rubyneat 0.3.5.alpha.2
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<span class='title'><span class='object_link'><a href="../../NEAT.html" title="NEAT (module)">NEAT</a></span></span> » <span class='title'><span class='object_link'><a href="../Critter.html" title="NEAT::Critter (class)">Critter</a></span></span>
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<div id="content"><h1>Class: NEAT::Critter::Genotype
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<strong class="classes">Classes:</strong> <span class='object_link'><a href="Genotype/Gene.html" title="NEAT::Critter::Genotype::Gene (class)">Gene</a></span>
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<p>This will be set to true if there are dangling neurons.</p>
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<a href="#genes-instance_method" title="#genes (instance method)">- (Object) <strong>genes</strong> </a>
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<p>Genes keyed by innovation numbers.</p>
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<a href="#neural_gene_map-instance_method" title="#neural_gene_map (instance method)">- (Object) <strong>neural_gene_map</strong> </a>
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<span class="note title readonly">readonly</span>
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<span class="summary_desc"><div class='inline'>
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<p>Map neurons to the genes that marks them as output { oneu_name => [
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gene_1, gene_2,… gene_n], …} Just take the in_neuron name and the weight to
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do the call to that neuron function with the appropriate weights.</p>
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<a href="#neural_inputs-instance_method" title="#neural_inputs (instance method)">- (Object) <strong>neural_inputs</strong> </a>
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<span class="note title readonly">readonly</span>
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<span class="summary_desc"><div class='inline'>
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<p>Instantiations of neural inputs and outputs.</p>
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<a href="#neural_outputs-instance_method" title="#neural_outputs (instance method)">- (Object) <strong>neural_outputs</strong> </a>
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<span class="note title readonly">readonly</span>
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<span class="summary_desc"><div class='inline'>
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<p>Instantiations of neural inputs and outputs.</p>
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<a href="#neurons-instance_method" title="#neurons (instance method)">- (Object) <strong>neurons</strong> </a>
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</span>
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<span class="summary_desc"><div class='inline'>
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<p>List of neurons hashed by name.</p>
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</ul>
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<h3 class="inherited">Attributes inherited from <span class='object_link'><a href="../NeatOb.html" title="NEAT::NeatOb (class)">NeatOb</a></span></h3>
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<p class="inherited"><span class='object_link'><a href="../NeatOb.html#controller-instance_method" title="NEAT::NeatOb#controller (method)">#controller</a></span>, <span class='object_link'><a href="../NeatOb.html#name-instance_method" title="NEAT::NeatOb#name (method)">#name</a></span></p>
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|
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<h2>
|
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Instance Method Summary
|
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<small>(<a href="#" class="summary_toggle">collapse</a>)</small>
|
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</h2>
|
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|
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<ul class="summary">
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<span class="summary_signature">
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<a href="#add_genes-instance_method" title="#add_genes (instance method)">- (Object) <strong>add_genes</strong>(*genes) </a>
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</span>
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<span class="summary_desc"><div class='inline'>
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<p>Genes added here MUST correspond to pre-existing neurons.</p>
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</div></span>
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<span class="summary_signature">
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|
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<a href="#add_neurons-instance_method" title="#add_neurons (instance method)">- (Object) <strong>add_neurons</strong>(*neus) </a>
|
|
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|
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|
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</span>
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|
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400
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<span class="summary_desc"><div class='inline'>
|
|
401
|
+
<p>Add new neurons to the fold.</p>
|
|
402
|
+
</div></span>
|
|
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|
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</li>
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<li class="public ">
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<span class="summary_signature">
|
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|
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|
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<a href="#dump_s-instance_method" title="#dump_s (instance method)">- (Object) <strong>dump_s</strong> </a>
|
|
411
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|
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412
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|
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|
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</span>
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<span class="summary_desc"><div class='inline'></div></span>
|
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|
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+
</li>
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<li class="public ">
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<span class="summary_signature">
|
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|
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432
|
+
<a href="#fitness_cost-instance_method" title="#fitness_cost (instance method)">- (Object) <strong>fitness_cost</strong> </a>
|
|
433
|
+
|
|
434
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+
|
|
435
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+
|
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</span>
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|
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|
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446
|
+
<span class="summary_desc"><div class='inline'>
|
|
447
|
+
<p>Calculate the cost of this genotype.</p>
|
|
448
|
+
</div></span>
|
|
449
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+
|
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450
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+
</li>
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|
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<li class="public ">
|
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+
<span class="summary_signature">
|
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455
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|
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456
|
+
<a href="#forget%21-instance_method" title="#forget! (instance method)">- (Object) <strong>forget!</strong> </a>
|
|
457
|
+
|
|
458
|
+
|
|
459
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+
|
|
460
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+
</span>
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|
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467
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|
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|
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469
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+
|
|
470
|
+
<span class="summary_desc"><div class='inline'>
|
|
471
|
+
<p>Make the neurons forget their wiring.</p>
|
|
472
|
+
</div></span>
|
|
473
|
+
|
|
474
|
+
</li>
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|
475
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+
|
|
476
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+
|
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477
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<li class="public ">
|
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478
|
+
<span class="summary_signature">
|
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479
|
+
|
|
480
|
+
<a href="#initialize-instance_method" title="#initialize (instance method)">- (Genotype) <strong>initialize</strong>(critter, mating = false, &block) </a>
|
|
481
|
+
|
|
482
|
+
|
|
483
|
+
|
|
484
|
+
</span>
|
|
485
|
+
|
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486
|
+
|
|
487
|
+
<span class="note title constructor">constructor</span>
|
|
488
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+
|
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489
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+
|
|
490
|
+
|
|
491
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+
|
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492
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|
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493
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+
|
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494
|
+
|
|
495
|
+
|
|
496
|
+
<span class="summary_desc"><div class='inline'>
|
|
497
|
+
<p>A new instance of Genotype.</p>
|
|
498
|
+
</div></span>
|
|
499
|
+
|
|
500
|
+
</li>
|
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501
|
+
|
|
502
|
+
|
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503
|
+
<li class="public ">
|
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|
+
<span class="summary_signature">
|
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505
|
+
|
|
506
|
+
<a href="#innervate%21-instance_method" title="#innervate! (instance method)">- (Object) <strong>innervate!</strong>(*hneus) </a>
