[401] | 1 | //size versus energy
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| 2 | //real proportions
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| 3 |
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[422] | 4 | function init_chambers()
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| 5 | {
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| 6 | colors = ["1.0,1.0,0.0","1.0,0.5,0.0"];
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[493] | 7 | retColors = ["1.0,1.0,1.0", "1.0,0.0,0.0"];
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[496] | 8 | chambers = [ ["p:sh=1, sx=0.2, sy=0.2, sz=0.2, rz=3.14159265358979,",
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| 9 | "p:0.18421219587326, 0.13, sh=1, sx=0.21, sy=0.21, sz=0.21,",
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| 10 | "p:0.323935478925705, 0.195192575454712, -0.0246672090142965, sh=1, sx=0.2205, sy=0.2205, sz=0.2205,",
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| 11 | "p:0.467822402715683, 0.258204102516174, -0.0246672090142965, sh=1, sx=0.231525, sy=0.231525, sz=0.231525,",
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| 12 | "p:0.664101362228394, 0.309014827013016, -0.0246672090142965, sh=1, sx=0.24310125, sy=0.24310125, sz=0.24310125,",
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| 13 | "p:0.860512733459473, 0.274790525436401, -0.0246672090142965, sh=1, sx=0.2552563125, sy=0.2552563125, sz=0.2552563125,",
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| 14 | "p:1.0273220539093, 0.1655353307724, -0.0246672090142965, sh=1, sx=0.268019128125, sy=0.268019128125, sz=0.268019128125,",
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| 15 | "p:1.13825333118439, -0.000509921927005053, -0.0246672090142965, sh=1, sx=0.28142008453125, sy=0.28142008453125, sz=0.28142008453125,",
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| 16 | "p:1.17569863796234, -0.196833491325378, -0.0246672090142965, sh=1, sx=0.295491088757813, sy=0.295491088757813, sz=0.295491088757813,",
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| 17 | "p:1.13369226455688, -0.392314255237579, -0.0246672090142965, sh=1, sx=0.310265643195703, sy=0.310265643195703, sz=0.310265643195703,"],
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| 18 | ["p:sh=1, sx=0.1, sy=0.1, sz=0.1, rz=3.14159265358979,",
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| 19 | "p:0.110527315735817, -0.0167302016913891, sh=1, sx=0.105, sy=0.105, sz=0.105, rx=3.63519277003091e-33,",
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| 20 | "p:0.207026958465576, -0.080698736011982, 1.17627548103266e-17, sh=1, sx=0.11025, sy=0.11025, sz=0.11025,",
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| 21 | "p:0.271191358566284, -0.169948443770409, 1.17627548103266e-17, sh=1, sx=0.1157625, sy=0.1157625, sz=0.1157625,",
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| 22 | "p:0.291628688573837, -0.286643952131271, 1.17627548103266e-17, sh=1, sx=0.121550625, sy=0.121550625, sz=0.121550625,",
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| 23 | "p:0.264833927154541, -0.403534322977066, 1.17627548103266e-17, sh=1, sx=0.12762815625, sy=0.12762815625, sz=0.12762815625,",
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| 24 | "p:0.194418027997017, -0.500668346881866, 1.17627548103266e-17, sh=1, sx=0.1340095640625, sy=0.1340095640625, sz=0.1340095640625,",
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| 25 | "p:0.091719962656498, -0.562735974788666, 1.17627548103266e-17, sh=1, sx=0.140710042265625, sy=0.140710042265625, sz=0.140710042265625,",
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| 26 | "p:-0.0270438715815544, -0.57991486787796, 1.17627548103266e-17, sh=1, sx=0.147745544378906, sy=0.147745544378906, sz=0.147745544378906,",
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| 27 | "p:-0.143122747540474, -0.549489378929138, 1.17627548103266e-17, sh=1, sx=0.155132821597852, sy=0.155132821597852, sz=0.155132821597852,"]];
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[422] | 28 | }
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[401] | 29 |
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[487] | 30 | function createForamMorphology(morphotype, gen, chamber_num)
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[401] | 31 | {
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[422] | 32 | var rad = getProperty(gen, "chamber_proculus");
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[496] | 33 | var geno = "//0\nm:Vstyle=foram\n" + chambers[morphotype][0] + "vr=" + colors[gen];
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[401] | 34 |
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[487] | 35 | chamber_num = Math.min(chamber_num, chambers[morphotype].size - 1);
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[422] | 36 |
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| 37 | for (var i = 0; i < chamber_num; i++)
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| 38 | {
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[496] | 39 | //rad = getProperty(gen, "chamber_proculus") + getProperty(gen, "chamber_difference") * (i + 1);
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| 40 | geno += "\n" + chambers[morphotype][i+1] + "vr=" + colors[gen];
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[422] | 41 | }
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| 42 |
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| 43 | for (var i = 0; i < chamber_num; i++)
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| 44 | {
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| 45 | geno += "\n" + "j:"+ i +", "+ (i+1) +", sh=1";
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| 46 | }
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[430] | 47 |
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[496] | 48 | //if (morphotype == 0) geno += "\nn:p=0,d=\"S\"";
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[422] | 49 | return geno;
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| 50 | }
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| 51 |
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| 52 | function setGenotype(mode)
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| 53 | {
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[476] | 54 | if (mode->opt == 0) //initial
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[422] | 55 | {
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[487] | 56 | mode->cr.data->genes = String.deserialize(String.serialize(mode->genes));
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| 57 | mode->cr.data->lifeparams = {"max_energy_level" : mode->energy0, "gen" : 0, "hibernated" : 0, "species" : mode->species, "reproduce" : 0, "dir" : randomDir(), "chamber_growth" : -1, "division_time" : -1};
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[422] | 58 | }
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[476] | 59 | else if (mode->opt == 1) //child
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[422] | 60 | {
