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

Example 21 with ISpeciesRoot

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

the class InoculatorRecipeCategory method setRecipe.

@Override
public void setRecipe(IRecipeLayout recipeLayout, InoculatorRecipeWrapper recipeWrapper, IIngredients ingredients) {
    if (!splicer) {
        IDrawable tank = GeneticsJeiPlugin.drawables.getTank();
        IDrawable tankOverlay = GeneticsJeiPlugin.drawables.getTankOverlay();
        IGuiFluidStackGroup fluidStacks = recipeLayout.getFluidStacks();
        fluidStacks.init(Inoculator.TANK_VEKTOR, true, 1, 1, 16, 58, 100, false, tankOverlay);
        fluidStacks.setBackground(Inoculator.TANK_VEKTOR, tank);
        fluidStacks.set(ingredients);
    }
    IGuiItemStackGroup itemStacks = recipeLayout.getItemStacks();
    itemStacks.init(0, true, 22, 0);
    itemStacks.init(1, true, 42, 21);
    itemStacks.init(2, false, 92, 21);
    IDrawable slot = GeneticsJeiPlugin.guiHelper.getSlotDrawable();
    for (int i = 0; i <= 2; i++) {
        itemStacks.setBackground(i, slot);
    }
    recipeWrapper.setCurrentIngredients(itemStacks.getGuiIngredients());
    IFocus<?> focus = recipeLayout.getFocus();
    if (focus != null) {
        Object focusValue = focus.getValue();
        if (focusValue instanceof ItemStack) {
            ItemStack focusStack = (ItemStack) focusValue;
            if (AlleleManager.alleleRegistry.isIndividual(focusStack)) {
                if (focus.getMode() == IFocus.Mode.INPUT) {
                    ItemStack serum = recipeWrapper.getInputSerum();
                    ItemStack output = InoculatorLogic.applySerum(focusStack, serum);
                    itemStacks.set(0, serum);
                    itemStacks.set(1, focusStack);
                    itemStacks.set(2, output);
                    return;
                } else if (focus.getMode() == IFocus.Mode.OUTPUT) {
                    IIndividual individual = AlleleManager.alleleRegistry.getIndividual(focusStack);
                    if (individual != null) {
                        ISpeciesRoot speciesRoot = individual.getGenome().getSpeciesRoot();
                        IAlleleSpecies species = individual.getGenome().getPrimary();
                        ItemStack serum = ItemSerum.create(new Gene(species, speciesRoot.getSpeciesChromosomeType(), speciesRoot));
                        // set fully charged
                        serum.setItemDamage(0);
                        itemStacks.set(0, serum);
                        itemStacks.set(1, recipeWrapper.getWildcardTarget());
                        itemStacks.set(2, focusStack);
                        return;
                    }
                }
            } else if (focusStack.getItem() instanceof ItemSerum) {
                ItemStack input = recipeWrapper.getWildcardTarget();
                ItemStack output = InoculatorLogic.applySerum(input, focusStack);
                itemStacks.set(0, focusStack);
                itemStacks.set(1, input);
                itemStacks.set(2, output);
                return;
            }
        }
    }
    itemStacks.set(ingredients);
}

Example 22 with ISpeciesRoot

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

the class BreedingSystem method calculateArrays.

@Override
public void calculateArrays() {
    ISpeciesRoot speciesRoot = getSpeciesRoot();
    calculateAlleles(speciesRoot);
    calculateBranches(speciesRoot);
    calculateMutations(speciesRoot);
}

Example 23 with ISpeciesRoot

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

the class Gene method readFromNBT.

@Override
public void readFromNBT(final NBTTagCompound nbt) {
    this.allele = AlleleManager.alleleRegistry.getAllele(nbt.getString("allele"));
    String rootKey = nbt.getString("root");
    ISpeciesRoot root = AlleleManager.alleleRegistry.getSpeciesRoot(rootKey);
    Preconditions.checkArgument(root != null, "Could not find root: %s", rootKey);
    this.root = root;
    final int chromoID = nbt.getByte("chromo");
    Preconditions.checkArgument(chromoID >= 0 && chromoID < this.root.getKaryotype().length, "Invalid chromosomeId: %s", chromoID);
    this.chromosome = this.root.getKaryotype()[chromoID];
}

Example 24 with ISpeciesRoot

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

the class ManagerGenetics method loadAlleles.

private void loadAlleles() {
    this.invalidChromosomeTypes.clear();
    for (IBreedingSystem system : BREEDING_SYSTEMS.values()) {
        ISpeciesRoot root = system.getSpeciesRoot();
        Map<IChromosomeType, List<IAllele>> chromosomeMap = new LinkedHashMap<>();
        for (IChromosomeType chromosome : root.getKaryotype()) {
            TreeSet<IAllele> alleles = new TreeSet<>(new ComparatorAllele());
            for (IIndividual individual : root.getIndividualTemplates()) {
                IGenome genome = individual.getGenome();
                IAllele activeAllele = genome.getActiveAllele(chromosome);
                IAllele inactiveAllele = genome.getInactiveAllele(chromosome);
                if (chromosome.getAlleleClass().isInstance(activeAllele)) {
                    alleles.add(activeAllele);
                }
                if (!chromosome.getAlleleClass().isInstance(inactiveAllele)) {
                    continue;
                }
                alleles.add(inactiveAllele);
            }
            system.addExtraAlleles(chromosome, alleles);
            if (alleles.size() == 0) {
                this.invalidChromosomeTypes.add(chromosome);
            } else {
                final List<IAllele> alleleList = new ArrayList<>(alleles);
                chromosomeMap.put(chromosome, alleleList);
            }
        }
        this.chromosomeArray.put(root, chromosomeMap);
    }
}

Example 25 with ISpeciesRoot

use of forestry.api.genetics.ISpeciesRoot 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);
}