public string PickNext(IRandomSource random)
{
var l = Builders.Build<uint>(random) / (double)uint.MaxValue;
return Links
.OrderBy (_ => Builders.Build<int>(random))
.Where (i => i.Probability > l)
.Select(i => i.Value)
.FirstOrDefault ();
}
/// <summary>
/// Take a sample from the distribution, using the provided <see cref="IRandomSource"/> as the source of entropy.
/// </summary>
/// <returns>A random sample.</returns>
public double Sample(IRandomSource rng)
{
if (null != _sample)
{
double x = _sample.Value;
_sample = null;
return(x);
}
// Note. The Box-Muller transform generates samples in pairs.
(double x1, double x2) = BoxMullerGaussian.Sample(rng, _mean, _stdDev);
// Return the first sample and store the other for future use.
_sample = x2;
return(x1);
}
/// <summary>
/// Create a sampler for the uniform distribution with interval [0,max) or (-max,max).
/// </summary>
/// <typeparam name="T">Data type of the samples.</typeparam>
/// <param name="max">Maximum value (exclusive).</param>
/// <param name="signed">If true the distribution has interval (-max,max); otherwise [0,max).</param>
/// <param name="rng">Random source.</param>
/// <returns>A new instance of <see cref="ISampler{T}"/>.</returns>
public static ISampler <T> CreateSampler <T>(double max, bool signed, IRandomSource rng)
where T : struct
{
if (typeof(T) == typeof(double))
{
return((ISampler <T>) new Double.UniformDistributionSampler(max, signed, rng));
}
else if (typeof(T) == typeof(float))
{
return((ISampler <T>) new Float.UniformDistributionSampler((float)max, signed, rng));
}
else
{
throw new ArgumentException("Unsupported type argument");
}
}
/// <summary>
/// For each species, allocate the EliteSizeInt, OffspringCount (broken down into OffspringAsexualCount and OffspringSexualCount),
/// and SelectionSizeInt values.
/// </summary>
/// <param name="pop">The NEAT population to update species allocation sizes for.</param>
/// <param name="eaSettings">Evolution algorithm settings object.</param>
/// <param name="rng">Random source.</param>
private static void UpdateEliteSelectionOffspringCounts(
NeatPopulation <T> pop,
NeatEvolutionAlgorithmSettings eaSettings,
IRandomSource rng)
{
Species <T>[] speciesArr = pop.SpeciesArray !;
// Loop the species, calculating and storing the various size/count properties.
int bestGenomeSpeciesIdx = pop.NeatPopulationStats.BestGenomeSpeciesIdx;
for (int i = 0; i < speciesArr.Length; i++)
{
bool isBestGenomeSpecies = (bestGenomeSpeciesIdx == i);
AllocateEliteSelectionOffspringCounts(speciesArr[i], eaSettings, isBestGenomeSpecies, rng);
}
}
/// <summary>
/// Fill an array with samples from the standard Gaussian distribution, i.e. with mean of 0 and standard deviation of 1.
/// </summary>
/// <param name="rng">Random source.</param>
/// <param name="buf">The array to fill with samples.</param>
public static void Sample(IRandomSource rng, double[] buf)
{
int i = 0;
for (; i <= buf.Length - 2; i += 2)
{
var pair = Sample(rng);
buf[i] = pair.Item1;
buf[i + 1] = pair.Item2;
}
if (i < buf.Length)
{
buf[i] = Sample(rng).Item1;
}
}
/// <summary>
/// Fill an array with samples from a Gaussian distribution with the specified mean and standard deviation.
/// </summary>
/// <param name="rng">Random source.</param>
/// <param name="mean">Distribution mean.</param>
/// <param name="stdDev">Distribution standard deviation.</param>
/// <param name="buf">The array to fill with samples.</param>
public static void Sample(IRandomSource rng, double mean, double stdDev, double[] buf)
{
int i = 0;
for (; i <= buf.Length - 2; i += 2)
{
var pair = Sample(rng);
buf[i] = mean + (pair.Item1 * stdDev);
buf[i + 1] = mean + (pair.Item2 * stdDev);
}
if (i < buf.Length)
{
buf[i] = mean + (Sample(rng).Item1 *stdDev);
}
}
/// <summary>
/// Fill a span with samples from a Gaussian distribution with the specified mean and standard deviation.
