EASystem.java

package net.bmahe.genetics4j.core;

import java.util.ArrayList;

import java.util.Arrays;

import java.util.List;

import java.util.Objects;

import org.apache.commons.collections4.CollectionUtils;

import org.apache.commons.lang3.Validate;

import org.apache.logging.log4j.LogManager;

import org.apache.logging.log4j.Logger;

import net.bmahe.genetics4j.core.chromosomes.Chromosome;

import net.bmahe.genetics4j.core.chromosomes.factory.ChromosomeFactoryProvider;

import net.bmahe.genetics4j.core.combination.ChromosomeCombinator;

import net.bmahe.genetics4j.core.combination.GenotypeCombinator;

import net.bmahe.genetics4j.core.evaluation.FitnessEvaluator;

import net.bmahe.genetics4j.core.evolutionlisteners.EvolutionListener;

import net.bmahe.genetics4j.core.mutation.Mutator;

import net.bmahe.genetics4j.core.replacement.ReplacementStrategyImplementor;

import net.bmahe.genetics4j.core.selection.Selector;

import net.bmahe.genetics4j.core.spec.AbstractEAConfiguration;

import net.bmahe.genetics4j.core.spec.AbstractEAExecutionContext;

import net.bmahe.genetics4j.core.spec.EvolutionResult;

import net.bmahe.genetics4j.core.spec.ImmutableEvolutionResult;

import net.bmahe.genetics4j.core.termination.Termination;

import net.bmahe.genetics4j.core.util.GenotypeGenerator;

/**

 * Main orchestrator class for evolutionary algorithms, managing the complete

 * evolution process.

 * <p>

 * EASystem serves as the central coordinator that brings together all

 * components of an evolutionary

 * algorithm including genetic operators, selection strategies, evaluation

 * functions, and termination

 * criteria. It manages the evolutionary cycle and provides a unified interface

 * for running optimizations.

 * <p>

 * The system coordinates the following evolutionary process:

 * <ol>

 * <li><strong>Initialization</strong>: Generate initial population of random

 * genotypes</li>

 * <li><strong>Evaluation</strong>: Compute fitness values for all

 * individuals</li>

 * <li><strong>Selection</strong>: Choose parents for reproduction based on

 * fitness</li>

 * <li><strong>Reproduction</strong>: Create offspring through crossover and

 * mutation</li>

 * <li><strong>Replacement</strong>: Integrate offspring into next

 * generation</li>

 * <li><strong>Termination check</strong>: Determine if stopping criteria are

 * met</li>

 * <li><strong>Iteration</strong>: Repeat until termination conditions are

 * satisfied</li>

 * </ol>

 * <p>

 * Key responsibilities include:

 * <ul>

 * <li><strong>Population management</strong>: Maintaining population size and

 * diversity</li>

 * <li><strong>Genetic operator coordination</strong>: Applying crossover,

 * mutation, and selection</li>

 * <li><strong>Fitness evaluation orchestration</strong>: Managing parallel and

 * synchronous evaluation</li>

 * <li><strong>Evolution monitoring</strong>: Providing hooks for logging and

 * progress tracking</li>

 * <li><strong>Resource management</strong>: Efficient memory usage and

 * computation distribution</li>

 * </ul>

 * <p>

 * Configuration components:

 * <ul>

 * <li><strong>EAConfiguration</strong>: Defines genetic representation and

 * operator policies</li>

 * <li><strong>EAExecutionContext</strong>: Provides runtime services and

 * factory implementations</li>

 * <li><strong>FitnessEvaluator</strong>: Computes quality measures for

 * candidate solutions</li>

 * <li><strong>Termination criteria</strong>: Determines when to stop

 * evolution</li>

 * </ul>

 * <p>

 * The system supports various evolutionary paradigms:

 * <ul>

 * <li><strong>Genetic Algorithms</strong>: Traditional binary and real-valued

 * optimization</li>

 * <li><strong>Genetic Programming</strong>: Evolution of tree-structured

 * programs</li>

 * <li><strong>Evolution Strategies</strong>: Real-valued optimization with

 * adaptive parameters</li>

 * <li><strong>Multi-objective optimization</strong>: Pareto-based optimization

 * with multiple objectives</li>

 * </ul>

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 * <p>

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 * Example usage:

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 * <pre>{@code

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 * // Configure the evolutionary algorithm

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 * EAConfiguration<Double> config = EAConfigurationBuilder.<Double>builder()

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 *     .chromosomeSpecs(DoubleChromosomeSpec.of(10, -5.0, 5.0))

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 *     .parentSelectionPolicy(Tournament.of(3))

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 *     .mutationPolicy(RandomMutation.of(0.1))

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 *     .build();

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 * // Set up execution context

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 * EAExecutionContext<Double> context = EAExecutionContexts.forScalarFitness();

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 * // Create fitness evaluator

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 * Fitness<Double> fitness = genotype -> {

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 *     // Implement problem-specific fitness function

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 *     return computeFitness(genotype);

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 * };

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 * // Build and run the evolutionary system

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 * EASystem<Double> system = EASystemFactory.from(config, context, fitness);

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 * EvolutionResult<Double> result = system.evolve(

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 *     populationSize: 100,

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 *     termination: Terminations.generations(1000)

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 * );

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 * }</pre>

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 * <p>

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 * Thread safety: EASystem instances are generally not thread-safe and should

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 * not be shared

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 * between multiple threads without external synchronization. However, the

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 * system supports

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 * parallel fitness evaluation internally when configured appropriately.

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 * @param <T> the type of fitness values, must be comparable for selection and

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 *            ranking

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 * @see EASystemFactory

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 * @see net.bmahe.genetics4j.core.spec.EAConfiguration

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 * @see net.bmahe.genetics4j.core.spec.EAExecutionContext

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 * @see FitnessEvaluator

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 * @see Termination

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*/

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public class EASystem<T extends Comparable<T>> {

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	final static public Logger logger = LogManager.getLogger(EASystem.class);

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	private final GenotypeGenerator<T> genotypeGenerator;

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	private final FitnessEvaluator<T> fitnessEvaluator;

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	private final AbstractEAConfiguration<T> eaConfiguration;

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	private final AbstractEAExecutionContext<T> eaExecutionContext;

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	private final int populationSize;

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	private final List<ChromosomeCombinator<T>> chromosomeCombinators;

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	private final ChromosomeFactoryProvider chromosomeFactoryProvider;

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	private final ReplacementStrategyImplementor<T> replacementStrategyImplementor;

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	private final List<Mutator> mutators;

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	private final double offspringRatio;

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	private Selector<T> parentSelector;

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	public EASystem(final AbstractEAConfiguration<T> _eaConfiguration, final long _populationSize,

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			final List<ChromosomeCombinator<T>> _chromosomeCombinators, final double _offspringRatio,

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			final Selector<T> _parentSelectionPolicyHandler, final List<Mutator> _mutators,

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			final ReplacementStrategyImplementor<T> _replacementStrategyImplementor,

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			final AbstractEAExecutionContext<T> _eaExecutionContext, final FitnessEvaluator<T> _fitnessEvaluator) {

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		Objects.requireNonNull(_eaConfiguration);

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		Validate.isTrue(_populationSize > 0);

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		Objects.requireNonNull(_chromosomeCombinators);

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		Validate.isTrue(_chromosomeCombinators.size() == _eaConfiguration.numChromosomes());