|
|
507
|
+
|
|
508
|
+
|
|
509
|
+
|
|
510
|
+
</span>
|
|
511
|
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|
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512
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|
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513
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|
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516
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|
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517
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+
|
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518
|
+
|
|
519
|
+
|
|
520
|
+
<span class="summary_desc"><div class='inline'>
|
|
521
|
+
<p>We take the neural hashes (presumably from other neurons), and innervate
|
|
522
|
+
them.</p>
|
|
523
|
+
</div></span>
|
|
524
|
+
|
|
525
|
+
</li>
|
|
526
|
+
|
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527
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+
|
|
528
|
+
<li class="public ">
|
|
529
|
+
<span class="summary_signature">
|
|
530
|
+
|
|
531
|
+
<a href="#neucleate-instance_method" title="#neucleate (instance method)">- (Object) <strong>neucleate</strong>(clean: true, &block) </a>
|
|
532
|
+
|
|
533
|
+
|
|
534
|
+
|
|
535
|
+
</span>
|
|
536
|
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|
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537
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|
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538
|
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|
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539
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|
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540
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|
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541
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|
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542
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+
|
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543
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+
|
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544
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<p>We add genes given here to the genome.</p>
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<a href="#nuke_redundancies%21-instance_method" title="#nuke_redundancies! (instance method)">- (Object) <strong>nuke_redundancies!</strong> </a>
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<span class="summary_desc"><div class='inline'>
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<p>Remove any redundancies in the genome, any genes refering to the same two
|
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<span class="summary_signature">
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<a href="#prune%21-instance_method" title="#prune! (instance method)">- (Object) <strong>prune!</strong> </a>
|
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|
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<span class="summary_desc"><div class='inline'>
|
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<p>Go through the list of neurons and drop any neurons not referenced by the
|
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|
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genes.</p>
|
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|
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<span class="summary_signature">
|
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|
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<a href="#wire%21-instance_method" title="#wire! (instance method)">- (Object) <strong>wire!</strong> </a>
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<span class="summary_desc"><div class='inline'>
|
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<p>Wire up the neurons based on the genes.</p>
|
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|
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<h3 class="inherited">Methods inherited from <span class='object_link'><a href="../NeatOb.html" title="NEAT::NeatOb (class)">NeatOb</a></span></h3>
|
|
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|
+
<p class="inherited"><span class='object_link'><a href="../NeatOb.html#log-instance_method" title="NEAT::NeatOb#log (method)">#log</a></span>, <span class='object_link'><a href="../NeatOb.html#log-class_method" title="NEAT::NeatOb.log (method)">log</a></span>, <span class='object_link'><a href="../NeatOb.html#to_s-instance_method" title="NEAT::NeatOb#to_s (method)">#to_s</a></span></p>
|
|
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|
+
|
|
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|
+
<div id="constructor_details" class="method_details_list">
|
|
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|
+
<h2>Constructor Details</h2>
|
|
643
|
+
|
|
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|
+
<div class="method_details first">
|
|
645
|
+
<h3 class="signature first" id="initialize-instance_method">
|
|
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|
+
|
|
647
|
+
- (<tt><span class='object_link'><a href="" title="NEAT::Critter::Genotype (class)">Genotype</a></span></tt>) <strong>initialize</strong>(critter, mating = false, &block)
|
|
648
|
+
|
|
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|
+
|
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|
+
|
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|
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|
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|
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|
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|
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</h3><div class="docstring">
|
|
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|
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<div class="discussion">
|
|
655
|
+
|
|
656
|
+
<p>Returns a new instance of Genotype</p>
|
|
657
|
+
|
|
658
|
+
|
|
659
|
+
</div>
|
|
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|
+
</div>
|
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|
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<div class="tags">
|
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|
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|
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|
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|
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|
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</div><table class="source_code">
|
|
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|
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<tr>
|
|
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|
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<td>
|
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|
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<pre class="lines">
|
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|
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106</pre>
|
|
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|
+
</td>
|
|
690
|
+
<td>
|
|
691
|
+
<pre class="code"><span class="info file"># File 'lib/rubyneat/critter.rb', line 88</span>
|
|
692
|
+
|
|
693
|
+
<span class='kw'>def</span> <span class='id identifier rubyid_initialize'>initialize</span><span class='lparen'>(</span><span class='id identifier rubyid_critter'>critter</span><span class='comma'>,</span> <span class='id identifier rubyid_mating'>mating</span> <span class='op'>=</span> <span class='kw'>false</span><span class='comma'>,</span> <span class='op'>&</span><span class='id identifier rubyid_block'>block</span><span class='rparen'>)</span>
|
|
694
|
+
<span class='kw'>super</span> <span class='id identifier rubyid_critter'>critter</span><span class='period'>.</span><span class='id identifier rubyid_controller'>controller</span>
|
|
695
|
+
<span class='ivar'>@critter</span> <span class='op'>=</span> <span class='id identifier rubyid_critter'>critter</span>
|
|
696
|
+
|
|
697
|
+
<span class='comment'># Initialize basic structures
|
|
698
|
+
</span> <span class='ivar'>@genes</span> <span class='op'>=</span> <span class='kw'>nil</span>
|
|
699
|
+
<span class='ivar'>@neural_inputs</span> <span class='op'>=</span> <span class='const'>Hash</span><span class='lbracket'>[</span><span class='ivar'>@critter</span><span class='period'>.</span><span class='id identifier rubyid_population'>population</span><span class='period'>.</span><span class='id identifier rubyid_input_neurons'>input_neurons</span><span class='period'>.</span><span class='id identifier rubyid_map'>map</span> <span class='lbrace'>{</span> <span class='op'>|</span><span class='id identifier rubyid_sym'>sym</span><span class='comma'>,</span> <span class='id identifier rubyid_ineu'>ineu</span><span class='op'>|</span>
|
|
700
|
+
<span class='lbracket'>[</span><span class='id identifier rubyid_sym'>sym</span><span class='comma'>,</span> <span class='id identifier rubyid_ineu'>ineu</span><span class='period'>.</span><span class='id identifier rubyid_new'>new</span><span class='lparen'>(</span><span class='ivar'>@controller</span><span class='comma'>,</span> <span class='id identifier rubyid_sym'>sym</span><span class='rparen'>)</span><span class='rbracket'>]</span>
|
|
701
|
+
<span class='rbrace'>}</span><span class='rbracket'>]</span>
|
|
702
|
+
|
|
703
|
+
<span class='ivar'>@neural_outputs</span> <span class='op'>=</span> <span class='const'>Hash</span><span class='lbracket'>[</span><span class='ivar'>@critter</span><span class='period'>.</span><span class='id identifier rubyid_population'>population</span><span class='period'>.</span><span class='id identifier rubyid_output_neurons'>output_neurons</span><span class='period'>.</span><span class='id identifier rubyid_map'>map</span> <span class='lbrace'>{</span> <span class='op'>|</span><span class='id identifier rubyid_sym'>sym</span><span class='comma'>,</span> <span class='id identifier rubyid_ineu'>ineu</span><span class='op'>|</span>
|
|
704
|
+
<span class='lbracket'>[</span><span class='id identifier rubyid_sym'>sym</span><span class='comma'>,</span> <span class='id identifier rubyid_ineu'>ineu</span><span class='period'>.</span><span class='id identifier rubyid_new'>new</span><span class='lparen'>(</span><span class='ivar'>@controller</span><span class='comma'>,</span> <span class='id identifier rubyid_sym'>sym</span><span class='rparen'>)</span><span class='rbracket'>]</span>
|
|
705
|
+
<span class='rbrace'>}</span><span class='rbracket'>]</span>
|
|
706
|
+
<span class='ivar'>@neurons</span> <span class='op'>=</span> <span class='ivar'>@neural_inputs</span><span class='period'>.</span><span class='id identifier rubyid_clone'>clone</span> <span class='comment'># this must be a shallow clone!
