NeatChromosome.java

1 
package net.bmahe.genetics4j.neat.chromosomes;
2
3 
import java.util.ArrayList;
4 
import java.util.Collections;
5 
import java.util.Comparator;
6 
import java.util.List;
7 
import java.util.Objects;
8
9 
import org.apache.commons.lang3.Validate;
10
11 
import net.bmahe.genetics4j.core.chromosomes.Chromosome;
12 
import net.bmahe.genetics4j.neat.Connection;
13 
import net.bmahe.genetics4j.neat.spec.NeatNodeLayout;
14
15 
/**
16 
 * Represents a neural network chromosome in the NEAT (NeuroEvolution of Augmenting Topologies) algorithm.
17 
 *
18 
 * <p>NeatChromosome is the core genetic representation in NEAT, encoding a neural network as a collection of
19 
 * connections between nodes. Each chromosome defines a complete neural network topology with input nodes, output nodes,
20 
 * optional hidden nodes, and weighted connections. The chromosome maintains essential parameters for network
21 
 * construction and genetic operations.
22 
 *
23 
 * <p>Key characteristics:
24 
 * <ul>
25 
 * <li><strong>Network topology</strong>: Encoded as a list of connections with innovation numbers</li>
26 
 * <li><strong>Node organization</strong>: Fixed input/output nodes with dynamically added hidden nodes</li>
27 
 * <li><strong>Weight constraints</strong>: Configurable minimum and maximum weight bounds</li>
28 
 * <li><strong>Innovation tracking</strong>: Connections sorted by innovation number for genetic alignment</li>
29 
 * </ul>
30 
 *
31 
 * <p>NEAT algorithm integration:
32 
 * <ul>
33 
 * <li><strong>Structural mutations</strong>: Add/delete nodes and connections while preserving innovation tracking</li>
34 
 * <li><strong>Weight mutations</strong>: Modify connection weights within specified bounds</li>
35 
 * <li><strong>Genetic crossover</strong>: Innovation-number-based gene alignment for topology recombination</li>
36 
 * <li><strong>Compatibility distance</strong>: Genetic similarity measurement for speciation</li>
37 
 * </ul>
38 
 *
39 
 * <p>Network structure:
40 
 * <ul>
41 
 * <li><strong>Input and output nodes</strong>: Stable ordered IDs declared by the node layout</li>
42 
 * <li><strong>Hidden nodes</strong>: IDs allocated from the layout's hidden-node namespace</li>
43 
 * <li><strong>Connections</strong>: Weighted links between nodes with enable/disable states and innovation numbers</li>
44 
 * </ul>
45 
 *
46 
 * <p>Common usage patterns:
47 
 *
48 
 * <pre>{@code
49 
 * // Create a basic NEAT chromosome
50 
 * List<Connection> connections = List.of(
51 
 * 		Connection.of(0, 2, 0.5f, true, 0), // input 0 -> output 0
52 
 * 		Connection.of(1, 3, -0.3f, true, 1) // input 1 -> output 1
53 
 * );
54 
 *
55 
 * NeatChromosome chromosome = new NeatChromosome(2, // number of inputs
56 
 * 		2, // number of outputs
57 
 * 		-1.0f, // minimum weight
58 
 * 		1.0f, // maximum weight
59 
 * 		connections);
60 
 *
61 
 * // Access chromosome properties
62 
 * int numAlleles = chromosome.getNumAlleles();
63 
 * List<Integer> inputNodes = chromosome.getInputNodeIds();
64 
 * List<Integer> outputNodes = chromosome.getOutputNodeIds();
65 
 * List<Connection> allConnections = chromosome.getConnections();
66 
 *
67 
 * // Create feed-forward network for evaluation
68 
 * FeedForwardNetwork network = new FeedForwardNetwork(Set.copyOf(chromosome.getInputNodeIds()),
69 
 * 		Set.copyOf(chromosome.getOutputNodeIds()),
70 
 * 		chromosome.getConnections(),
71 
 * 		Activations::sigmoid);
72 
 * }</pre>
73 
 *
74 
 * <p>Genetic operations compatibility:
75 
 * <ul>
76 
 * <li><strong>Mutation operations</strong>: Compatible with weight, add-node, add-connection, and state mutations</li>
77 
 * <li><strong>Crossover operations</strong>: Innovation numbers enable proper gene alignment between parents</li>
78 
 * <li><strong>Selection operations</strong>: Supports species-based selection through compatibility distance</li>
79 
 * <li><strong>Evaluation operations</strong>: Can be converted to executable neural networks</li>
80 
 * </ul>
81 
 *
82 
 * <p>Innovation number organization:
83 
 * <ul>
84 
 * <li><strong>Sorted connections</strong>: Connections automatically sorted by innovation number</li>
85 
 * <li><strong>Genetic alignment</strong>: Enables efficient crossover and compatibility calculations</li>
