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

Example 1 with IChromosomeType

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

the class Genome method getChromosomes.

private static IChromosome[] getChromosomes(NBTTagCompound genomeNBT, ISpeciesRoot speciesRoot) {
    NBTTagList chromosomesNBT = genomeNBT.getTagList("Chromosomes", 10);
    IChromosome[] chromosomes = new IChromosome[speciesRoot.getDefaultTemplate().length];
    String primarySpeciesUid = null;
    String secondarySpeciesUid = null;
    for (int i = 0; i < chromosomesNBT.tagCount(); i++) {
        NBTTagCompound chromosomeNBT = chromosomesNBT.getCompoundTagAt(i);
        byte chromosomeOrdinal = chromosomeNBT.getByte(SLOT_TAG);
        if (chromosomeOrdinal >= 0 && chromosomeOrdinal < chromosomes.length) {
            IChromosomeType chromosomeType = speciesRoot.getKaryotype()[chromosomeOrdinal];
            Chromosome chromosome = Chromosome.create(primarySpeciesUid, secondarySpeciesUid, chromosomeType, chromosomeNBT);
            chromosomes[chromosomeOrdinal] = chromosome;
            if (chromosomeOrdinal == speciesRoot.getSpeciesChromosomeType().ordinal()) {
                primarySpeciesUid = chromosome.getPrimaryAllele().getUID();
                secondarySpeciesUid = chromosome.getSecondaryAllele().getUID();
            }
        }
    }
    return chromosomes;
}

Example 2 with IChromosomeType

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

the class Genome method checkChromosomes.

private void checkChromosomes(IChromosome[] chromosomes) {
    if (chromosomes.length != getDefaultTemplate().length) {
        String message = String.format("Tried to create a genome for '%s' from an invalid chromosome template.\n%s", getSpeciesRoot().getUID(), chromosomesToString(chromosomes));
        throw new IllegalArgumentException(message);
    }
    IChromosomeType[] karyotype = getSpeciesRoot().getKaryotype();
    for (int i = 0; i < karyotype.length; i++) {
        IChromosomeType chromosomeType = karyotype[i];
        IChromosome chromosome = chromosomes[i];
        if (chromosome == null) {
            String message = String.format("Tried to create a genome for '%s' from an invalid chromosome template. " + "Missing chromosome '%s'.\n%s", getSpeciesRoot().getUID(), chromosomeType.getName(), chromosomesToString(chromosomes));
            throw new IllegalArgumentException(message);
        }
        IAllele primary = chromosome.getPrimaryAllele();
        if (primary == null) {
            String message = String.format("Tried to create a genome for '%s' from an invalid chromosome template. " + "Missing primary allele for '%s'.\n%s", getSpeciesRoot().getUID(), chromosomeType.getName(), chromosomesToString(chromosomes));
            throw new IllegalArgumentException(message);
        }
        IAllele secondary = chromosome.getSecondaryAllele();
        if (secondary == null) {
            String message = String.format("Tried to create a genome for '%s' from an invalid chromosome template. " + "Missing secondary allele for '%s'.\n%s", getSpeciesRoot().getUID(), chromosomeType.getName(), chromosomesToString(chromosomes));
            throw new IllegalArgumentException(message);
        }
        Class<? extends IAllele> chromosomeAlleleClass = chromosomeType.getAlleleClass();
        if (!chromosomeAlleleClass.isAssignableFrom(primary.getClass())) {
            String message = String.format("Tried to create a genome for '%s' from an invalid chromosome template. " + "Incorrect type for primary allele '%s'.\n%s.", getSpeciesRoot().getUID(), chromosomeType.getName(), chromosomesToString(chromosomes));
            throw new IllegalArgumentException(message);
        }
        if (!chromosomeAlleleClass.isAssignableFrom(secondary.getClass())) {
            String message = String.format("Tried to create a genome for '%s' from an invalid chromosome template. " + "Incorrect type for secondary allele '%s'.\n%s.", getSpeciesRoot().getUID(), chromosomeType.getName(), chromosomesToString(chromosomes));
            throw new IllegalArgumentException(message);
        }
    }
}

Example 3 with IChromosomeType

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

the class AlleleRegistry method addValidAlleleTypes.

