NeatChromosome.java

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package net.bmahe.genetics4j.neat.chromosomes;
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import java.util.ArrayList;
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import java.util.Collections;
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import java.util.Comparator;
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import java.util.List;
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import java.util.Objects;
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import java.util.Set;
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import java.util.stream.Collectors;
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import java.util.stream.IntStream;
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import org.apache.commons.lang3.Validate;
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import net.bmahe.genetics4j.core.chromosomes.Chromosome;
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import net.bmahe.genetics4j.neat.Connection;
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/**
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 * Represents a neural network chromosome in the NEAT (NeuroEvolution of Augmenting Topologies) algorithm.
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 *
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 * <p>NeatChromosome is the core genetic representation in NEAT, encoding a neural network as a collection of
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 * connections between nodes. Each chromosome defines a complete neural network topology with input nodes, output nodes,
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 * optional hidden nodes, and weighted connections. The chromosome maintains essential parameters for network
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 * construction and genetic operations.
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 *
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 * <p>Key characteristics:
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 * <ul>
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 * <li><strong>Network topology</strong>: Encoded as a list of connections with innovation numbers</li>
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 * <li><strong>Node organization</strong>: Fixed input/output nodes with dynamically added hidden nodes</li>
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 * <li><strong>Weight constraints</strong>: Configurable minimum and maximum weight bounds</li>
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 * <li><strong>Innovation tracking</strong>: Connections sorted by innovation number for genetic alignment</li>
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 * </ul>
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 *
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 * <p>NEAT algorithm integration:
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 * <ul>
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 * <li><strong>Structural mutations</strong>: Add/delete nodes and connections while preserving innovation tracking</li>
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 * <li><strong>Weight mutations</strong>: Modify connection weights within specified bounds</li>
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 * <li><strong>Genetic crossover</strong>: Innovation-number-based gene alignment for topology recombination</li>
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 * <li><strong>Compatibility distance</strong>: Genetic similarity measurement for speciation</li>
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 * </ul>
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 *
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 * <p>Network structure:
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 * <ul>
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 * <li><strong>Input nodes</strong>: Indices 0 to (numInputs - 1), receive external inputs</li>
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 * <li><strong>Output nodes</strong>: Indices numInputs to (numInputs + numOutputs - 1), produce network outputs</li>
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 * <li><strong>Hidden nodes</strong>: Indices starting from (numInputs + numOutputs), created by add-node mutations</li>
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 * <li><strong>Connections</strong>: Weighted links between nodes with enable/disable states and innovation numbers</li>
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 * </ul>
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 *
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 * <p>Common usage patterns:
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 *
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 * <pre>{@code
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 * // Create a basic NEAT chromosome
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 * List<Connection> connections = List.of(
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 * 		Connection.of(0, 2, 0.5f, true, 0), // input 0 -> output 0
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 * 			Connection.of(1, 3, -0.3f, true, 1) // input 1 -> output 1
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 * );
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 *
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 * NeatChromosome chromosome = new NeatChromosome(2, // number of inputs
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 * 		2, // number of outputs
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 * 		-1.0f, // minimum weight
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 * 		1.0f, // maximum weight
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 * 		connections);
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 *
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 * // Access chromosome properties
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 * int numAlleles = chromosome.getNumAlleles();
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 * Set<Integer> inputNodes = chromosome.getInputNodeIndices();
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 * Set<Integer> outputNodes = chromosome.getOutputNodeIndices();
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 * List<Connection> allConnections = chromosome.getConnections();
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 *
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 * // Create feed-forward network for evaluation
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 * FeedForwardNetwork network = new FeedForwardNetwork(chromosome.getInputNodeIndices(),
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 * 		chromosome.getOutputNodeIndices(),
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 * 		chromosome.getConnections(),
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 * 		Activations::sigmoid);
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 * }</pre>
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 *
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 * <p>Genetic operations compatibility:
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 * <ul>
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 * <li><strong>Mutation operations</strong>: Compatible with weight, add-node, add-connection, and state mutations</li>
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 * <li><strong>Crossover operations</strong>: Innovation numbers enable proper gene alignment between parents</li>