86 
 * <li><strong>Historical tracking</strong>: Maintains evolutionary history of structural changes</li>
87 
 * <li><strong>Population consistency</strong>: Same innovation numbers across population for same connection types</li>
88 
 * </ul>
89 
 *
90 
 * <p>Performance considerations:
91 
 * <ul>
92 
 * <li><strong>Immutable connections</strong>: Connection list is sorted once and made immutable</li>
93 
 * <li><strong>Efficient lookup</strong>: Node indices computed deterministically for fast access</li>
94 
 * <li><strong>Memory efficiency</strong>: Only stores necessary network topology information</li>
95 
 * <li><strong>Cache-friendly</strong>: Sorted connections improve cache locality for genetic operations</li>
96 
 * </ul>
97 
 *
98 
 * <p>Integration with NEAT ecosystem:
99 
 * <ul>
100 
 * <li><strong>Chromosome factories</strong>: Created by NeatConnectedChromosomeFactory and similar</li>
101 
 * <li><strong>Genetic operators</strong>: Processed by NEAT-specific mutation and crossover handlers</li>
102 
 * <li><strong>Network evaluation</strong>: Converted to FeedForwardNetwork for fitness computation</li>
103 
 * <li><strong>Speciation</strong>: Used in compatibility distance calculations for species formation</li>
104 
 * </ul>
105 
 *
106 
 * @see Connection
107 
 * @see FeedForwardNetwork
108 
 * @see net.bmahe.genetics4j.neat.RecurrentNetwork
109 
 * @see InnovationManager
110 
 * @see net.bmahe.genetics4j.neat.spec.NeatChromosomeSpec
111 
 */
112 
public class NeatChromosome implements Chromosome {
113
114 
	private final NeatNodeLayout nodeLayout;
115 
	private final float minWeightValue;
116 
	private final float maxWeightValue;
117 
	private final List<Connection> connections;
118
119 
	/**
120 
	 * Constructs a new NEAT chromosome with the specified network topology and parameters.
121 
	 *
122 
	 * <p>This constructor creates an immutable neural network chromosome by copying and sorting the provided connections
123 
	 * by their innovation numbers. The sorting ensures efficient genetic operations and proper gene alignment during
124 
	 * crossover operations.
125 
	 *
126 
	 * <p>Network structure validation:
127 
	 * <ul>
128 
	 * <li>The node layout must be valid</li>
129 
	 * <li>Weight bounds must be properly ordered (min &lt; max)</li>
130 
	 * <li>Connections list must not be null (but can be empty)</li>
131 
	 * <li>Connection endpoints must belong to the external or hidden-node namespaces</li>
132 
	 * </ul>
133 
	 *
134 
	 * @param _nodeLayout     stable external IDs and hidden-node namespace
135 
	 * @param _minWeightValue minimum allowed connection weight value
136 
	 * @param _maxWeightValue maximum allowed connection weight value (must be &gt; minWeightValue)
137 
	 * @param _connections    list of network connections (will be copied and sorted by innovation number)
138 
	 * @throws IllegalArgumentException if minWeightValue &gt;= maxWeightValue
139 
	 */
140 
	public NeatChromosome(final NeatNodeLayout _nodeLayout,
141 
			final float _minWeightValue,
142 
			final float _maxWeightValue,
143 
			final List<Connection> _connections) {
144 
		Objects.requireNonNull(_nodeLayout);
145 
		Validate.isTrue(_minWeightValue < _maxWeightValue);
146 
		Objects.requireNonNull(_connections);
147 
		for (final Connection connection : _connections) {
148 
			Objects.requireNonNull(connection);
149 
			Validate.isTrue(
150 12 1. <init> : Substituted 0 with 1 → NO_COVERAGE
2. <init> : removed conditional - replaced equality check with true → SURVIVED
3. <init> : removed conditional - replaced equality check with false → SURVIVED
4. <init> : Substituted 1 with 0 → KILLED
5. <init> : removed call to net/bmahe/genetics4j/neat/spec/NeatNodeLayout::isExternal → KILLED
6. <init> : removed call to net/bmahe/genetics4j/neat/Connection::fromNodeIndex → KILLED
7. <init> : removed call to net/bmahe/genetics4j/neat/Connection::fromNodeIndex → KILLED
8. <init> : negated conditional → KILLED
9. <init> : removed conditional - replaced equality check with true → KILLED
10. <init> : removed conditional - replaced equality check with false → KILLED
11. <init> : negated conditional → KILLED
12. <init> : removed call to net/bmahe/genetics4j/neat/spec/NeatNodeLayout::isHidden → KILLED
 
