source: experiments/frams/foraminifera/data/scripts/foraminifera.inc @ 436

//size versus energy
//real proportions

function init_chambers()
{
        colors = ["1.0,1.0,0.0","1.0,0.5,0.0"];
        chambers = [ ["0.0,0.0,0.0,",  //coiled
        "1.08020961284637, -0.0597195439040661, -0.0393781512975693,",
        "1.08020961284637, -0.0597195439040661, -0.0393781512975693,",
        "0.615013539791107, 0.778662621974945, 0.535521030426025,",
        "0.488581955432892, 0.826426684856415, -0.381044268608093,",
        "0.732419908046722, -0.0084995785728097, -1.02214300632477,",
        "1.35288727283478, 0.875738024711609, -1.03719782829285,",
        "0.342692613601685, 0.938660383224487, -1.45657968521118,",
        "1.0958571434021, 0.316927701234818, -1.813929438591,",
        "0.903768002986908, 1.11856341362, -2.53161096572876,",
        "0.21014116704464, 0.295340299606323, -2.45328187942505,"],
        ["0.0,0.0,0.0,", //longitudal
        "0.98089325428009, 0.00591040402650833, 0.00389722990803421,",
        "1.90962779521942, -0.256769120693207, -0.16194811463356,",
        "2.63965249061584, -0.727959632873535, -0.609036147594452,",
        "3.17575979232788, -1.34843015670776, -1.14828503131866,",
        "3.55273032188416, -2.22369408607483, -1.3917418718338,",
        "3.64916682243347, -3.11888360977173, -1.01666414737701,",
        "3.50461649894714, -3.84039807319641, -0.377427101135254,",
        "3.15921688079834, -4.50001525878906, 0.261153399944305,",
        "2.51528453826904, -5.16421365737915, 0.59241509437561,"]];
}

function createForamGenotype(gen, species, chamber_num)
{
        var rad = getProperty(gen, "chamber_proculus"); 
        var geno = "//0\np:" + chambers[species][0] + "sh=1,sx=" + rad + ",sy=" + rad + ",sz=" + rad + ", rz=3.14159265358979,vr=" + colors[gen];

        chamber_num = Math.min(chamber_num, chambers[species].size - 1);

        for (var i = 0; i < chamber_num; i++)
        {
                rad = getProperty(gen, "chamber_proculus") + getProperty(gen, "chamber_difference") * (i + 1);
                geno += "\n" + "p:" + chambers[species][i+1] + "sh=1,sx=" + rad + ",sy=" + rad + ",sz=" + rad + ",vr=" + colors[gen];
        }

        for (var i = 0; i < chamber_num; i++)
        {
                geno += "\n" +  "j:"+ i +", "+ (i+1) +", sh=1";
        }

        if (species == 0) geno += "\nn:p=0,d=\"S\"";

        return geno;
}

function setGenotype(mode)
{
        if (mode["opt"] == 0) //initial
        {
                mode["cr"].user1 = {"min_repro_energies" : [max_chamber_energ[0][getProperty(0, "min_repro_energ")], max_chamber_energ[1][getProperty(1, "min_repro_energ")]], "hibernation" : mode["species"]};
                mode["cr"].user2 = {"max_energy_level" : getProperty(0,"energies0"), "gen" : 0,  "hibernated" : 0, "species" : mode["species"], "reproduce" : 0};
        }
        else if (mode["opt"]  == 1) //child
        {
                mode["cr"].user2 = {"max_energy_level" : getProperty(1 - mode["parent_user2"]["gen"],"energies0"), "gen" : 1 - mode["parent_user2"]["gen"],  "hibernated" : 0, "species" : mode["parent_user2"]["species"], "reproduce" : 0};
                mode["cr"].user1 = mode["parent_user1"];
        }
        else //grow
        {
                mode["cr"].user1 = mode["parent_user1"];
                mode["cr"].user2 = mode["parent_user2"];
        }
}

function reproduce_haploid(parent, parent2, clone)
{       
        var number, energy0, new_user1, gen;
        if (clone == 1)
        {
                energy0 = getProperty(0,"energies0");
                number = (( 1 - getProperty(1, "e_repro_cost")) * parent.energy) / energy0;
                new_user1 = parent.user1;
                parent.user2["gen"] = 1 - parent.user2["gen"]; //because of reversal of "gen" in createOffspring function
                gen = parent.user2["gen"];
        }
        else
        {
                energy0 = getProperty(1,"energies0"); 
                number = (((1 - getProperty(parent.user2["gen"], "e_repro_cost")) * parent.energy) + ((1 -(getProperty(parent.user2["gen"], "e_repro_cost"))) * parent2.energy)) / energy0;
                new_user1 = [parent.user1, parent2.user1];
                gen = 1 - parent.user2["gen"];
        }

