AdjustFitnesses()
{
float total = 0;
for (int i = 0; i < m_vecMembers.Count; i++)
{
CGenome member = m_vecMembers[i];
float fitness = member.Fitness();
if (m_iAge < _params.YoungAgeThreshold)
{
fitness *= _params.YoungFitnessBonus;
}
else if (m_iAge > _params.OldAgeThreshold)
{
fitness *= _params.OldAgePenalty;
}
total += fitness;
// Calculation of fitness sharing
float adjustedFitness = fitness / m_vecMembers.Count;
member.SetAdjustedFitness(adjustedFitness);
}
}
ResetAndKill()
{
m_dTotFitAdj = 0;
m_dAvFitAdj = 0;
// Purge the species that doesn't improve
for (int i = m_vecSpecies.Count - 1; i >= 0; i--)
{
CSpecies species = m_vecSpecies[i];
species.Purge();
if (species.GensNoImprovement() >
_params.NumGensAllowedNoImprovement &&
species.BestFitness() < m_dBestEverFitness)
{
m_vecSpecies.RemoveAt(i);
Debug.Log("killed species " + species.ID());
}
}
for (int i = 0; i < m_Population.Count; i++)
{
CGenome genome = m_Population[i];
genome.DeletePhenotype();
}
}
CalculateSpawnAmount()
{
for (int i = 0; i < m_vecMembers.Count; i++)
{
CGenome member = m_vecMembers[i];
m_dAmountToSpawn += member.AmountToSpawn();
}
}
CSpecies(CGenome leader, int speciesID)
{
m_vecMembers = new List <CGenome> ();
m_iSpeciesID = speciesID;
m_dBestFitness = leader.Fitness();
m_Leader = leader;
m_vecMembers.Add(leader);
}
Epoch(Dictionary <int, float> fitnessScores)
{
if (fitnessScores.Count != m_Population.Count)
{
Debug.LogError("scores and genomes mismatch error. (" + fitnessScores.Count + " / " + m_Population.Count + ")");
return(null);
}
ResetAndKill();
for (int i = 0; i < m_Population.Count; i++)
{
CGenome genome = m_Population[i];
genome.SetFitness(fitnessScores[genome.ID()]);
}
SortAndRecord();
SpeciateGenomes();
CalculateSpawnLevels();
Debug.Log("best fitness last gen: " + m_Population[0].Fitness());
List <CGenome> newPopulation = new List <CGenome> ();
int numSpawned = SpawnLeaders(newPopulation);
for (int i = 0; i < m_vecSpecies.Count; i++)
{
CSpecies species = m_vecSpecies[i];
numSpawned = SpawnOffspring(species, numSpawned, newPopulation);
}
/*
* Tournament selection is used over the entire population if due
* to a underflow of the species amount to spawn the offspring
* doesn't fill the entire population additional children needs to
* created.
*/
if (numSpawned < _params.NumGenomesToSpawn)
{
int numMoreToSpawn = _params.NumGenomesToSpawn - numSpawned;
while (numMoreToSpawn-- > 0)
{
CGenome baby = new CGenome(TournamentSelection(m_PopSize / 5));
baby.SetID(++nextGenomeID);
newPopulation.Add(baby);
}
}
m_Population = newPopulation;
m_iGeneration++;
return(CreatePhenotypes());
}
SpawnLeaders(List <CGenome> newPopulation)
{
for (int i = 0; i < m_vecSpecies.Count; i++)
{
CSpecies species = m_vecSpecies[i];
CGenome baby = species.Leader();
Debug.Log("spawning leader (" + baby.Fitness() + "): " + baby.ID() + " for " + species.ID());
newPopulation.Add(baby);
}
return(newPopulation.Count);
}
CreatePhenotypes()
{
List <CNeuralNet> newPhenotypes = new List <CNeuralNet> ();
for (int i = 0; i < m_Population.Count; i++)
{
CGenome genome = m_Population[i];
int depth = CalculateNetDepth(genome);
newPhenotypes.Add(genome.CreatePhenotype(depth));
}
return(newPhenotypes);
}
AddMember(CGenome genome)
{
if (genome.Fitness() > m_dBestFitness)
{
m_dBestFitness = genome.Fitness();