					_nodeLayout.isExternal(connection.fromNodeIndex()) || _nodeLayout.isHidden(connection.fromNodeIndex()),
151 
					"Connection source node %d is outside the node layout",
152 1 1. <init> : removed call to net/bmahe/genetics4j/neat/Connection::fromNodeIndex → SURVIVED
 
					connection.fromNodeIndex());
153 
			Validate.isTrue(
154 12 1. <init> : removed call to net/bmahe/genetics4j/neat/spec/NeatNodeLayout::isHidden → KILLED
2. <init> : negated conditional → KILLED
3. <init> : removed conditional - replaced equality check with false → KILLED
4. <init> : removed call to net/bmahe/genetics4j/neat/spec/NeatNodeLayout::isExternal → KILLED
5. <init> : removed call to net/bmahe/genetics4j/neat/Connection::toNodeIndex → KILLED
6. <init> : negated conditional → KILLED
7. <init> : removed call to net/bmahe/genetics4j/neat/Connection::toNodeIndex → KILLED
8. <init> : removed conditional - replaced equality check with true → KILLED
9. <init> : Substituted 1 with 0 → KILLED
10. <init> : removed conditional - replaced equality check with true → KILLED
11. <init> : removed conditional - replaced equality check with false → KILLED
12. <init> : Substituted 0 with 1 → KILLED
 
					_nodeLayout.isExternal(connection.toNodeIndex()) || _nodeLayout.isHidden(connection.toNodeIndex()),
155 
					"Connection target node %d is outside the node layout",
156 1 1. <init> : removed call to net/bmahe/genetics4j/neat/Connection::toNodeIndex → SURVIVED
 
					connection.toNodeIndex());
157 
		}
158
159 1 1. <init> : Removed assignment to member variable nodeLayout → KILLED
 
		this.nodeLayout = _nodeLayout;
160 1 1. <init> : Removed assignment to member variable minWeightValue → KILLED
 
		this.minWeightValue = _minWeightValue;
161 1 1. <init> : Removed assignment to member variable maxWeightValue → KILLED
 
		this.maxWeightValue = _maxWeightValue;
162
163 1 1. <init> : removed call to java/util/ArrayList::<init> → KILLED
 
		final List<Connection> copyOfConnections = new ArrayList<>(_connections);
164 2 1. <init> : removed call to java/util/Collections::sort → KILLED
2. <init> : removed call to java/util/Comparator::comparing → KILLED
 
		Collections.sort(copyOfConnections, Comparator.comparing(Connection::innovation));
165 3 1. <init> : replaced call to java/util/Collections::unmodifiableList with argument → SURVIVED
2. <init> : removed call to java/util/Collections::unmodifiableList → KILLED
3. <init> : Removed assignment to member variable connections → KILLED
 
		this.connections = Collections.unmodifiableList(copyOfConnections);
166 
	}
167
168 
	/** Convenience constructor for the traditional contiguous node layout. */
169 
	public NeatChromosome(final int numInputs,
170 
			final int numOutputs,
171 
			final float minWeightValue,
172 
			final float maxWeightValue,
173 
			final List<Connection> connections) {
174 1 1. <init> : removed call to net/bmahe/genetics4j/neat/spec/NeatNodeLayout::contiguous → KILLED
 