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		Validate.inclusiveBetween(0.0, 1.0, _offspringRatio);

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		Objects.requireNonNull(_parentSelectionPolicyHandler);

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		Objects.requireNonNull(_replacementStrategyImplementor);

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		Objects.requireNonNull(_eaExecutionContext);

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		Objects.requireNonNull(_fitnessEvaluator);

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1 1. <init> : Removed assignment to member variable eaConfiguration → KILLED

		this.eaConfiguration = _eaConfiguration;

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1 1. <init> : Removed assignment to member variable eaExecutionContext → KILLED

		this.eaExecutionContext = _eaExecutionContext;

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1 1. <init> : Removed assignment to member variable populationSize → KILLED

		this.populationSize = (int) _populationSize;

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1 1. <init> : Removed assignment to member variable chromosomeCombinators → KILLED

		this.chromosomeCombinators = _chromosomeCombinators;

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1 1. <init> : Removed assignment to member variable offspringRatio → KILLED

		this.offspringRatio = _offspringRatio;

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1 1. <init> : Removed assignment to member variable mutators → KILLED

		this.mutators = _mutators;

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2 1. <init> : removed call to net/bmahe/genetics4j/core/spec/AbstractEAExecutionContext::chromosomeFactoryProvider → KILLED
2. <init> : Removed assignment to member variable chromosomeFactoryProvider → KILLED

		this.chromosomeFactoryProvider = _eaExecutionContext.chromosomeFactoryProvider();

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1 1. <init> : Removed assignment to member variable fitnessEvaluator → KILLED

		this.fitnessEvaluator = _fitnessEvaluator;

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1 1. <init> : Removed assignment to member variable parentSelector → KILLED

		parentSelector = _parentSelectionPolicyHandler;

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1 1. <init> : Removed assignment to member variable replacementStrategyImplementor → KILLED

		this.replacementStrategyImplementor = _replacementStrategyImplementor;

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2 1. <init> : removed call to net/bmahe/genetics4j/core/util/GenotypeGenerator::<init> → KILLED
2. <init> : Removed assignment to member variable genotypeGenerator → KILLED

		this.genotypeGenerator = new GenotypeGenerator<>(chromosomeFactoryProvider, eaConfiguration);

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	private List<T> evaluate(final long generation, final List<Genotype> population) {

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		Validate.isTrue(generation >= 0);

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		Objects.requireNonNull(population);

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		Validate.isTrue(population.size() > 0);

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		logger.debug("Evaluating population of size {}", population.size());

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2 1. evaluate : replaced call to net/bmahe/genetics4j/core/evaluation/FitnessEvaluator::evaluate with argument → KILLED
2. evaluate : removed call to net/bmahe/genetics4j/core/evaluation/FitnessEvaluator::evaluate → KILLED

		final List<T> fitnesses = fitnessEvaluator.evaluate(generation, population);

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		logger.debug("Done evaluating population of size {}", population.size());

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1 1. evaluate : replaced return value with Collections.emptyList for net/bmahe/genetics4j/core/EASystem::evaluate → KILLED

		return fitnesses;

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	private List<Genotype> initializePopulation() {

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1 1. initializePopulation : removed call to net/bmahe/genetics4j/core/spec/AbstractEAExecutionContext::populationSize → KILLED

		final int initialPopulationSize = eaExecutionContext.populationSize();

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		logger.info("Generating initial population of {} individuals", initialPopulationSize);

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1 1. initializePopulation : removed call to java/util/ArrayList::<init> → KILLED

		final List<Genotype> genotypes = new ArrayList<>(initialPopulationSize);

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1 1. initializePopulation : removed call to net/bmahe/genetics4j/core/spec/AbstractEAConfiguration::seedPopulation → SURVIVED

		final var seedPopulation = eaConfiguration.seedPopulation();

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4 1. initializePopulation : removed conditional - replaced equality check with true → SURVIVED
2. initializePopulation : negated conditional → SURVIVED
3. initializePopulation : removed call to org/apache/commons/collections4/CollectionUtils::isNotEmpty → SURVIVED
4. initializePopulation : removed conditional - replaced equality check with false → SURVIVED

		if (CollectionUtils.isNotEmpty(seedPopulation)) {

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1 1. initializePopulation : removed call to java/util/List::addAll → NO_COVERAGE

			genotypes.addAll(seedPopulation);

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5 1. initializePopulation : changed conditional boundary → SURVIVED
2. initializePopulation : removed conditional - replaced comparison check with true → SURVIVED
3. initializePopulation : removed call to java/util/List::size → SURVIVED
4. initializePopulation : removed conditional - replaced comparison check with false → KILLED
5. initializePopulation : negated conditional → KILLED

		if (genotypes.size() < initialPopulationSize) {

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2 1. initializePopulation : removed call to java/util/List::size → SURVIVED
2. initializePopulation : Replaced integer subtraction with addition → SURVIVED

			final var missingInitialIndividualCount = initialPopulationSize - genotypes.size();

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			logger.info(

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					"{} seed individual(s) added and generating {} individuals to reach the target of {} initial population size",

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2 1. initializePopulation : removed call to java/lang/Integer::valueOf → SURVIVED
2. initializePopulation : removed call to java/util/List::size → SURVIVED

					genotypes.size(),

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1 1. initializePopulation : removed call to java/lang/Integer::valueOf → SURVIVED

					missingInitialIndividualCount,

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1 1. initializePopulation : removed call to java/lang/Integer::valueOf → SURVIVED

					initialPopulationSize);

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1 1. initializePopulation : removed call to net/bmahe/genetics4j/core/util/GenotypeGenerator::generateGenotypes → KILLED

			final var extraIndividuals = genotypeGenerator.generateGenotypes(missingInitialIndividualCount);

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1 1. initializePopulation : removed call to java/util/List::addAll → KILLED

			genotypes.addAll(extraIndividuals);

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1 1. initializePopulation : replaced return value with Collections.emptyList for net/bmahe/genetics4j/core/EASystem::initializePopulation → KILLED

		return genotypes;

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	private List<Genotype> mutateGenotypes(final List<Genotype> genotypes) {

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		Objects.requireNonNull(genotypes);

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2 1. mutateGenotypes : removed call to java/util/List::stream → KILLED
2. mutateGenotypes : replaced return value with Collections.emptyList for net/bmahe/genetics4j/core/EASystem::mutateGenotypes → KILLED

		return genotypes.stream()

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2 1. mutateGenotypes : replaced call to java/util/stream/Stream::map with receiver → SURVIVED
2. mutateGenotypes : removed call to java/util/stream/Stream::map → KILLED

				.map(child -> {

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					Genotype mutatedChild = child;

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					for (final Mutator mutator : mutators) {

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2 1. lambda$mutateGenotypes$0 : replaced call to net/bmahe/genetics4j/core/mutation/Mutator::mutate with argument → SURVIVED
2. lambda$mutateGenotypes$0 : removed call to net/bmahe/genetics4j/core/mutation/Mutator::mutate → KILLED

						mutatedChild = mutator.mutate(mutatedChild);

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1 1. lambda$mutateGenotypes$0 : replaced return value with null for net/bmahe/genetics4j/core/EASystem::lambda$mutateGenotypes$0 → KILLED

					return mutatedChild;

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})

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1 1. mutateGenotypes : removed call to java/util/stream/Stream::toList → KILLED

