bmahe/genetics4j/gp/program/GrowProgramGenerator.java	3
core/src/main/java/net/bmahe/genetics4j/core/Terminations.java	3
core/src/main/java/net/bmahe/genetics4j/core/spec/chromosome/ChromosomeSpec.java	3
core/src/main/java/net/bmahe/genetics4j/core/spec/mutation/MutationPolicy.java	3
core/src/main/java/net/bmahe/genetics4j/core/spec/mutation/RandomMutation.java	3
src/site/asciidoc/docs/contributing_guide.adoc	3
src/site/asciidoc/docs/quickstart.adoc	3
gp/src/main/java/net/bmahe/genetics4j/gp/program/FullProgramGenerator.java	3
samples/src/site/asciidoc/docs/neat_xor.adoc	3
samples/src/site/asciidoc/docs/evolutionary_painting.adoc	3
core/src/main/java/net/bmahe/genetics4j/core/programming/Operation.java	3
core/src/main/java/net/bmahe/genetics4j/core/programming/math/Functions.java	3
core/src/main/java/net/bmahe/genetics4j/core/replacement/ReplacementStrategyHandler.java	3
core/src/main/java/net/bmahe/genetics4j/core/replacement/ReplacementStrategyImplementor.java	3
core/src/main/java/net/bmahe/genetics4j/core/spec/replacement/GenerationalReplacement.java	3
core/src/main/java/net/bmahe/genetics4j/core/spec/replacement/ReplacementStrategy.java	3
core/src/main/java/net/bmahe/genetics4j/core/spec/statistics/distributions/UniformDistribution.java	3
core/src/main/java/net/bmahe/genetics4j/core/combination/GenotypeCombinator.java	3
core/src/main/java/net/bmahe/genetics4j/core/Individual.java	3
core/src/main/java/net/bmahe/genetics4j/core/spec/selection/DoubleTournament.java	3
core/src/main/java/net/bmahe/genetics4j/core/spec/selection/MultiTournaments.java	3
core/src/main/java/net/bmahe/genetics4j/core/spec/selection/ProportionalTournament.java	3
gpu/src/main/java/net/bmahe/genetics4j/gpu/opencl/KernelInfoReader.java	3
core/src/main/java/net/bmahe/genetics4j/core/spec/mutation/PartialMutation.java	3
gp/src/main/java/net/bmahe/genetics4j/gp/math/CoefficientOperation.java	3
gp/src/main/java/net/bmahe/genetics4j/gp/math/InputOperation.java	3
neat/src/test/java/net/bmahe/genetics4j/neat/selection/NeatSelectionImplTest.java	3
samples/src/main/java/net/bmahe/genetics4j/samples/symbolicregression/SymbolicRegression.java	3
neat/src/main/java/net/bmahe/genetics4j/neat/spec/mutation/AddConnection.java	3
neat/src/main/java/net/bmahe/genetics4j/neat/spec/mutation/NeatConnectionWeight.java	3
gpu/src/main/java/net/bmahe/genetics4j/gpu/spec/fitness/cldata/StaticDataLoaders.java	3
gpu/src/main/java/net/bmahe/genetics4j/gpu/spec/fitness/kernelcontext/KernelExecutionContext.java	3
samples/src/main/java/net/bmahe/genetics4j/samples/CLIUtils.java	3
samples/src/main/java/net/bmahe/genetics4j/samples/TSPLIBParser.java	3
samples/src/site/en/asciidoc/docs/neat_recurrent_parity.adoc	3
samples/scripts/plot_clustering.py	3
samples/src/main/java/net/bmahe/genetics4j/samples/clustering/PhenotypeUtils.java	3
gp/src/main/java/net/bmahe/genetics4j/gp/ProgramGenerator.java	3
moo/src/main/java/net/bmahe/genetics4j/moo/nsga2/impl/NSGA2SelectionPolicyHandlerFactory.java	3
moo/src/main/java/net/bmahe/genetics4j/moo/spea2/replacement/SPEA2ReplacementStrategyHandlerFactory.java	3
neat/src/main/java/net/bmahe/genetics4j/neat/spec/ContiguousNeatNodeLayout.java	3
neat/src/main/java/net/bmahe/genetics4j/neat/spec/NeatNodeLayoutValidation.java	3
neat/src/test/java/net/bmahe/genetics4j/neat/NodeIdManagerTest.java	3
neat/src/test/java/net/bmahe/genetics4j/neat/SparseNodeLayoutIntegrationTest.java	3
neat/src/test/java/net/bmahe/genetics4j/neat/mutation/chromosome/SparseStructuralMutationTest.java	3
neat/src/test/java/net/bmahe/genetics4j/neat/spec/NeatNodeLayoutTest.java	3
samples/src/site/asciidoc/docs/bloat_issues.adoc	3
core/src/main/java/net/bmahe/genetics4j/core/combination/ChromosomeCombinatorHandler.java	3
neat/src/main/java/net/bmahe/genetics4j/neat/spec/mutation/DeleteConnection.java	2