/// </summary>
/// <param name="rng">Random source.</param>
/// <param name="mean">Distribution mean.</param>
/// <param name="stdDev">Distribution standard deviation.</param>
/// <param name="span">The span to fill with samples.</param>
public static void Sample(IRandomSource rng, float mean, float stdDev, Span <float> span)
{
int i = 0;
for (; i <= span.Length - 2; i += 2)
{
var pair = Sample(rng);
span[i] = mean + (pair.Item1 * stdDev);
span[i + 1] = mean + (pair.Item2 * stdDev);
}
if (i < span.Length)
{
span[i] = mean + (Sample(rng).Item1 *stdDev);
}
}
/// <summary>
/// Randomly shuffles a sub-span of items within a list.
/// </summary>
/// <param name="list">The list to shuffle.</param>
/// <param name="rng">Random number generator.</param>
/// <param name="startIdx">The index of the first item in the segment.</param>
/// <param name="endIdx">The index of the last item in the segment, i.e. endIdx is inclusive; the item at endIdx will participate in the shuffle.</param>
public static void Shuffle <T>(IList <T> list, IRandomSource rng, int startIdx, int endIdx)
{
// Fisher–Yates shuffle.
// https://en.wikipedia.org/wiki/Fisher%E2%80%93Yates_shuffle
// Determine how many items in the list will be being shuffled
int itemCount = (endIdx - startIdx);
for (int i = endIdx; i > startIdx; i--)
{
int swapIdx = startIdx + rng.Next((i - startIdx) + 1);
T tmp = list[swapIdx];
list[swapIdx] = list[i];
list[i] = tmp;
}
}
/// <summary>
/// Fill a span with samples from the standard Gaussian distribution, i.e. with mean of 0 and standard deviation of 1.
/// </summary>
/// <param name="rng">Random source.</param>
/// <param name="span">The span to fill with samples.</param>
public static void Sample(IRandomSource rng, Span <float> span)
{
int i = 0;
for (; i <= span.Length - 2; i += 2)
{
var pair = Sample(rng);
span[i] = pair.Item1;
span[i + 1] = pair.Item2;
}
if (i < span.Length)
{
span[i] = Sample(rng).Item1;
}
}
/// <summary>
/// Create a sampler for the Gaussian distribution with the specified mean and standard deviation.
/// </summary>
/// <typeparam name="T">Data type of the samples.</typeparam>
/// <param name="mean">Distribution mean.</param>
/// <param name="stdDev">Distribution standard deviation.</param>
/// <param name="rng">Random source.</param>
/// <returns>A new instance of <see cref="ISampler{T}"/>.</returns>
public static ISampler <T> CreateSampler <T>(double mean, double stdDev, IRandomSource rng)
where T : struct
{
if (typeof(T) == typeof(double))
{
return((ISampler <T>) new Double.ZigguratGaussianSampler(mean, stdDev, rng));
}
else if (typeof(T) == typeof(float))
{
return((ISampler <T>) new Float.ZigguratGaussianSampler((float)mean, (float)stdDev, rng));
}
else
{
throw new ArgumentException("Unsupported type argument");
}
}
/// <summary>
/// Create a new child genome based on the genetic content of two parent genome.
/// </summary>
/// <param name="parent1">Parent 1.</param>
/// <param name="parent2">Parent 2.</param>
/// <param name="rng">Random source.</param>
/// <returns>A new child genome.</returns>
public NeatGenome <T> CreateGenome(
NeatGenome <T> parent1,
NeatGenome <T> parent2,
IRandomSource rng)
{
try
{
return(CreateGenomeInner(parent1, parent2, rng));
}
finally
{
// Clear down ready for re-use of the builder on the next call to CreateGenome().
// Re-using in this way avoids having to de-alloc and re-alloc memory, thus reducing garbage collection overhead.
_connGeneListBuilder.Clear();
}
}
private List <NeatGenome <T> > CreateOffspring(
Species <T>[] speciesArr,
DiscreteDistribution speciesDist,
DiscreteDistribution[] genomeDistArr,
double interspeciesMatingProportion,
IRandomSource rng)
{
// Calc total number of offspring to produce for the population as a whole.
int offspringCount = speciesArr.Sum(x => x.Stats.OffspringCount);
// Create an empty list to add the offspring to (with preallocated storage).
var offspringList = new List <NeatGenome <T> >(offspringCount);
for (int speciesIdx = 0; speciesIdx < speciesArr.Length; speciesIdx++)
{
// Get the current species.