		this(NeatNodeLayout.contiguous(numInputs, numOutputs), minWeightValue, maxWeightValue, connections);
175 
	}
176
177 
	/**
178 
	 * Returns the total number of alleles (genetic components) in this chromosome.
179 
	 *
180 
	 * <p>For NEAT chromosomes, the allele count includes:
181 
	 * <ul>
182 
	 * <li>Input nodes: Each input node represents one allele</li>
183 
	 * <li>Output nodes: Each output node represents one allele</li>
184 
	 * <li>Connections: Each connection (with its weight and state) represents one allele</li>
185 
	 * </ul>
186 
	 *
187 
	 * <p>Hidden nodes are not counted separately as they are implicit in the connection structure. This count is used by
188 
	 * the genetic algorithm framework for population statistics and compatibility calculations.
189 
	 *
190 
	 * @return the total number of alleles in this chromosome
191 
	 */
192 
	@Override
193 
	public int getNumAlleles() {
194 6 1. getNumAlleles : removed call to net/bmahe/genetics4j/neat/spec/NeatNodeLayout::numOutputs → KILLED
2. getNumAlleles : replaced int return with 0 for net/bmahe/genetics4j/neat/chromosomes/NeatChromosome::getNumAlleles → KILLED
3. getNumAlleles : removed call to java/util/List::size → KILLED
4. getNumAlleles : removed call to net/bmahe/genetics4j/neat/spec/NeatNodeLayout::numInputs → KILLED
5. getNumAlleles : Replaced integer addition with subtraction → KILLED
6. getNumAlleles : Replaced integer addition with subtraction → KILLED
 
		return nodeLayout.numInputs() + nodeLayout.numOutputs() + connections.size();
195 
	}
196
197 
	/**
198 
	 * Returns the number of input nodes in this neural network.
199 
	 *
200 
	 * <p>Input nodes are the ordered entry points declared by the node layout.
201 
	 *
202 
	 * @return the number of input nodes (always positive)
203 
	 */
204 
	public int getNumInputs() {
205 2 1. getNumInputs : removed call to net/bmahe/genetics4j/neat/spec/NeatNodeLayout::numInputs → KILLED
2. getNumInputs : replaced int return with 0 for net/bmahe/genetics4j/neat/chromosomes/NeatChromosome::getNumInputs → KILLED
 
		return nodeLayout.numInputs();
206 
	}
207
208 
	/**
209 
	 * Returns the number of output nodes in this neural network.
210 
	 *
211 
	 * <p>Output nodes are the ordered result nodes declared by the node layout.
212 
	 *
213 
	 * @return the number of output nodes (always positive)
214 
	 */
215 
	public int getNumOutputs() {
216 2 1. getNumOutputs : replaced int return with 0 for net/bmahe/genetics4j/neat/chromosomes/NeatChromosome::getNumOutputs → KILLED
2. getNumOutputs : removed call to net/bmahe/genetics4j/neat/spec/NeatNodeLayout::numOutputs → KILLED
 
		return nodeLayout.numOutputs();
217 
	}
218
219 
	public NeatNodeLayout getNodeLayout() {
220 1 1. getNodeLayout : replaced return value with null for net/bmahe/genetics4j/neat/chromosomes/NeatChromosome::getNodeLayout → KILLED
 
		return nodeLayout;
221 
	}
222
223 
	/** Returns input node IDs in their declared vector order. */
224 
	public List<Integer> getInputNodeIds() {
225 2 1. getInputNodeIds : removed call to net/bmahe/genetics4j/neat/spec/NeatNodeLayout::inputNodeIds → KILLED
2. getInputNodeIds : replaced return value with Collections.emptyList for net/bmahe/genetics4j/neat/chromosomes/NeatChromosome::getInputNodeIds → KILLED
 
		return nodeLayout.inputNodeIds();
226 
	}
227
228 
	/** Returns output node IDs in their declared vector order. */
229 
	public List<Integer> getOutputNodeIds() {
230 2 1. getOutputNodeIds : replaced return value with Collections.emptyList for net/bmahe/genetics4j/neat/chromosomes/NeatChromosome::getOutputNodeIds → KILLED
2. getOutputNodeIds : removed call to net/bmahe/genetics4j/neat/spec/NeatNodeLayout::outputNodeIds → KILLED
 