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 * <li><strong>Selection operations</strong>: Supports species-based selection through compatibility distance</li>
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 * <li><strong>Evaluation operations</strong>: Can be converted to executable neural networks</li>
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 * </ul>
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 *
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 * <p>Innovation number organization:
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 * <ul>
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 * <li><strong>Sorted connections</strong>: Connections automatically sorted by innovation number</li>
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 * <li><strong>Genetic alignment</strong>: Enables efficient crossover and compatibility calculations</li>
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 * <li><strong>Historical tracking</strong>: Maintains evolutionary history of structural changes</li>
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 * <li><strong>Population consistency</strong>: Same innovation numbers across population for same connection types</li>
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 * </ul>
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 *
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 * <p>Performance considerations:
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 * <ul>
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 * <li><strong>Immutable connections</strong>: Connection list is sorted once and made immutable</li>
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 * <li><strong>Efficient lookup</strong>: Node indices computed deterministically for fast access</li>
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 * <li><strong>Memory efficiency</strong>: Only stores necessary network topology information</li>
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 * <li><strong>Cache-friendly</strong>: Sorted connections improve cache locality for genetic operations</li>
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 * </ul>
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 *
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 * <p>Integration with NEAT ecosystem:
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 * <ul>
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 * <li><strong>Chromosome factories</strong>: Created by NeatConnectedChromosomeFactory and similar</li>
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 * <li><strong>Genetic operators</strong>: Processed by NEAT-specific mutation and crossover handlers</li>
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 * <li><strong>Network evaluation</strong>: Converted to FeedForwardNetwork for fitness computation</li>
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 * <li><strong>Speciation</strong>: Used in compatibility distance calculations for species formation</li>
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 * </ul>
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 *
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 * @see Connection
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 * @see FeedForwardNetwork
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 * @see net.bmahe.genetics4j.neat.RecurrentNetwork
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 * @see InnovationManager
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 * @see net.bmahe.genetics4j.neat.spec.NeatChromosomeSpec
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 */
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public class NeatChromosome implements Chromosome {
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	private final int numInputs;
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	private final int numOutputs;
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	private final float minWeightValue;
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	private final float maxWeightValue;
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	private final List<Connection> connections;
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	/**
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	 * Constructs a new NEAT chromosome with the specified network topology and parameters.
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	 *
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	 * <p>This constructor creates an immutable neural network chromosome by copying and sorting the provided connections
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	 * by their innovation numbers. The sorting ensures efficient genetic operations and proper gene alignment during
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	 * crossover operations.
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	 *
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	 * <p>Network structure validation:
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	 * <ul>
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	 * <li>Input and output counts must be positive</li>
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	 * <li>Weight bounds must be properly ordered (min &lt; max)</li>
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	 * <li>Connections list must not be null (but can be empty)</li>
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	 * <li>Connection endpoints should reference valid nodes (not enforced here)</li>
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	 * </ul>
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	 *
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	 * @param _numInputs      number of input nodes in the network (must be positive)
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	 * @param _numOutputs     number of output nodes in the network (must be positive)
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	 * @param _minWeightValue minimum allowed connection weight value
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	 * @param _maxWeightValue maximum allowed connection weight value (must be &gt; minWeightValue)
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	 * @param _connections    list of network connections (will be copied and sorted by innovation number)
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	 * @throws IllegalArgumentException if numInputs &lt;= 0, numOutputs &lt;= 0, minWeightValue &gt;= maxWeightValue, or
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	 *                                  connections is null
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	 */
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	public NeatChromosome(final int _numInputs,
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			final int _numOutputs,
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			final float _minWeightValue,
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			final float _maxWeightValue,
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			final List<Connection> _connections) {
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		Validate.isTrue(_numInputs > 0);
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		Validate.isTrue(_numOutputs > 0);
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		Validate.isTrue(_minWeightValue < _maxWeightValue);
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		Validate.notNull(_connections);
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156 1 1. <init> : Removed assignment to member variable numInputs → KILLED
 
