public ConnectionString this[ConnectionDefinition def]
{
get
{
if (!_dico.ContainsKey(def))
_dico[def] = new ConnectionString();
return _dico[def];
}
set
{
_dico[def] = value;
}
}
/// <summary>
/// Creates a single randomly initialised genome.
/// A random set of connections are made form the input to the output neurons, the number of
/// connections made is based on the NeatGenomeParameters.InitialInterconnectionsProportion
/// which specifies the proportion of all posssible input-output connections to be made in
/// initial genomes.
/// The connections that are made are allocated innovation IDs in a consistent manner across
/// the initial population of genomes. To do this we allocate IDs sequentially to all possible
/// interconnections and then randomly select some proportion of connections for inclusion in the
/// genome. In addition, for this scheme to work the innovation ID generator must be reset to zero
/// prior to each call to CreateGenome(), and a test is made to ensure this is the case.
/// The consistent allocation of innovation IDs ensure that equivalent connections in different
/// genomes have the same innovation ID, and although this isn't strictly necessary it is
/// required for sexual reproduction to work effectively - like structures are detected by comparing
/// innovation IDs only.
/// </summary>
/// <param name="birthGeneration">
/// The current evolution algorithm generation.
/// Assigned to the new genome as its birth generation.
/// </param>
public override NeatGenome CreateGenome(uint birthGeneration)
{
NeuronGeneList neuronGeneList = new NeuronGeneList(_inputNeuronCount + _outputNeuronCount + _hiddenNeuronCount);
NeuronGeneList inputNeuronGeneList = new NeuronGeneList(_inputNeuronCount); // includes single bias neuron.
NeuronGeneList outputNeuronGeneList = new NeuronGeneList(_outputNeuronCount);
NeuronGeneList hiddenNeuronGeneList = new NeuronGeneList(_hiddenNeuronCount);
// Create a single bias neuron.
uint biasNeuronId = _innovationIdGenerator.NextId;
if (0 != biasNeuronId)
{
// The ID generator must be reset before calling this method so that all generated genomes use the
// same innovation ID for matching neurons and structures.
throw new SharpNeatException("IdGenerator must be reset before calling CreateGenome(uint)");
}
// Note. Genes within nGeneList must always be arranged according to the following layout plan.
// Bias - single neuron. Innovation ID = 0
// Input neurons.
// Output neurons.
// Hidden neurons.
NeuronGene neuronGene = CreateNeuronGene(biasNeuronId, NodeType.Bias);
inputNeuronGeneList.Add(neuronGene);
neuronGeneList.Add(neuronGene);
// Create input neuron genes.
for (int i = 0; i < _inputNeuronCount; i++)
{
neuronGene = CreateNeuronGene(_innovationIdGenerator.NextId, NodeType.Input);
inputNeuronGeneList.Add(neuronGene);
neuronGeneList.Add(neuronGene);
}
// Create output neuron genes.
for (int i = 0; i < _outputNeuronCount; i++)
{
neuronGene = CreateNeuronGene(_innovationIdGenerator.NextId, NodeType.Output);
outputNeuronGeneList.Add(neuronGene);
neuronGeneList.Add(neuronGene);
}
// Create hidden neuron genes.
for (int i = 0; i < _hiddenNeuronCount; i++)
{
neuronGene = CreateNeuronGene(_innovationIdGenerator.NextId, NodeType.Hidden);
hiddenNeuronGeneList.Add(neuronGene);
neuronGeneList.Add(neuronGene);
}
// Define all possible connections between the input and hidden neurons and the hidden and output neurons
// (fully interconnected with minimal hidden/feature layer).