Species <T> species = speciesArr[speciesIdx];
// Get the DiscreteDistribution for genome selection within this species.
DiscreteDistribution genomeDist = genomeDistArr[speciesIdx];
// Determine how many offspring to create through asexual and sexual reproduction.
SpeciesStats stats = species.Stats;
int offspringCountAsexual = stats.OffspringAsexualCount;
int offspringCountSexual = stats.OffspringSexualCount;
// Special case: A species with a single genome marked for selection, cannot perform intra-species sexual reproduction.
if (species.Stats.SelectionSizeInt == 1)
{
// Note. here we assign all the sexual reproduction allocation to asexual reproduction. In principle
// we could still perform inter species sexual reproduction, but that complicates the code further
// for minimal gain.
offspringCountAsexual += offspringCountSexual;
offspringCountSexual = 0;
}
// Create a copy of speciesDist with the current species removed from the set of possibilities.
// Note. The remaining probabilities are normalised to sum to one.
DiscreteDistribution speciesDistUpdated = speciesDist.RemoveOutcome(speciesIdx);
// Create offspring from the current species.
CreateSpeciesOffspringAsexual(species, genomeDist, offspringCountAsexual, offspringList, rng);
CreateSpeciesOffspringSexual(speciesArr, species, speciesDistUpdated, genomeDistArr, genomeDist, offspringCountSexual, offspringList, rng);
}
return(offspringList);
}
public void UpdateSpeciesAllocationSizes()
{
IRandomSource rng = RandomDefaults.CreateRandomSource(0);
NeatEvolutionAlgorithmSettings eaSettings = new()
{
SpeciesCount = 4
};
// Create population.
NeatPopulation <double> neatPop = CreateNeatPopulation(100, eaSettings.SpeciesCount, 2, 2, 1.0);
// Manually set-up some species.
var speciesArr = neatPop.SpeciesArray;
speciesArr[0].GenomeList.AddRange(neatPop.GenomeList.Take(25));
speciesArr[1].GenomeList.AddRange(neatPop.GenomeList.Skip(25).Take(25));
speciesArr[2].GenomeList.AddRange(neatPop.GenomeList.Skip(50).Take(25));
speciesArr[3].GenomeList.AddRange(neatPop.GenomeList.Skip(75).Take(25));
// Manually assign fitness scores to the genomes.
speciesArr[0].GenomeList.ForEach(x => x.FitnessInfo = new FitnessInfo(100.0));
speciesArr[1].GenomeList.ForEach(x => x.FitnessInfo = new FitnessInfo(200.0));
speciesArr[2].GenomeList.ForEach(x => x.FitnessInfo = new FitnessInfo(400.0));
speciesArr[3].GenomeList.ForEach(x => x.FitnessInfo = new FitnessInfo(800.0));
// Invoke species target size calcs.
neatPop.UpdateStats(PrimaryFitnessInfoComparer.Singleton, rng);
SpeciesAllocationCalcs <double> .UpdateSpeciesAllocationSizes(
neatPop, eaSettings, RandomDefaults.CreateRandomSource());
// Species target sizes should be relative to the species mean fitness.
double totalMeanFitness = 1500.0;
double popSize = 100.0;
Assert.Equal((100.0 / totalMeanFitness) * popSize, speciesArr[0].Stats.TargetSizeReal);
Assert.Equal((200.0 / totalMeanFitness) * popSize, speciesArr[1].Stats.TargetSizeReal);
Assert.Equal((400.0 / totalMeanFitness) * popSize, speciesArr[2].Stats.TargetSizeReal);
Assert.Equal((800.0 / totalMeanFitness) * popSize, speciesArr[3].Stats.TargetSizeReal);
// Note. Discretized target sizes will generally be equal to ceil(TargetSizeReal) or floor(TargetSizeReal),
// but may not be due to the target size adjustment logic that is used to ensure that sum(TargetSizeInt) is equal
// to the required population size.
// Check that sum(TargetSizeInt) is equal to the required population size.
