NeatEAExecutionContexts.java

package net.bmahe.genetics4j.neat;

import java.util.random.RandomGenerator;

import org.apache.commons.lang3.Validate;

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

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

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

import net.bmahe.genetics4j.core.spec.ImmutableEAExecutionContext.Builder;

import net.bmahe.genetics4j.neat.chromosomes.factory.NeatConnectedChromosomeFactory;

import net.bmahe.genetics4j.neat.combination.NeatCombinationHandler;

import net.bmahe.genetics4j.neat.mutation.AddConnectionPolicyHandler;

import net.bmahe.genetics4j.neat.mutation.AddNodePolicyHandler;

import net.bmahe.genetics4j.neat.mutation.DeleteConnectionPolicyHandler;

import net.bmahe.genetics4j.neat.mutation.DeleteNodePolicyHandler;

import net.bmahe.genetics4j.neat.mutation.NeatConnectionWeightPolicyHandler;

import net.bmahe.genetics4j.neat.mutation.NeatSwitchStatePolicyHandler;

import net.bmahe.genetics4j.neat.mutation.chromosome.NeatChromosomeAddConnection;

import net.bmahe.genetics4j.neat.mutation.chromosome.NeatChromosomeAddNodeMutationHandler;

import net.bmahe.genetics4j.neat.mutation.chromosome.NeatChromosomeConnectionWeightMutationHandler;

import net.bmahe.genetics4j.neat.mutation.chromosome.NeatChromosomeCreepMutationHandler;

import net.bmahe.genetics4j.neat.mutation.chromosome.NeatChromosomeDeleteConnection;

import net.bmahe.genetics4j.neat.mutation.chromosome.NeatChromosomeDeleteNodeMutationHandler;

import net.bmahe.genetics4j.neat.mutation.chromosome.NeatChromosomeRandomMutationHandler;

import net.bmahe.genetics4j.neat.mutation.chromosome.NeatChromosomeSwitchStateHandler;

import net.bmahe.genetics4j.neat.selection.NeatSelectionPolicyHandler;

/**

 * Factory class for creating NEAT (NeuroEvolution of Augmenting Topologies) execution contexts.

 * 

 * <p>NeatEAExecutionContexts provides convenient factory methods for setting up evolutionary algorithm execution

 * contexts with all the necessary NEAT-specific components, including innovation management, species-based selection,

 * structural mutations, and neural network-specific genetic operators. This class serves as the primary entry point for

 * configuring NEAT evolutionary systems.

 * 

 * <p>Key NEAT components integrated:

 * <ul>

 * <li><strong>Innovation management</strong>: Historical marking system for structural mutations</li>

 * <li><strong>Species-based selection</strong>: Population organization by genetic similarity</li>

 * <li><strong>Structural mutations</strong>: Add/delete nodes and connections with innovation tracking</li>

 * <li><strong>Neural network crossover</strong>: Topology-aware genetic recombination</li>

 * <li><strong>Chromosome factories</strong>: Initial network generation with proper connectivity</li>

 * </ul>

 * 

 * <p>NEAT algorithm configuration:

 * <ul>

 * <li><strong>Mutation operators</strong>: Weight perturbation, add/delete nodes, add/delete connections</li>

 * <li><strong>Selection strategy</strong>: Species-based selection with fitness sharing</li>

 * <li><strong>Crossover mechanism</strong>: Innovation-number-based gene alignment</li>

 * <li><strong>Network initialization</strong>: Configurable initial topology generation</li>

 * </ul>

 * 

 * <p>Common usage patterns:

 * 

 * <pre>{@code

 * // Standard NEAT setup with default components

 * EAExecutionContext<Double> context = NeatEAExecutionContexts.<Double>standard().build();

 * 

 * // Custom NEAT setup with existing builder

 * var builder = EAExecutionContexts.<Double>forScalarFitness()

 *     .randomGenerator(myRandomGenerator)

 *     .termination(myTerminationCondition);

 * EAExecutionContext<Double> context = NeatEAExecutionContexts.enrichWithNeat(builder).build();

 * 

 * // Advanced setup with custom innovation manager

 * InnovationManager customInnovationManager = new InnovationManager(1000);

 * SpeciesIdGenerator customSpeciesIdGenerator = new SpeciesIdGenerator();

 * ChromosomeFactoryProvider customFactoryProvider = // ... create custom provider