				.toList();

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	private List<Genotype> combineParents(final Population<T> parents, final GenotypeCombinator genotypeCombinator) {

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		Objects.requireNonNull(parents);

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		Objects.requireNonNull(genotypeCombinator);

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1 1. combineParents : removed call to java/util/ArrayList::<init> → KILLED

		final List<Genotype> children = new ArrayList<>();

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1 1. combineParents : Substituted 0 with 1 → SURVIVED

		int parentIndex = 0;

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7 1. combineParents : changed conditional boundary → SURVIVED
2. combineParents : Substituted 1 with 0 → SURVIVED
3. combineParents : removed call to net/bmahe/genetics4j/core/Population::size → KILLED
4. combineParents : Replaced integer addition with subtraction → KILLED
5. combineParents : negated conditional → KILLED
6. combineParents : removed conditional - replaced comparison check with true → KILLED
7. combineParents : removed conditional - replaced comparison check with false → KILLED

		while (parentIndex + 1 < parents.size()) {

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1 1. combineParents : removed call to net/bmahe/genetics4j/core/Population::getGenotype → KILLED

			final Genotype firstParent = parents.getGenotype(parentIndex);

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1 1. combineParents : removed call to net/bmahe/genetics4j/core/Population::getFitness → SURVIVED

			final T firstParentFitness = parents.getFitness(parentIndex);

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3 1. combineParents : Substituted 1 with 0 → SURVIVED
2. combineParents : removed call to net/bmahe/genetics4j/core/Population::getGenotype → KILLED
3. combineParents : Replaced integer addition with subtraction → KILLED

			final Genotype secondParent = parents.getGenotype(parentIndex + 1);

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3 1. combineParents : Substituted 1 with 0 → SURVIVED
2. combineParents : removed call to net/bmahe/genetics4j/core/Population::getFitness → SURVIVED
3. combineParents : Replaced integer addition with subtraction → KILLED

			final T secondParentFitness = parents.getFitness(parentIndex + 1);

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1 1. combineParents : removed call to java/util/ArrayList::<init> → KILLED

			final List<List<Chromosome>> chromosomes = new ArrayList<>();

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6 1. combineParents : removed conditional - replaced comparison check with false → KILLED
2. combineParents : removed call to net/bmahe/genetics4j/core/spec/AbstractEAConfiguration::numChromosomes → KILLED
3. combineParents : Substituted 0 with 1 → KILLED
4. combineParents : changed conditional boundary → KILLED
5. combineParents : negated conditional → KILLED
6. combineParents : removed conditional - replaced comparison check with true → KILLED

			for (int chromosomeIndex = 0; chromosomeIndex < eaConfiguration.numChromosomes(); chromosomeIndex++) {

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1 1. combineParents : removed call to net/bmahe/genetics4j/core/Genotype::getChromosome → KILLED

				final Chromosome firstChromosome = firstParent.getChromosome(chromosomeIndex);

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1 1. combineParents : removed call to net/bmahe/genetics4j/core/Genotype::getChromosome → KILLED

				final Chromosome secondChromosome = secondParent.getChromosome(chromosomeIndex);

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1 1. combineParents : removed call to java/util/List::get → KILLED

				final List<Chromosome> combinedChromosomes = chromosomeCombinators.get(chromosomeIndex)

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1 1. combineParents : removed call to net/bmahe/genetics4j/core/combination/ChromosomeCombinator::combine → KILLED

						.combine(eaConfiguration, firstChromosome, firstParentFitness, secondChromosome, secondParentFitness);

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1 1. combineParents : removed call to java/util/List::add → KILLED

				chromosomes.add(combinedChromosomes);

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				logger.trace("Combining {} with {} ---> {}", firstChromosome, secondChromosome, combinedChromosomes);

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2 1. combineParents : replaced call to net/bmahe/genetics4j/core/combination/GenotypeCombinator::combine with argument → KILLED
2. combineParents : removed call to net/bmahe/genetics4j/core/combination/GenotypeCombinator::combine → KILLED

			final List<Genotype> offsprings = genotypeCombinator.combine(eaConfiguration, chromosomes);

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1 1. combineParents : removed call to java/util/List::addAll → KILLED

			children.addAll(offsprings);

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1 1. combineParents : Changed increment from 2 to -2 → KILLED

			parentIndex += 2;

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1 1. combineParents : replaced return value with Collections.emptyList for net/bmahe/genetics4j/core/EASystem::combineParents → KILLED

		return children;

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/**

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	 * Create offsprings without mutation

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	 * @param population

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	 * @param offspringsNeeded

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	 * @return

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*/

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	private List<Genotype> createBasicOffsprings(final Population<T> population, final int offspringsNeeded) {

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		Objects.requireNonNull(population);

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		Validate.isTrue(offspringsNeeded > 0);

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1 1. createBasicOffsprings : removed call to net/bmahe/genetics4j/core/spec/AbstractEAConfiguration::genotypeCombinator → KILLED

		final GenotypeCombinator genotypeCombinator = eaConfiguration.genotypeCombinator();

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2 1. createBasicOffsprings : Substituted 2 with 3 → KILLED
2. createBasicOffsprings : Replaced integer multiplication with division → KILLED

		final int parentsNeeded = (int) (offspringsNeeded * 2);

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		logger.info("Selecting {} parents as we expect to generate {} offsprings", parentsNeeded, offspringsNeeded);

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		final Population<T> selectedParents = parentSelector

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3 1. createBasicOffsprings : removed call to net/bmahe/genetics4j/core/selection/Selector::select → KILLED
2. createBasicOffsprings : removed call to net/bmahe/genetics4j/core/Population::getAllFitnesses → KILLED
3. createBasicOffsprings : removed call to net/bmahe/genetics4j/core/Population::getAllGenotypes → KILLED

				.select(eaConfiguration, parentsNeeded, population.getAllGenotypes(), population.getAllFitnesses());

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		logger.trace("Selected parents: {}", selectedParents);

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		Validate.isTrue(selectedParents.size() % 2 == 0);

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		logger.info("Combining parents into offsprings");

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1 1. createBasicOffsprings : removed call to net/bmahe/genetics4j/core/EASystem::combineParents → KILLED

		final List<Genotype> offsprings = combineParents(selectedParents, genotypeCombinator);

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1 1. createBasicOffsprings : replaced return value with Collections.emptyList for net/bmahe/genetics4j/core/EASystem::createBasicOffsprings → KILLED

		return offsprings;

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/**

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	 * Gets the evolutionary algorithm configuration used by this system.

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	 * @return the EA configuration containing genetic operators, chromosome specs,

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	 *         and evolutionary parameters

313

*/

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	public AbstractEAConfiguration<T> getEAConfiguration() {

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1 1. getEAConfiguration : replaced return value with null for net/bmahe/genetics4j/core/EASystem::getEAConfiguration → KILLED

		return eaConfiguration;

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/**

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	 * Gets the target population size for each generation.

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	 * @return the population size as configured for this evolutionary system

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*/

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	public long getPopulationSize() {

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1 1. getPopulationSize : replaced long return with 0 for net/bmahe/genetics4j/core/EASystem::getPopulationSize → KILLED

		return populationSize;

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/**

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	 * Creates offspring from the given population through selection, crossover, and

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	 * mutation.