@Override
public void addValidAlleleTypes(IAllele allele, IChromosomeType... chromosomeTypes) {
    for (IChromosomeType chromosomeType : chromosomeTypes) {
        if (!chromosomeType.getAlleleClass().isAssignableFrom(allele.getClass())) {
            throw new IllegalArgumentException("Allele class (" + allele.getClass() + ") does not match chromosome type (" + chromosomeType.getAlleleClass() + ").");
        }
        allelesByType.put(chromosomeType, allele);
        typesByAllele.put(allele, chromosomeType);
    }
}

Example 4 with IChromosomeType

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

the class WindowGenesis method initialiseClient.

@Override
@SideOnly(Side.CLIENT)
public void initialiseClient() {
    new ControlPlayerInventory(this);
    this.setTitle(I18N.localise("binniecore.gui.genesis.title"));
    final ControlTabBar<IBreedingSystem> tabSystems = new GenesisTabSystems(this);
    this.root = Binnie.GENETICS.getActiveSystems().iterator().next().getSpeciesRoot();
    this.template = this.root.getDefaultTemplate();
    final Area one = new Area(32, 28, 170, 100);
    final Area two = new Area(214, 28, 100, 100);
    new Panel(this, one.outset(1), MinecraftGUI.PanelType.BLACK);
    new Panel(this, two.outset(1), MinecraftGUI.PanelType.BLACK);
    this.geneList = new GeneList(this, one);
    this.geneOptions = new GeneOptions(this, two);
    tabSystems.addEventHandler(EventValueChanged.class, EventHandlerOrigin.SELF, tabSystems, event -> {
        Object value = event.getValue();
        if (!(value instanceof BreedingSystem)) {
            return;
        }
        IBreedingSystem breedingSystem = (IBreedingSystem) value;
        root = breedingSystem.getSpeciesRoot();
        template = root.getDefaultTemplate();
        refreshTemplate(null);
    });
    this.geneList.addEventHandler(EventValueChanged.class, EventHandlerOrigin.SELF, this.geneList, event -> {
        Object value = event.getValue();
        if (!(value instanceof Gene)) {
            return;
        }
        Gene gene = (Gene) value;
        Map<IChromosomeType, List<IAllele>> map = Binnie.GENETICS.getChromosomeMap(root);
        List<Gene> options = new ArrayList<>();
        IChromosomeType chromosomeType = gene.getChromosome();
        List<IAllele> alleles = map.get(chromosomeType);
        for (IAllele allele : alleles) {
            options.add(new Gene(allele, chromosomeType, root));
        }
        geneOptions.setOptions(options);
    });
    this.geneOptions.addEventHandler(EventValueChanged.class, EventHandlerOrigin.SELF, this.geneOptions, event -> {
        Object value = event.getValue();
        if (!(value instanceof Gene)) {
            return;
        }
        Gene gene = (Gene) value;
        IChromosomeType chromosomeType = gene.getChromosome();
        ISpeciesRoot speciesRoot = gene.getSpeciesRoot();
        IAllele allele = gene.getAllele();
        if (chromosomeType == speciesRoot.getSpeciesChromosomeType()) {
            template = speciesRoot.getTemplate(allele.getUID());
        } else {
            template[chromosomeType.ordinal()] = allele;
        }
        refreshTemplate(chromosomeType);
    });
    this.panelPickup = new Panel(this, 16, 140, 60, 42, MinecraftGUI.PanelType.BLACK);
    this.refreshTemplate(null);
}

Example 5 with IChromosomeType

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

the class ControlChromosome method setSystem.

public void setSystem(@Nullable IBreedingSystem breedingSystem) {
    if (this.breedingSystem != breedingSystem) {
        this.breedingSystem = breedingSystem;
        deleteAllChildren();
        if (breedingSystem != null) {
            IFieldKitPlugin fieldKitPlugin = breedingSystem.getFieldKitPlugin();
            fieldKitPlugin.getChromosomePickerPositions();
            for (Map.Entry<IChromosomeType, IPoint> entry : fieldKitPlugin.getChromosomePickerPositions().entrySet()) {
                IChromosomeType chromosomeType = entry.getKey();
                IPoint position = entry.getValue();
                new ControlChromoPicker(this, position.xPos(), position.yPos(), chromosomeType);
            }
        }
    }
}