 * 

 * var context = NeatEAExecutionContexts.enrichWithNeat(

 *     builder, customInnovationManager, customSpeciesIdGenerator, customFactoryProvider

 * ).build();

 * }</pre>

 * 

 * <p>Integrated NEAT genetic operators:

 * <ul>

 * <li><strong>Weight mutations</strong>: Gaussian perturbation, random replacement, creep mutation</li>

 * <li><strong>Structural mutations</strong>: Add node, add connection, delete node, delete connection</li>

 * <li><strong>State mutations</strong>: Enable/disable connections for network topology exploration</li>

 * <li><strong>Crossover operations</strong>: Innovation-guided gene alignment and inheritance</li>

 * </ul>

 * 

 * <p>Species-based evolution:

 * <ul>

 * <li><strong>Compatibility distance</strong>: Genetic similarity measurement for speciation</li>

 * <li><strong>Fitness sharing</strong>: Population diversity maintenance through species-based selection</li>

 * <li><strong>Species management</strong>: Dynamic species formation and extinction</li>

 * <li><strong>Representative selection</strong>: Species representative selection for next generation</li>

 * </ul>

 * 

 * <p>Performance and scalability:

 * <ul>

 * <li><strong>Efficient innovation tracking</strong>: O(1) innovation number lookup</li>

 * <li><strong>Concurrent execution</strong>: Thread-safe components for parallel evolution</li>

 * <li><strong>Memory management</strong>: Configurable cache management for large populations</li>

 * <li><strong>Modular design</strong>: Customizable components for specific problem domains</li>

 * </ul>

 * 

 * @see InnovationManager

 * @see SpeciesIdGenerator

 * @see NeatChromosome

 * @see net.bmahe.genetics4j.neat.spec.NeatChromosomeSpec

 */

public class NeatEAExecutionContexts {

	/**

	 * Enriches an existing EA execution context builder with standard NEAT components.

	 * 

	 * <p>This method configures the builder with default NEAT components including a new innovation manager, species ID

	 * generator, and connected chromosome factory. All NEAT-specific genetic operators, selection mechanisms, and

	 * mutation handlers are automatically registered.

	 * 

	 * @param <T>     the fitness value type

	 * @param builder the execution context builder to enrich with NEAT capabilities

	 * @return the builder configured with NEAT components

	 * @throws IllegalArgumentException if builder is null

	 */

	public static <T extends Number & Comparable<T>> Builder<T> enrichWithNeat(final Builder<T> builder) {

	}

	/**

	 * Enriches an EA execution context builder with custom NEAT components.

	 * 

	 * <p>This method allows full customization of NEAT components while still configuring all necessary genetic

	 * operators and handlers. This is useful when you need custom innovation tracking, species management, or initial

	 * network topology generation.

	 * 

	 * @param <T>                       the fitness value type

	 * @param builder                   the execution context builder to enrich

	 * @param innovationManager         custom innovation manager for structural mutation tracking

	 * @param speciesIdGenerator        custom species ID generator for population organization

	 * @param chromosomeFactoryProvider custom factory provider for initial network generation

	 * @return the builder configured with custom NEAT components

	 * @throws IllegalArgumentException if any parameter is null

	 */

	public static <T extends Number & Comparable<T>> Builder<T> enrichWithNeat(final Builder<T> builder,

			final InnovationManager innovationManager, final SpeciesIdGenerator speciesIdGenerator,

			final ChromosomeFactoryProvider chromosomeFactoryProvider) {

	}

	/**

	 * Creates a standard NEAT execution context builder with default configuration.

	 * 

	 * <p>This is the most convenient method for setting up a NEAT evolutionary algorithm with standard components and

	 * configurations. The returned builder is pre-configured with:

	 * <ul>

	 * <li>Scalar fitness evaluation</li>

	 * <li>Default innovation manager and species ID generator</li>

	 * <li>Connected initial network topology</li>

	 * <li>All standard NEAT genetic operators</li>

	 * <li>Species-based selection mechanism</li>

	 * </ul>

	 * 

	 * @param <T> the fitness value type (typically Double)

	 * @return a builder configured with standard NEAT components

	 */

	public static <T extends Number & Comparable<T>> Builder<T> standard() {

	}

}

Mutations

8.8
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9.9
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1.1
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3.3
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1.1
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3.3
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4.4
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5.5
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1.1
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1.1
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8.8
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12.12
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1.1
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1.1
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3.3
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1.1
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