m_iGensWithoutImproving = 0;
m_Leader = genome;
}
m_vecMembers.Add(genome);
/*
* m_vecMembers.Sort(delegate (CGenome a, CGenome b) {
* return b.Fitness().CompareTo(a.Fitness());
* });*/
}
CGenome(CGenome original)
{
m_vecLinks = new List <SLinkGene> ();
m_vecNeurons = new List <SNeuronGene>();
for (int i = 0; i < original.m_vecLinks.Count; i++)
{
m_vecLinks.Add(new SLinkGene(original.m_vecLinks[i]));
}
for (int i = 0; i < original.m_vecNeurons.Count; i++)
{
m_vecNeurons.Add(new SNeuronGene(original.m_vecNeurons[i]));
}
m_iNumInputs = original.m_iNumInputs;
m_iNumOutputs = original.m_iNumOutputs;
m_GenomeID = original.m_GenomeID;
}
CalculateNetDepth(CGenome genome)
{
int maxDepth = 0;
for (int i = 0; i < genome.NumNeurons(); i++)
{
for (int j = 0; j < vecSplits.Count; j++)
{
SplitDepth split = vecSplits[i];
if (genome.SplitY(i) == split.value &&
split.depth > maxDepth)
{
maxDepth = split.depth;
}
}
}
return(maxDepth + 2);
}
TournamentSelection(int numSelections)
{
double bestFitness = 0;
CGenome best = m_Population[0];
for (int i = 0; i < numSelections; i++)
{
CGenome genome = m_Population[Random.Range(0, m_Population.Count)];
if (genome.Fitness() > bestFitness)
{
best = genome;
bestFitness = genome.Fitness();
}
}
return(best);
}
DetermineBestParent(CGenome mum, CGenome dad)
{
if (mum.Fitness() == dad.Fitness())
{
if (mum.NumGenes() == dad.NumGenes())
{
if (Random.value < 0.5)
{
return(ParentType.Mum);
}
else
{
return(ParentType.Dad);
}
}
else
{
/*
* Choose the parent with the fewest genes because
* the fitness is the same.
*/
if (mum.NumGenes() < dad.NumGenes())
{
return(ParentType.Mum);
}
else
{
return(ParentType.Dad);
}
}
}
else
{
if (mum.Fitness() > dad.Fitness())
{
return(ParentType.Mum);
}
else
{
return(ParentType.Dad);
}
}
}
MutateBaby(CGenome baby)
{
if (baby.NumNeurons() < _params.MaxPermittedNeurons)
{
baby.AddNeuron(_params.ChanceAddNode, innovation,
_params.NumTriesToFindOldLink);
}
baby.AddLink(_params.ChanceAddLink,
_params.ChanceAddRecurrentLink, innovation,
_params.NumTriesToFindLoopedLink,
_params.NumAddLinkAttempts);
baby.MutateWeights(_params.MutationRate,
_params.ChanceWeightReplaced,
_params.MaxWeightPerturbation);
baby.MutateActivationResponse(_params.ActivationMutationRate,
_params.MaxActivationPerturbation);
}
CalculateSpawnLevels()
{
for (int i = 0; i < m_Population.Count; i++)
{
CGenome genome = m_Population[i];
float toSpawn = 0;
if (m_dAvFitAdj > 0)
{
toSpawn = genome.GetAdjustedFitness() / m_dAvFitAdj;
}
genome.SetAmountToSpawn(toSpawn);
}
for (int i = 0; i < m_vecSpecies.Count; i++)
{
CSpecies species = m_vecSpecies[i];
species.CalculateSpawnAmount();
}
}
Cga(int inputs, int outputs)
{
m_Population = new List <CGenome> ();
for (int i = 0; i < _params.NumGenomesToSpawn; i++)
{
m_Population.Add(new CGenome(nextGenomeID++, inputs, outputs));
}
m_PopSize = m_Population.Count;
// Create simple genome used for innovations database
CGenome genome = new CGenome(1, inputs, outputs);
m_vecSpecies = new List <CSpecies> ();
innovation = new CInnovation(genome.GetLinks(), genome.GetNeurons());
vecSplits = new List <SplitDepth> ();
// Create the network depth lookup table.
Split(0, 1, 0);
}
Crossover(CGenome mum, CGenome dad)
{
ParentType best = DetermineBestParent(mum, dad);
// The resulting offspring produced are stored in these lists.