|
|
707
|
+
</span> <span class='ivar'>@neurons</span><span class='period'>.</span><span class='id identifier rubyid_merge!'>merge!</span> <span class='ivar'>@neural_outputs</span>
|
|
708
|
+
|
|
709
|
+
<span class='ivar'>@controller</span><span class='period'>.</span><span class='id identifier rubyid_evolver'>evolver</span><span class='period'>.</span><span class='id identifier rubyid_gen_initial_genes!'>gen_initial_genes!</span><span class='lparen'>(</span><span class='kw'>self</span><span class='rparen'>)</span> <span class='kw'>unless</span> <span class='id identifier rubyid_mating'>mating</span>
|
|
710
|
+
<span class='id identifier rubyid_block'>block</span><span class='period'>.</span><span class='lparen'>(</span><span class='kw'>self</span><span class='rparen'>)</span> <span class='kw'>unless</span> <span class='id identifier rubyid_block'>block</span><span class='period'>.</span><span class='id identifier rubyid_nil?'>nil?</span>
|
|
711
|
+
<span class='kw'>end</span></pre>
|
|
712
|
+
</td>
|
|
713
|
+
</tr>
|
|
714
|
+
</table>
|
|
715
|
+
</div>
|
|
716
|
+
|
|
717
|
+
</div>
|
|
718
|
+
|
|
719
|
+
<div id="instance_attr_details" class="attr_details">
|
|
720
|
+
<h2>Instance Attribute Details</h2>
|
|
721
|
+
|
|
722
|
+
|
|
723
|
+
<span id="critter=-instance_method"></span>
|
|
724
|
+
<div class="method_details first">
|
|
725
|
+
<h3 class="signature first" id="critter-instance_method">
|
|
726
|
+
|
|
727
|
+
- (<tt>Object</tt>) <strong>critter</strong>
|
|
728
|
+
|
|
729
|
+
|
|
730
|
+
|
|
731
|
+
|
|
732
|
+
|
|
733
|
+
</h3><div class="docstring">
|
|
734
|
+
<div class="discussion">
|
|
735
|
+
|
|
736
|
+
<p>Critter to which we belong</p>
|
|
737
|
+
|
|
738
|
+
|
|
739
|
+
</div>
|
|
740
|
+
</div>
|
|
741
|
+
<div class="tags">
|
|
742
|
+
|
|
743
|
+
|
|
744
|
+
</div><table class="source_code">
|
|
745
|
+
<tr>
|
|
746
|
+
<td>
|
|
747
|
+
<pre class="lines">
|
|
748
|
+
|
|
749
|
+
|
|
750
|
+
67
|
|
751
|
+
68
|
|
752
|
+
69</pre>
|
|
753
|
+
</td>
|
|
754
|
+
<td>
|
|
755
|
+
<pre class="code"><span class="info file"># File 'lib/rubyneat/critter.rb', line 67</span>
|
|
756
|
+
|
|
757
|
+
<span class='kw'>def</span> <span class='id identifier rubyid_critter'>critter</span>
|
|
758
|
+
<span class='ivar'>@critter</span>
|
|
759
|
+
<span class='kw'>end</span></pre>
|
|
760
|
+
</td>
|
|
761
|
+
</tr>
|
|
762
|
+
</table>
|
|
763
|
+
</div>
|
|
764
|
+
|
|
765
|
+
|
|
766
|
+
<span id="dangling_neurons=-instance_method"></span>
|
|
767
|
+
<div class="method_details ">
|
|
768
|
+
<h3 class="signature " id="dangling_neurons-instance_method">
|
|
769
|
+
|
|
770
|
+
- (<tt>Object</tt>) <strong>dangling_neurons</strong>
|
|
771
|
+
|
|
772
|
+
|
|
773
|
+
|
|
774
|
+
<span class="aliases">Also known as:
|
|
775
|
+
<span class="names"><span id='dangling_neurons?-instance_method'>dangling_neurons?</span></span>
|
|
776
|
+
</span>
|
|
777
|
+
|
|
778
|
+
|
|
779
|
+
|
|
780
|
+
</h3><div class="docstring">
|
|
781
|
+
<div class="discussion">
|
|
782
|
+
|
|
783
|
+
<p>This will be set to true if there are dangling neurons.</p>
|
|
784
|
+
|
|
785
|
+
|
|
786
|
+
</div>
|
|
787
|
+
</div>
|
|
788
|
+
<div class="tags">
|
|
789
|
+
|
|
790
|
+
|
|
791
|
+
</div><table class="source_code">
|
|
792
|
+
<tr>
|
|
793
|
+
<td>
|
|
794
|
+
<pre class="lines">
|
|
795
|
+
|
|
796
|
+
|
|
797
|
+
79
|
|
798
|
+
80
|
|
799
|
+
81</pre>
|
|
800
|
+
</td>
|
|
801
|
+
<td>
|
|
802
|
+
<pre class="code"><span class="info file"># File 'lib/rubyneat/critter.rb', line 79</span>
|
|
803
|
+
|
|
804
|
+
<span class='kw'>def</span> <span class='id identifier rubyid_dangling_neurons'>dangling_neurons</span>
|
|
805
|
+
<span class='ivar'>@dangling_neurons</span>
|
|
806
|
+
<span class='kw'>end</span></pre>
|
|
807
|
+
</td>
|
|
808
|
+
</tr>
|
|
809
|
+
</table>
|
|
810
|
+
</div>
|
|
811
|
+
|
|
812
|
+
|
|
813
|
+
<span id="genes=-instance_method"></span>
|
|
814
|
+
<div class="method_details ">
|
|
815
|
+
<h3 class="signature " id="genes-instance_method">
|
|
816
|
+
|
|
817
|
+
- (<tt>Object</tt>) <strong>genes</strong>
|
|
818
|
+
|
|
819
|
+
|
|
820
|
+
|
|
821
|
+
|
|
822
|
+
|
|
823
|
+
</h3><div class="docstring">
|
|
824
|
+
<div class="discussion">
|
|
825
|
+
|
|
826
|
+
<p>Genes keyed by innovation numbers</p>
|
|
827
|
+
|
|
828
|
+
|
|
829
|
+
</div>
|
|
830
|
+
</div>
|
|
831
|
+
<div class="tags">
|
|
832
|
+
|
|
833
|
+
|
|
834
|
+
</div><table class="source_code">
|
|
835
|
+
<tr>
|
|
836
|
+
<td>
|
|
837
|
+
<pre class="lines">
|
|
838
|
+
|
|
839
|
+
|
|
840
|
+
70
|
|
841
|
+
71
|
|
842
|
+
72</pre>
|
|
843
|
+
</td>
|
|
844
|
+
<td>
|
|
845
|
+
<pre class="code"><span class="info file"># File 'lib/rubyneat/critter.rb', line 70</span>
|
|
846
|
+
|
|
847
|
+
<span class='kw'>def</span> <span class='id identifier rubyid_genes'>genes</span>
|
|
848
|
+
<span class='ivar'>@genes</span>
|
|
849
|
+
<span class='kw'>end</span></pre>
|
|
850
|
+
</td>
|
|
851
|
+
</tr>
|
|
852
|
+
</table>
|
|
853
|
+
</div>
|
|
854
|
+
|
|
855
|
+
|
|
856
|
+
<span id=""></span>
|
|
857
|
+
<div class="method_details ">
|
|
858
|
+
<h3 class="signature " id="neural_gene_map-instance_method">
|
|
859
|
+
|
|
860
|
+
- (<tt>Object</tt>) <strong>neural_gene_map</strong> <span class="extras">(readonly)</span>
|
|
861
|
+
|
|
862
|
+
|
|
863
|
+
|
|
864
|
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<p>Map neurons to the genes that marks them as output { oneu_name => [
|
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gene_1, gene_2,… gene_n], …} Just take the in_neuron name and the weight to
|
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do the call to that neuron function with the appropriate weights</p>
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<pre class="code"><span class="info file"># File 'lib/rubyneat/critter.rb', line 86</span>
|
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|
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|
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<span class='kw'>def</span> <span class='id identifier rubyid_neural_gene_map'>neural_gene_map</span>
|
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|
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|
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<span class='kw'>end</span></pre>
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<p>Instantiations of neural inputs and outputs</p>
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<pre class="code"><span class="info file"># File 'lib/rubyneat/critter.rb', line 76</span>
|
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|
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<span class='kw'>def</span> <span class='id identifier rubyid_neural_inputs'>neural_inputs</span>
|
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|
+
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|
|
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|
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<span class='kw'>end</span></pre>
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|
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<p>Instantiations of neural inputs and outputs</p>
|
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|
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<pre class="code"><span class="info file"># File 'lib/rubyneat/critter.rb', line 76</span>
|
|
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|
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|
|
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|
+
<span class='kw'>def</span> <span class='id identifier rubyid_neural_outputs'>neural_outputs</span>
|
|
979
|
+
<span class='ivar'>@neural_outputs</span>
|
|
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|
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<span class='kw'>end</span></pre>
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</div>
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|
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<span id="neurons=-instance_method"></span>
|
|
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|
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|
|
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|
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<h3 class="signature " id="neurons-instance_method">
|
|
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|
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|
|
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|
+