Assert.Equal(speciesArr.Sum(x => x.Stats.TargetSizeInt), neatPop.GenomeList.Count);
}
public void TestCreateGenome()
{
var metaNeatGenome = new MetaNeatGenome <double>(
inputNodeCount: 10,
outputNodeCount: 20,
isAcyclic: true,
activationFn: new SharpNeat.NeuralNet.Double.ActivationFunctions.ReLU());
var genomeBuilder = NeatGenomeBuilderFactory <double> .Create(metaNeatGenome);
int count = 100;
NeatPopulation <double> pop = NeatPopulationFactory <double> .CreatePopulation(metaNeatGenome, 0.1, count, RandomDefaults.CreateRandomSource());
var strategy = new UniformCrossoverReproductionStrategy <double>(
pop.MetaNeatGenome.IsAcyclic,
0.02,
genomeBuilder,
pop.GenomeIdSeq, pop.GenerationSeq);
IRandomSource rng = RandomDefaults.CreateRandomSource(0);
var cyclicGraphAnalysis = new CyclicGraphAnalysis();
for (int i = 0; i < 1000; i++)
{
// Randomly select two parents from the population.
var genome1 = pop.GenomeList[rng.Next(count)];
var genome2 = pop.GenomeList[rng.Next(count)];
var childGenome = strategy.CreateGenome(genome1, genome2, rng);
// The connection genes should be sorted.
Assert.IsTrue(SortUtils.IsSortedAscending(childGenome.ConnectionGenes._connArr));
// The child genome should describe an acyclic graph, i.e. the new connection should not have
// formed a cycle in the graph.
var digraph = childGenome.DirectedGraph;
Assert.IsFalse(cyclicGraphAnalysis.IsCyclic(digraph));
// The child genome node IDs should be a superset of those from parent1 + parent2.
var childNodeIdSet = GetNodeIdSet(childGenome);
var parentIdSet = GetNodeIdSet(genome1);
parentIdSet.IntersectWith(GetNodeIdSet(genome2));
Assert.IsTrue(childNodeIdSet.IsSupersetOf(parentIdSet));
}
}
public void WriteZeroBytes()
{
byte[] buf = Array.Empty<byte>();
MemoryBlockStream ms = new MemoryBlockStream();
ms.Write(buf, 0, 0);
Assert.Equal(0, ms.Length);
IRandomSource rng = RandomDefaults.CreateRandomSource(1234567);
byte[] buf2 = new byte[100];
rng.NextBytes(buf2);
ms.Write(buf2);
Assert.Equal(ms.ToArray(), buf2);
ms.Write(buf, 0, 0);
Assert.Equal(ms.Length, buf2.Length);
}
public AddNodeStrategy(
MetaNeatGenome <T> metaNeatGenome,
INeatGenomeBuilder <T> genomeBuilder,
Int32Sequence genomeIdSeq,
Int32Sequence innovationIdSeq,
Int32Sequence generationSeq,
AddedNodeBuffer addedNodeBuffer,
IRandomSource rng)
{
_metaNeatGenome = metaNeatGenome;
_genomeBuilder = genomeBuilder;
_genomeIdSeq = genomeIdSeq;
_innovationIdSeq = innovationIdSeq;
_generationSeq = generationSeq;
_addedNodeBuffer = addedNodeBuffer;
_rng = rng;
}
public void Setup()
{
// Alloc arrays.
_keysRandom = new int[ArrayLength];
_keysNaturalRandom = new int[ArrayLength];
_vals = new int[ArrayLength];
_arrays = new int[ArrayCount][];
for(int i=0; i < _arrays.Length; i++) {
_arrays[i] = new int[ArrayLength];
}
// Fill key arrays with random values.
IRandomSource rng = RandomDefaults.CreateRandomSource(123);
SortBenchmarkUtils.InitRandom(_keysRandom, rng);
SortBenchmarkUtils.InitNatural(_keysNaturalRandom, rng);
}
/// <summary>
/// Construct with the given distribution and a random source.
/// </summary>
/// <param name="rng">Random source.</param>
public UniformDistributionSampler(float max, bool signed, IRandomSource rng)
{
_max = max;
_signed = signed;
_rng = rng;
// Note. We predetermine which of these two function variants to use at construction time,
// thus avoiding a branch on each invocation of Sample() (i.e. this is a micro-optimization).
if (signed)
{
_sampleFn = (r) => UniformDistribution.SampleSigned(r, _max);
}
else
{
_sampleFn = (r) => UniformDistribution.Sample(r, _max);
}
}
/// <summary>
/// Randomly shuffles a sub-span of items within a list.
