Examples with IChromosome forestry.api.genetics.IChromosome used on opensource projects

Example 6 with IChromosome

use of forestry.api.genetics.IChromosome in project ForestryMC by ForestryMC.

the class Bee method createOffspring.

private IBee createOffspring(IBeeHousing housing, IBeeGenome mate, int generation) {
    World world = housing.getWorldObj();
    IChromosome[] chromosomes = new IChromosome[genome.getChromosomes().length];
    IChromosome[] parent1 = genome.getChromosomes();
    IChromosome[] parent2 = mate.getChromosomes();
    // Check for mutation. Replace one of the parents with the mutation
    // template if mutation occurred.
    IChromosome[] mutated1 = mutateSpecies(housing, genome, mate);
    if (mutated1 != null) {
        parent1 = mutated1;
    }
    IChromosome[] mutated2 = mutateSpecies(housing, mate, genome);
    if (mutated2 != null) {
        parent2 = mutated2;
    }
    for (int i = 0; i < parent1.length; i++) {
        if (parent1[i] != null && parent2[i] != null) {
            chromosomes[i] = Chromosome.inheritChromosome(world.rand, parent1[i], parent2[i]);
        }
    }
    IBeekeepingMode mode = BeeManager.beeRoot.getBeekeepingMode(world);
    return new Bee(new BeeGenome(chromosomes), mode.isNaturalOffspring(this), generation);
}

Example 7 with IChromosome

use of forestry.api.genetics.IChromosome in project Binnie by ForestryMC.

the class Flower method mutateSpecies.

private IChromosome[] mutateSpecies(World world, BlockPos pos, IFlowerGenome genomeFirst, IFlowerGenome genomeSecond) {
    IChromosome[] parentFirst = genomeFirst.getChromosomes();
    IChromosome[] parentSecond = genomeSecond.getChromosomes();
    IAlleleFlowerSpecies alleleFirst;
    IAlleleFlowerSpecies alleleSecond;
    IFlowerGenome genome0;
    IFlowerGenome genome2;
    if (world.rand.nextBoolean()) {
        alleleFirst = (IAlleleFlowerSpecies) parentFirst[EnumTreeChromosome.SPECIES.ordinal()].getPrimaryAllele();
        alleleSecond = (IAlleleFlowerSpecies) parentSecond[EnumTreeChromosome.SPECIES.ordinal()].getSecondaryAllele();
        genome0 = genomeFirst;
        genome2 = genomeSecond;
    } else {
        alleleFirst = (IAlleleFlowerSpecies) parentSecond[EnumTreeChromosome.SPECIES.ordinal()].getPrimaryAllele();
        alleleSecond = (IAlleleFlowerSpecies) parentFirst[EnumTreeChromosome.SPECIES.ordinal()].getSecondaryAllele();
        genome0 = genomeSecond;
        genome2 = genomeFirst;
    }
    IFlowerColor colorFirst = genome0.getPrimaryColor();
    IFlowerColor colorSecond = genome2.getPrimaryColor();
    if (colorFirst != colorSecond) {
        for (IColorMix mutation : BotanyCore.getFlowerRoot().getColorMixes(true)) {
            if (mutation.isMutation(colorFirst, colorSecond) && world.rand.nextFloat() * 100.0f < mutation.getChance()) {
                parentFirst[EnumFlowerChromosome.PRIMARY.ordinal()] = new Chromosome(mutation.getResult().getAllele());
            }
        }
    }
    colorFirst = genome0.getSecondaryColor();
    colorSecond = genome2.getSecondaryColor();
    if (colorFirst != colorSecond) {
        for (IColorMix mutation : BotanyCore.getFlowerRoot().getColorMixes(true)) {
            if (mutation.isMutation(colorFirst, colorSecond) && world.rand.nextFloat() * 100.0f < mutation.getChance()) {
                parentFirst[EnumFlowerChromosome.SECONDARY.ordinal()] = new Chromosome(mutation.getResult().getAllele());
            }
        }
    }
    colorFirst = genome0.getStemColor();
    colorSecond = genome2.getStemColor();
    if (colorFirst != colorSecond) {
        for (IColorMix mutation : BotanyCore.getFlowerRoot().getColorMixes(true)) {
            if (mutation.isMutation(colorFirst, colorSecond) && world.rand.nextFloat() * 100.0f < mutation.getChance()) {
                parentFirst[EnumFlowerChromosome.STEM.ordinal()] = new Chromosome(mutation.getResult().getAllele());
            }
        }
    }
    IChromosome[] template = null;
    for (IFlowerMutation mutation2 : BotanyCore.getFlowerRoot().getMutations(true)) {
        float chance = mutation2.getChance(world, pos, alleleFirst, alleleSecond, genome0, genome2);
        if (chance > 0.0f && world.rand.nextFloat() * 100.0f < chance && template == null) {
            template = BotanyCore.getFlowerRoot().templateAsChromosomes(mutation2.getTemplate());
        }
    }
    if (template != null) {
        parentFirst = template;
    }
    return parentFirst;
}