- (<tt>Object</tt>) <strong>neurons</strong>
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|
|
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|
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<div class="discussion">
|
|
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|
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|
|
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|
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<p>List of neurons hashed by name</p>
|
|
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|
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|
|
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|
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|
|
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|
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|
|
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|
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|
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|
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|
|
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|
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|
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|
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</div><table class="source_code">
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|
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<pre class="lines">
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|
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|
|
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|
+
75</pre>
|
|
1017
|
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</td>
|
|
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|
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<td>
|
|
1019
|
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<pre class="code"><span class="info file"># File 'lib/rubyneat/critter.rb', line 73</span>
|
|
1020
|
+
|
|
1021
|
+
<span class='kw'>def</span> <span class='id identifier rubyid_neurons'>neurons</span>
|
|
1022
|
+
<span class='ivar'>@neurons</span>
|
|
1023
|
+
<span class='kw'>end</span></pre>
|
|
1024
|
+
</td>
|
|
1025
|
+
</tr>
|
|
1026
|
+
</table>
|
|
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|
+
</div>
|
|
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|
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|
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|
+
</div>
|
|
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|
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|
|
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|
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|
|
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|
+
<div id="instance_method_details" class="method_details_list">
|
|
1033
|
+
<h2>Instance Method Details</h2>
|
|
1034
|
+
|
|
1035
|
+
|
|
1036
|
+
<div class="method_details first">
|
|
1037
|
+
<h3 class="signature first" id="add_genes-instance_method">
|
|
1038
|
+
|
|
1039
|
+
- (<tt>Object</tt>) <strong>add_genes</strong>(*genes)
|
|
1040
|
+
|
|
1041
|
+
|
|
1042
|
+
|
|
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|
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|
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|
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|
|
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|
+
</h3><div class="docstring">
|
|
1046
|
+
<div class="discussion">
|
|
1047
|
+
|
|
1048
|
+
<p>Genes added here MUST correspond to pre-existing neurons. Be sure to do
|
|
1049
|
+
add_neurons first!!!!</p>
|
|
1050
|
+
|
|
1051
|
+
|
|
1052
|
+
</div>
|
|
1053
|
+
</div>
|
|
1054
|
+
<div class="tags">
|
|
1055
|
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|
|
1056
|
+
|
|
1057
|
+
</div><table class="source_code">
|
|
1058
|
+
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|
|
1059
|
+
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|
|
1060
|
+
<pre class="lines">
|
|
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|
+
|
|
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|
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|
|
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|
+
163
|
|
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|
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164
|
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|
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165
|
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|
+
166
|
|
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|
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167
|
|
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|
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168
|
|
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|
+
169</pre>
|
|
1070
|
+
</td>
|
|
1071
|
+
<td>
|
|
1072
|
+
<pre class="code"><span class="info file"># File 'lib/rubyneat/critter.rb', line 163</span>
|
|
1073
|
+
|
|
1074
|
+
<span class='kw'>def</span> <span class='id identifier rubyid_add_genes'>add_genes</span><span class='lparen'>(</span><span class='op'>*</span><span class='id identifier rubyid_genes'>genes</span><span class='rparen'>)</span>
|
|
1075
|
+
<span class='id identifier rubyid_genes'>genes</span><span class='period'>.</span><span class='id identifier rubyid_each'>each</span> <span class='kw'>do</span> <span class='op'>|</span><span class='id identifier rubyid_gene'>gene</span><span class='op'>|</span>
|
|
1076
|
+
<span class='id identifier rubyid_raise'>raise</span> <span class='const'>NeatException</span><span class='period'>.</span><span class='id identifier rubyid_new'>new</span> <span class='tstring'><span class='tstring_beg'>"</span><span class='tstring_content'>Neuron </span><span class='embexpr_beg'>#{</span><span class='id identifier rubyid_gene'>gene</span><span class='period'>.</span><span class='id identifier rubyid_in_neuron'>in_neuron</span><span class='embexpr_end'>}</span><span class='tstring_content'> missing</span><span class='tstring_end'>"</span></span> <span class='kw'>unless</span> <span class='ivar'>@neurons</span><span class='period'>.</span><span class='id identifier rubyid_member?'>member?</span> <span class='id identifier rubyid_gene'>gene</span><span class='period'>.</span><span class='id identifier rubyid_in_neuron'>in_neuron</span>
|
|
1077
|
+
<span class='id identifier rubyid_raise'>raise</span> <span class='const'>NeatException</span><span class='period'>.</span><span class='id identifier rubyid_new'>new</span> <span class='tstring'><span class='tstring_beg'>"</span><span class='tstring_content'>Neuron </span><span class='embexpr_beg'>#{</span><span class='id identifier rubyid_gene'>gene</span><span class='period'>.</span><span class='id identifier rubyid_out_neuron'>out_neuron</span><span class='embexpr_end'>}</span><span class='tstring_content'> missing</span><span class='tstring_end'>"</span></span> <span class='kw'>unless</span> <span class='ivar'>@neurons</span><span class='period'>.</span><span class='id identifier rubyid_member?'>member?</span> <span class='id identifier rubyid_gene'>gene</span><span class='period'>.</span><span class='id identifier rubyid_out_neuron'>out_neuron</span>
|
|
1078
|
+
<span class='ivar'>@genes</span><span class='lbracket'>[</span><span class='id identifier rubyid_gene'>gene</span><span class='period'>.</span><span class='id identifier rubyid_innovation'>innovation</span><span class='rbracket'>]</span> <span class='op'>=</span> <span class='id identifier rubyid_gene'>gene</span>
|
|
1079
|
+
<span class='kw'>end</span>
|
|
1080
|
+
<span class='kw'>end</span></pre>
|
|
1081
|
+
</td>
|
|
1082
|
+
</tr>
|
|
1083
|
+
</table>
|
|
1084
|
+
</div>
|
|
1085
|
+
|
|
1086
|
+
<div class="method_details ">
|
|
1087
|
+
<h3 class="signature " id="add_neurons-instance_method">
|
|
1088
|
+
|
|
1089
|
+
- (<tt>Object</tt>) <strong>add_neurons</strong>(*neus)
|
|
1090
|
+
|
|
1091
|
+
|
|
1092
|
+
|
|
1093
|
+
|
|
1094
|
+
|
|
1095
|
+
</h3><div class="docstring">
|
|
1096
|
+
<div class="discussion">
|
|
1097
|
+
|
|
1098
|
+
<p>Add new neurons to the fold</p>
|
|
1099
|
+
|
|
1100
|
+
|
|
1101
|
+
</div>
|
|
1102
|
+
</div>
|
|
1103
|
+
<div class="tags">
|
|
1104
|
+
|
|
1105
|
+
|
|
1106
|
+
</div><table class="source_code">
|
|
1107
|
+
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|
|
1108
|
+
<td>
|
|
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|
+
<pre class="lines">
|
|
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|
+