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[487] | 61 | mode->cr.data->lifeparams = {"max_energy_level" : mode->energy0, "gen" : 1 - mode->parent_lifeparams->gen, "hibernated" : 0, "species" : mode->parent_lifeparams->species, "reproduce" : 0, "dir" : randomDir(), "chamber_growth" : -1, "division_time" : -1};
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| 62 | mode->cr.data->genes = String.deserialize(String.serialize(mode->parent_genes));
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[422] | 63 | }
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| 64 | else //grow
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| 65 | {
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[476] | 66 | mode->cr.data->genes = mode->parent_genes;
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| 67 | mode->cr.data->lifeparams = mode->parent_lifeparams;
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[422] | 68 | }
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| 69 | }
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| 70 |
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[479] | 71 | function gametsDivision(parent_energy, energy0)
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| 72 | {
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| 73 | var number = 1;
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| 74 | var result = parent_energy;
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[486] | 75 | while ((result-ExpProperties.divisionCost) >= energy0)
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[479] | 76 | {
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[486] | 77 | result = (result-ExpProperties.divisionCost)/2;
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[479] | 78 | number *= 2;
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| 79 | }
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| 80 | //Simulator.print("parent: " + parent_energy + " result: " + result + " number " + number);
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| 81 | return {"energy" : result, "number" : number};
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| 82 | }
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| 83 |
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[487] | 84 | function getEnergy0(radius)
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| 85 | {
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| 86 | return energyFromVolume(micronsToFrams(radius),1);
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| 87 | }
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| 88 |
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[422] | 89 | function reproduce_haploid(parent, parent2, clone)
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| 90 | {
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[476] | 91 | var number, energy0, new_genes, gen;
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[422] | 92 | if (clone == 1)
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| 93 | {
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[487] | 94 | var offspring = gametsDivision(parent.energy,getEnergy0(getGene(parent,"energies0",0)[0]));
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[479] | 95 | energy0 = offspring->energy;
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| 96 | number = offspring->number;
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[476] | 97 | new_genes = parent.data->genes;
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| 98 | parent.data->lifeparams->gen = 1 - parent.data->lifeparams->gen; //because of reversal of "gen" in createOffspring function
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| 99 | gen = parent.data->lifeparams->gen;
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[422] | 100 | }
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| 101 | else
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| 102 | {
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[487] | 103 | var offspring1 = gametsDivision(parent.energy,getEnergy0(getGene(parent,"energies0", 0)[1]));
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| 104 | var offspring2 = gametsDivision(parent2.energy,getEnergy0(getGene(parent2,"energies0", 0)[1]));
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[479] | 105 | energy0 = (offspring1->energy+offspring2->energy);
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[486] | 106 | number = ExpProperties.gametSuccessRate*(offspring1->number+offspring2->number)/2;
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[476] | 107 | new_genes = [parent.data->genes, parent2.data->genes];
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| 108 | gen = 1 - parent.data->lifeparams->gen;
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[493] | 109 |
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| 110 | if (ExpProperties.logging == 1)
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| 111 | {
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| 112 | log(createLogVector(parent, parent.energy),ExpProperties.logPref+"repro_energies_log.txt");
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| 113 | log(createLogVector(parent2, parent2.energy),ExpProperties.logPref+"repro_energies_log.txt");
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| 114 | log(createLogVector(parent, number),ExpProperties.logPref+"repro_num_log.txt");
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| 115 | }
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[422] | 116 | }
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| 117 |
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[430] | 118 | Simulator.print("haploid number of offspring: " + number + " energ0: " + energy0);
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[422] | 119 |
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[418] | 120 | for (var j = 0; j < number; j++)
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[401] | 121 | {
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[496] | 122 | createOffspring(createForamMorphology(gen, gen, 0), energy0, new_genes, parent.data->lifeparams);
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[401] | 123 | }
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| 124 | }
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| 125 |
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[418] | 126 | function reproduce_diploid(parent)
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[401] | 127 | {
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[510] | 128 | var offspring = gametsDivision(parent.energy,getEnergy0(getGene(parent,"energies0", 0)[0]));
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| 129 | var energy0 = offspring->energy;
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| 130 | var number = offspring->number;
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[422] | 131 |
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[493] | 132 | if (ExpProperties.logging == 1)
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| 133 | {
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| 134 | log(createLogVector(parent, parent.energy),ExpProperties.logPref+"repro_energies_log.txt");