		this.numInputs = _numInputs;
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		this.numOutputs = _numOutputs;
158 1 1. <init> : Removed assignment to member variable minWeightValue → KILLED
 
		this.minWeightValue = _minWeightValue;
159 1 1. <init> : Removed assignment to member variable maxWeightValue → KILLED
 
		this.maxWeightValue = _maxWeightValue;
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161 1 1. <init> : removed call to java/util/ArrayList::<init> → KILLED
 
		final List<Connection> copyOfConnections = new ArrayList<>(_connections);
162 2 1. <init> : removed call to java/util/Comparator::comparing → KILLED
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		Collections.sort(copyOfConnections, Comparator.comparing(Connection::innovation));
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		this.connections = Collections.unmodifiableList(copyOfConnections);
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	}
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	/**
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	 * Returns the total number of alleles (genetic components) in this chromosome.
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	 *
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	 * <p>For NEAT chromosomes, the allele count includes:
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	 * <ul>
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	 * <li>Input nodes: Each input node represents one allele</li>
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	 * <li>Output nodes: Each output node represents one allele</li>
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	 * <li>Connections: Each connection (with its weight and state) represents one allele</li>
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	 * </ul>
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	 *
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	 * <p>Hidden nodes are not counted separately as they are implicit in the connection structure. This count is used by
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	 * the genetic algorithm framework for population statistics and compatibility calculations.
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	 *
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	 * @return the total number of alleles in this chromosome
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	 */
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	@Override
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	public int getNumAlleles() {
183 4 1. getNumAlleles : Replaced integer addition with subtraction → KILLED
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		return numInputs + numOutputs + connections.size();
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	}
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	/**
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	 * Returns the number of input nodes in this neural network.
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	 *
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	 * <p>Input nodes are the entry points for external data into the network. They are assigned node indices from 0 to
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	 * (numInputs - 1) and do not apply activation functions to their input values.
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	 *
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	 * @return the number of input nodes (always positive)
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	 */
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	public int getNumInputs() {
195 1 1. getNumInputs : replaced int return with 0 for net/bmahe/genetics4j/neat/chromosomes/NeatChromosome::getNumInputs → KILLED
 
		return numInputs;
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	}
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	/**
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	 * Returns the number of output nodes in this neural network.
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	 *
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	 * <p>Output nodes produce the final results of network computation. They are assigned node indices from numInputs to
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	 * (numInputs + numOutputs - 1) and apply activation functions to their weighted input sums.
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	 *
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	 * @return the number of output nodes (always positive)
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	 */
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	public int getNumOutputs() {
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		return numOutputs;
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	}
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	/**
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	 * Returns the minimum allowed connection weight value for this network.
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	 *
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	 * <p>This bound is used by mutation operators to constrain weight perturbations and ensure that connection weights
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	 * remain within reasonable ranges. Weight mutations should respect this bound to maintain network stability.
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	 *
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	 * @return the minimum allowed connection weight
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	 */
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	public float getMinWeightValue() {
219 1 1. getMinWeightValue : replaced float return with 0.0f for net/bmahe/genetics4j/neat/chromosomes/NeatChromosome::getMinWeightValue → KILLED
 
		return minWeightValue;
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	}
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	/**
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	 * Returns the maximum allowed connection weight value for this network.
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	 *
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	 * <p>This bound is used by mutation operators to constrain weight perturbations and ensure that connection weights
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	 * remain within reasonable ranges. Weight mutations should respect this bound to maintain network stability.
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	 *
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	 * @return the maximum allowed connection weight
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	 */
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	public float getMaxWeightValue() {
231 1 1. getMaxWeightValue : replaced float return with 0.0f for net/bmahe/genetics4j/neat/chromosomes/NeatChromosome::getMaxWeightValue → KILLED
 