/// </summary>
/// <param name="list">The list to shuffle.</param>
/// <param name="rng">Random number generator.</param>
/// <param name="startIdx">The index of the first item in the segment.</param>
/// <param name="endIdx">The index of the last item in the segment, i.e. endIdx is inclusive; the item at endIdx will participate in the shuffle.</param>
public static void Shuffle <T>(IList <T> list, IRandomSource rng, int startIdx, int endIdx)
{
// Determine how many items in the list will be being shuffled
int itemCount = (endIdx - startIdx);
// This approach was suggested by Jon Skeet in a dotNet newsgroup post and
// is also the technique used by the OpenJDK. The use of rnd.Next(i+1) introduces
// the possibility of swapping an item with itself, I suspect the reasoning behind this
// has to do with ensuring the probability of each possible permutation is approximately equal.
for (int i = endIdx; i > startIdx; i--)
{
int swapIndex = startIdx + rng.Next((i - startIdx) + 1);
T tmp = list[swapIndex];
list[swapIndex] = list[i];
list[i] = tmp;
}
}
/// <summary>
/// Initializes the data generator.
/// </summary>
public DataGenerator(IRandomSource random)
{
m_maxArrayLength = 100;
m_maxStringLength = 100;
m_maxXmlAttributeCount = 10;
m_maxXmlElementCount = 10;
m_minDateTimeValue = new DateTime(1900, 1, 1, 0, 0, 0, DateTimeKind.Utc);
m_maxDateTimeValue = new DateTime(2100, 1, 1, 0, 0, 0, DateTimeKind.Utc);
m_random = random;
m_boundaryValueFrequency = 20;
m_namespaceUris = new NamespaceTable();
m_serverUris = new StringTable();
// create a random source if none provided.
if (m_random == null)
{
m_random = new RandomSource();
}
// load the boundary values.
m_boundaryValues = new SortedDictionary <string, object[]>();
for (int ii = 0; ii < s_AvailableBoundaryValues.Length; ii++)
{
m_boundaryValues[s_AvailableBoundaryValues[ii].SystemType.Name] =
s_AvailableBoundaryValues[ii].Values.ToArray();
}
// load the localized tokens.
m_tokenValues = LoadStringData("Opc.Ua.Types.Utils.LocalizedData.txt");
if (m_tokenValues.Count == 0)
{
m_tokenValues = LoadStringData("Opc.Ua.Utils.LocalizedData.txt");
}
// index the available locales.
m_availableLocales = new string[m_tokenValues.Count];
int index = 0;
foreach (string locale in m_tokenValues.Keys)
{
m_availableLocales[index++] = locale;
}
}
/// <summary>
/// Construct a new instance.
/// </summary>
/// <param name="eaSettings">NEAT evolution algorithm settings.</param>
/// <param name="evaluator">An evaluator of lists of genomes.</param>
/// <param name="speciationStrategy">Speciation strategy.</param>
/// <param name="population">An initial population of genomes.</param>
/// <param name="reproductionAsexualSettings">Asexual reproduction settings.</param>
/// <param name="reproductionSexualSettings">Sexual reproduction settings.</param>
/// <param name="weightMutationScheme">Connection weight mutation scheme.</param>
/// <param name="rng">Random source.</param>
public NeatEvolutionAlgorithm(
NeatEvolutionAlgorithmSettings eaSettings,
IGenomeListEvaluator <NeatGenome <T> > evaluator,
ISpeciationStrategy <NeatGenome <T>, T> speciationStrategy,
NeatPopulation <T> population,
NeatReproductionAsexualSettings reproductionAsexualSettings,
NeatReproductionSexualSettings reproductionSexualSettings,
WeightMutationScheme <T> weightMutationScheme,
IRandomSource rng)
{
_eaSettings = eaSettings ?? throw new ArgumentNullException(nameof(eaSettings));
_evaluator = evaluator ?? throw new ArgumentNullException(nameof(evaluator));
_speciationStrategy = speciationStrategy ?? throw new ArgumentNullException(nameof(speciationStrategy));
_pop = population ?? throw new ArgumentNullException(nameof(population));
if (reproductionAsexualSettings == null)
{
throw new ArgumentNullException(nameof(reproductionAsexualSettings));
}
if (reproductionSexualSettings == null)
{
throw new ArgumentNullException(nameof(reproductionSexualSettings));
}
_rng = rng;
if (eaSettings.SpeciesCount > population.PopulationSize)
{
throw new ArgumentException("Species count is higher then the population size.");
}
_generationSeq = new Int32Sequence();
_reproductionAsexual = new NeatReproductionAsexual <T>(
_pop.MetaNeatGenome, _pop.GenomeBuilder,
_pop.GenomeIdSeq, population.InnovationIdSeq, _generationSeq,
_pop.AddedNodeBuffer, reproductionAsexualSettings, weightMutationScheme);
_reproductionSexual = new NeatReproductionSexual <T>(
_pop.MetaNeatGenome, _pop.GenomeBuilder,
_pop.GenomeIdSeq, population.InnovationIdSeq, _generationSeq,
_pop.AddedNodeBuffer, reproductionSexualSettings);
_offspringBuilder = new OffspringBuilder <T>(_reproductionAsexual, _reproductionSexual, _eaSettings.InterspeciesMatingProportion);
}
private static NeatGenome <double> CreateAndTestChildGenome(
NeatGenome <double> parentGenome,
AddNodeStrategy <double> strategy,
IRandomSource rng)
{
var nodeIdSet = GetNodeIdSet(parentGenome);
var connSet = GetDirectedConnectionSet(parentGenome);
var childGenome = strategy.CreateChildGenome(parentGenome, rng);
// The connection genes should be sorted.