int srcCount = inputNeuronGeneList.Count;
int tgtCount = outputNeuronGeneList.Count;
int hdnCount = hiddenNeuronGeneList.Count;
ConnectionDefinition[] srcHdnConnectionDefArr = new ConnectionDefinition[srcCount * hdnCount];
ConnectionDefinition[] hdnTgtConnectionDefArr = new ConnectionDefinition[tgtCount * hdnCount];
for (int hdnIdx = 0, i = 0; hdnIdx < hdnCount; hdnIdx++)
{
for (int srcIdx = 0; srcIdx < srcCount; srcIdx++)
{
srcHdnConnectionDefArr[i++] = new ConnectionDefinition(_innovationIdGenerator.NextId, srcIdx, hdnIdx);
}
}
for (int hdnIdx = 0, i = 0; hdnIdx < hdnCount; hdnIdx++)
{
for (int tgtIdx = 0; tgtIdx < tgtCount; tgtIdx++)
{
hdnTgtConnectionDefArr[i++] = new ConnectionDefinition(_innovationIdGenerator.NextId, hdnIdx, tgtIdx);
}
}
// Shuffle the array of possible connections.
Utilities.Shuffle(srcHdnConnectionDefArr, _rng);
Utilities.Shuffle(hdnTgtConnectionDefArr, _rng);
// Select connection definitions from the head of the list and convert them to real connections.
// We want some proportion of all possible connections but at least one (Connectionless genomes are not allowed).
int srcConnectionCount = (int) Utilities.ProbabilisticRound(
srcHdnConnectionDefArr.Length*_neatGenomeParamsComplexifying.InitialInterconnectionsProportion,
_rng);
srcConnectionCount = Math.Max(1, srcConnectionCount);
int tgtConnectionCount = (int)Utilities.ProbabilisticRound(
hdnTgtConnectionDefArr.Length * _neatGenomeParamsComplexifying.InitialInterconnectionsProportion,
_rng);
tgtConnectionCount = Math.Max(1, tgtConnectionCount);
// Create the connection gene list and populate it.
ConnectionGeneList connectionGeneList = new ConnectionGeneList(srcConnectionCount + tgtConnectionCount);
for (int i = 0; i < srcConnectionCount; i++)
{
ConnectionDefinition def = srcHdnConnectionDefArr[i];
NeuronGene srcNeuronGene = inputNeuronGeneList[def._sourceNeuronIdx];
NeuronGene tgtNeuronGene = hiddenNeuronGeneList[def._targetNeuronIdx];
ConnectionGene cGene = new ConnectionGene(def._innovationId,
srcNeuronGene.InnovationId,
tgtNeuronGene.InnovationId,
GenerateRandomConnectionWeight());
connectionGeneList.Add(cGene);
// Register connection with endpoint neurons.
srcNeuronGene.TargetNeurons.Add(cGene.TargetNodeId);
tgtNeuronGene.SourceNeurons.Add(cGene.SourceNodeId);
}
for (int i = 0; i < tgtConnectionCount; i++)
{
ConnectionDefinition def = hdnTgtConnectionDefArr[i];
NeuronGene srcNeuronGene = hiddenNeuronGeneList[def._sourceNeuronIdx];
NeuronGene tgtNeuronGene = outputNeuronGeneList[def._targetNeuronIdx];
ConnectionGene cGene = new ConnectionGene(def._innovationId,
srcNeuronGene.InnovationId,
tgtNeuronGene.InnovationId,
GenerateRandomConnectionWeight());
connectionGeneList.Add(cGene);
// Register connection with endpoint neurons.
srcNeuronGene.TargetNeurons.Add(cGene.TargetNodeId);
tgtNeuronGene.SourceNeurons.Add(cGene.SourceNodeId);
}
// Ensure connections are sorted.
connectionGeneList.SortByInnovationId();
// Create and return the completed genome object.
return CreateGenome(_genomeIdGenerator.NextId, birthGeneration,
neuronGeneList, connectionGeneList,
_inputNeuronCount, _outputNeuronCount, false);
}
/// <summary>
/// TODO
/// </summary>
/// <param name="birthGeneration">
/// The current evolution algorithm generation.
/// Assigned to the new genome as its birth generation.
/// </param>
public override NeatGenome CreateGenome(uint birthGeneration)
{
NeuronGeneList neuronGeneList = new NeuronGeneList(_inputNeuronCount + _outputNeuronCount);
NeuronGeneList inputNeuronGeneList = new NeuronGeneList(_inputNeuronCount); // includes single bias neuron.
