Pangenome.pde

import java.util.Random;

enum Species {
  Algae, 
    Fish, 
    Snake
}

float MUTATION_FACTOR = 0.1;

public class Pangenome
{
  // Genomes
  private final SnakeGenome SNAKE = new SnakeGenome();
  private final FishGenome FISH = new FishGenome();
  private final AlgaeGenome ALGAE = new AlgaeGenome();

  final List<Species> SPECIES_LIST =
    Collections.unmodifiableList(Arrays.asList(Species.values()));
  private final Random RANDOM = new Random();

  public Species randomSpecies()
  {
    return SPECIES_LIST.get(RANDOM.nextInt(SPECIES_LIST.size()));
  }

  public Genome getGenome(Species species)
  {
    switch (species)
    {
    case Snake:        
      return SNAKE;
    case Fish:        
      return FISH;
    case Algae:        
      return ALGAE;
    default:      
      Log.error("Null genome for species: " + species.name());
      return null;
    }
  }

  public Genome randomGenome()
  {
    return getGenome(randomSpecies());
  }
}

////// Genomes

// TODO: Introduce mutation factor
public class Genome
{
  public Species species;
  public List<Species> diet;
  int initCount;
  int initCountMax;

  public Genome(Species _species, List<Species> _diet, int _initCountMax)
  {
    species = _species;
    diet = _diet;
    initCountMax = _initCountMax;
  }

  public Motor createMotor(
    Organism organism, 
    PVector startDisplacement, 
    PVector startVelocity
    ) {
    return null;
  }

  public Appearance createAppearance(Organism organism, color colour) {
    return null;
  }

  public Senses createSenses(Organism organism)
  {
    return null;
  }

  public Dna createDna()
  {
    return null;
  } 

  // TODO: Implement Dna as a map of template typed genes
  public class Dna
  {
    Species species;

    // TODO: KM: These should be genes and private
    public color colour;
    public float predatorFactor;

    public float fertility;
    public float maxFoodCapacityCoefficient;

    public float lowerMassLimit;
    public float upperMassLimit;

    public float fissionFactor;

    public float photosynthesisIncrement;

    public float maxAge;
    public float metabolicRate;
    public float emaciationQuotient;

    public Dna(Genome genome)
    {
      Objects.requireNonNull(genome);

      species = genome.species;
    }

    //private class Nucleotide()
    //{}
  }

  public class Gene
  {
  }
}

public class SnakeGenome extends Genome
{
  public SnakeGenome() {
    super(Species.Snake, 
      Arrays.asList(new Species[]{Species.Fish}), 
      SNAKE_COUNT_INIT);
  }

  public Motor createMotor(Organism organism, PVector startDisplacement, PVector startVelocity) {
    return new SnakeMotor(organism, startDisplacement, startVelocity);
  }

  public Appearance createAppearance(Organism organism, color colour) {
    return new SnakeAppearance(organism, colour);
  }

  public Senses createSenses(Organism organism) {
    return new SnakeSenses(organism);
  }

  public Dna createDna() {
    Dna dna = new Dna(this);

    dna.colour = color(255, 20, 20);
    dna.predatorFactor = 1.5;

    dna.fertility = 0.0002;
    dna.maxFoodCapacityCoefficient = 3.0;

    dna.lowerMassLimit = 20;
    dna.upperMassLimit = 30;

    dna.fissionFactor = 0.5;

    dna.photosynthesisIncrement = 0;

    dna.maxAge = 1000;

    dna.metabolicRate = 0.01;
    dna.emaciationQuotient = 1.1;

    return dna;
  }
}

public class FishGenome extends Genome
{
  public FishGenome() {
    super(Species.Fish, 
      Arrays.asList(new Species[]{Species.Snake, Species.Algae}), 
      FISH_COUNT_INIT);
  }

  public Senses createSenses(Organism organism) {
    return new FishSenses(organism);
  }

  public Appearance createAppearance(Organism organism, color colour) {
    return new FishAppearance(organism, colour);
  }

  public Motor createMotor(Organism organism, PVector startDisplacement, PVector startVelocity) {
    return new FishMotor(organism, startDisplacement, startVelocity);
  }

  public Dna createDna() {
    Dna dna = new Dna(this);

    dna.colour = color(50, 100, 200);
    dna.predatorFactor = 0.7;

    dna.fertility = 0.002;
    dna.maxFoodCapacityCoefficient = 1.8;

    dna.lowerMassLimit = 10;
    dna.upperMassLimit = 15;

    dna.fissionFactor = 0.3;

    dna.photosynthesisIncrement = 0;

    dna.maxAge = 300;

    dna.metabolicRate = 0.02;
    dna.emaciationQuotient = 5;

    return dna;
  }
}

public class AlgaeGenome extends Genome
{
  public AlgaeGenome() {
    super(Species.Algae, 
      Arrays.asList(new Species[]{}), 
      ALGAE_COUNT_INIT);
  }

  public Appearance createAppearance(Organism organism, color colour) {
    return new AlgaeAppearance(organism, colour);
  }

  public Motor createMotor(Organism organism, PVector startDisplacement, PVector startVelocity) {
    return new AlgaeMotor(organism, startDisplacement, startVelocity);
  }

  public Senses createSenses(Organism organism) {
    return new AlgaeSenses(organism);
  }

  public Dna createDna() {
    Dna dna = new Dna(this);

    dna.colour = color(70, 255, 70);
    dna.predatorFactor = 0.0;

    dna.fertility = 1;
    dna.maxFoodCapacityCoefficient = 100;

    dna.lowerMassLimit = 5;
    dna.upperMassLimit = 5;

    dna.fissionFactor = 0.5;

    dna.photosynthesisIncrement = 0.2;

    dna.maxAge = 50000;

    dna.metabolicRate = 0;
    dna.emaciationQuotient = 5;

    return dna;
  }
}