Assert.IsTrue(SortUtils.IsSortedAscending(childGenome.ConnectionGenes._connArr));
// The child genome should have one more connection than parent.
Assert.AreEqual(parentGenome.ConnectionGenes.Length + 1, childGenome.ConnectionGenes.Length);
// The child genome should have one more node ID than the parent.
var childNodeIdSet = GetNodeIdSet(childGenome);
var newNodeIdList = new List <int>(childNodeIdSet.Except(nodeIdSet));
Assert.AreEqual(1, newNodeIdList.Count);
int newNodeId = newNodeIdList[0];
// The child genome's new connections should not be a duplicate of any of the existing/parent connections.
var childConnSet = GetDirectedConnectionSet(childGenome);
var newConnList = new List <DirectedConnection>(childConnSet.Except(connSet));
Assert.AreEqual(2, newConnList.Count);
// The parent should have one connection that the child does not, i.e. the connection that was replaced.
var removedConnList = new List <DirectedConnection>(connSet.Except(childConnSet));
Assert.AreEqual(1, removedConnList.Count);
// The two new connections should connect to the new node ID.
var connRemoved = removedConnList[0];
var connA = newConnList[0];
var connB = newConnList[1];
Assert.IsTrue(
(connA.SourceId == connRemoved.SourceId && connA.TargetId == newNodeId && connB.SourceId == newNodeId && connB.TargetId == connRemoved.TargetId) ||
(connB.SourceId == connRemoved.SourceId && connB.TargetId == newNodeId && connA.SourceId == newNodeId && connA.TargetId == connRemoved.TargetId));
return(childGenome);
}
public static void TestSpeciateAdd(
int popSize,
int inputNodeCount,
int outputNodeCount,
double connectionsProportion,
IDistanceMetric <double> distanceMetric,
ISpeciationStrategy <NeatGenome <double>, double> speciationStrategy,
IRandomSource rng,
bool validateNearestSpecies = true)
{
// Create population.
NeatPopulation <double> neatPop = CreateNeatPopulation(popSize, inputNodeCount, outputNodeCount, connectionsProportion);
// Split the population into three.
int popSize1 = popSize / 3;
int popSize2 = popSize / 3;
int popSize3 = popSize - (popSize1 + popSize2);
var genomeList1 = neatPop.GenomeList.GetRange(0, popSize1);
var genomeList2 = neatPop.GenomeList.GetRange(popSize1, popSize2);
var genomeList3 = neatPop.GenomeList.GetRange(popSize1 + popSize2, popSize3);
for (int i = 0; i < 6; i++)
{
int speciesCount = rng.Next(1, (neatPop.GenomeList.Count / 4) + 1);
var fullGenomeList = new List <NeatGenome <double> >(genomeList1);
// Invoke speciation strategy, and run tests
var speciesArr = speciationStrategy.SpeciateAll(genomeList1, speciesCount, rng);
ValidationTests(speciesArr, distanceMetric, speciesCount, fullGenomeList, validateNearestSpecies);
// Add second batch of genomes, and re-run tests.
speciationStrategy.SpeciateAdd(genomeList2, speciesArr, rng);
fullGenomeList.AddRange(genomeList2);
ValidationTests(speciesArr, distanceMetric, speciesCount, fullGenomeList, validateNearestSpecies);
// Add third batch of genomes, and re-run tests.
speciationStrategy.SpeciateAdd(genomeList3, speciesArr, rng);
fullGenomeList.AddRange(genomeList3);
ValidationTests(speciesArr, distanceMetric, speciesCount, fullGenomeList, validateNearestSpecies);
}
}
private static void TestRangeRandomOrderInner(int start, int count, IRandomSource rng)
{
// Enumerate the sequence and store the result in an array.
int[] arr = EnumerableUtils.RangeRandomOrder(start, count, rng).ToArray();
// Perform some simple tests.