        Simulator.print("haploid number of offspring: " + number + " energ0: " + energy0);

        for (var j = 0; j < number; j++)
        {
                createOffspring(createForamGenotype(gen, parent.user2["species"], 0), energy0, new_user1, parent.user2); 
        }
}

function reproduce_diploid(parent)
{
        var energy0 = getProperty(0,"energies0");
        var number = ((1 - (getProperty(parent.user2["gen"], "e_repro_cost"))) * parent.energy) / energy0;

        Simulator.print("diploid number of offspring: " + number+ " energ0: " + energy0);

        for (var j = 0; j < number / 2; j++)
        {
                var crossed = 0;
                //crossover
                if (Math.rnd01 < ExpParams.crossprob)
                {
                        crossover(parent, "min_repro_energies");
                        crossed = 1;
                }

                for (var k = 0; k < 2; k++)
                {
                        createOffspring(createForamGenotype(1 - parent.user2["gen"], parent.user2["species"], 0), energy0, parent.user1[0], parent.user2); 
                }

                //reverse of crossover for fossilization
                if (crossed == 1)
                {
                        crossover(parent, "min_repro_energies");
                        crossed = 0;
                }
                        
        }
}

function reproduce_parents(species)
{
                var parent1 = null;
                var parent2 = null;
                var pop = Populations[0];
                for (var i = pop.size-1; i >= 0; i--)
                {
                        if (pop[i].user2["reproduce"] == 1 && pop[i].user2["species"] == species) 
                        { 
                                if ((pop[i].user2["gen"]==1) || ((pop[i].user2["gen"]==0) && ExpParams.stress == 0))
                                {
                                        continue;
                                }
                                else if (parent1 == null)
                                {
                                        parent1 = pop[i];
                                }
                                else if (parent2 == null)
                                {
                                        parent2 = pop[i];
                                }  
                                if (parent1 != null && parent2 != null)
                                {
                                        reproduce_haploid(parent1, parent2, 0);
                                        print_repro_info(parent1);
                                        print_repro_info(parent2);
                                        pop.kill(parent1);
                                        pop.kill(parent2);
                                        parent1 = null;
                                        parent2 = null;
                                }       
                        } 
                }
}

function readyToRepro(cr)
{
        var reproduced = 1;
        
        
        if (cr.user2["gen"] == 1)
        {
                reproduce_diploid(cr);
        }

        else if (ExpParams.stress == 0)
        {
                reproduce_haploid(cr, null, 1);
        }

        else
        {
                if (cr.signals.size == 0)
                {
                        cr.signals.add("repro"+cr.user2["species"]);
                        cr.signals[0].power = 1;
                }
                reproduced = 0;
                cr.user2["reproduce"] = 1;
        }

        if (reproduced == 1)
        {
                print_repro_info(cr);
                Populations[0].kill(cr);
        }

        return reproduced;
}

function print_repro_info(cr)
{
        Simulator.print("Reproduced " + cr.user2["gen"] + " of species " + cr.user2["species"] + " energy: " + cr.energy);
}



function foramReproduce(cr)
{
        var properEnergy = 0;
        var reproduced = 0;

        if (cr.user2["gen"] == 0)
        {
                properEnergy = ( cr.energy >= cr.user1["min_repro_energies"][cr.user2["gen"]] );
        }
        else
        {
                properEnergy = ( cr.energy >= cr.user1[0]["min_repro_energies"][cr.user2["gen"]] ); //TODO gene selection
        }

        //if creature has proper energy
        if ( properEnergy && cr.signals.size == 0)
        {
                //reproduce with probability repro_prob
                if (Math.rnd01 <= ExpParams.repro_prob) //TODO env trigger
                {
                        reproduced = readyToRepro(cr);
                }
                else if (cr.signals.receive("repro"+cr.user2["species"]) > 0)
                {
                        reproduced = readyToRepro(cr);
                }
                if (reproduced == 1)
                                return 1;
        }

        else if (!properEnergy)
        {
                cr.signals.clear();
                cr.user2["reproduce"] = 0; 
        }

        return 0;
}

function crossover(parent, gene)
{
        var tmp = parent.user1[0][gene];
        parent.user1[0][gene] = parent.user1[1][gene];
        parent.user1[1][gene] = tmp;
}

function createOffspring(geno, energy, parent_user1, parent_user2)
{
        var cr = Populations[0].add(geno);
        cr.energy0 = energy;
        cr.energy = cr.energy0;
        setGenotype({"cr" : cr, "parent_user1" : parent_user1, "parent_user2" : parent_user2, "opt" : 1});
        placeRandomlyNotColliding(cr);
}