List <SNeuronGene> babyNeurons = new List <SNeuronGene>();
List <SLinkGene> babyGenes = new List <SLinkGene>();
List <int> neuronIDs = new List <int>();
SelectGenesToBreed(mum, dad, best, babyGenes, neuronIDs);
neuronIDs.Sort();
// Create the new neurons using the neuron ids.
for (int i = 0; i < neuronIDs.Count; i++)
{
int neuronID = neuronIDs[i];
babyNeurons.Add(this.innovation.CreateNeuronByID(neuronID));
}
// Create the baby genome using the newly created neurons.
return(new CGenome(nextGenomeID++, babyNeurons, babyGenes, mum.NumInputs(), mum.NumOutputs()));
}
GetCompatibilityScore(CGenome other)
{
/*
* Keep track of these numbers because genomes with different
* topologies are unlikely to group together well. Therefore
* the compatability score is based on how different the
* topologies of the genomes are.
*/
float numDisjointGenes = 0;
float numExcessGenes = 0;
float numMatchedGenes = 0;
/*
* The combined error/difference between the weights of the genomes.
* A lower score means the behaviour is more probable to be
* similar.
*/
float weightDifference = 0;
CalculateTopologyDifference(out numDisjointGenes, out numExcessGenes,
out numMatchedGenes, out weightDifference,
other);
float longest = Mathf.Max(NumGenes(), other.NumGenes());
/*
* Coeffecients that are tweaked to influence the score
* roughly the same amount.
*/
const float coefDisjoint = 1.0f;
const float coefExcess = 1.0f;
const float coefMatched = 0.4f;
return((coefExcess * numExcessGenes / longest) +
(coefDisjoint * numDisjointGenes / longest) +
(coefMatched * weightDifference / numMatchedGenes));
}
SpawnOffspring(CSpecies species, int numSpawned,
List <CGenome> newPopulation)
{
CGenome baby = null;
/*
* Prevent overflowing the total number of genomes spawned per population.
*/
if (numSpawned < _params.NumGenomesToSpawn)
{
// Exclude the leader from numToSpawn.
int numToSpawn = Mathf.RoundToInt(species.NumToSpawn()) - 1;
numToSpawn = Mathf.Min(numToSpawn, _params.NumGenomesToSpawn - numSpawned);
Debug.Log("spawning " + numToSpawn + " num indivudals for species " + species.ID() + ", best fitness: " + species.BestFitness());
while (numToSpawn-- > 0)
{
/*
* Unless we have >2 members in the species crossover
* can't be performed.
*/
if (species.NumMembers() == 1)
{
baby = new CGenome(species.Spawn());
}
else
{
CGenome mum = species.Spawn();
if (Random.value < _params.CrossoverRate)
{
CGenome dad = species.Spawn();
int numAttempts = 5;
// try to select a genome which is not the same as mum
while (mum.ID() == dad.ID() && numAttempts-- > 0)
{
dad = species.Spawn();
}
if (mum.ID() != dad.ID())
{
baby = Crossover(mum, dad);
}
else
{
if (Random.value < 0.5f)
{
baby = new CGenome(dad);
}
else
{
baby = new CGenome(mum);
}
}
}
else
{
baby = new CGenome(mum);
}
}
if (baby == null)
{
continue;
}
baby.SetID(++nextGenomeID);
MutateBaby(baby); //EDIT me
baby.SortGenes();
newPopulation.Add(baby);
if (numSpawned++ >= _params.NumGenomesToSpawn)
{
numToSpawn = 0;
break;
}
}
}
return(numSpawned);
}
SpeciateGenomes()
{
bool addedToSpecies = false;
for (int i = 0; i < m_Population.Count; i++)
{
CGenome genome = m_Population[i];
float bestCompatability = 1000;
CSpecies bestSpecies = null;
for (int j = 0; j < m_vecSpecies.Count; j++)
{
CSpecies species = m_vecSpecies[j];
float compatibility = genome.GetCompatibilityScore(species.Leader());
// if this individual is similar to this species leader add to species
if (compatibility < bestCompatability)
{
bestCompatability = compatibility;
bestSpecies = species;
}
}
if (bestCompatability <= _params.CompatibilityThreshold)
{
bestSpecies.AddMember(genome);
genome.SetSpecies(bestSpecies.ID());
addedToSpecies = true;
}
if (!addedToSpecies)
{
// we have not found a compatible species so a new one will be created
m_vecSpecies.Add(new CSpecies(genome, nextSpeciesID++));
}
addedToSpecies = false;
}
/*
* Adjust the fitness for all members of the every species to take
* into account fitness sharing and age of species.