neat/src/main/java/net/bmahe/genetics4j/neat/spec/mutation/DeleteNode.java	2
neat/src/main/java/net/bmahe/genetics4j/neat/combination/parentcompare/FitnessThenSizeComparisonHandler.java	2
neat/src/main/java/net/bmahe/genetics4j/neat/spec/combination/parentcompare/FitnessThenSizeComparison.java	2
core/src/main/java/net/bmahe/genetics4j/core/evaluation/TaskResult.java	2
core/src/main/java/net/bmahe/genetics4j/core/spec/EAConfigurationSync.java	2
samples/src/main/resources/fitness_sharing.gnuplot	2
core/src/main/java/net/bmahe/genetics4j/core/EvolutionListener.java	2
core/src/main/java/net/bmahe/genetics4j/core/SimpleEvolutionListener.java	2
core/src/main/java/net/bmahe/genetics4j/core/Termination.java	2
core/src/main/java/net/bmahe/genetics4j/core/spec/chromosome/BitChromosomeSpec.java	2
core/src/main/java/net/bmahe/genetics4j/core/spec/combination/MultiPointCrossover.java	2
core/src/main/java/net/bmahe/genetics4j/core/spec/selection/RandomSelectionPolicy.java	2
core/src/main/java/net/bmahe/genetics4j/core/spec/selection/RouletteWheelSelection.java	2
core/src/test/resources/log4j2-test.xml	2
core/src/main/java/net/bmahe/genetics4j/core/spec/combination/OrderCrossover.java	2
core/src/main/java/net/bmahe/genetics4j/core/spec/GenotypeFitness.java	2
samples/src/main/java/net/bmahe/genetics4j/samples/clustering/LocationWrapper.java	2
core/src/main/java/net/bmahe/genetics4j/core/programming/InputSpec.java	2
core/src/main/java/net/bmahe/genetics4j/core/programming/Program.java	2
core/src/main/java/net/bmahe/genetics4j/core/programming/math/AdditionFactory.java	2
gpu/src/main/java/net/bmahe/genetics4j/gpu/spec/fitness/MultipleComputer.java	2
gp/src/test/java/net/bmahe/genetics4j/gp/StdProgramGeneratorTest.java	2
gp/src/test/resources/log4j2-test.xml	2
core/src/main/java/net/bmahe/genetics4j/core/evolutionstrategy/EvolutionStrategyHandler.java	2
core/src/main/java/net/bmahe/genetics4j/core/spec/evolutionstrategy/Elitism.java	2
core/src/main/java/net/bmahe/genetics4j/core/spec/evolutionstrategy/EvolutionStrategy.java	2
moo/src/main/java/net/bmahe/genetics4j/moo/ObjectiveDistance.java	2
core/src/main/java/net/bmahe/genetics4j/core/mutation/chromosome/ChromosomeMutationHandlerFactory.java	2
neat/src/main/java/net/bmahe/genetics4j/neat/spec/mutation/AddNode.java	2
neat/src/main/java/net/bmahe/genetics4j/neat/spec/mutation/SwitchStateMutation.java	2
gpu/src/main/java/net/bmahe/genetics4j/gpu/opencl/model/DeviceType.java	2
gpu/src/main/java/net/bmahe/genetics4j/gpu/opencl/model/PlatformProfile.java	2
gpu/src/main/java/net/bmahe/genetics4j/gpu/spec/fitness/FitnessExtractor.java	2
gpu/src/main/java/net/bmahe/genetics4j/gpu/spec/fitness/cldata/LocalMemoryAllocator.java	2
gpu/src/main/java/net/bmahe/genetics4j/gpu/spec/fitness/cldata/ResultAllocator.java	2
gpu/src/main/java/net/bmahe/genetics4j/gpu/spec/fitness/kernelcontext/KernelExecutionContextComputer.java	2
samples/scripts/plot_multi_fitness.py	2
samples/src/site/asciidoc/docs/mixture_models_on_gpu.adoc	2
moo/src/main/java/net/bmahe/genetics4j/moo/nsga2/spec/ObjectiveDistance.java	2
samples/src/main/java/net/bmahe/genetics4j/samples/TSPLIBProblem.java	2
core/src/main/java/net/bmahe/genetics4j/core/util/IndividualUtils.java	2
core/src/main/java/net/bmahe/genetics4j/core/spec/combination/MultiPointArithmetic.java	2
core/src/main/java/net/bmahe/genetics4j/core/spec/combination/SinglePointArithmetic.java	2
samples/src/site/en/asciidoc/docs/neat_recurrent_control.adoc	2
samples/src/main/java/net/bmahe/genetics4j/samples/clustering/FitnessSharingUtils.java	2
samples/src/site/asciidoc/docs/clustering.adoc	2
gp/src/main/java/net/bmahe/genetics4j/gp/spec/chromosome/ProgramTreeChromosomeSpec.java	2
gp/src/main/java/net/bmahe/genetics4j/gp/spec/mutation/ProgramRandomMutate.java	2
gp/src/main/java/net/bmahe/genetics4j/gp/spec/mutation/ProgramRandomPrune.java	2