Example 8 with IChromosome

use of forestry.api.genetics.IChromosome in project Binnie by ForestryMC.

the class Splicer method setGene.

public static void setGene(IGene gene, ItemStack target, boolean setPrimary, boolean setSecondary) {
    int chromosomeID = gene.getChromosome().ordinal();
    Class<? extends IAllele> cls = gene.getChromosome().getAlleleClass();
    if (!cls.isInstance(gene.getAllele())) {
        return;
    }
    NBTTagCompound targetTag = target.getTagCompound();
    NBTTagCompound mate = null;
    if (targetTag != null && targetTag.hasKey("Mate")) {
        mate = targetTag.getCompoundTag("Mate").copy();
    }
    ISpeciesRoot speciesRoot = AlleleManager.alleleRegistry.getSpeciesRoot(target);
    Preconditions.checkNotNull(speciesRoot);
    IIndividual original = speciesRoot.getMember(target);
    Preconditions.checkNotNull(original);
    IChromosome[] chromosomes = original.getGenome().getChromosomes();
    IAllele[] primaryAlleles = new IAllele[chromosomes.length];
    IAllele[] secondaryAlleles = new IAllele[chromosomes.length];
    for (int i = 0; i < chromosomes.length; i++) {
        IChromosome chromosome = chromosomes[i];
        if (i == chromosomeID && setPrimary) {
            primaryAlleles[i] = gene.getAllele();
        } else {
            primaryAlleles[i] = chromosome.getPrimaryAllele();
        }
        if (i == chromosomeID && setSecondary) {
            secondaryAlleles[i] = gene.getAllele();
        } else {
            secondaryAlleles[i] = chromosome.getSecondaryAllele();
        }
    }
    IIndividual individual = speciesRoot.templateAsIndividual(primaryAlleles, secondaryAlleles);
    if (original.isAnalyzed()) {
        individual.analyze();
    }
    if (original instanceof IBee) {
        IBee individualBee = (IBee) individual;
        IBee originalBee = (IBee) original;
        individualBee.setIsNatural(originalBee.isNatural());
    }
    NBTTagCompound nbt = new NBTTagCompound();
    individual.writeToNBT(nbt);
    if (mate != null) {
        nbt.setTag("Mate", mate);
    }
    target.setTagCompound(nbt);
}

Example 9 with IChromosome

use of forestry.api.genetics.IChromosome in project Binnie by ForestryMC.

the class ItemSerumArray method getSubItems.

@Override
public void getSubItems(CreativeTabs tab, NonNullList<ItemStack> items) {
    if (this.isInCreativeTab(tab)) {
        for (ISpeciesRoot root : AlleleManager.alleleRegistry.getSpeciesRoot().values()) {
            for (IIndividual template : root.getIndividualTemplates()) {
                if (template.getGenome().getPrimary().isSecret()) {
                    continue;
                }
                IGeneItem geneItem = new GeneArrayItem();
                for (IChromosomeType type : root.getKaryotype()) {
                    IChromosome chromosome = template.getGenome().getChromosomes()[type.ordinal()];
                    if (chromosome != null) {
                        IAllele active = chromosome.getActiveAllele();
                        geneItem.addGene(new Gene(active, type, root));
                    }
                }
                ItemStack array = new ItemStack(this);
                geneItem.writeToItem(array);
                items.add(array);
            }
        }
    }
}

Example 10 with IChromosome

use of forestry.api.genetics.IChromosome in project ForestryMC by ForestryMC.

the class Butterfly method spawnCaterpillar.

@Override
@Nullable
public IButterfly spawnCaterpillar(World world, IButterflyNursery nursery) {
    // We need a mated queen to produce offspring.
    if (mate == null) {
        return null;
    }
    IChromosome[] chromosomes = new IChromosome[genome.getChromosomes().length];
    IChromosome[] parent1 = genome.getChromosomes();
    IChromosome[] parent2 = mate.getChromosomes();
    // Check for mutation. Replace one of the parents with the mutation
    // template if mutation occured.
    IChromosome[] mutated1 = mutateSpecies(world, nursery, genome, mate);
    if (mutated1 != null) {
        parent1 = mutated1;
    }
    IChromosome[] mutated2 = mutateSpecies(world, nursery, mate, genome);
    if (mutated2 != null) {
        parent2 = mutated2;
    }
    for (int i = 0; i < parent1.length; i++) {
        if (parent1[i] != null && parent2[i] != null) {
            chromosomes[i] = Chromosome.inheritChromosome(rand, parent1[i], parent2[i]);
        }
    }
    return new Butterfly(new ButterflyGenome(chromosomes));
}