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	 * <p>

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	 * This method orchestrates the reproductive process by:

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	 * <ol>

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	 * <li>Selecting parents from the population using the configured selection

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	 * strategy</li>

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	 * <li>Applying crossover operations to generate basic offspring</li>

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	 * <li>Applying mutation operators to introduce genetic variation</li>

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	 * </ol>

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	 * @param population       the current population to select parents from

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	 * @param offspringsNeeded the number of offspring to generate

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	 * @return a list of mutated offspring genotypes

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	 * @throws NullPointerException     if population is null

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	 * @throws IllegalArgumentException if offspringsNeeded is not positive

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*/

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	public List<Genotype> createOffsprings(final Population<T> population, final int offspringsNeeded) {

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		Objects.requireNonNull(population);

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		Validate.isTrue(offspringsNeeded > 0);

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1 1. createOffsprings : removed call to net/bmahe/genetics4j/core/EASystem::createBasicOffsprings → KILLED

		final List<Genotype> offpsrings = createBasicOffsprings(population, offspringsNeeded);

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		logger.info("Generated {} offsprings", offpsrings.size());

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		logger.info("Mutating offsprigns");

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2 1. createOffsprings : replaced call to net/bmahe/genetics4j/core/EASystem::mutateGenotypes with argument → SURVIVED
2. createOffsprings : removed call to net/bmahe/genetics4j/core/EASystem::mutateGenotypes → KILLED

		final List<Genotype> mutatedOffsprings = mutateGenotypes(offpsrings);

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1 1. createOffsprings : replaced return value with Collections.emptyList for net/bmahe/genetics4j/core/EASystem::createOffsprings → KILLED

		return mutatedOffsprings;

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/**

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	 * Executes the complete evolutionary algorithm process until termination

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	 * criteria are met.

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	 * <p>

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	 * This is the main entry point for running evolution. The method manages the

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	 * entire

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	 * evolutionary cycle including:

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	 * <ul>

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	 * <li>Initial population generation and evaluation</li>

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	 * <li>Iterative evolution through selection, reproduction, and replacement</li>

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	 * <li>Progress monitoring via evolution listeners</li>

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	 * <li>Termination condition checking</li>

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	 * </ul>

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	 * <p>

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	 * The evolution process continues until the configured termination criteria

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	 * (e.g., maximum generations, target fitness, convergence) are satisfied.

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	 * @return an EvolutionResult containing the final population, fitness values,

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	 *         generation count, and configuration details

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	 * @see Termination

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	 * @see EvolutionResult

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*/

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	public EvolutionResult<T> evolve() {

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1 1. evolve : removed call to net/bmahe/genetics4j/core/spec/AbstractEAConfiguration::termination → KILLED

		final Termination<T> termination = eaConfiguration.termination();

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		logger.info("Starting evolution");

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1 1. evolve : removed call to net/bmahe/genetics4j/core/evaluation/FitnessEvaluator::preEvaluation → SURVIVED

		fitnessEvaluator.preEvaluation();

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1 1. evolve : Substituted 0 with 1 → KILLED

		long generation = 0;

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1 1. evolve : removed call to net/bmahe/genetics4j/core/EASystem::initializePopulation → KILLED

		final List<Genotype> genotypes = initializePopulation();

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		logger.info("Evaluating initial population");

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2 1. evolve : replaced call to net/bmahe/genetics4j/core/EASystem::evaluate with argument → KILLED
2. evolve : removed call to net/bmahe/genetics4j/core/EASystem::evaluate → KILLED

		final List<T> fitnessScore = evaluate(generation, genotypes);

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1 1. evolve : removed call to net/bmahe/genetics4j/core/spec/AbstractEAConfiguration::postEvaluationProcessor → KILLED

		Population<T> population = eaConfiguration.postEvaluationProcessor()

397

6 1. lambda$evolve$1 : replaced call to java/util/function/Function::apply with argument → SURVIVED
2. lambda$evolve$1 : replaced return value with null for net/bmahe/genetics4j/core/EASystem::lambda$evolve$1 → SURVIVED
3. lambda$evolve$1 : removed call to java/util/function/Function::apply → SURVIVED
4. lambda$evolve$1 : removed call to net/bmahe/genetics4j/core/Population::of → KILLED
5. evolve : removed call to java/util/Optional::map → KILLED
6. evolve : replaced call to java/util/Optional::map with receiver → KILLED

				.map(pep -> pep.apply(Population.of(genotypes, fitnessScore)))

398

3 1. lambda$evolve$2 : removed call to net/bmahe/genetics4j/core/Population::of → KILLED
2. lambda$evolve$2 : replaced return value with null for net/bmahe/genetics4j/core/EASystem::lambda$evolve$2 → KILLED
3. evolve : removed call to java/util/Optional::orElseGet → KILLED

				.orElseGet(() -> Population.of(genotypes, fitnessScore));

399

400

		while (termination

401

6 1. evolve : removed call to net/bmahe/genetics4j/core/Population::getAllGenotypes → SURVIVED
2. evolve : removed call to net/bmahe/genetics4j/core/Population::getAllFitnesses → SURVIVED
3. evolve : removed conditional - replaced equality check with true → TIMED_OUT
4. evolve : removed call to net/bmahe/genetics4j/core/termination/Termination::isDone → TIMED_OUT
5. evolve : removed conditional - replaced equality check with false → KILLED
6. evolve : negated conditional → KILLED

				.isDone(eaConfiguration, generation, population.getAllGenotypes(), population.getAllFitnesses()) == false) {

402

			logger.info("Going through evolution of generation {}", generation);

403

404

1 1. evolve : removed call to net/bmahe/genetics4j/core/spec/AbstractEAExecutionContext::evolutionListeners → KILLED

			for (final EvolutionListener<T> evolutionListener : eaExecutionContext.evolutionListeners()) {

405

				evolutionListener

406

4 1. evolve : removed call to net/bmahe/genetics4j/core/evolutionlisteners/EvolutionListener::onEvolution → NO_COVERAGE
2. evolve : removed call to net/bmahe/genetics4j/core/Population::getAllFitnesses → NO_COVERAGE
3. evolve : Substituted 0 with 1 → NO_COVERAGE
4. evolve : removed call to net/bmahe/genetics4j/core/Population::getAllGenotypes → NO_COVERAGE

						.onEvolution(generation, population.getAllGenotypes(), population.getAllFitnesses(), false);

407

408

409

1 1. evolve : Replaced double multiplication with division → SURVIVED

			final int offspringsNeeded = (int) (populationSize * offspringRatio);

410

1 1. evolve : removed call to net/bmahe/genetics4j/core/EASystem::createOffsprings → KILLED

			final List<Genotype> offsprings = createOffsprings(population, offspringsNeeded);

411

412

			logger.info("Evaluating offsprings");

413

2 1. evolve : replaced call to net/bmahe/genetics4j/core/EASystem::evaluate with argument → KILLED
2. evolve : removed call to net/bmahe/genetics4j/core/EASystem::evaluate → KILLED

			final List<T> offspringScores = evaluate(generation, offsprings);

414

415

1 1. evolve : removed call to net/bmahe/genetics4j/core/spec/AbstractEAConfiguration::postEvaluationProcessor → KILLED

			final Population<T> childrenPopulation = eaConfiguration.postEvaluationProcessor()