		return nodeLayout.outputNodeIds();
231 
	}
232
233 
	/**
234 
	 * Returns the minimum allowed connection weight value for this network.
235 
	 *
236 
	 * <p>This bound is used by mutation operators to constrain weight perturbations and ensure that connection weights
237 
	 * remain within reasonable ranges. Weight mutations should respect this bound to maintain network stability.
238 
	 *
239 
	 * @return the minimum allowed connection weight
240 
	 */
241 
	public float getMinWeightValue() {
242 1 1. getMinWeightValue : replaced float return with 0.0f for net/bmahe/genetics4j/neat/chromosomes/NeatChromosome::getMinWeightValue → KILLED
 
		return minWeightValue;
243 
	}
244
245 
	/**
246 
	 * Returns the maximum allowed connection weight value for this network.
247 
	 *
248 
	 * <p>This bound is used by mutation operators to constrain weight perturbations and ensure that connection weights
249 
	 * remain within reasonable ranges. Weight mutations should respect this bound to maintain network stability.
250 
	 *
251 
	 * @return the maximum allowed connection weight
252 
	 */
253 
	public float getMaxWeightValue() {
254 1 1. getMaxWeightValue : replaced float return with 0.0f for net/bmahe/genetics4j/neat/chromosomes/NeatChromosome::getMaxWeightValue → KILLED
 
		return maxWeightValue;
255 
	}
256
257 
	/**
258 
	 * Returns an immutable list of all connections in this neural network.
259 
	 *
260 
	 * <p>The connections are sorted by innovation number to ensure consistent ordering for genetic operations. Each
261 
	 * connection defines a weighted link between two nodes and includes an enabled/disabled state for topology
262 
	 * exploration.
263 
	 *
264 
	 * <p>Connection properties:
265 
	 * <ul>
266 
	 * <li><strong>Immutable ordering</strong>: Connections are sorted by innovation number</li>
267 
	 * <li><strong>Complete topology</strong>: Includes both enabled and disabled connections</li>
268 
	 * <li><strong>Genetic information</strong>: Each connection carries innovation tracking data</li>
269 
	 * <li><strong>Network structure</strong>: Defines the complete computational graph</li>
270 
	 * </ul>
271 
	 *
272 
	 * @return immutable list of network connections, sorted by innovation number
273 
	 */
274 
	public List<Connection> getConnections() {
275 1 1. getConnections : replaced return value with Collections.emptyList for net/bmahe/genetics4j/neat/chromosomes/NeatChromosome::getConnections → KILLED
 
		return connections;
276 
	}
277
278 
	@Override
279 
	public int hashCode() {
280 
		return Objects.hash(connections, maxWeightValue, minWeightValue, nodeLayout);
281 
	}
282
283 
	@Override
284 
	public boolean equals(Object obj) {
285 2 1. equals : negated conditional → KILLED
2. equals : removed conditional - replaced equality check with true → KILLED
 
		if (this == obj) {
286 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;
287 
		}
288 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) {
289 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;
290 
		}
291 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()) {
292 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;
293 
		}
294 
		NeatChromosome other = (NeatChromosome) obj;
295 
		return Objects.equals(connections, other.connections)
296 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)
297 5 1. equals : removed conditional - replaced equality check with false → KILLED
2. equals : removed conditional - replaced equality check with true → KILLED
3. equals : negated conditional → KILLED
4. equals : removed call to java/lang/Float::floatToIntBits → KILLED
5. equals : removed call to java/lang/Float::floatToIntBits → KILLED
 
				&& Float.floatToIntBits(minWeightValue) == Float.floatToIntBits(other.minWeightValue)
298 6 1. equals : removed conditional - replaced equality check with true → KILLED
2. equals : Substituted 1 with 0 → KILLED
3. equals : Substituted 0 with 1 → KILLED
4. equals : removed conditional - replaced equality check with false → KILLED
5. equals : removed call to net/bmahe/genetics4j/neat/spec/NeatNodeLayout::equals → KILLED
6. equals : negated conditional → KILLED
 