		return maxWeightValue;
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	}
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	/**
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	 * Returns an immutable list of all connections in this neural network.
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	 *
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	 * <p>The connections are sorted by innovation number to ensure consistent ordering for genetic operations. Each
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	 * connection defines a weighted link between two nodes and includes an enabled/disabled state for topology
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	 * exploration.
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	 *
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	 * <p>Connection properties:
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	 * <ul>
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	 * <li><strong>Immutable ordering</strong>: Connections are sorted by innovation number</li>
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	 * <li><strong>Complete topology</strong>: Includes both enabled and disabled connections</li>
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	 * <li><strong>Genetic information</strong>: Each connection carries innovation tracking data</li>
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	 * <li><strong>Network structure</strong>: Defines the complete computational graph</li>
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	 * </ul>
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	 *
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	 * @return immutable list of network connections, sorted by innovation number
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	 */
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	public List<Connection> getConnections() {
252 1 1. getConnections : replaced return value with Collections.emptyList for net/bmahe/genetics4j/neat/chromosomes/NeatChromosome::getConnections → KILLED
 
		return connections;
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	}
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	/**
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	 * Returns the set of input node indices for this neural network.
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	 *
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	 * <p>Input node indices are deterministically assigned as consecutive integers starting from 0. Input nodes receive
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	 * external data and do not apply activation functions to their values. These indices are used for network
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	 * construction and evaluation.
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	 *
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	 * <p>Index assignment:
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	 * <ul>
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	 * <li><strong>Range</strong>: 0 to (numInputs - 1)</li>
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	 * <li><strong>Fixed assignment</strong>: Input indices never change during evolution</li>
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	 * <li><strong>External interface</strong>: These indices map to external input data</li>
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	 * <li><strong>No activation</strong>: Input nodes pass through their values unchanged</li>
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	 * </ul>
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	 *
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	 * @return set of input node indices (0 to numInputs-1)
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	 */
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	public Set<Integer> getInputNodeIndices() {
273 6 1. getInputNodeIndices : removed call to java/util/stream/Collectors::toSet → KILLED
2. getInputNodeIndices : removed call to java/util/stream/IntStream::boxed → KILLED
3. getInputNodeIndices : removed call to java/util/stream/IntStream::range → KILLED
4. getInputNodeIndices : Substituted 0 with 1 → KILLED
5. getInputNodeIndices : replaced return value with Collections.emptySet for net/bmahe/genetics4j/neat/chromosomes/NeatChromosome::getInputNodeIndices → KILLED
6. getInputNodeIndices : removed call to java/util/stream/Stream::collect → KILLED
 
		return IntStream.range(0, numInputs).boxed().collect(Collectors.toSet());
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	}
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	/**
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	 * Returns the set of output node indices for this neural network.
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	 *
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	 * <p>Output node indices are deterministically assigned as consecutive integers starting immediately after the input
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	 * nodes. Output nodes apply activation functions to their weighted input sums and produce the final network results.
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	 *
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	 * <p>Index assignment:
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	 * <ul>
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	 * <li><strong>Range</strong>: numInputs to (numInputs + numOutputs - 1)</li>
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	 * <li><strong>Fixed assignment</strong>: Output indices never change during evolution</li>
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	 * <li><strong>Network results</strong>: These nodes produce the final computational output</li>
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	 * <li><strong>Activation applied</strong>: Output nodes apply activation functions to their sums</li>
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	 * </ul>
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	 *
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	 * @return set of output node indices (numInputs to numInputs+numOutputs-1)
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	 */
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	public Set<Integer> getOutputNodeIndices() {
293 8 1. getOutputNodeIndices : removed call to java/util/stream/Stream::collect → KILLED
2. getOutputNodeIndices : Replaced integer addition with subtraction → KILLED
3. getOutputNodeIndices : removed call to net/bmahe/genetics4j/neat/chromosomes/NeatChromosome::getNumOutputs → KILLED
4. getOutputNodeIndices : removed call to java/util/stream/Collectors::toSet → KILLED
5. getOutputNodeIndices : replaced return value with Collections.emptySet for net/bmahe/genetics4j/neat/chromosomes/NeatChromosome::getOutputNodeIndices → KILLED
6. getOutputNodeIndices : removed call to java/util/stream/IntStream::boxed → KILLED
7. getOutputNodeIndices : removed call to net/bmahe/genetics4j/neat/chromosomes/NeatChromosome::getNumInputs → KILLED
8. getOutputNodeIndices : removed call to java/util/stream/IntStream::range → KILLED
 