AssertSimpleTests(start, count, arr);
// Basic randomness test.
// As we progress through the sequence, count the number of times and entry is higher and lower than the previous entry.
// For an ordered sequence the 'lower' count will be zero. For a truly random sequence the two counts have an expected
// 50/50 distribution, although any given random sequence may differ substantially from the expected value. By fixing the
// random seed we at least ensure that the unit test will pass rather than passing most of the time(!)
CountLowHighTransitions(arr, out int lo, out int hi);
Assert.IsTrue(hi > 46);
Assert.IsTrue(lo > 46);
}
public NeatReproductionSexual(
MetaNeatGenome <T> metaNeatGenome,
INeatGenomeBuilder <T> genomeBuilder,
Int32Sequence genomeIdSeq,
Int32Sequence innovationIdSeq,
Int32Sequence generationSeq,
AddedNodeBuffer addedNodeBuffer,
NeatReproductionSexualSettings settings,
IRandomSourceBuilder rngBuilder)
{
_settings = settings;
_rng = rngBuilder.Create();
_strategy = new UniformCrossoverReproductionStrategy <T>(
metaNeatGenome, genomeBuilder,
genomeIdSeq, generationSeq,
rngBuilder.Create());
}
public AddCyclicConnectionStrategy(
MetaNeatGenome <T> metaNeatGenome,
INeatGenomeBuilder <T> genomeBuilder,
Int32Sequence genomeIdSeq,
Int32Sequence innovationIdSeq,
Int32Sequence generationSeq,
IRandomSource rng)
{
_metaNeatGenome = metaNeatGenome;
_genomeBuilder = genomeBuilder;
_genomeIdSeq = genomeIdSeq;
_innovationIdSeq = innovationIdSeq;
_generationSeq = generationSeq;
_weightDistA = ContinuousDistributionFactory.CreateUniformDistribution <T>(_metaNeatGenome.ConnectionWeightRange, true);
_weightDistB = ContinuousDistributionFactory.CreateUniformDistribution <T>(_metaNeatGenome.ConnectionWeightRange * 0.01, true);
_rng = rng;
}
public void SampleUniformWithoutReplacement_SampleAllChoices()
{
const int size = 5;
IRandomSource rng = RandomDefaults.CreateRandomSource();
// Sample all of the elements.
int[] sampleArr = new int[size];
DiscreteDistribution.SampleUniformWithoutReplacement(rng, size, sampleArr);
// Sort the samples.
Array.Sort(sampleArr);
// Confirm that all of the choices were selected.
for (int i = 0; i < size; i++)
{
Assert.Equal(i, sampleArr[i]);
}
}
public MemoryStreamFuzzer(MemoryStream strmA, MemoryBlockStream strmB, int seed)
{
_strmA = strmA;
_strmB = strmB;
_rng = RandomDefaults.CreateRandomSource((ulong)seed);
_opDistribution = new DiscreteDistribution(
new double[]
{
0.688, // Write
0.05, // Write byte
0.05, // Change read/write head position.
0.05, // SetLength
0.05, // Seek
0.002, // Trim
0.01, // Read byte
0.1, // Read
});
}
/// <summary>Generates a sequence of integral numbers within a specified range and in random order.</summary>
/// <param name="start">The value of the first integer in the sequence.</param>
/// <param name="count">The number of sequential integers to generate.</param>
/// <param name="rng">Random source.</param>
/// <returns>A new IEnumerable{int}.</returns>
public static IEnumerable <int> RangeRandomOrder(int start, int count, IRandomSource rng)
{
if (count < 0 || (((long)start + count) - 1L) > int.MaxValue)
{
throw new ArgumentOutOfRangeException(nameof(count));
}
// Initialise an array of all indexes to be yielded.
int[] arr = ArrayPool <int> .Shared.Rent(count);
try
{
for (int i = 0; i < count; i++)
{
arr[i] = start + i;
}
// Yield all values in turn, applying a Fisher–Yates shuffle as we go in order to randomize the yield order.