				&& nodeLayout.equals(other.nodeLayout);
299 
	}
300
301 
	@Override
302 
	public String toString() {
303 3 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
3. toString : removed call to java/lang/String::valueOf → SURVIVED
 
		return "NeatChromosome [nodeLayout=" + nodeLayout + ", minWeightValue=" + minWeightValue + ", maxWeightValue="
304 
				+ maxWeightValue + ", connections=" + connections + "]";
305 
	}
306 
}

Mutations

150

1.1
Location : <init>
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

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 net/bmahe/genetics4j/neat/spec/NeatNodeLayout::isExternal → KILLED

3.3
Location : <init>
Killed by : net.bmahe.genetics4j.neat.NeatUtilsTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.NeatUtilsTest]/[method:compatibilityDistanceSame()] removed call to net/bmahe/genetics4j/neat/Connection::fromNodeIndex → KILLED

4.4
Location : <init>
Killed by : none Substituted 0 with 1 → NO_COVERAGE

5.5
Location : <init>
Killed by : net.bmahe.genetics4j.neat.mutation.chromosome.SparseStructuralMutationTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.mutation.chromosome.SparseStructuralMutationTest]/[method:addConnectionSamplesOnlyDeclaredNodes()] removed call to net/bmahe/genetics4j/neat/Connection::fromNodeIndex → KILLED

6.6
Location : <init>
Killed by : none removed conditional - replaced equality check with true → SURVIVED Covering tests

7.7
Location : <init>
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:simple()] negated conditional → KILLED

8.8
Location : <init>
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

9.9
Location : <init>
Killed by : net.bmahe.genetics4j.neat.NeatUtilsTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.NeatUtilsTest]/[method:compatibilityDistanceSame()] removed conditional - replaced equality check with false → KILLED

10.10
Location : <init>
Killed by : net.bmahe.genetics4j.neat.NeatUtilsTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.NeatUtilsTest]/[method:compatibilityDistanceSame()] negated conditional → KILLED

11.11
Location : <init>
Killed by : net.bmahe.genetics4j.neat.NeatUtilsTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.NeatUtilsTest]/[method:compatibilityDistanceSame()] removed call to net/bmahe/genetics4j/neat/spec/NeatNodeLayout::isHidden → KILLED

12.12
Location : <init>
Killed by : none removed conditional - replaced equality check with false → SURVIVED Covering tests

152

1.1
Location : <init>
Killed by : none removed call to net/bmahe/genetics4j/neat/Connection::fromNodeIndex → SURVIVED Covering tests

154

1.1
Location : <init>
Killed by : net.bmahe.genetics4j.neat.NeatUtilsTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.NeatUtilsTest]/[method:compatibilityDistanceSame()] removed call to net/bmahe/genetics4j/neat/spec/NeatNodeLayout::isHidden → 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()] negated conditional → KILLED

3.3
Location : <init>
Killed by : net.bmahe.genetics4j.neat.SparseNodeLayoutIntegrationTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.SparseNodeLayoutIntegrationTest]/[method:chromosomeRejectsNodesOutsideTheLayoutNamespaces()] removed conditional - replaced equality check with false → KILLED

4.4
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 net/bmahe/genetics4j/neat/spec/NeatNodeLayout::isExternal → KILLED

5.5
Location : <init>
Killed by : net.bmahe.genetics4j.neat.NeatUtilsTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.NeatUtilsTest]/[method:compatibilityDistanceSame()] removed call to net/bmahe/genetics4j/neat/Connection::toNodeIndex → KILLED

6.6
Location : <init>
Killed by : net.bmahe.genetics4j.neat.SparseNodeLayoutIntegrationTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.SparseNodeLayoutIntegrationTest]/[method:chromosomeRejectsNodesOutsideTheLayoutNamespaces()] negated conditional → KILLED

7.7
Location : <init>
Killed by : net.bmahe.genetics4j.neat.mutation.chromosome.SparseStructuralMutationTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.mutation.chromosome.SparseStructuralMutationTest]/[method:addConnectionSamplesOnlyDeclaredNodes()] removed call to net/bmahe/genetics4j/neat/Connection::toNodeIndex → KILLED