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| 135 | log(createLogVector(parent, number),ExpProperties.logPref+"repro_num_log.txt");
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| 136 | }
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| 137 |
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[430] | 138 | Simulator.print("diploid number of offspring: " + number+ " energ0: " + energy0);
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[422] | 139 |
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[418] | 140 | for (var j = 0; j < number / 2; j++)
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[401] | 141 | {
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[418] | 142 | var crossed = 0;
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| 143 | //crossover
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[486] | 144 | if (Math.rnd01 < ExpProperties.crossprob)
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[418] | 145 | {
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[422] | 146 | crossover(parent, "min_repro_energies");
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[418] | 147 | crossed = 1;
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| 148 | }
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[401] | 149 |
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[418] | 150 | for (var k = 0; k < 2; k++)
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[404] | 151 | {
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[496] | 152 | createOffspring(createForamMorphology(1 - parent.data->lifeparams->gen, 1 - parent.data->lifeparams->gen, 0), energy0, parent.data->genes[0], parent.data->lifeparams);
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[404] | 153 | }
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| 154 |
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[418] | 155 | //reverse of crossover for fossilization
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| 156 | if (crossed == 1)
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[401] | 157 | {
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[422] | 158 | crossover(parent, "min_repro_energies");
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[418] | 159 | crossed = 0;
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[401] | 160 | }
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[418] | 161 |
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[401] | 162 | }
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[404] | 163 | }
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| 164 |
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[422] | 165 | function reproduce_parents(species)
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[404] | 166 | {
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[418] | 167 | var parent1 = null;
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| 168 | var parent2 = null;
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| 169 | var pop = Populations[0];
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| 170 | for (var i = pop.size-1; i >= 0; i--)
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[401] | 171 | {
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[476] | 172 | if (pop[i].data->lifeparams->reproduce == 1 && pop[i].data->lifeparams->species == species)
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[418] | 173 | {
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[486] | 174 | if ((pop[i].data->lifeparams->gen==1) || ((pop[i].data->lifeparams->gen==0) && ExpProperties.stress == 0))
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[401] | 175 | {
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[422] | 176 | continue;
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[401] | 177 | }
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[418] | 178 | else if (parent1 == null)
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[401] | 179 | {
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[418] | 180 | parent1 = pop[i];
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[401] | 181 | }
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[418] | 182 | else if (parent2 == null)
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| 183 | {
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| 184 | parent2 = pop[i];
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| 185 | }
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[430] | 186 | if (parent1 != null && parent2 != null)
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[418] | 187 | {
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[479] | 188 | //when parents are ready for reproduction start gametogenesis
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| 189 | if (parent1.data->lifeparams->division_time == -1 && parent2.data->lifeparams->division_time == -1)
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| 190 | {
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[486] | 191 | var time = int(ExpProperties.gametoPeriod/ExpProperties.secPerStep);
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[479] | 192 | parent1.data->lifeparams->division_time = time;
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| 193 | parent2.data->lifeparams->division_time = time;
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| 194 | parent1.idleen = 0;
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| 195 | parent2.idleen = 0;
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| 196 | //Simulator.print("parents "+parent1.uid + " " + parent2.uid + " ready to repro: "+Simulator.stepNumber);
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| 197 | }
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| 198 | //when gametogenesis is finished fuse gamets
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| 199 | else if (parent1.data->lifeparams->division_time == 0 && parent2.data->lifeparams->division_time == 0)
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| 200 | {
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| 201 | reproduce_haploid(parent1, parent2, 0);
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| 202 | print_repro_info(parent1);
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| 203 | print_repro_info(parent2);
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| 204 | pop.kill(parent1);
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| 205 | pop.kill(parent2);
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| 206 | parent1 = null;
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| 207 | parent2 = null;
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| 208 | }
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[430] | 209 | }
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[418] | 210 | }
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[401] | 211 | }
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[422] | 212 | }
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| 213 |
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| 214 | function readyToRepro(cr)
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| 215 | {
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| 216 | var reproduced = 1;
