public Phenotype(Neat neat, NeatChromosome chromosome, InnovationCacher currentGeneration)
{
_layerMap = new Dictionary <int, IList <NeatNeuron> >();
_neat = neat;
Chromosome = chromosome;
MutateAndBuild(currentGeneration);
}
public double GetGeneticalDistanceFrom(NeatChromosome other)
{
var totalWeightDifference = 0.0;
var overlapingGenes = 0;
var smallerSize = System.Math.Min(GeneCount, other.GeneCount);
for (var i = 0;
i < smallerSize && GetGeneAt(i)
.History == other.GetGeneAt(i)
.History;
++i)
{
totalWeightDifference += System.Math.Abs(GetGeneAt(i)
.Weight - other.GetGeneAt(i)
.Weight);
overlapingGenes++;
}
var disjointGenes = GeneCount + other.GeneCount - 2 * overlapingGenes;
var disjointGenesInfluence = (double)disjointGenes;
var averageWeightDifference = totalWeightDifference / overlapingGenes;
disjointGenesInfluence *= _neat.Speciation.ImportanceOfDisjointGenes;
averageWeightDifference *= _neat.Speciation.ImportanceOfAverageWeightDifference;
return(disjointGenesInfluence + averageWeightDifference);
}
public void AssignHistory(NeatChromosome chromosome)
{
for (var i = 0; i < chromosome.GeneCount; i++)
{
AssignHistory(chromosome.GetGeneAt(i));
}
}
public Phenotype(Neat neat, NeatChromosome chromosome)
{
_layerMap = new Dictionary <int, IList <NeatNeuron> >();
_neat = neat;
Chromosome = chromosome;
BuildFromGenes();
}
public void CreateInitialOrganisms(IList <IBody> bodies)
{
_species.Clear();
for (var i = 0; i < bodies.Count; i++)
{
var body = bodies[i];
var standardGenes = new NeatChromosome(_neat, body.InputCount, body.OutputCount);
_innovationCacher.AssignHistory(standardGenes);
var phenotype = new Phenotype(_neat, standardGenes);
var organism = new Organism(_neat, body, phenotype);
FillOrganismIntoSpecies(organism);
}
}
public bool IsCompatible(NeatChromosome chromosome)
{
var distance = _representative.Chromosome.GetGeneticalDistanceFrom(chromosome);
return(!IsAboveCompatibilityThreshold(distance));
}