8.8
Location : <init>
Killed by : net.bmahe.genetics4j.neat.SparseNodeLayoutIntegrationTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.SparseNodeLayoutIntegrationTest]/[method:chromosomeRejectsNodesOutsideTheLayoutNamespaces()] removed conditional - replaced equality check with true → KILLED

9.9
Location : <init>
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

10.10
Location : <init>
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

11.11
Location : <init>
Killed by : net.bmahe.genetics4j.neat.NeatUtilsTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.NeatUtilsTest]/[method:compatibilityDistanceSame()] removed conditional - replaced equality check with false → KILLED

12.12
Location : <init>
Killed by : net.bmahe.genetics4j.neat.SparseNodeLayoutIntegrationTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.SparseNodeLayoutIntegrationTest]/[method:chromosomeRejectsNodesOutsideTheLayoutNamespaces()] Substituted 0 with 1 → KILLED

156

1.1
Location : <init>
Killed by : none removed call to net/bmahe/genetics4j/neat/Connection::toNodeIndex → SURVIVED Covering tests

159

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

160

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

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 assignment to member variable maxWeightValue → KILLED

163

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

164

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/Collections::sort → 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/Comparator::comparing → KILLED

165

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

174

1.1
Location : <init>
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:noOutput()] removed call to net/bmahe/genetics4j/neat/spec/NeatNodeLayout::contiguous → KILLED

194

1.1
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 net/bmahe/genetics4j/neat/spec/NeatNodeLayout::numOutputs → 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 int return with 0 for net/bmahe/genetics4j/neat/chromosomes/NeatChromosome::getNumAlleles → 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()] removed call to net/bmahe/genetics4j/neat/spec/NeatNodeLayout::numInputs → KILLED

5.5
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

6.6
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

205

1.1
Location : getNumInputs
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/spec/NeatNodeLayout::numInputs → KILLED

2.2
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

216

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

2.2
Location : getNumOutputs
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/spec/NeatNodeLayout::numOutputs → KILLED

220

1.1
Location : getNodeLayout
Killed by : net.bmahe.genetics4j.neat.mutation.chromosome.NeatChromosomeDeleteNodeMutationHandlerTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.mutation.chromosome.NeatChromosomeDeleteNodeMutationHandlerTest]/[method:mutateConnectionEmpty()] replaced return value with null for net/bmahe/genetics4j/neat/chromosomes/NeatChromosome::getNodeLayout → KILLED

225

1.1
Location : getInputNodeIds
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:preservesExplicitNodeDeclarationOrder()] removed call to net/bmahe/genetics4j/neat/spec/NeatNodeLayout::inputNodeIds → KILLED

2.2
Location : getInputNodeIds
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:preservesExplicitNodeDeclarationOrder()] replaced return value with Collections.emptyList for net/bmahe/genetics4j/neat/chromosomes/NeatChromosome::getInputNodeIds → KILLED

230

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

2.2
Location : getOutputNodeIds
Killed by : net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.chromosomes.NeatChromosomeTest]/[method:preservesExplicitNodeDeclarationOrder()] removed call to net/bmahe/genetics4j/neat/spec/NeatNodeLayout::outputNodeIds → KILLED

242

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

254

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

275

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

285

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

286

1.1
Location : equals
Killed by : net.bmahe.genetics4j.neat.combination.parentcompare.FitnessThenSizeComparisonHandlerTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.combination.parentcompare.FitnessThenSizeComparisonHandlerTest]/[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.FitnessThenSizeComparisonHandlerTest.[engine:junit-jupiter]/[class:net.bmahe.genetics4j.neat.combination.parentcompare.FitnessThenSizeComparisonHandlerTest]/[method:compare()] Substituted 1 with 0 → KILLED

288

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

289

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

291

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

292

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

296

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

297

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()] removed conditional - replaced equality check with true → 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()] negated conditional → 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()] removed call to java/lang/Float::floatToIntBits → 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

298

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()] Substituted 1 with 0 → 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()] Substituted 0 with 1 → 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()] removed conditional - replaced equality check with false → 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 net/bmahe/genetics4j/neat/spec/NeatNodeLayout::equals → 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()] negated conditional → KILLED

303

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

3.3
Location : toString
Killed by : none removed call to java/lang/String::valueOf → SURVIVED Covering tests

Active mutators

Tests examined


Report generated by PIT 1.25.7 support