416

6 1. lambda$evolve$3 : removed call to java/util/function/Function::apply → SURVIVED
2. lambda$evolve$3 : replaced call to java/util/function/Function::apply with argument → SURVIVED
3. lambda$evolve$3 : replaced return value with null for net/bmahe/genetics4j/core/EASystem::lambda$evolve$3 → SURVIVED
4. evolve : removed call to java/util/Optional::map → KILLED
5. evolve : replaced call to java/util/Optional::map with receiver → KILLED
6. lambda$evolve$3 : removed call to net/bmahe/genetics4j/core/Population::of → KILLED

					.map(pep -> pep.apply(Population.of(offsprings, offspringScores)))

417

3 1. evolve : removed call to java/util/Optional::orElseGet → KILLED
2. lambda$evolve$4 : removed call to net/bmahe/genetics4j/core/Population::of → KILLED
3. lambda$evolve$4 : replaced return value with null for net/bmahe/genetics4j/core/EASystem::lambda$evolve$4 → KILLED

					.orElseGet(() -> Population.of(offsprings, offspringScores));

418

419

			logger.info("Executing replacement strategy");

420

1 1. evolve : removed call to net/bmahe/genetics4j/core/spec/AbstractEAExecutionContext::populationSize → KILLED

			final int nextGenerationPopulationSize = eaExecutionContext.populationSize();

421

1 1. evolve : removed call to net/bmahe/genetics4j/core/replacement/ReplacementStrategyImplementor::select → KILLED

			final Population<T> newPopulation = replacementStrategyImplementor.select(eaConfiguration,

422

					nextGenerationPopulationSize,

423

1 1. evolve : removed call to net/bmahe/genetics4j/core/Population::getAllGenotypes → KILLED

					population.getAllGenotypes(),

424

1 1. evolve : removed call to net/bmahe/genetics4j/core/Population::getAllFitnesses → KILLED

					population.getAllFitnesses(),

425

1 1. evolve : removed call to net/bmahe/genetics4j/core/Population::getAllGenotypes → KILLED

					childrenPopulation.getAllGenotypes(),

426

1 1. evolve : removed call to net/bmahe/genetics4j/core/Population::getAllFitnesses → KILLED

					childrenPopulation.getAllFitnesses());

427

428

5 1. evolve : removed conditional - replaced comparison check with false → SURVIVED
2. evolve : removed call to net/bmahe/genetics4j/core/Population::size → KILLED
3. evolve : changed conditional boundary → KILLED
4. evolve : negated conditional → KILLED
5. evolve : removed conditional - replaced comparison check with true → KILLED

			if (newPopulation.size() < nextGenerationPopulationSize) {

429

				logger.info("New population only has {} members. Generating more individuals", newPopulation.size());

430

				final List<Genotype> additionalIndividuals = genotypeGenerator

431

3 1. evolve : Replaced integer subtraction with addition → NO_COVERAGE
2. evolve : removed call to net/bmahe/genetics4j/core/util/GenotypeGenerator::generateGenotypes → NO_COVERAGE
3. evolve : removed call to net/bmahe/genetics4j/core/Population::size → NO_COVERAGE

						.generateGenotypes(nextGenerationPopulationSize - newPopulation.size());

432

				logger.debug("Number of generated individuals: {}", additionalIndividuals.size());

433

434

5 1. evolve : removed conditional - replaced comparison check with false → NO_COVERAGE
2. evolve : changed conditional boundary → NO_COVERAGE
3. evolve : negated conditional → NO_COVERAGE
4. evolve : removed conditional - replaced comparison check with true → NO_COVERAGE
5. evolve : removed call to java/util/List::size → NO_COVERAGE

				if (additionalIndividuals.size() > 0) {

435

436

2 1. evolve : removed call to net/bmahe/genetics4j/core/EASystem::evaluate → NO_COVERAGE
2. evolve : replaced call to net/bmahe/genetics4j/core/EASystem::evaluate with argument → NO_COVERAGE

					final List<T> additionalFitness = evaluate(generation, additionalIndividuals);

437

2 1. evolve : removed call to net/bmahe/genetics4j/core/Population::of → NO_COVERAGE
2. evolve : removed call to net/bmahe/genetics4j/core/Population::addAll → NO_COVERAGE

					newPopulation.addAll(Population.of(additionalIndividuals, additionalFitness));

			if (logger.isTraceEnabled()) {

442

				logger.trace("[Generation {}] New population: {}", generation, Arrays.asList(newPopulation));

443

444

			population = newPopulation;

445

2 1. evolve : Replaced long addition with subtraction → KILLED
2. evolve : Substituted 1 with 2 → KILLED

			generation++;

446

447

448

		logger.info("Evolution has terminated");

449

450

		// isDone has returned true and we want to let the evolutionListeners run a last

451

		// time

452

1 1. evolve : removed call to net/bmahe/genetics4j/core/spec/AbstractEAExecutionContext::evolutionListeners → KILLED

		for (final EvolutionListener<T> evolutionListener : eaExecutionContext.evolutionListeners()) {

453

4 1. evolve : removed call to net/bmahe/genetics4j/core/Population::getAllFitnesses → NO_COVERAGE
2. evolve : removed call to net/bmahe/genetics4j/core/Population::getAllGenotypes → NO_COVERAGE
3. evolve : Substituted 1 with 0 → NO_COVERAGE
4. evolve : removed call to net/bmahe/genetics4j/core/evolutionlisteners/EvolutionListener::onEvolution → NO_COVERAGE

			evolutionListener.onEvolution(generation, population.getAllGenotypes(), population.getAllFitnesses(), true);

454

455

456

1 1. evolve : removed call to net/bmahe/genetics4j/core/evaluation/FitnessEvaluator::postEvaluation → SURVIVED

		fitnessEvaluator.postEvaluation();

457

458

1 1. evolve : replaced return value with null for net/bmahe/genetics4j/core/EASystem::evolve → KILLED

		return ImmutableEvolutionResult

459

3 1. evolve : removed call to net/bmahe/genetics4j/core/Population::getAllGenotypes → KILLED
2. evolve : removed call to net/bmahe/genetics4j/core/spec/ImmutableEvolutionResult::of → KILLED
3. evolve : removed call to net/bmahe/genetics4j/core/Population::getAllFitnesses → KILLED

				.of(eaConfiguration, generation, population.getAllGenotypes(), population.getAllFitnesses());

460

461

462

/**

463

	 * Evaluates a collection of genotypes once without running the full

464

	 * evolutionary process.

465

466

	 * <p>

467

	 * This method provides a way to evaluate genotypes using the configured fitness

468

	 * evaluator

469

	 * without executing the complete evolutionary algorithm. It handles the

470

	 * pre/post evaluation

471

	 * lifecycle and notifies evolution listeners of the results.