		return IntStream.range(numInputs, getNumInputs() + getNumOutputs()).boxed().collect(Collectors.toSet());
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	}
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	@Override
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	public int hashCode() {
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		return Objects.hash(connections, maxWeightValue, minWeightValue, numInputs, numOutputs);
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	}
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	@Override
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	public boolean equals(Object obj) {
303 2 1. equals : negated conditional → KILLED
2. equals : removed conditional - replaced equality check with true → KILLED
 
		if (this == obj)
304 2 1. equals : replaced boolean return with false for net/bmahe/genetics4j/neat/chromosomes/NeatChromosome::equals → KILLED
2. equals : Substituted 1 with 0 → KILLED
 
			return true;
305 3 1. equals : removed conditional - replaced equality check with false → SURVIVED
2. equals : negated conditional → KILLED
3. equals : removed conditional - replaced equality check with true → KILLED
 
		if (obj == null)
306 2 1. equals : Substituted 0 with 1 → NO_COVERAGE
2. equals : replaced boolean return with true for net/bmahe/genetics4j/neat/chromosomes/NeatChromosome::equals → NO_COVERAGE
 
			return false;
307 5 1. equals : removed conditional - replaced equality check with false → SURVIVED
2. equals : negated conditional → KILLED
3. equals : removed call to java/lang/Object::getClass → KILLED
4. equals : removed conditional - replaced equality check with true → KILLED
5. equals : removed call to java/lang/Object::getClass → KILLED
 
		if (getClass() != obj.getClass())
308 2 1. equals : replaced boolean return with true for net/bmahe/genetics4j/neat/chromosomes/NeatChromosome::equals → NO_COVERAGE
2. equals : Substituted 0 with 1 → NO_COVERAGE
 
			return false;
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		NeatChromosome other = (NeatChromosome) obj;
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		return Objects.equals(connections, other.connections)
311 5 1. equals : removed conditional - replaced equality check with true → KILLED
2. equals : removed conditional - replaced equality check with false → KILLED
3. equals : removed call to java/lang/Float::floatToIntBits → KILLED
4. equals : negated conditional → KILLED
5. equals : removed call to java/lang/Float::floatToIntBits → KILLED
 
				&& Float.floatToIntBits(maxWeightValue) == Float.floatToIntBits(other.maxWeightValue)
312 13 1. equals : removed conditional - replaced equality check with false → KILLED
2. equals : negated conditional → KILLED
3. equals : removed conditional - replaced equality check with true → KILLED
4. equals : negated conditional → KILLED
5. equals : negated conditional → KILLED
6. equals : removed conditional - replaced equality check with true → KILLED
7. equals : removed conditional - replaced equality check with true → KILLED
8. equals : Substituted 1 with 0 → KILLED
9. equals : Substituted 0 with 1 → KILLED
10. equals : removed conditional - replaced equality check with false → KILLED
11. equals : removed call to java/lang/Float::floatToIntBits → KILLED
12. equals : removed call to java/lang/Float::floatToIntBits → KILLED
13. equals : removed conditional - replaced equality check with false → KILLED
 
				&& Float.floatToIntBits(minWeightValue) == Float.floatToIntBits(other.minWeightValue)
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				&& numInputs == other.numInputs && numOutputs == other.numOutputs;
314 
	}
315
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	@Override
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	public String toString() {
318 2 1. toString : replaced return value with "" for net/bmahe/genetics4j/neat/chromosomes/NeatChromosome::toString → SURVIVED
2. toString : removed call to java/lang/String::valueOf → SURVIVED
 
		return "NeatChromosome [numInputs=" + numInputs + ", numOutputs=" + numOutputs + ", minWeightValue="
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				+ minWeightValue + ", maxWeightValue=" + maxWeightValue + ", connections=" + connections + "]";
320 
	}
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}