NeuronGeneList outputNeuronGeneList = new NeuronGeneList(_outputNeuronCount);
// Create a single bias neuron.
uint biasNeuronId = _innovationIdGenerator.NextId;
if (0 != biasNeuronId)
{ // The ID generator must be reset before calling this method so that all generated genomes use the
// same innovation ID for matching neurons and structures.
throw new SharpNeatException("IdGenerator must be reset before calling CreateGenome(uint)");
}
// Note. Genes within nGeneList must always be arranged according to the following layout plan.
// Bias - single neuron. Innovation ID = 0
// Input neurons.
// Output neurons.
// Hidden neurons.
NeuronGene neuronGene = CreateNeuronGene(biasNeuronId, NodeType.Bias);
inputNeuronGeneList.Add(neuronGene);
neuronGeneList.Add(neuronGene);
// Create input neuron genes.
for (int i = 0; i < _inputNeuronCount; i++)
{
neuronGene = CreateNeuronGene(_innovationIdGenerator.NextId, NodeType.Input);
inputNeuronGeneList.Add(neuronGene);
neuronGeneList.Add(neuronGene);
}
// Create output neuron genes.
for (int i = 0; i < _outputNeuronCount; i++)
{
neuronGene = CreateNeuronGene(_innovationIdGenerator.NextId, NodeType.Output);
outputNeuronGeneList.Add(neuronGene);
neuronGeneList.Add(neuronGene);
}
// Define all possible connections between the input and output neurons (fully interconnected).
int srcCount = inputNeuronGeneList.Count;
int tgtCount = outputNeuronGeneList.Count;
ConnectionDefinition[] connectionDefArr = new ConnectionDefinition[srcCount * tgtCount];
for (int srcIdx = 0, i = 0; srcIdx < srcCount; srcIdx++)
{
for (int tgtIdx = 0; tgtIdx < tgtCount; tgtIdx++)
{
connectionDefArr[i++] = new ConnectionDefinition(_innovationIdGenerator.NextId, srcIdx, tgtIdx);
}
}
// Shuffle the array of possible connections.
Utilities.Shuffle(connectionDefArr, _rng);
// Select connection definitions from the head of the list and convert them to real connections.
// We want some proportion of all possible connections but at least one (Connectionless genomes are not allowed).
int connectionCount = (int)Utilities.ProbabilisticRound(
(double)connectionDefArr.Length * _neatGenomeParamsComplexifying.InitialInterconnectionsProportion,
_rng);
connectionCount = Math.Max(1, connectionCount);
// Create the connection gene list and populate it.
ConnectionGeneList connectionGeneList = new ConnectionGeneList(connectionCount);
#region Add connection to bisas short connections
NeuronGene srcNeuronGeneACBias = inputNeuronGeneList[0];
if (!srcNeuronGeneACBias.TargetNeurons.Contains(outputNeuronGeneList[2].InnovationId))
{
NeuronGene tgtNeuronGeneAC = outputNeuronGeneList[2];
ConnectionGene biasGene = new ConnectionGene(_innovationIdGenerator.NextId,
srcNeuronGeneACBias.InnovationId,
tgtNeuronGeneAC.InnovationId,
Math.Abs(GenerateRandomConnectionWeight()));
connectionGeneList.Add(biasGene);
// Register connection with endpoint neurons.
srcNeuronGeneACBias.TargetNeurons.Add(biasGene.TargetNodeId);
tgtNeuronGeneAC.SourceNeurons.Add(biasGene.SourceNodeId);
}
double conW = GenerateRandomConnectionWeight();
for (int i = 5; i <= 6; i++)
{
NeuronGene srcNeuronGeneAC = inputNeuronGeneList[i];
if (!srcNeuronGeneAC.TargetNeurons.Contains(outputNeuronGeneList[2].InnovationId))
{
NeuronGene tgtNeuronGeneAC = outputNeuronGeneList[2];
ConnectionGene biasGene = new ConnectionGene(_innovationIdGenerator.NextId,
srcNeuronGeneAC.InnovationId,
tgtNeuronGeneAC.InnovationId,
-Math.Abs(conW));
connectionGeneList.Add(biasGene);
// Register connection with endpoint neurons.