472

473

	 * <p>

474

	 * Useful for:

475

	 * <ul>

476

	 * <li>Testing fitness functions with specific genotypes</li>

477

	 * <li>Evaluating externally generated populations</li>

478

	 * <li>Batch evaluation scenarios</li>

479

	 * </ul>

480

481

	 * @param generation the generation number for logging and listener notification

482

	 * @param genotypes  the list of genotypes to evaluate

483

	 * @return a list of fitness values corresponding to the input genotypes

484

	 * @throws IllegalArgumentException if generation is negative or genotypes is

485

	 *                                  empty

486

	 * @throws NullPointerException     if genotypes is null

487

*/

488

	public List<T> evaluateOnce(final long generation, final List<Genotype> genotypes) {

489

		Validate.isTrue(generation >= 0);

490

		Objects.requireNonNull(genotypes);

491

		Validate.isTrue(genotypes.size() > 0);

492

493

1 1. evaluateOnce : removed call to net/bmahe/genetics4j/core/evaluation/FitnessEvaluator::preEvaluation → SURVIVED

		fitnessEvaluator.preEvaluation();

494

2 1. evaluateOnce : replaced call to net/bmahe/genetics4j/core/EASystem::evaluate with argument → KILLED
2. evaluateOnce : removed call to net/bmahe/genetics4j/core/EASystem::evaluate → KILLED

		final var fitness = evaluate(generation, genotypes);

495

496

1 1. evaluateOnce : removed call to net/bmahe/genetics4j/core/Population::of → SURVIVED

		final var population = Population.of(genotypes, fitness);

497

1 1. evaluateOnce : removed call to net/bmahe/genetics4j/core/spec/AbstractEAExecutionContext::evolutionListeners → KILLED

		for (final EvolutionListener<T> evolutionListener : eaExecutionContext.evolutionListeners()) {

498

4 1. evaluateOnce : removed call to net/bmahe/genetics4j/core/Population::getAllGenotypes → NO_COVERAGE
2. evaluateOnce : removed call to net/bmahe/genetics4j/core/Population::getAllFitnesses → NO_COVERAGE
3. evaluateOnce : removed call to net/bmahe/genetics4j/core/evolutionlisteners/EvolutionListener::onEvolution → NO_COVERAGE
4. evaluateOnce : Substituted 1 with 0 → NO_COVERAGE

			evolutionListener.onEvolution(generation, population.getAllGenotypes(), population.getAllFitnesses(), true);

499

500

501

1 1. evaluateOnce : removed call to net/bmahe/genetics4j/core/evaluation/FitnessEvaluator::postEvaluation → SURVIVED

		fitnessEvaluator.postEvaluation();

502

503

1 1. evaluateOnce : replaced return value with Collections.emptyList for net/bmahe/genetics4j/core/EASystem::evaluateOnce → KILLED

		return fitness;

504

505

Mutations

179

1.1
Location : <init>
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testGetterMethods()] Removed assignment to member variable eaConfiguration → KILLED

180

1.1
Location : <init>
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvaluateOnce()] Removed assignment to member variable eaExecutionContext → KILLED

181

182

1.1
Location : <init>
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()] Removed assignment to member variable chromosomeCombinators → KILLED

183

1.1
Location : <init>
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()] Removed assignment to member variable offspringRatio → KILLED

184

1.1
Location : <init>
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()] Removed assignment to member variable mutators → KILLED

185

1.1
Location : <init>
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testGetterMethods()] removed call to net/bmahe/genetics4j/core/spec/AbstractEAExecutionContext::chromosomeFactoryProvider → KILLED

2.2
Location : <init>
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testGetterMethods()] Removed assignment to member variable chromosomeFactoryProvider → KILLED

186

1.1
Location : <init>
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvaluateOnce()] Removed assignment to member variable fitnessEvaluator → KILLED

188

1.1
Location : <init>
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()] Removed assignment to member variable parentSelector → KILLED

190

1.1
Location : <init>
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()] Removed assignment to member variable replacementStrategyImplementor → KILLED

191

1.1
Location : <init>
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()] removed call to net/bmahe/genetics4j/core/util/GenotypeGenerator::<init> → KILLED

2.2
Location : <init>
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()] Removed assignment to member variable genotypeGenerator → KILLED

200

1.1
Location : evaluate
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvaluateOnce()] replaced call to net/bmahe/genetics4j/core/evaluation/FitnessEvaluator::evaluate with argument → KILLED

2.2
Location : evaluate
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvaluateOnce()] removed call to net/bmahe/genetics4j/core/evaluation/FitnessEvaluator::evaluate → KILLED

203

1.1
Location : evaluate
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvaluateOnce()] replaced return value with Collections.emptyList for net/bmahe/genetics4j/core/EASystem::evaluate → KILLED

207

1.1
Location : initializePopulation
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()] removed call to net/bmahe/genetics4j/core/spec/AbstractEAExecutionContext::populationSize → KILLED

210

212

1.1
Location : initializePopulation
Killed by : none removed call to net/bmahe/genetics4j/core/spec/AbstractEAConfiguration::seedPopulation → SURVIVED Covering tests

213

1.1
Location : initializePopulation
Killed by : none removed conditional - replaced equality check with true → SURVIVED Covering tests

2.2
Location : initializePopulation
Killed by : none negated conditional → SURVIVED Covering tests

3.3
Location : initializePopulation
Killed by : none removed call to org/apache/commons/collections4/CollectionUtils::isNotEmpty → SURVIVED Covering tests

4.4
Location : initializePopulation
Killed by : none removed conditional - replaced equality check with false → SURVIVED Covering tests

214

1.1
Location : initializePopulation
Killed by : none removed call to java/util/List::addAll → NO_COVERAGE

216

1.1
Location : initializePopulation
Killed by : none changed conditional boundary → SURVIVED Covering tests

2.2
Location : initializePopulation
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()] removed conditional - replaced comparison check with false → KILLED

3.3
Location : initializePopulation
Killed by : none removed conditional - replaced comparison check with true → SURVIVED Covering tests

4.4
Location : initializePopulation
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()] negated conditional → KILLED

5.5
Location : initializePopulation
Killed by : none removed call to java/util/List::size → SURVIVED Covering tests

217

1.1
Location : initializePopulation
Killed by : none removed call to java/util/List::size → SURVIVED Covering tests

2.2
Location : initializePopulation
Killed by : none Replaced integer subtraction with addition → SURVIVED Covering tests

Covered by tests:

net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()]
net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithIntChromosome()]
net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithBitChromosome()]
net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithImmediateTermination()]

220

1.1
Location : initializePopulation
Killed by : none removed call to java/lang/Integer::valueOf → SURVIVED Covering tests

2.2
Location : initializePopulation
Killed by : none removed call to java/util/List::size → SURVIVED Covering tests

221

1.1
Location : initializePopulation
Killed by : none removed call to java/lang/Integer::valueOf → SURVIVED Covering tests

222

1.1
Location : initializePopulation
Killed by : none removed call to java/lang/Integer::valueOf → SURVIVED Covering tests

224

1.1
Location : initializePopulation
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()] removed call to net/bmahe/genetics4j/core/util/GenotypeGenerator::generateGenotypes → KILLED

225

228

1.1
Location : initializePopulation
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()] replaced return value with Collections.emptyList for net/bmahe/genetics4j/core/EASystem::initializePopulation → KILLED

234

1.1
Location : mutateGenotypes
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()] removed call to java/util/List::stream → KILLED

2.2
Location : mutateGenotypes
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()] replaced return value with Collections.emptyList for net/bmahe/genetics4j/core/EASystem::mutateGenotypes → KILLED

235

2.2
Location : mutateGenotypes
Killed by : none replaced call to java/util/stream/Stream::map with receiver → SURVIVED Covering tests

239

1.1
Location : lambda$mutateGenotypes$0
Killed by : none replaced call to net/bmahe/genetics4j/core/mutation/Mutator::mutate with argument → SURVIVED Covering tests

2.2
Location : lambda$mutateGenotypes$0
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()] removed call to net/bmahe/genetics4j/core/mutation/Mutator::mutate → KILLED