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| 217 |
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| 218 |
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[476] | 219 | if (cr.data->lifeparams->gen == 1)
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[422] | 220 | {
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| 221 | reproduce_diploid(cr);
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[401] | 222 | }
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| 223 |
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[486] | 224 | else if (ExpProperties.stress == 0)
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[401] | 225 | {
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[422] | 226 | reproduce_haploid(cr, null, 1);
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| 227 | }
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| 228 |
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| 229 | else
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| 230 | {
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| 231 | if (cr.signals.size == 0)
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[401] | 232 | {
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[476] | 233 | cr.signals.add("repro"+cr.data->lifeparams->species);
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[422] | 234 | cr.signals[0].power = 1;
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[401] | 235 | }
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[422] | 236 | reproduced = 0;
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[476] | 237 | cr.data->lifeparams->reproduce = 1;
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[401] | 238 | }
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[422] | 239 |
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| 240 | if (reproduced == 1)
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| 241 | {
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| 242 | print_repro_info(cr);
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| 243 | Populations[0].kill(cr);
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| 244 | }
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| 245 |
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| 246 | return reproduced;
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[401] | 247 | }
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| 248 |
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[422] | 249 | function print_repro_info(cr)
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[421] | 250 | {
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[476] | 251 | Simulator.print("Reproduced " + cr.data->lifeparams->gen + " of species " + cr.data->lifeparams->species + " energy: " + cr.energy);
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[422] | 252 | }
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[421] | 253 |
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[422] | 254 | function foramReproduce(cr)
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| 255 | {
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[488] | 256 | var properEnergy = cr.energy >= energyFromVolume(max_chamber_volume[cr.data->lifeparams->gen][getGene(cr, "min_repro_energies",0)[cr.data->lifeparams->gen]],0);
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[487] | 257 | var reproduced = 0;
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[422] | 258 |
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| 259 | //if creature has proper energy
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| 260 | if ( properEnergy && cr.signals.size == 0)
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| 261 | {
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| 262 | //reproduce with probability repro_prob
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[486] | 263 | if (Math.rnd01 <= ExpProperties.repro_prob) //TODO env trigger
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[421] | 264 | {
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[422] | 265 | reproduced = readyToRepro(cr);
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[421] | 266 | }
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[476] | 267 | else if (cr.signals.receive("repro"+cr.data->lifeparams->species) > 0)
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[421] | 268 | {
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[422] | 269 | reproduced = readyToRepro(cr);
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[421] | 270 | }
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[422] | 271 | if (reproduced == 1)
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[430] | 272 | return 1;
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[421] | 273 | }
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| 274 |
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[422] | 275 | else if (!properEnergy)
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[421] | 276 | {
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[422] | 277 | cr.signals.clear();
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[476] | 278 | cr.data->lifeparams->reproduce = 0;
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[421] | 279 | }
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[430] | 280 |
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| 281 | return 0;
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[422] | 282 | }
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[421] | 283 |
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[422] | 284 | function crossover(parent, gene)
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| 285 | {
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[476] | 286 | var tmp = parent.data->genes[0][gene];
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| 287 | parent.data->genes[0][gene] = parent.data->genes[1][gene];
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| 288 | parent.data->genes[1][gene] = tmp;
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[422] | 289 | }
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[421] | 290 |
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[476] | 291 | function createOffspring(geno, energy, parent_genes, parent_lifeparams)
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[422] | 292 | {
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[493] | 293 | curColor = retColors[1-parent_lifeparams->gen];
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[422] | 294 | var cr = Populations[0].add(geno);
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| 295 | cr.energy0 = energy;
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| 296 | cr.energy = cr.energy0;
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[487] | 297 | setGenotype({"cr" : cr, "parent_genes" : parent_genes, "parent_lifeparams" : parent_lifeparams, "opt" : 1, "energy0" : cr.energy0});
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[422] | 298 | placeRandomlyNotColliding(cr);
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[421] | 299 | }
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