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|
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|
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|
+
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|
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|
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|
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|
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|
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158
|
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|
+
159</pre>
|
|
1117
|
+
</td>
|
|
1118
|
+
<td>
|
|
1119
|
+
<pre class="code"><span class="info file"># File 'lib/rubyneat/critter.rb', line 155</span>
|
|
1120
|
+
|
|
1121
|
+
<span class='kw'>def</span> <span class='id identifier rubyid_add_neurons'>add_neurons</span><span class='lparen'>(</span><span class='op'>*</span><span class='id identifier rubyid_neus'>neus</span><span class='rparen'>)</span>
|
|
1122
|
+
<span class='id identifier rubyid_neus'>neus</span><span class='period'>.</span><span class='id identifier rubyid_each'>each</span> <span class='kw'>do</span> <span class='op'>|</span><span class='id identifier rubyid_neu'>neu</span><span class='op'>|</span>
|
|
1123
|
+
<span class='ivar'>@neurons</span><span class='lbracket'>[</span><span class='id identifier rubyid_neu'>neu</span><span class='period'>.</span><span class='id identifier rubyid_name'>name</span><span class='rbracket'>]</span> <span class='op'>=</span> <span class='id identifier rubyid_neu'>neu</span>
|
|
1124
|
+
<span class='kw'>end</span>
|
|
1125
|
+
<span class='kw'>end</span></pre>
|
|
1126
|
+
</td>
|
|
1127
|
+
</tr>
|
|
1128
|
+
</table>
|
|
1129
|
+
</div>
|
|
1130
|
+
|
|
1131
|
+
<div class="method_details ">
|
|
1132
|
+
<h3 class="signature " id="dump_s-instance_method">
|
|
1133
|
+
|
|
1134
|
+
- (<tt>Object</tt>) <strong>dump_s</strong>
|
|
1135
|
+
|
|
1136
|
+
|
|
1137
|
+
|
|
1138
|
+
|
|
1139
|
+
|
|
1140
|
+
</h3><table class="source_code">
|
|
1141
|
+
<tr>
|
|
1142
|
+
<td>
|
|
1143
|
+
<pre class="lines">
|
|
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|
+
|
|
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|
+
|
|
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|
+
218
|
|
1147
|
+
219
|
|
1148
|
+
220
|
|
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|
+
221
|
|
1150
|
+
222</pre>
|
|
1151
|
+
</td>
|
|
1152
|
+
<td>
|
|
1153
|
+
<pre class="code"><span class="info file"># File 'lib/rubyneat/critter.rb', line 218</span>
|
|
1154
|
+
|
|
1155
|
+
<span class='kw'>def</span> <span class='id identifier rubyid_dump_s'>dump_s</span>
|
|
1156
|
+
<span class='id identifier rubyid_to_s'>to_s</span> <span class='op'>+</span> <span class='tstring'><span class='tstring_beg'>"</span><span class='tstring_content'>\ngenes:\n</span><span class='tstring_end'>"</span></span> <span class='op'>+</span> <span class='ivar'>@genes</span><span class='period'>.</span><span class='id identifier rubyid_map'>map</span><span class='lbrace'>{</span><span class='op'>|</span><span class='id identifier rubyid_k'>k</span><span class='comma'>,</span> <span class='id identifier rubyid_gene'>gene</span><span class='op'>|</span>
|
|
1157
|
+
<span class='id identifier rubyid_gene'>gene</span><span class='period'>.</span><span class='id identifier rubyid_to_s'>to_s</span><span class='rbrace'>}</span><span class='period'>.</span><span class='id identifier rubyid_join'>join</span><span class='lparen'>(</span><span class='tstring'><span class='tstring_beg'>"</span><span class='tstring_content'>\n</span><span class='tstring_end'>"</span></span><span class='rparen'>)</span> <span class='op'>+</span> <span class='tstring'><span class='tstring_beg'>"</span><span class='tstring_content'>\nneurons:\n</span><span class='tstring_end'>"</span></span> <span class='op'>+</span> <span class='ivar'>@neurons</span><span class='period'>.</span><span class='id identifier rubyid_map'>map</span><span class='lbrace'>{</span><span class='op'>|</span><span class='id identifier rubyid_k'>k</span><span class='comma'>,</span> <span class='id identifier rubyid_neu'>neu</span><span class='op'>|</span>
|
|
1158
|
+
<span class='id identifier rubyid_neu'>neu</span><span class='period'>.</span><span class='id identifier rubyid_to_s'>to_s</span><span class='rbrace'>}</span><span class='period'>.</span><span class='id identifier rubyid_join'>join</span><span class='lparen'>(</span><span class='tstring'><span class='tstring_beg'>"</span><span class='tstring_content'>\n</span><span class='tstring_end'>"</span></span><span class='rparen'>)</span>
|
|
1159
|
+
<span class='kw'>end</span></pre>
|
|
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|
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|
|
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|
+
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|
|
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|
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</table>
|
|
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|
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|
|
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|
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|
|
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|
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|
|
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|
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<h3 class="signature " id="fitness_cost-instance_method">
|
|
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|
+
|
|
1168
|
+
- (<tt>Object</tt>) <strong>fitness_cost</strong>
|
|
1169
|
+
|
|
1170
|
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|
|
1171
|
+
|
|
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|
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|
|
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|
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|
|
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|
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|
|
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|
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<div class="discussion">
|
|
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|
+
|
|
1177
|
+
<p>Calculate the cost of this genotype.</p>
|
|
1178
|
+
|
|
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|
+
|
|
1180
|
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</div>
|
|
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|
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|
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|
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|
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|
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|
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|
|
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|
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</div><table class="source_code">
|
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|
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|
|
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|
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|
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|
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216</pre>
|
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|
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|
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|
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|
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|
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<pre class="code"><span class="info file"># File 'lib/rubyneat/critter.rb', line 213</span>
|
|
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|
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|
|
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|
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<span class='kw'>def</span> <span class='id identifier rubyid_fitness_cost'>fitness_cost</span>
|
|
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|
+
<span class='id identifier rubyid_p'>p</span> <span class='op'>=</span> <span class='ivar'>@controller</span><span class='period'>.</span><span class='id identifier rubyid_parms'>parms</span>
|
|
1201
|
+