ci_settings.xml	2
eclipse-formatter.xml	2
core/src/site/en/resources/d.foo	2
samples/src/site/en/asciidoc/docs/bloat_issues.adoc	2
src/site/en/asciidoc/docs/contributing_guide.adoc	2
src/site/en/asciidoc/docs/quickstart.adoc	2
core/src/main/java/net/bmahe/genetics4j/core/package-info.java	1
extras/src/main/java/net/bmahe/genetics4j/extras/package-info.java	1
gp/src/main/java/net/bmahe/genetics4j/gp/package-info.java	1
gpu/src/main/java/net/bmahe/genetics4j/gpu/package-info.java	1
moo/src/main/java/net/bmahe/genetics4j/moo/package-info.java	1
neat/src/main/java/net/bmahe/genetics4j/neat/package-info.java	1
neat/src/main/java/net/bmahe/genetics4j/neat/spec/combination/parentcompare/FitnessComparison.java	1
neat/src/main/java/net/bmahe/genetics4j/neat/spec/combination/parentcompare/ParentComparisonPolicy.java	1
extras/src/main/java/net/bmahe/genetics4j/extras/evolutionlisteners/ColumnExtractor.java	1
extras/src/main/java/net/bmahe/genetics4j/extras/evolutionlisteners/ColumnExtractorFunction.java	1
extras/src/main/java/net/bmahe/genetics4j/extras/evolutionlisteners/GenerationFunction.java	1
extras/src/test/resources/log4j2-test.xml	1
gp/src/main/java/net/bmahe/genetics4j/gp/selection/DoubleTournamentPolicyHandlerFactory.java	1
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samples/src/site/asciidoc/docs/fitness_sharing.adoc	1
core/src/main/java/net/bmahe/genetics4j/core/mutation/chromosome/ChromosomeMutationHandler.java	1
core/src/main/java/net/bmahe/genetics4j/core/spec/combination/CombinationPolicy.java	1
core/src/main/java/net/bmahe/genetics4j/core/spec/combination/SinglePointCrossover.java	1
core/src/main/java/net/bmahe/genetics4j/core/spec/GeneticSystemDescriptors.java	1
gp/src/main/java/net/bmahe/genetics4j/gp/spec/GPGeneticSystemDescriptors.java	1
moo/src/main/java/net/bmahe/genetics4j/moo/MOOGeneticSystemDescriptors.java	1
gp/src/main/java/net/bmahe/genetics4j/gp/program/ProgramGenerator.java	1
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samples/src/site/resources/images/evolutionary_painting/stable_fitness_histogram_fitness_loss.png	1
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samples/src/site/resources/images/evolutionary_painting/stable_fitness_stopping_generation_vs_stable_fitness_parameter.png	1
samples/src/site/resources/images/evolutionary_painting/stable_fitness_stopping_point_over_iterations.png	1
samples/generate_samples_combination.sh	1
samples/generate_samples_mutation.sh	1
samples/notebooks/Combinations.ipynb	1
samples/notebooks/Mutations.ipynb	1
core/src/main/java/net/bmahe/genetics4j/core/spec/PostEvaluationProcessor.java	1
gp/src/main/java/net/bmahe/genetics4j/gp/spec/mutation/NodeReplacement.java	1
LICENSE	1
core/src/main/java/net/bmahe/genetics4j/core/mutation/MultiMutationPolicyHandler.java	1
core/src/main/java/net/bmahe/genetics4j/core/spec/mutation/CreepMutation.java	1
core/src/main/java/net/bmahe/genetics4j/core/spec/statistics/distributions/Distribution.java	1
core/src/main/java/net/bmahe/genetics4j/core/spec/statistics/distributions/NormalDistribution.java	1
core/src/main/java/net/bmahe/genetics4j/core/combination/gp/ProgramRandomCombineHandler.java	1
core/src/main/java/net/bmahe/genetics4j/core/mutation/gp/ProgramRandomMutatePolicyHandler.java	1
core/src/main/java/net/bmahe/genetics4j/core/mutation/gp/ProgramRandomPrunePolicyHandler.java	1
core/src/main/java/net/bmahe/genetics4j/core/programming/ProgramGenerator.java	1
core/src/main/java/net/bmahe/genetics4j/core/programming/StdProgramGenerator.java	1
core/src/main/java/net/bmahe/genetics4j/core/spec/chromosome/ProgramTreeChromosomeSpec.java	1
core/src/main/java/net/bmahe/genetics4j/core/spec/combination/PickFirstParent.java	1
core/src/main/java/net/bmahe/genetics4j/core/spec/gp/combination/ProgramRandomCombine.java	1