Mutations

156

1.1
Location : <init>
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] Removed assignment to member variable numInputs → KILLED

157

1.1
Location : <init>
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] Removed assignment to member variable numOutputs → KILLED

158

1.1
Location : <init>
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] Removed assignment to member variable minWeightValue → KILLED

159

1.1
Location : <init>
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] Removed assignment to member variable maxWeightValue → KILLED

161

1.1
Location : <init>
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] removed call to java/util/ArrayList::<init> → KILLED

162

1.1
Location : <init>
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] removed call to java/util/Comparator::comparing → KILLED

2.2
Location : <init>
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] removed call to java/util/Collections::sort → KILLED

163

1.1
Location : <init>
Killed by : none replaced call to java/util/Collections::unmodifiableList with argument → SURVIVED Covering tests

2.2
Location : <init>
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] removed call to java/util/Collections::unmodifiableList → KILLED

3.3
Location : <init>
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] Removed assignment to member variable connections → KILLED

183

1.1
Location : getNumAlleles
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] Replaced integer addition with subtraction → KILLED

2.2
Location : getNumAlleles
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] Replaced integer addition with subtraction → KILLED

3.3
Location : getNumAlleles
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] removed call to java/util/List::size → KILLED

4.4
Location : getNumAlleles
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] replaced int return with 0 for net/bmahe/genetics4j/neat/chromosomes/NeatChromosome::getNumAlleles → KILLED

195

1.1
Location : getNumInputs
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] replaced int return with 0 for net/bmahe/genetics4j/neat/chromosomes/NeatChromosome::getNumInputs → KILLED

207

1.1
Location : getNumOutputs
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] replaced int return with 0 for net/bmahe/genetics4j/neat/chromosomes/NeatChromosome::getNumOutputs → KILLED

219

1.1
Location : getMinWeightValue
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] replaced float return with 0.0f for net/bmahe/genetics4j/neat/chromosomes/NeatChromosome::getMinWeightValue → KILLED

231

1.1
Location : getMaxWeightValue
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] replaced float return with 0.0f for net/bmahe/genetics4j/neat/chromosomes/NeatChromosome::getMaxWeightValue → KILLED

252

1.1
Location : getConnections
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] replaced return value with Collections.emptyList for net/bmahe/genetics4j/neat/chromosomes/NeatChromosome::getConnections → KILLED

273

1.1
Location : getInputNodeIndices
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] removed call to java/util/stream/Collectors::toSet → KILLED

2.2
Location : getInputNodeIndices
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] removed call to java/util/stream/IntStream::boxed → KILLED

3.3
Location : getInputNodeIndices
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] removed call to java/util/stream/IntStream::range → KILLED

4.4
Location : getInputNodeIndices
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] Substituted 0 with 1 → KILLED

5.5
Location : getInputNodeIndices
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] replaced return value with Collections.emptySet for net/bmahe/genetics4j/neat/chromosomes/NeatChromosome::getInputNodeIndices → KILLED

6.6
Location : getInputNodeIndices
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] removed call to java/util/stream/Stream::collect → KILLED

293

1.1
Location : getOutputNodeIndices
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] removed call to java/util/stream/Stream::collect → KILLED

2.2
Location : getOutputNodeIndices
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] Replaced integer addition with subtraction → KILLED

3.3
Location : getOutputNodeIndices
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] removed call to net/bmahe/genetics4j/neat/chromosomes/NeatChromosome::getNumOutputs → KILLED

4.4
Location : getOutputNodeIndices
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] removed call to java/util/stream/Collectors::toSet → KILLED

5.5
Location : getOutputNodeIndices
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] replaced return value with Collections.emptySet for net/bmahe/genetics4j/neat/chromosomes/NeatChromosome::getOutputNodeIndices → KILLED