<span class='id identifier rubyid_p'>p</span><span class='period'>.</span><span class='id identifier rubyid_fitness_cost_per_neuron'>fitness_cost_per_neuron</span> <span class='op'>*</span> <span class='ivar'>@neurons</span><span class='period'>.</span><span class='id identifier rubyid_size'>size</span> <span class='op'>+</span> <span class='id identifier rubyid_p'>p</span><span class='period'>.</span><span class='id identifier rubyid_fitness_cost_per_gene'>fitness_cost_per_gene</span> <span class='op'>*</span> <span class='ivar'>@genes</span><span class='period'>.</span><span class='id identifier rubyid_size'>size</span>
|
|
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|
+
<span class='kw'>end</span></pre>
|
|
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|
+
</td>
|
|
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|
+
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|
|
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|
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</table>
|
|
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|
+
</div>
|
|
1207
|
+
|
|
1208
|
+
<div class="method_details ">
|
|
1209
|
+
<h3 class="signature " id="forget!-instance_method">
|
|
1210
|
+
|
|
1211
|
+
- (<tt>Object</tt>) <strong>forget!</strong>
|
|
1212
|
+
|
|
1213
|
+
|
|
1214
|
+
|
|
1215
|
+
|
|
1216
|
+
|
|
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|
+
</h3><div class="docstring">
|
|
1218
|
+
<div class="discussion">
|
|
1219
|
+
|
|
1220
|
+
<p>Make the neurons forget their wiring.</p>
|
|
1221
|
+
|
|
1222
|
+
|
|
1223
|
+
</div>
|
|
1224
|
+
</div>
|
|
1225
|
+
<div class="tags">
|
|
1226
|
+
|
|
1227
|
+
|
|
1228
|
+
</div><table class="source_code">
|
|
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|
+
<tr>
|
|
1230
|
+
<td>
|
|
1231
|
+
<pre class="lines">
|
|
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|
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|
|
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|
+
|
|
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|
+
134
|
|
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|
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135
|
|
1236
|
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136
|
|
1237
|
+
137</pre>
|
|
1238
|
+
</td>
|
|
1239
|
+
<td>
|
|
1240
|
+
<pre class="code"><span class="info file"># File 'lib/rubyneat/critter.rb', line 134</span>
|
|
1241
|
+
|
|
1242
|
+
<span class='kw'>def</span> <span class='id identifier rubyid_forget!'>forget!</span>
|
|
1243
|
+
<span class='ivar'>@neurons</span><span class='period'>.</span><span class='id identifier rubyid_each'>each</span> <span class='lbrace'>{</span> <span class='op'>|</span><span class='id identifier rubyid_name'>name</span><span class='comma'>,</span> <span class='id identifier rubyid_neu'>neu</span><span class='op'>|</span> <span class='id identifier rubyid_neu'>neu</span><span class='period'>.</span><span class='id identifier rubyid_clear_graph'>clear_graph</span> <span class='rbrace'>}</span>
|
|
1244
|
+
<span class='ivar'>@neural_gene_map</span> <span class='op'>=</span> <span class='const'>Hash</span><span class='period'>.</span><span class='id identifier rubyid_new'>new</span> <span class='lbrace'>{</span><span class='op'>|</span><span class='id identifier rubyid_h'>h</span><span class='comma'>,</span> <span class='id identifier rubyid_k'>k</span><span class='op'>|</span> <span class='id identifier rubyid_h'>h</span><span class='lbracket'>[</span><span class='id identifier rubyid_k'>k</span><span class='rbracket'>]</span> <span class='op'>=</span> <span class='lbracket'>[</span><span class='rbracket'>]</span> <span class='rbrace'>}</span>
|
|
1245
|
+
<span class='kw'>end</span></pre>
|
|
1246
|
+
</td>
|
|
1247
|
+
</tr>
|
|
1248
|
+
</table>
|
|
1249
|
+
</div>
|
|
1250
|
+
|
|
1251
|
+
<div class="method_details ">
|
|
1252
|
+
<h3 class="signature " id="innervate!-instance_method">
|
|
1253
|
+
|
|
1254
|
+
- (<tt>Object</tt>) <strong>innervate!</strong>(*hneus)
|
|
1255
|
+
|
|
1256
|
+
|
|
1257
|
+
|
|
1258
|
+
|
|
1259
|
+
|
|
1260
|
+
</h3><div class="docstring">
|
|
1261
|
+
<div class="discussion">
|
|
1262
|
+
|
|
1263
|
+
<p>We take the neural hashes (presumably from other neurons), and innervate
|
|
1264
|
+
them. We do this in distinctions based on the neuron's names. FIXME We
|
|
1265
|
+
need to randomly select a neuron in the case of clashes.</p>
|
|
1266
|
+
|
|
1267
|
+
|
|
1268
|
+
</div>
|
|
1269
|
+
</div>
|
|
1270
|
+
<div class="tags">
|
|
1271
|
+
<p class="tag_title">Parameters:</p>
|
|
1272
|
+
<ul class="param">
|
|
1273
|
+
|
|
1274
|
+
<li>
|
|
1275
|
+
|
|
1276
|
+
<span class='name'>hneus</span>
|
|
1277
|
+
|
|
1278
|
+
|
|
1279
|
+
<span class='type'>(<tt>Hash</tt>)</span>
|
|
1280
|
+
|
|
1281
|
+
|
|
1282
|
+
|
|
1283
|
+
—
|
|
1284
|
+
<div class='inline'>
|
|
1285
|
+
<p>– hashes of neurons to innervate</p>
|
|
1286
|
+
</div>
|
|
1287
|
+
|
|
1288
|
+
</li>
|
|
1289
|
+
|
|
1290
|
+
</ul>
|
|
1291
|
+
|
|
1292
|
+
|
|
1293
|
+
</div><table class="source_code">
|
|
1294
|
+
<tr>
|
|
1295
|
+
<td>
|
|
1296
|
+
<pre class="lines">
|
|
1297
|
+
|
|
1298
|
+
|
|
1299
|
+
175
|
|
1300
|
+
176
|
|
1301
|
+
177
|
|
1302
|
+
178
|
|
1303
|
+
179</pre>
|
|
1304
|
+
</td>
|
|
1305
|
+
<td>
|
|
1306
|
+
<pre class="code"><span class="info file"># File 'lib/rubyneat/critter.rb', line 175</span>
|
|
1307
|
+
|
|
1308
|
+
<span class='kw'>def</span> <span class='id identifier rubyid_innervate!'>innervate!</span><span class='lparen'>(</span><span class='op'>*</span><span class='id identifier rubyid_hneus'>hneus</span><span class='rparen'>)</span>
|
|
1309
|
+
<span class='id identifier rubyid_hneus'>hneus</span><span class='period'>.</span><span class='id identifier rubyid_each'>each</span> <span class='kw'>do</span> <span class='op'>|</span><span class='id identifier rubyid_neus'>neus</span><span class='op'>|</span>
|
|
1310
|
+
<span class='ivar'>@neurons</span><span class='period'>.</span><span class='id identifier rubyid_merge!'>merge!</span> <span class='id identifier rubyid_neus'>neus</span><span class='period'>.</span><span class='id identifier rubyid_dclone'>dclone</span>
|
|
1311
|
+
<span class='kw'>end</span>
|
|
1312
|
+
<span class='kw'>end</span></pre>
|
|
1313
|
+
</td>
|
|
1314
|
+
</tr>
|
|
1315
|
+
</table>
|
|
1316
|
+
</div>
|
|
1317
|
+
|
|
1318
|
+
<div class="method_details ">
|
|
1319
|
+
<h3 class="signature " id="neucleate-instance_method">
|
|
1320
|
+
|
|
1321
|
+
- (<tt>Object</tt>) <strong>neucleate</strong>(clean: true, &block)
|
|
1322
|
+
|
|
1323
|
+
|
|
1324
|
+
|
|
1325
|
+
|
|
1326
|
+
|
|
1327
|
+
</h3><div class="docstring">
|
|
1328
|
+
<div class="discussion">
|
|
1329
|
+
|
|
1330
|
+
<p>We add genes given here to the genome. An array of genes is returned from
|
|
1331
|
+
the block and we simply add them in.</p>
|
|
1332
|
+
|
|
1333
|
+
|
|
1334
|
+
</div>
|
|
1335
|
+
</div>
|
|
1336
|
+
<div class="tags">
|
|
1337
|
+
<p class="tag_title">Parameters:</p>
|
|
1338
|
+
<ul class="param">
|
|
1339
|
+
|
|
1340
|
+
<li>
|
|
1341
|
+
|
|
1342
|
+
<span class='name'>clean</span>
|
|
1343
|
+
|
|
1344
|
+
|
|
1345
|
+
<span class='type'>(<tt>boolean</tt>)</span>
|
|
1346
|
+
|
|
1347
|
+
|
|
1348
|
+
|
|
1349
|
+
</li>
|
|
1350
|
+
|
|
1351
|
+
<li>
|
|
1352
|
+
|
|
1353
|
+
<span class='name'>block</span>
|
|
1354
|
+
|
|
1355
|
+
|
|
1356
|
+
<span class='type'>(<tt>Proc</tt>)</span>
|
|
1357
|
+
|
|
1358
|
+
|
|
1359
|
+
|
|
1360
|
+
</li>
|
|
1361
|
+
|
|
1362
|
+
</ul>
|
|
1363
|
+
|
|
1364
|
+
|
|
1365
|
+
</div><table class="source_code">
|
|
1366
|
+
<tr>
|
|
1367
|
+
<td>
|
|
1368
|
+
<pre class="lines">
|
|
1369
|
+
|
|
1370
|
+
|
|
1371
|
+
113
|
|
1372
|
+
114
|
|
1373
|
+
115
|
|
1374
|
+
116
|
|
1375
|
+
117
|
|
1376
|
+
118
|
|
1377
|
+
119
|
|
1378
|
+
120
|
|
1379
|
+
121
|
|
1380
|
+
122
|
|
1381
|
+
123</pre>
|
|
1382
|
+
</td>
|
|
1383
|
+
<td>
|
|
1384
|
+
<pre class="code"><span class="info file"># File 'lib/rubyneat/critter.rb', line 113</span>
|
|
1385
|
+
|
|
1386
|
+
<span class='kw'>def</span> <span class='id identifier rubyid_neucleate'>neucleate</span><span class='lparen'>(</span><span class='label'>clean:</span> <span class='kw'>true</span><span class='comma'>,</span> <span class='op'>&</span><span class='id identifier rubyid_block'>block</span><span class='rparen'>)</span>
|
|
1387
|
+
<span class='id identifier rubyid_genes'>genes</span> <span class='op'>=</span> <span class='const'>Hash</span><span class='lbracket'>[</span><span class='id identifier rubyid_block'>block</span><span class='period'>.</span><span class='lparen'>(</span><span class='kw'>self</span><span class='rparen'>)</span><span class='period'>.</span><span class='id identifier rubyid_map'>map</span> <span class='lbrace'>{</span> <span class='op'>|</span><span class='id identifier rubyid_g'>g</span><span class='op'>|</span>