srcNeuronGeneAC.TargetNeurons.Add(biasGene.TargetNodeId);
tgtNeuronGeneAC.SourceNeurons.Add(biasGene.SourceNodeId);
}
srcNeuronGeneAC = inputNeuronGeneList[i];
if (!srcNeuronGeneAC.TargetNeurons.Contains(outputNeuronGeneList[5].InnovationId))
{
NeuronGene tgtNeuronGeneAC = outputNeuronGeneList[5];
ConnectionGene biasGene = new ConnectionGene(_innovationIdGenerator.NextId,
srcNeuronGeneAC.InnovationId,
tgtNeuronGeneAC.InnovationId,
-Math.Abs(conW));
connectionGeneList.Add(biasGene);
// Register connection with endpoint neurons.
srcNeuronGeneAC.TargetNeurons.Add(biasGene.TargetNodeId);
tgtNeuronGeneAC.SourceNeurons.Add(biasGene.SourceNodeId);
}
}
#endregion
#region Add connection to bisas connection strength based on distance
for (int i = 5; i <= 6; i++)
{
NeuronGene srcNeuronGeneAC = inputNeuronGeneList[i];
if (!srcNeuronGeneAC.TargetNeurons.Contains(outputNeuronGeneList[0].InnovationId))
{
NeuronGene tgtNeuronGeneAC = outputNeuronGeneList[0];
ConnectionGene biasGene = new ConnectionGene(_innovationIdGenerator.NextId,
srcNeuronGeneAC.InnovationId,
tgtNeuronGeneAC.InnovationId,
Math.Abs(GenerateRandomConnectionWeight()));
connectionGeneList.Add(biasGene);
// Register connection with endpoint neurons.
srcNeuronGeneAC.TargetNeurons.Add(biasGene.TargetNodeId);
tgtNeuronGeneAC.SourceNeurons.Add(biasGene.SourceNodeId);
}
}
#endregion
for (int i = 0; i < connectionCount; i++)
{
ConnectionDefinition def = connectionDefArr[i];
NeuronGene srcNeuronGene = inputNeuronGeneList[def._sourceNeuronIdx];
NeuronGene tgtNeuronGene = outputNeuronGeneList[def._targetNeuronIdx];
ConnectionGene cGene = new ConnectionGene(def._innovationId,
srcNeuronGene.InnovationId,
tgtNeuronGene.InnovationId,
GenerateRandomConnectionWeight());
if (!srcNeuronGene.TargetNeurons.Contains(cGene.TargetNodeId))
{
connectionGeneList.Add(cGene);
// Register connection with endpoint neurons.
srcNeuronGene.TargetNeurons.Add(cGene.TargetNodeId);
tgtNeuronGene.SourceNeurons.Add(cGene.SourceNodeId);
}
}
// Ensure connections are sorted.
connectionGeneList.SortByInnovationId();
// Create and return the completed genome object.
return CreateGenome(_genomeIdGenerator.NextId, birthGeneration,
neuronGeneList, connectionGeneList,
_inputNeuronCount, _outputNeuronCount, false);
}
/// <summary>
/// Creates a single randomly initialised genome.
/// A random set of connections are made form the input to the output neurons, the number of
/// connections made is based on the NeatGenomeParameters.InitialInterconnectionsProportion
/// which specifies the proportion of all possible input-output connections to be made in
/// initial genomes.
///
/// The connections that are made are allocated innovation IDs in a consistent manner across
/// the initial population of genomes. To do this we allocate IDs sequentially to all possible
/// interconnections and then randomly select some proportion of connections for inclusion in the
/// genome. In addition, for this scheme to work the innovation ID generator must be reset to zero
/// prior to each call to CreateGenome(), and a test is made to ensure this is the case.
///
/// The consistent allocation of innovation IDs ensure that equivalent connections in different
/// genomes have the same innovation ID, and although this isn't strictly necessary it is
/// required for sexual reproduction to work effectively - like structures are detected by comparing
/// innovation IDs only.
/// </summary>
/// <param name="birthGeneration">The current evolution algorithm generation.