*/
for (int i = 0; i < m_vecSpecies.Count; i++)
{
CSpecies species = m_vecSpecies[i];
species.AdjustFitnesses();
}
/*
* Calculate new adjusted total and average fitness for the population.
*/
for (int i = 0; i < m_Population.Count; i++)
{
CGenome genome = m_Population[i];
m_dTotFitAdj += genome.GetAdjustedFitness();
}
m_dAvFitAdj = m_dTotFitAdj / m_Population.Count;
}
SelectGenesToBreed(CGenome mum, CGenome dad, ParentType best,
List <SLinkGene> babyGenes,
List <int> neuronIDs)
{
List <SLinkGene> mumLinks = mum.GetLinks();
List <SLinkGene> dadLinks = dad.GetLinks();
using (IEnumerator <SLinkGene> mumEnumerator = mumLinks.GetEnumerator())
using (IEnumerator <SLinkGene> dadEnumerator = dadLinks.GetEnumerator())
{
bool hasMumMore = mumEnumerator.MoveNext();
bool hasDadMore = dadEnumerator.MoveNext();
SLinkGene selectedGene = mumEnumerator.Current;
while (hasMumMore || hasDadMore)
{
if (!hasMumMore && hasDadMore)
{
if (best == ParentType.Dad)
{
selectedGene = dadEnumerator.Current;
}
hasDadMore = dadEnumerator.MoveNext();
}
else if (!hasDadMore && hasMumMore)
{
if (best == ParentType.Mum)
{
selectedGene = mumEnumerator.Current;
}
hasMumMore = mumEnumerator.MoveNext();
}
else if (mumEnumerator.Current.InnovationID < dadEnumerator.Current.InnovationID)
{
if (best == ParentType.Mum)
{
selectedGene = mumEnumerator.Current;
}
hasMumMore = mumEnumerator.MoveNext();
}
else if (dadEnumerator.Current.InnovationID < mumEnumerator.Current.InnovationID)
{
if (best == ParentType.Dad)
{
selectedGene = dadEnumerator.Current;
}
hasDadMore = dadEnumerator.MoveNext();
}
else if (dadEnumerator.Current.InnovationID == mumEnumerator.Current.InnovationID)
{
if (Random.value < 0.5f)
{
selectedGene = mumEnumerator.Current;
}
else
{
selectedGene = dadEnumerator.Current;
}
hasMumMore = mumEnumerator.MoveNext();
hasDadMore = dadEnumerator.MoveNext();
}
if (babyGenes.Count == 0)
{
babyGenes.Add(new SLinkGene(selectedGene));
}
else
{
if (babyGenes[babyGenes.Count - 1].InnovationID !=
selectedGene.InnovationID)
{
babyGenes.Add(new SLinkGene(selectedGene));
}
}
AddNeuronID(selectedGene.FromNeuron, neuronIDs);
AddNeuronID(selectedGene.ToNeuron, neuronIDs);
}
}
}
CalculateTopologyDifference(out float numDisjoint, out float numExcess,
out float numMatched, out float weightDiff,
CGenome other)
{
numDisjoint = 0;
numExcess = 0;
numMatched = 0;
weightDiff = 0;
/*
* Current position of the gene in both genomes. We increment the
* position as we traverse the topology of the genomes.
*/
int g1 = 0;
int g2 = 0;
while (g1 < m_vecLinks.Count - 1 || g2 < other.m_vecLinks.Count - 1)
{
// more genes in genome1 than genome2
if (g1 == m_vecLinks.Count - 1)
{
g2++;
numExcess++;
continue;
}
// more gens in genome2 than genome1
if (g2 == other.m_vecLinks.Count - 1)
{
g1++;
numExcess++;
continue;
}
int id1 = m_vecLinks[g1].InnovationID;
int id2 = other.m_vecLinks[g2].InnovationID;
// compare innovation numbers
if (id1 == id2)
{
g1++;
g2++;
numMatched++;
weightDiff += Mathf.Abs((float)(m_vecLinks[g1].Weight - other.m_vecLinks[g2].Weight));
}
if (id1 < id2)
{
g1++;
numDisjoint++;
}
if (id1 > id2)
{
g2++;
numDisjoint++;
}
}
}