242

1.1
Location : lambda$mutateGenotypes$0
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()] replaced return value with null for net/bmahe/genetics4j/core/EASystem::lambda$mutateGenotypes$0 → KILLED

244

251

1.1
Location : combineParents
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()] removed call to java/util/ArrayList::<init> → KILLED

252

1.1
Location : combineParents
Killed by : none Substituted 0 with 1 → SURVIVED Covering tests

253

2.2
Location : combineParents
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()] Replaced integer addition with subtraction → KILLED

3.3
Location : combineParents
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()] negated conditional → KILLED

4.4
Location : combineParents
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()] removed conditional - replaced comparison check with true → KILLED

5.5
Location : combineParents
Killed by : none changed conditional boundary → SURVIVED Covering tests

6.6
Location : combineParents
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()] removed conditional - replaced comparison check with false → KILLED

7.7
Location : combineParents
Killed by : none Substituted 1 with 0 → SURVIVED Covering tests

254

255

1.1
Location : combineParents
Killed by : none removed call to net/bmahe/genetics4j/core/Population::getFitness → SURVIVED Covering tests

257

1.1
Location : combineParents
Killed by : none Substituted 1 with 0 → SURVIVED Covering tests

2.2
Location : combineParents
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()] removed call to net/bmahe/genetics4j/core/Population::getGenotype → KILLED

258

1.1
Location : combineParents
Killed by : none Substituted 1 with 0 → SURVIVED Covering tests

3.3
Location : combineParents
Killed by : none removed call to net/bmahe/genetics4j/core/Population::getFitness → SURVIVED Covering tests

260

261

2.2
Location : combineParents
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()] removed call to net/bmahe/genetics4j/core/spec/AbstractEAConfiguration::numChromosomes → KILLED

5.5
Location : combineParents
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()] negated conditional → KILLED

1.1
Location : combineParents
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()] replaced call to net/bmahe/genetics4j/core/combination/GenotypeCombinator::combine with argument → KILLED

2.2
Location : combineParents
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()] removed call to net/bmahe/genetics4j/core/combination/GenotypeCombinator::combine → KILLED

275

276

279

1.1
Location : combineParents
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()] replaced return value with Collections.emptyList for net/bmahe/genetics4j/core/EASystem::combineParents → KILLED

293

1.1
Location : createBasicOffsprings
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()] removed call to net/bmahe/genetics4j/core/spec/AbstractEAConfiguration::genotypeCombinator → KILLED

295

2.2
Location : createBasicOffsprings
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()] Replaced integer multiplication with division → KILLED

298

2.2
Location : createBasicOffsprings
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()] removed call to net/bmahe/genetics4j/core/Population::getAllFitnesses → KILLED

3.3
Location : createBasicOffsprings
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()] removed call to net/bmahe/genetics4j/core/Population::getAllGenotypes → KILLED

303

305

1.1
Location : createBasicOffsprings
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()] replaced return value with Collections.emptyList for net/bmahe/genetics4j/core/EASystem::createBasicOffsprings → KILLED

315

1.1
Location : getEAConfiguration
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testGetterMethods()] replaced return value with null for net/bmahe/genetics4j/core/EASystem::getEAConfiguration → KILLED

324

1.1
Location : getPopulationSize
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testGetterMethods()] replaced long return with 0 for net/bmahe/genetics4j/core/EASystem::getPopulationSize → KILLED

350

1.1
Location : createOffsprings
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()] removed call to net/bmahe/genetics4j/core/EASystem::createBasicOffsprings → KILLED

354

1.1
Location : createOffsprings
Killed by : none replaced call to net/bmahe/genetics4j/core/EASystem::mutateGenotypes with argument → SURVIVED Covering tests

2.2
Location : createOffsprings
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()] removed call to net/bmahe/genetics4j/core/EASystem::mutateGenotypes → KILLED

356

1.1
Location : createOffsprings
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()] replaced return value with Collections.emptyList for net/bmahe/genetics4j/core/EASystem::createOffsprings → KILLED

384

1.1
Location : evolve
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()] removed call to net/bmahe/genetics4j/core/spec/AbstractEAConfiguration::termination → KILLED

388

1.1
Location : evolve
Killed by : none removed call to net/bmahe/genetics4j/core/evaluation/FitnessEvaluator::preEvaluation → SURVIVED Covering tests

390

1.1
Location : evolve
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithImmediateTermination()] Substituted 0 with 1 → KILLED

391

394

1.1
Location : evolve
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()] replaced call to net/bmahe/genetics4j/core/EASystem::evaluate with argument → KILLED

2.2
Location : evolve
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()] removed call to net/bmahe/genetics4j/core/EASystem::evaluate → KILLED

396

397

1.1
Location : lambda$evolve$1
Killed by : none replaced call to java/util/function/Function::apply with argument → SURVIVED Covering tests

2.2
Location : lambda$evolve$1
Killed by : none replaced return value with null for net/bmahe/genetics4j/core/EASystem::lambda$evolve$1 → SURVIVED Covering tests

3.3
Location : lambda$evolve$1
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()] removed call to net/bmahe/genetics4j/core/Population::of → KILLED

4.4
Location : evolve
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()] removed call to java/util/Optional::map → KILLED

5.5
Location : lambda$evolve$1
Killed by : none removed call to java/util/function/Function::apply → SURVIVED Covering tests

6.6
Location : evolve
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()] replaced call to java/util/Optional::map with receiver → KILLED

398

1.1
Location : lambda$evolve$2
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithIntChromosome()] removed call to net/bmahe/genetics4j/core/Population::of → KILLED

2.2
Location : lambda$evolve$2
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithIntChromosome()] replaced return value with null for net/bmahe/genetics4j/core/EASystem::lambda$evolve$2 → KILLED

3.3
Location : evolve
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()] removed call to java/util/Optional::orElseGet → KILLED

401

1.1
Location : evolve
Killed by : none removed conditional - replaced equality check with true → TIMED_OUT

2.2
Location : evolve
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()] removed conditional - replaced equality check with false → KILLED

3.3
Location : evolve
Killed by : none removed call to net/bmahe/genetics4j/core/Population::getAllGenotypes → SURVIVED Covering tests

5.5
Location : evolve
Killed by : none removed call to net/bmahe/genetics4j/core/termination/Termination::isDone → TIMED_OUT

6.6
Location : evolve
Killed by : none removed call to net/bmahe/genetics4j/core/Population::getAllFitnesses → SURVIVED Covering tests

404

406

1.1
Location : evolve
Killed by : none removed call to net/bmahe/genetics4j/core/evolutionlisteners/EvolutionListener::onEvolution → NO_COVERAGE

2.2
Location : evolve
Killed by : none removed call to net/bmahe/genetics4j/core/Population::getAllFitnesses → NO_COVERAGE

3.3
Location : evolve
Killed by : none Substituted 0 with 1 → NO_COVERAGE

4.4
Location : evolve
Killed by : none removed call to net/bmahe/genetics4j/core/Population::getAllGenotypes → NO_COVERAGE

409

1.1
Location : evolve
Killed by : none Replaced double multiplication with division → SURVIVED Covering tests

Covered by tests:

net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()]
net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithIntChromosome()]
net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithBitChromosome()]

410

413

1.1
Location : evolve
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()] replaced call to net/bmahe/genetics4j/core/EASystem::evaluate with argument → KILLED