6.6
Location : getOutputNodeIndices
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] removed call to java/util/stream/IntStream::boxed → KILLED

7.7
Location : getOutputNodeIndices
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] removed call to net/bmahe/genetics4j/neat/chromosomes/NeatChromosome::getNumInputs → KILLED

8.8
Location : getOutputNodeIndices
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] removed call to java/util/stream/IntStream::range → KILLED

303

1.1
Location : equals
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] negated conditional → KILLED

2.2
Location : equals
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] removed conditional - replaced equality check with true → KILLED

304

1.1
Location : equals
Killed by : net.bmahe.genetics4j.neat.combination.parentcompare.FitnessComparisonHandlerTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.combination.parentcompare.FitnessComparisonHandlerTest]/[method:compare()] replaced boolean return with false for net/bmahe/genetics4j/neat/chromosomes/NeatChromosome::equals → KILLED

2.2
Location : equals
Killed by : net.bmahe.genetics4j.neat.combination.parentcompare.FitnessComparisonHandlerTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.combination.parentcompare.FitnessComparisonHandlerTest]/[method:compare()] Substituted 1 with 0 → KILLED

305

1.1
Location : equals
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] negated conditional → KILLED

2.2
Location : equals
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] removed conditional - replaced equality check with true → KILLED

3.3
Location : equals
Killed by : none removed conditional - replaced equality check with false → SURVIVED Covering tests

306

1.1
Location : equals
Killed by : none Substituted 0 with 1 → NO_COVERAGE

2.2
Location : equals
Killed by : none replaced boolean return with true for net/bmahe/genetics4j/neat/chromosomes/NeatChromosome::equals → NO_COVERAGE

307

1.1
Location : equals
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] negated conditional → KILLED

2.2
Location : equals
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] removed call to java/lang/Object::getClass → KILLED

3.3
Location : equals
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] removed conditional - replaced equality check with true → KILLED

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

5.5
Location : equals
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] removed call to java/lang/Object::getClass → KILLED

308

1.1
Location : equals
Killed by : none replaced boolean return with true for net/bmahe/genetics4j/neat/chromosomes/NeatChromosome::equals → NO_COVERAGE

2.2
Location : equals
Killed by : none Substituted 0 with 1 → NO_COVERAGE

311

1.1
Location : equals
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] removed conditional - replaced equality check with true → KILLED

2.2
Location : equals
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] removed conditional - replaced equality check with false → KILLED

3.3
Location : equals
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] removed call to java/lang/Float::floatToIntBits → KILLED

4.4
Location : equals
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] negated conditional → KILLED

5.5
Location : equals
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] removed call to java/lang/Float::floatToIntBits → KILLED

312

1.1
Location : equals
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] removed conditional - replaced equality check with false → KILLED

2.2
Location : equals
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] negated conditional → KILLED

3.3
Location : equals
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] removed conditional - replaced equality check with true → KILLED

4.4
Location : equals
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] negated conditional → KILLED

5.5
Location : equals
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] negated conditional → KILLED

6.6
Location : equals
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] removed conditional - replaced equality check with true → KILLED

7.7
Location : equals
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] removed conditional - replaced equality check with true → KILLED

8.8
Location : equals
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] Substituted 1 with 0 → KILLED

9.9
Location : equals
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] Substituted 0 with 1 → KILLED

10.10
Location : equals
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] removed conditional - replaced equality check with false → KILLED

11.11
Location : equals
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] removed call to java/lang/Float::floatToIntBits → KILLED

12.12
Location : equals
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] removed call to java/lang/Float::floatToIntBits → KILLED

13.13
Location : equals
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] removed conditional - replaced equality check with false → KILLED

318

1.1
Location : toString
Killed by : none replaced return value with "" for net/bmahe/genetics4j/neat/chromosomes/NeatChromosome::toString → SURVIVED Covering tests

2.2
Location : toString
Killed by : none removed call to java/lang/String::valueOf → SURVIVED Covering tests

Active mutators

Tests examined


Report generated by PIT 1.20.3