/// Assigned to the new genome as its birth generation.</param>
public NeatGenome CreateGenome(uint birthGeneration)
{
NeuronGeneList neuronGeneList = new NeuronGeneList(_inputNeuronCount + _outputNeuronCount);
NeuronGeneList inputNeuronGeneList = new NeuronGeneList(_inputNeuronCount); // includes single bias neuron.
NeuronGeneList outputNeuronGeneList = new NeuronGeneList(_outputNeuronCount);
// Create a single bias neuron.
uint biasNeuronId = _innovationIdGenerator.NextId;
if (0 != biasNeuronId)
{ // The ID generator must be reset before calling this method so that all generated genomes use the
// same innovation ID for matching neurons and structures.
throw new SharpNeatException("IdGenerator must be reset before calling CreateGenome(uint)");
}
// Note. Genes within nGeneList must always be arranged according to the following layout plan.
// Bias - single neuron. Innovation ID = 0
// Input neurons.
// Output neurons.
// Hidden neurons.
NeuronGene neuronGene = CreateNeuronGene(biasNeuronId, NodeType.Bias);
inputNeuronGeneList.Add(neuronGene);
neuronGeneList.Add(neuronGene);
// Create input neuron genes.
for (int i = 0; i < _inputNeuronCount; i++)
{
neuronGene = CreateNeuronGene(_innovationIdGenerator.NextId, NodeType.Input);
inputNeuronGeneList.Add(neuronGene);
neuronGeneList.Add(neuronGene);
}
// Create output neuron genes.
for (int i = 0; i < _outputNeuronCount; i++)
{
neuronGene = CreateNeuronGene(_innovationIdGenerator.NextId, NodeType.Output);
outputNeuronGeneList.Add(neuronGene);
neuronGeneList.Add(neuronGene);
}
// Define all possible connections between the input and output neurons (fully interconnected).
int srcCount = inputNeuronGeneList.Count;
int tgtCount = outputNeuronGeneList.Count;
ConnectionDefinition[] connectionDefArr = new ConnectionDefinition[srcCount * tgtCount];
for (int srcIdx = 0, i = 0; srcIdx < srcCount; srcIdx++)
{
for (int tgtIdx = 0; tgtIdx < tgtCount; tgtIdx++)
{
connectionDefArr[i++] = new ConnectionDefinition(_innovationIdGenerator.NextId, srcIdx, tgtIdx);
}
}
// Shuffle the array of possible connections.
SortUtils.Shuffle(connectionDefArr, _rng);
// Select connection definitions from the head of the list and convert them to real connections.
// We want some proportion of all possible connections but at least one (Connectionless genomes are not allowed).
int connectionCount = (int)NumericsUtils.ProbabilisticRound(
(double)connectionDefArr.Length * _neatGenomeParamsComplexifying.InitialInterconnectionsProportion,
_rng);
connectionCount = Math.Max(1, connectionCount);
// Create the connection gene list and populate it.
ConnectionGeneList connectionGeneList = new ConnectionGeneList(connectionCount);
for (int i = 0; i < connectionCount; i++)
{
ConnectionDefinition def = connectionDefArr[i];
NeuronGene srcNeuronGene = inputNeuronGeneList[def._sourceNeuronIdx];
NeuronGene tgtNeuronGene = outputNeuronGeneList[def._targetNeuronIdx];
ConnectionGene cGene = new ConnectionGene(def._innovationId,
srcNeuronGene.InnovationId,
tgtNeuronGene.InnovationId,
GenerateRandomConnectionWeight());
connectionGeneList.Add(cGene);
// Register connection with endpoint neurons.
srcNeuronGene.TargetNeurons.Add(cGene.TargetNodeId);
tgtNeuronGene.SourceNeurons.Add(cGene.SourceNodeId);
}
// Ensure connections are sorted.
connectionGeneList.SortByInnovationId();
// Create and return the completed genome object.
return(CreateGenome(_genomeIdGenerator.NextId, birthGeneration,
neuronGeneList, connectionGeneList,
_inputNeuronCount, _outputNeuronCount, false));
}