|
|
1388
|
+
<span class='id identifier rubyid_g'>g</span><span class='period'>.</span><span class='id identifier rubyid_genotype'>genotype</span> <span class='op'>=</span> <span class='kw'>self</span>
|
|
1389
|
+
<span class='lbracket'>[</span><span class='id identifier rubyid_g'>g</span><span class='period'>.</span><span class='id identifier rubyid_innovation'>innovation</span><span class='comma'>,</span> <span class='id identifier rubyid_g'>g</span><span class='rbracket'>]</span> <span class='rbrace'>}</span><span class='rbracket'>]</span>
|
|
1390
|
+
<span class='kw'>if</span> <span class='id identifier rubyid_clean'>clean</span>
|
|
1391
|
+
<span class='ivar'>@genes</span> <span class='op'>=</span> <span class='id identifier rubyid_genes'>genes</span>
|
|
1392
|
+
<span class='kw'>else</span>
|
|
1393
|
+
<span class='ivar'>@genes</span><span class='period'>.</span><span class='id identifier rubyid_merge!'>merge!</span> <span class='id identifier rubyid_genes'>genes</span>
|
|
1394
|
+
<span class='kw'>end</span>
|
|
1395
|
+
<span class='id identifier rubyid_nuke_redundancies!'>nuke_redundancies!</span>
|
|
1396
|
+
<span class='kw'>end</span></pre>
|
|
1397
|
+
</td>
|
|
1398
|
+
</tr>
|
|
1399
|
+
</table>
|
|
1400
|
+
</div>
|
|
1401
|
+
|
|
1402
|
+
<div class="method_details ">
|
|
1403
|
+
<h3 class="signature " id="nuke_redundancies!-instance_method">
|
|
1404
|
+
|
|
1405
|
+
- (<tt>Object</tt>) <strong>nuke_redundancies!</strong>
|
|
1406
|
+
|
|
1407
|
+
|
|
1408
|
+
|
|
1409
|
+
|
|
1410
|
+
|
|
1411
|
+
</h3><div class="docstring">
|
|
1412
|
+
<div class="discussion">
|
|
1413
|
+
|
|
1414
|
+
<p>Remove any redundancies in the genome, any genes refering to the same two
|
|
1415
|
+
neurons. Simply choose one and delete the rest. TODO: implement
|
|
1416
|
+
nuke_redundancies!</p>
|
|
1417
|
+
|
|
1418
|
+
|
|
1419
|
+
</div>
|
|
1420
|
+
</div>
|
|
1421
|
+
<div class="tags">
|
|
1422
|
+
|
|
1423
|
+
|
|
1424
|
+
</div><table class="source_code">
|
|
1425
|
+
<tr>
|
|
1426
|
+
<td>
|
|
1427
|
+
<pre class="lines">
|
|
1428
|
+
|
|
1429
|
+
|
|
1430
|
+
129
|
|
1431
|
+
130
|
|
1432
|
+
131</pre>
|
|
1433
|
+
</td>
|
|
1434
|
+
<td>
|
|
1435
|
+
<pre class="code"><span class="info file"># File 'lib/rubyneat/critter.rb', line 129</span>
|
|
1436
|
+
|
|
1437
|
+
<span class='kw'>def</span> <span class='id identifier rubyid_nuke_redundancies!'>nuke_redundancies!</span>
|
|
1438
|
+
<span class='id identifier rubyid_log'>log</span><span class='period'>.</span><span class='id identifier rubyid_warn'>warn</span> <span class='tstring'><span class='tstring_beg'>'</span><span class='tstring_content'>nuke_redundancies! NIY</span><span class='tstring_end'>'</span></span>
|
|
1439
|
+
<span class='kw'>end</span></pre>
|
|
1440
|
+
</td>
|
|
1441
|
+
</tr>
|
|
1442
|
+
</table>
|
|
1443
|
+
</div>
|
|
1444
|
+
|
|
1445
|
+
<div class="method_details ">
|
|
1446
|
+
<h3 class="signature " id="prune!-instance_method">
|
|
1447
|
+
|
|
1448
|
+
- (<tt>Object</tt>) <strong>prune!</strong>
|
|
1449
|
+
|
|
1450
|
+
|
|
1451
|
+
|
|
1452
|
+
|
|
1453
|
+
|
|
1454
|
+
</h3><div class="docstring">
|
|
1455
|
+
<div class="discussion">
|
|
1456
|
+
|
|
1457
|
+
<p>Go through the list of neurons and drop any neurons not referenced by the
|
|
1458
|
+
genes.</p>
|
|
1459
|
+
|
|
1460
|
+
<p>Then go through the genes and drop any that are dangling (i.e. no matching
|
|
1461
|
+
neurons)</p>
|
|
1462
|
+
|
|
1463
|
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<p>Then make sure that @neural_inputs and @neural_outputs reference the actual
|
|
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|
+
instance neurons in @neurons</p>
|
|
1465
|
+
|
|
1466
|
+
<p>TODO add this circularity check to prune!</p>
|
|
1467
|
+
|
|
1468
|
+
|
|
1469
|
+
</div>
|
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|
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</div>
|
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|
+
<div class="tags">
|
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1472
|
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|
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|
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|
|
1474
|
+
</div><table class="source_code">
|
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|
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<tr>
|
|
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|
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<td>
|
|
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<pre class="lines">
|
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|
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|
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|
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209
|
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|
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210</pre>
|
|
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|
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</td>
|
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|
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<td>
|
|
1502
|
+
<pre class="code"><span class="info file"># File 'lib/rubyneat/critter.rb', line 191</span>
|
|
1503
|
+
|
|
1504
|
+
<span class='kw'>def</span> <span class='id identifier rubyid_prune!'>prune!</span>
|
|
1505
|
+
<span class='comment'># Take care of dangling neurons
|
|
1506
|
+
</span> <span class='id identifier rubyid_neunames'>neunames</span> <span class='op'>=</span> <span class='ivar'>@genes</span><span class='period'>.</span><span class='id identifier rubyid_values'>values</span><span class='period'>.</span><span class='id identifier rubyid_map'>map</span><span class='lbrace'>{</span><span class='op'>|</span><span class='id identifier rubyid_g'>g</span><span class='op'>|</span> <span class='lbracket'>[</span><span class='id identifier rubyid_g'>g</span><span class='period'>.</span><span class='id identifier rubyid_in_neuron'>in_neuron</span><span class='comma'>,</span> <span class='id identifier rubyid_g'>g</span><span class='period'>.</span><span class='id identifier rubyid_out_neuron'>out_neuron</span><span class='rbracket'>]</span><span class='rbrace'>}</span><span class='period'>.</span><span class='id identifier rubyid_flatten'>flatten</span><span class='period'>.</span><span class='id identifier rubyid_to_set'>to_set</span>
|
|
1507
|
+
<span class='ivar'>@neurons</span> <span class='op'>=</span> <span class='const'>Hash</span><span class='lbracket'>[</span><span class='ivar'>@neurons</span><span class='period'>.</span><span class='id identifier rubyid_values'>values</span><span class='period'>.</span><span class='id identifier rubyid_reject'>reject</span> <span class='kw'>do</span> <span class='op'>|</span><span class='id identifier rubyid_n'>n</span><span class='op'>|</span>
|
|
1508
|
+
<span class='kw'>not</span> <span class='id identifier rubyid_neunames'>neunames</span><span class='period'>.</span><span class='id identifier rubyid_member?'>member?</span> <span class='id identifier rubyid_n'>n</span><span class='period'>.</span><span class='id identifier rubyid_name'>name</span>
|
|
1509
|
+
<span class='kw'>end</span><span class='period'>.</span><span class='id identifier rubyid_map'>map</span> <span class='kw'>do</span> <span class='op'>|</span><span class='id identifier rubyid_n'>n</span><span class='op'>|</span>
|
|
1510
|
+
<span class='lbracket'>[</span><span class='id identifier rubyid_n'>n</span><span class='period'>.</span><span class='id identifier rubyid_name'>name</span><span class='comma'>,</span> <span class='id identifier rubyid_n'>n</span><span class='rbracket'>]</span>
|
|
1511
|
+
<span class='kw'>end</span><span class='rbracket'>]</span>
|
|
1512
|
+
|
|
1513
|
+
<span class='comment'># Take care of dangling genes
|
|
1514
|
+
</span> <span class='ivar'>@genes</span> <span class='op'>=</span> <span class='const'>Hash</span><span class='lbracket'>[</span><span class='ivar'>@genes</span><span class='period'>.</span><span class='id identifier rubyid_values'>values</span><span class='period'>.</span><span class='id identifier rubyid_reject'>reject</span> <span class='kw'>do</span> <span class='op'>|</span><span class='id identifier rubyid_gene'>gene</span><span class='op'>|</span>
|
|
1515
|
+