415

416

1.1
Location : lambda$evolve$3
Killed by : none removed call to java/util/function/Function::apply → SURVIVED Covering tests

3.3
Location : evolve
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()] replaced call to java/util/Optional::map with receiver → KILLED

4.4
Location : lambda$evolve$3
Killed by : none replaced call to java/util/function/Function::apply with argument → SURVIVED Covering tests

5.5
Location : lambda$evolve$3
Killed by : none replaced return value with null for net/bmahe/genetics4j/core/EASystem::lambda$evolve$3 → SURVIVED Covering tests

6.6
Location : lambda$evolve$3
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()] removed call to net/bmahe/genetics4j/core/Population::of → KILLED

417

2.2
Location : lambda$evolve$4
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithIntChromosome()] removed call to net/bmahe/genetics4j/core/Population::of → KILLED

3.3
Location : lambda$evolve$4
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithIntChromosome()] replaced return value with null for net/bmahe/genetics4j/core/EASystem::lambda$evolve$4 → KILLED

420

421

1.1
Location : evolve
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()] removed call to net/bmahe/genetics4j/core/replacement/ReplacementStrategyImplementor::select → KILLED

2.2
Location : evolve
Killed by : none removed conditional - replaced comparison check with false → SURVIVED Covering tests

5.5
Location : evolve
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()] removed conditional - replaced comparison check with true → KILLED

431

1.1
Location : evolve
Killed by : none Replaced integer subtraction with addition → NO_COVERAGE

2.2
Location : evolve
Killed by : none removed call to net/bmahe/genetics4j/core/util/GenotypeGenerator::generateGenotypes → NO_COVERAGE

3.3
Location : evolve
Killed by : none removed call to net/bmahe/genetics4j/core/Population::size → NO_COVERAGE

434

1.1
Location : evolve
Killed by : none removed conditional - replaced comparison check with false → NO_COVERAGE

2.2
Location : evolve
Killed by : none changed conditional boundary → NO_COVERAGE

3.3
Location : evolve
Killed by : none negated conditional → NO_COVERAGE

4.4
Location : evolve
Killed by : none removed conditional - replaced comparison check with true → NO_COVERAGE

5.5
Location : evolve
Killed by : none removed call to java/util/List::size → NO_COVERAGE

436

1.1
Location : evolve
Killed by : none removed call to net/bmahe/genetics4j/core/EASystem::evaluate → NO_COVERAGE

2.2
Location : evolve
Killed by : none replaced call to net/bmahe/genetics4j/core/EASystem::evaluate with argument → NO_COVERAGE

437

1.1
Location : evolve
Killed by : none removed call to net/bmahe/genetics4j/core/Population::of → NO_COVERAGE

2.2
Location : evolve
Killed by : none removed call to net/bmahe/genetics4j/core/Population::addAll → NO_COVERAGE

445

452

453

1.1
Location : evolve
Killed by : none removed call to net/bmahe/genetics4j/core/Population::getAllFitnesses → NO_COVERAGE

2.2
Location : evolve
Killed by : none removed call to net/bmahe/genetics4j/core/Population::getAllGenotypes → NO_COVERAGE

3.3
Location : evolve
Killed by : none Substituted 1 with 0 → NO_COVERAGE

4.4
Location : evolve
Killed by : none removed call to net/bmahe/genetics4j/core/evolutionlisteners/EvolutionListener::onEvolution → NO_COVERAGE

456

1.1
Location : evolve
Killed by : none removed call to net/bmahe/genetics4j/core/evaluation/FitnessEvaluator::postEvaluation → SURVIVED Covering tests

458

1.1
Location : evolve
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()] replaced return value with null for net/bmahe/genetics4j/core/EASystem::evolve → KILLED

459

493

1.1
Location : evaluateOnce
Killed by : none removed call to net/bmahe/genetics4j/core/evaluation/FitnessEvaluator::preEvaluation → SURVIVED Covering tests

494

1.1
Location : evaluateOnce
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvaluateOnce()] replaced call to net/bmahe/genetics4j/core/EASystem::evaluate with argument → KILLED

2.2
Location : evaluateOnce
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvaluateOnce()] removed call to net/bmahe/genetics4j/core/EASystem::evaluate → KILLED

496

1.1
Location : evaluateOnce
Killed by : none removed call to net/bmahe/genetics4j/core/Population::of → SURVIVED Covering tests

497

1.1
Location : evaluateOnce
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvaluateOnce()] removed call to net/bmahe/genetics4j/core/spec/AbstractEAExecutionContext::evolutionListeners → KILLED

498

1.1
Location : evaluateOnce
Killed by : none removed call to net/bmahe/genetics4j/core/Population::getAllGenotypes → NO_COVERAGE

2.2
Location : evaluateOnce
Killed by : none removed call to net/bmahe/genetics4j/core/Population::getAllFitnesses → NO_COVERAGE

3.3
Location : evaluateOnce
Killed by : none removed call to net/bmahe/genetics4j/core/evolutionlisteners/EvolutionListener::onEvolution → NO_COVERAGE

4.4
Location : evaluateOnce
Killed by : none Substituted 1 with 0 → NO_COVERAGE

501

1.1
Location : evaluateOnce
Killed by : none removed call to net/bmahe/genetics4j/core/evaluation/FitnessEvaluator::postEvaluation → SURVIVED Covering tests

503

1.1
Location : evaluateOnce
Killed by : net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvaluateOnce()] replaced return value with Collections.emptyList for net/bmahe/genetics4j/core/EASystem::evaluateOnce → KILLED

Active mutators

CONDITIONALS_BOUNDARY

CONSTRUCTOR_CALLS

EMPTY_RETURNS

EXPERIMENTAL_ARGUMENT_PROPAGATION

EXPERIMENTAL_BIG_DECIMAL

EXPERIMENTAL_BIG_INTEGER

EXPERIMENTAL_MEMBER_VARIABLE

EXPERIMENTAL_NAKED_RECEIVER

EXPERIMENTAL_REMOVE_SWITCH_MUTATOR_[0-99]

EXPERIMENTAL_SWITCH

FALSE_RETURNS

INCREMENTS

INLINE_CONSTS

INVERT_NEGS

MATH

NEGATE_CONDITIONALS

NON_VOID_METHOD_CALLS

NULL_RETURNS

PRIMITIVE_RETURNS

REMOVE_CONDITIONALS_EQUAL_ELSE

REMOVE_CONDITIONALS_EQUAL_IF

REMOVE_CONDITIONALS_ORDER_ELSE

REMOVE_CONDITIONALS_ORDER_IF

REMOVE_INCREMENTS

TRUE_RETURNS

VOID_METHOD_CALLS

Tests examined

net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithPostEvaluationProcessor()] (23 ms)

net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithIntChromosome()] (31 ms)

net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithBitChromosome()] (59 ms)

net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvolveWithImmediateTermination()] (1733 ms)

net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testGetterMethods()] (6 ms)

net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testSystemConstruction()] (9 ms)

net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvaluateOnce()] (8 ms)

net.bmahe.genetics4j.core.EASystemTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.EASystemTest]/[method:testEvaluateOnceWithDifferentGenerations()] (18 ms)

net.bmahe.genetics4j.core.mutation.SupersimpleTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.core.mutation.SupersimpleTest]/[method:simple()] (3 ms)

PIT