// See https://en.wikipedia.org/wiki/Fisher%E2%80%93Yates_shuffle
for (int i = count - 1; i > 0; i--)
{
// Select at random from the remaining available slots.
int selectIdx = rng.Next(i + 1);
// Store the yield value.
int tmp = arr[selectIdx];
// Replace the selected slot value with a value that has not yet been selected.
// This is half of the Fisher–Yates swap, but since we don't need the final
// shuffled array we can omit moving the yielded value into its new slot.
arr[selectIdx] = arr[i];
// Yield the value from the randomly selected slot.
yield return(tmp);
}
// Yield final value.
yield return(arr[0]);
}
finally
{
ArrayPool <int> .Shared.Return(arr);
}
}
public void SelectSubset_Uniqueness()
{
IRandomSource rng = RandomDefaults.CreateRandomSource();
var strategy = new CardinalSubsetSelectionStrategy(30);
for (int i = 0; i < 20; i++)
{
int[] idxArr = strategy.SelectSubset(20, rng);
HashSet <int> idxSet = new();
for (int j = 0; j < idxArr.Length; j++)
{
int val = idxArr[j];
Assert.DoesNotContain(val, idxSet);
idxSet.Add(val);
}
}
}
public void TestAddNode1()
{
var pop = CreateNeatPopulation();
var genomeBuilder = NeatGenomeBuilderFactory <double> .Create(pop.MetaNeatGenome);
var genome = pop.GenomeList[0];
var strategy = new AddNodeStrategy <double>(
pop.MetaNeatGenome, genomeBuilder,
pop.GenomeIdSeq, pop.InnovationIdSeq, pop.GenerationSeq,
pop.AddedNodeBuffer);
IRandomSource rng = RandomDefaults.CreateRandomSource();
for (int i = 0; i < 10000; i++)
{
NeatGenome <double> childGenome = CreateAndTestChildGenome(genome, strategy, rng);
}
}
public string Generate(int maxLength, IRandomSource random)
{
ChainItem current = null;
var result = new StringBuilder();
int count = 0;
while (count < maxLength)
{
if (current == null)
{
current = _items.Values.Where (i => i.CanStart).OrderBy (_ => Builders.Build<int>(random)).First ();
result.Append (current.Value);
count++;
continue;
}
if (current.CanFinish && Builders.Build<byte>(random) % 10 < 3)
{
result.Append (_endOfSequence + _separator);
current = null;
continue;
}
var next = current.PickNext(random);
if (next == null)
{
result.Append (_endOfSequence + _separator);
current = null;
continue;
}
current = _items [next];
result.Append (_separator + current.Value);
count++;
}
return result.ToString ();
}
public static void Start(IRandomSource source)
{
_current = new Session(source);
}
static int Generate(IRandomSource source)
{
return Math.Abs(Builders.Build<short>(source)) % 9000 + 1000;
}
/// <summary>
/// Initializes the random numbers generator.
/// </summary>
public RandomSourceManager()
{
RandomSourceSettings settings = UserSettings.GetSettings(typeof(RandomSourceSettings)) as RandomSourceSettings;
if (settings != null)
{
// Try reading the random source specified in the settings
IRandomSource selectedRandomSource = null;
foreach (TypeExtensionNode node in AddinManager.GetExtensionNodes("/RandomSourcesSupport/RandomSource"))
{
IRandomSource randomSource = node.CreateInstance() as IRandomSource;
string randomSourceDescription;
if (randomSource is IDescription)
randomSourceDescription = ((IDescription)randomSource).Description;
else
randomSourceDescription = string.Empty;
if (randomSourceDescription == settings.RngRandomSource)
{
selectedRandomSource = randomSource;
break;
}
}
if (selectedRandomSource == null)
{
// If the random source is still null use the default one
TypeExtensionNode node = ExtensionsDefault.GetDefault("/RandomSourcesSupport/RandomSource");
if (node != null)
selectedRandomSource = node.CreateInstance() as IRandomSource;
}
// Set the random source and initialize it
this.randomSource = selectedRandomSource;
}
}
internal void SetRandomSource(IRandomSource randomSource)
{
Random = randomSource;
}
private Session(IRandomSource source)
{
Source = source;
}