<span class='kw'>not</span> <span class='lparen'>(</span><span class='ivar'>@neurons</span><span class='period'>.</span><span class='id identifier rubyid_member?'>member?</span><span class='lparen'>(</span><span class='id identifier rubyid_gene'>gene</span><span class='period'>.</span><span class='id identifier rubyid_in_neuron'>in_neuron</span><span class='rparen'>)</span> <span class='kw'>and</span> <span class='ivar'>@neurons</span><span class='period'>.</span><span class='id identifier rubyid_member?'>member?</span><span class='lparen'>(</span><span class='id identifier rubyid_gene'>gene</span><span class='period'>.</span><span class='id identifier rubyid_out_neuron'>out_neuron</span><span class='rparen'>)</span><span class='rparen'>)</span>
|
|
1516
|
+
<span class='kw'>end</span><span class='period'>.</span><span class='id identifier rubyid_map'>map</span> <span class='kw'>do</span> <span class='op'>|</span><span class='id identifier rubyid_gene'>gene</span><span class='op'>|</span>
|
|
1517
|
+
<span class='lbracket'>[</span><span class='id identifier rubyid_gene'>gene</span><span class='period'>.</span><span class='id identifier rubyid_name'>name</span><span class='comma'>,</span> <span class='id identifier rubyid_gene'>gene</span><span class='rbracket'>]</span>
|
|
1518
|
+
<span class='kw'>end</span><span class='rbracket'>]</span>
|
|
1519
|
+
|
|
1520
|
+
<span class='comment'># Make sure @neural_inputs and @neural_outputs are consistent
|
|
1521
|
+
</span> <span class='ivar'>@neural_inputs</span> <span class='op'>=</span> <span class='const'>Hash</span><span class='lbracket'>[</span><span class='ivar'>@neural_inputs</span><span class='period'>.</span><span class='id identifier rubyid_values'>values</span><span class='period'>.</span><span class='id identifier rubyid_map'>map</span><span class='lbrace'>{</span><span class='op'>|</span><span class='id identifier rubyid_n'>n</span><span class='op'>|</span> <span class='lbracket'>[</span><span class='id identifier rubyid_n'>n</span><span class='period'>.</span><span class='id identifier rubyid_name'>name</span><span class='comma'>,</span> <span class='ivar'>@neurons</span><span class='lbracket'>[</span><span class='id identifier rubyid_n'>n</span><span class='period'>.</span><span class='id identifier rubyid_name'>name</span><span class='rbracket'>]</span><span class='rbracket'>]</span><span class='rbrace'>}</span><span class='rbracket'>]</span>
|
|
1522
|
+
<span class='ivar'>@neural_outputs</span> <span class='op'>=</span> <span class='const'>Hash</span><span class='lbracket'>[</span><span class='ivar'>@neural_outputs</span><span class='period'>.</span><span class='id identifier rubyid_values'>values</span><span class='period'>.</span><span class='id identifier rubyid_map'>map</span><span class='lbrace'>{</span><span class='op'>|</span><span class='id identifier rubyid_n'>n</span><span class='op'>|</span> <span class='lbracket'>[</span><span class='id identifier rubyid_n'>n</span><span class='period'>.</span><span class='id identifier rubyid_name'>name</span><span class='comma'>,</span> <span class='ivar'>@neurons</span><span class='lbracket'>[</span><span class='id identifier rubyid_n'>n</span><span class='period'>.</span><span class='id identifier rubyid_name'>name</span><span class='rbracket'>]</span><span class='rbracket'>]</span><span class='rbrace'>}</span><span class='rbracket'>]</span>
|
|
1523
|
+
<span class='kw'>end</span></pre>
|
|
1524
|
+
</td>
|
|
1525
|
+
</tr>
|
|
1526
|
+
</table>
|
|
1527
|
+
</div>
|
|
1528
|
+
|
|
1529
|
+
<div class="method_details ">
|
|
1530
|
+
<h3 class="signature " id="wire!-instance_method">
|
|
1531
|
+
|
|
1532
|
+
- (<tt>Object</tt>) <strong>wire!</strong>
|
|
1533
|
+
|
|
1534
|
+
|
|
1535
|
+
|
|
1536
|
+
|
|
1537
|
+
|
|
1538
|
+
</h3><div class="docstring">
|
|
1539
|
+
<div class="discussion">
|
|
1540
|
+
|
|
1541
|
+
<p>Wire up the neurons based on the genes.</p>
|
|
1542
|
+
|
|
1543
|
+
|
|
1544
|
+
</div>
|
|
1545
|
+
</div>
|
|
1546
|
+
<div class="tags">
|
|
1547
|
+
|
|
1548
|
+
|
|
1549
|
+
</div><table class="source_code">
|
|
1550
|
+
<tr>
|
|
1551
|
+
<td>
|
|
1552
|
+
<pre class="lines">
|
|
1553
|
+
|
|
1554
|
+
|
|
1555
|
+
140
|
|
1556
|
+
141
|
|
1557
|
+
142
|
|
1558
|
+
143
|
|
1559
|
+
144
|
|
1560
|
+
145
|
|
1561
|
+
146
|
|
1562
|
+
147
|
|
1563
|
+
148
|
|
1564
|
+
149
|
|
1565
|
+
150
|
|
1566
|
+
151
|
|
1567
|
+
152</pre>
|
|
1568
|
+
</td>
|
|
1569
|
+
<td>
|
|
1570
|
+
<pre class="code"><span class="info file"># File 'lib/rubyneat/critter.rb', line 140</span>
|
|
1571
|
+
|
|
1572
|
+
<span class='kw'>def</span> <span class='id identifier rubyid_wire!'>wire!</span>
|
|
1573
|
+
<span class='id identifier rubyid_forget!'>forget!</span>
|
|
1574
|
+
<span class='ivar'>@genes</span><span class='period'>.</span><span class='id identifier rubyid_each'>each</span> <span class='kw'>do</span> <span class='op'>|</span><span class='id identifier rubyid_innov'>innov</span><span class='comma'>,</span> <span class='id identifier rubyid_gene'>gene</span><span class='op'>|</span>
|
|
1575
|
+
<span class='kw'>if</span> <span class='id identifier rubyid_gene'>gene</span><span class='period'>.</span><span class='id identifier rubyid_enabled?'>enabled?</span>
|
|
1576
|
+
<span class='id identifier rubyid_raise'>raise</span> <span class='const'>NeatException</span><span class='period'>.</span><span class='id identifier rubyid_new'>new</span> <span class='tstring'><span class='tstring_beg'>"</span><span class='tstring_content'>Can't find </span><span class='embexpr_beg'>#{</span><span class='id identifier rubyid_gene'>gene</span><span class='period'>.</span><span class='id identifier rubyid_out_neuron'>out_neuron</span><span class='embexpr_end'>}</span><span class='tstring_end'>"</span></span> <span class='kw'>if</span> <span class='ivar'>@neurons</span><span class='lbracket'>[</span><span class='id identifier rubyid_gene'>gene</span><span class='period'>.</span><span class='id identifier rubyid_out_neuron'>out_neuron</span><span class='rbracket'>]</span><span class='period'>.</span><span class='id identifier rubyid_nil?'>nil?</span>
|
|
1577
|
+
<span class='ivar'>@neurons</span><span class='lbracket'>[</span><span class='id identifier rubyid_gene'>gene</span><span class='period'>.</span><span class='id identifier rubyid_out_neuron'>out_neuron</span><span class='rbracket'>]</span> <span class='op'><<</span> <span class='ivar'>@neurons</span><span class='lbracket'>[</span><span class='id identifier rubyid_gene'>gene</span><span class='period'>.</span><span class='id identifier rubyid_in_neuron'>in_neuron</span><span class='rbracket'>]</span>
|
|
1578
|
+
<span class='ivar'>@neural_gene_map</span><span class='lbracket'>[</span><span class='id identifier rubyid_gene'>gene</span><span class='period'>.</span><span class='id identifier rubyid_out_neuron'>out_neuron</span><span class='rbracket'>]</span> <span class='op'><<</span> <span class='id identifier rubyid_gene'>gene</span> <span class='kw'>unless</span> <span class='id identifier rubyid_gene'>gene</span><span class='period'>.</span><span class='id identifier rubyid_in_neuron'>in_neuron</span><span class='period'>.</span><span class='id identifier rubyid_nil?'>nil?</span>
|
|
1579
|
+
<span class='kw'>end</span>
|
|
1580
|
+
<span class='kw'>end</span> <span class='kw'>unless</span> <span class='ivar'>@genes</span><span class='period'>.</span><span class='id identifier rubyid_nil?'>nil?</span>
|
|
1581
|
+
<span class='kw'>if</span> <span class='ivar'>@genes</span><span class='period'>.</span><span class='id identifier rubyid_nil?'>nil?</span>
|
|
1582
|
+
<span class='gvar'>$log</span><span class='period'>.</span><span class='id identifier rubyid_error'>error</span> <span class='tstring'><span class='tstring_beg'>'</span><span class='tstring_content'>Genes Not Present</span><span class='tstring_end'>'</span></span>
|
|
1583
|
+
<span class='kw'>end</span>
|
|
1584
|
+
<span class='kw'>end</span></pre>
|
|
1585
|
+
</td>
|
|
1586
|
+
</tr>
|
|
1587
|
+
</table>
|
|
1588
|
+
</div>
|
|
1589
|
+
|
|
1590
|
+
</div>
|
|
1591
|
+
|
|
1592
|
+
</div>
|
|
1593
|
+
|
|
1594
|
+
<div id="footer">
|
|
1595
|
+
Generated on Sun Apr 13 15:54:02 2014 by
|
|
1596
|
+
<a href="http://yardoc.org" title="Yay! A Ruby Documentation Tool" target="_parent">yard</a>
|
|
1597
|
+
0.8.7.4 (ruby-2.1.1).
|
|
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|
+
</div>
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|
1599
|
+
|
|
1600
|
+
</body>
|
|
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|
+
</html>
|