core/src/main/java/net/bmahe/genetics4j/core/spec/gp/mutation/ProgramRandomMutate.java	1
core/src/main/java/net/bmahe/genetics4j/core/spec/gp/mutation/ProgramRandomPrune.java	1
core/src/main/java/net/bmahe/genetics4j/core/spec/selection/RandomSelection.java	1
core/src/main/java/net/bmahe/genetics4j/core/spec/selection/RouletteWheel.java	1
core/src/main/java/net/bmahe/genetics4j/core/spec/combination/EdgeRecombinationCrossover.java	1
AGENTS.md	1
core/src/main/java/net/bmahe/genetics4j/core/evolutionstrategy/ElitismEvolutionStrategyHandler.java	1
core/src/main/java/net/bmahe/genetics4j/core/evolutionstrategy/ElitismImpl.java	1
core/src/main/java/net/bmahe/genetics4j/core/evolutionstrategy/EvolutionStrategyImplementor.java	1
core/src/main/java/net/bmahe/genetics4j/core/evolutionstrategy/GenerationalReplacementEvolutionStrategyHandler.java	1
core/src/main/java/net/bmahe/genetics4j/core/evolutionstrategy/GenerationalReplacementImpl.java	1
core/src/main/java/net/bmahe/genetics4j/core/spec/evolutionstrategy/GenerationalReplacement.java	1
core/src/main/java/net/bmahe/genetics4j/core/spec/selection/SelectAll.java	1
neat/src/test/resources/log4j2-test.xml	1
gpu/src/main/java/net/bmahe/genetics4j/gpu/spec/fitness/cldata/DataSupplier.java	1
gpu/src/main/java/net/bmahe/genetics4j/gpu/spec/fitness/cldata/StaticDataLoader.java	1
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gpu/src/test/resources/test.cl	1
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samples/src/main/resources/opencl/mixturemodel/main.cl	1
neat/src/test/java/net/bmahe/genetics4j/neat/mutation/AbstractNeatChromosomeConnectionMutationHandlerTest.java	1
core/src/main/java/net/bmahe/genetics4j/core/evolutionstrategy/DeleteNLastEvolutionStrategyHandler.java	1
core/src/main/java/net/bmahe/genetics4j/core/evolutionstrategy/DeleteNLastImpl.java	1
core/src/main/java/net/bmahe/genetics4j/core/spec/evolutionstrategy/DeleteNLast.java	1
core/src/test/java/net/bmahe/genetics4j/core/evolutionstrategy/DeleteNLastImplTest.java	1
moo/src/test/resources/log4j2-test.xml	1
samples/src/main/java/net/bmahe/genetics4j/samples/Position.java	1
samples/src/main/resources/clustering-centroids.csv	1
samples/src/main/resources/clustering-data.csv	1
gp/src/main/java/net/bmahe/genetics4j/gp/Program.java	1
gp/src/main/java/net/bmahe/genetics4j/gp/spec/combination/ProgramRandomCombine.java	1
core/src/main/java/net/bmahe/genetics4j/core/spec/ChromosomeCombinatorHandlerFactory.java	1
core/src/main/java/net/bmahe/genetics4j/core/spec/MutationPolicyHandlerFactory.java	1
core/src/main/java/net/bmahe/genetics4j/core/spec/ReplacementStrategyHandlerFactory.java	1
core/src/main/java/net/bmahe/genetics4j/core/spec/SelectionPolicyHandlerFactory.java	1
neat/src/main/java/net/bmahe/genetics4j/neat/spec/ExplicitNeatNodeLayout.java	1
neat/src/main/java/net/bmahe/genetics4j/neat/spec/NeatNodeLayout.java	1
samples/src/main/resources/bloat_issue_frontier.gnuplot	1
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core/src/site/en/asciidoc/index.adoc	1
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samples/src/site/en/asciidoc/docs/neat_xor.adoc	1
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samples/src/site/en/resources/images/evolutionary_painting/paintings/creek-without-iteration-factor.jpg	1
samples/src/site/en/resources/images/evolutionary_painting/paintings/flower-it-0099.jpg	1
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samples/src/site/en/resources/images/evolutionary_painting/paintings/flower-scale-7x-it-0099.jpg	1
samples/src/site/en/resources/images/evolutionary_painting/paintings/insect-it-0099.jpg	1
samples/src/site/en/resources/images/evolutionary_painting/paintings/jellyfish-it-0099.jpg	1
samples/src/site/en/resources/images/evolutionary_painting/paintings/wheel-it-0099.jpg	1
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