RubyGems - evolvable - Versions diffs - 1.2.0 → 2.0.0 - Mend

evolvable 1.2.0 → 2.0.0

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Files changed (79) hide show

checksums.yaml +4 -4
data/.yardopts +2 -0
data/CHANGELOG.md +24 -0
data/Gemfile +2 -2
data/Gemfile.lock +44 -25
data/README.md +498 -190
data/README_YARD.md +85 -166
data/bin/console +10 -19
data/docs/Evolvable/ClassMethods.html +1233 -0
data/docs/Evolvable/Community/ClassMethods.html +708 -0
data/docs/Evolvable/Community.html +1342 -0
data/docs/Evolvable/CountGene.html +886 -0
data/docs/Evolvable/EqualizeGoal.html +347 -0
data/docs/Evolvable/Error.html +134 -0
data/docs/Evolvable/Evaluation.html +773 -0
data/docs/Evolvable/Evolution.html +616 -0
data/docs/Evolvable/Gene/ClassMethods.html +413 -0
data/docs/Evolvable/Gene.html +522 -0
data/docs/Evolvable/GeneCluster/ClassMethods.html +431 -0
data/docs/Evolvable/GeneCluster.html +280 -0
data/docs/Evolvable/GeneCombination.html +515 -0
data/docs/Evolvable/GeneSpace.html +619 -0
data/docs/Evolvable/Genome.html +1070 -0
data/docs/Evolvable/Goal.html +500 -0
data/docs/Evolvable/MaximizeGoal.html +348 -0
data/docs/Evolvable/MinimizeGoal.html +348 -0
data/docs/Evolvable/Mutation.html +729 -0
data/docs/Evolvable/PointCrossover.html +444 -0
data/docs/Evolvable/Population.html +2826 -0
data/docs/Evolvable/RigidCountGene.html +501 -0
data/docs/Evolvable/Selection.html +594 -0
data/docs/Evolvable/Serializer.html +293 -0
data/docs/Evolvable/UniformCrossover.html +286 -0
data/docs/Evolvable.html +1619 -0
data/docs/_index.html +341 -0
data/docs/class_list.html +54 -0
data/docs/css/common.css +1 -0
data/docs/css/full_list.css +58 -0
data/docs/css/style.css +503 -0
data/docs/file.README.html +750 -0
data/docs/file_list.html +59 -0
data/docs/frames.html +22 -0
data/docs/index.html +750 -0
data/docs/js/app.js +344 -0
data/docs/js/full_list.js +242 -0
data/docs/js/jquery.js +4 -0
data/docs/method_list.html +1302 -0
data/docs/top-level-namespace.html +110 -0
data/evolvable.gemspec +6 -6
data/examples/ascii_art.rb +5 -9
data/examples/stickman.rb +25 -33
data/{examples/hello_world.rb → exe/hello_evolvable_world} +46 -30
data/lib/evolvable/community.rb +190 -0
data/lib/evolvable/count_gene.rb +65 -0
data/lib/evolvable/equalize_goal.rb +2 -9
data/lib/evolvable/evaluation.rb +113 -14
data/lib/evolvable/evolution.rb +38 -15
data/lib/evolvable/gene.rb +124 -25
data/lib/evolvable/gene_cluster.rb +106 -0
data/lib/evolvable/gene_combination.rb +57 -16
data/lib/evolvable/gene_space.rb +111 -0
data/lib/evolvable/genome.rb +32 -4
data/lib/evolvable/goal.rb +19 -24
data/lib/evolvable/maximize_goal.rb +2 -9
data/lib/evolvable/minimize_goal.rb +3 -9
data/lib/evolvable/mutation.rb +87 -41
data/lib/evolvable/point_crossover.rb +24 -4
data/lib/evolvable/population.rb +258 -84
data/lib/evolvable/rigid_count_gene.rb +36 -0
data/lib/evolvable/selection.rb +68 -14
data/lib/evolvable/serializer.rb +46 -0
data/lib/evolvable/uniform_crossover.rb +30 -6
data/lib/evolvable/version.rb +2 -1
data/lib/evolvable.rb +268 -107
metadata +57 -36
data/examples/images/diagram.png +0 -0
data/exe/hello +0 -16
data/lib/evolvable/error/undefined_method.rb +0 -7
data/lib/evolvable/search_space.rb +0 -181

data/docs/Evolvable.html ADDED Viewed

@@ -0,0 +1,1619 @@
+<!DOCTYPE html>
+<html>
+  <head>
+    <meta charset="utf-8">
+<meta name="viewport" content="width=device-width, initial-scale=1.0">
+<title>
+  Module: Evolvable
+    &mdash; Documentation by YARD 0.9.37
+</title>
+  <link rel="stylesheet" href="css/style.css" type="text/css" />
+  <link rel="stylesheet" href="css/common.css" type="text/css" />
+<script type="text/javascript">
+  pathId = "Evolvable";
+  relpath = '';
+</script>
+  <script type="text/javascript" charset="utf-8" src="js/jquery.js"></script>
+  <script type="text/javascript" charset="utf-8" src="js/app.js"></script>
+  </head>
+  <body>
+    <div class="nav_wrap">
+      <iframe id="nav" src="class_list.html?1"></iframe>
+      <div id="resizer"></div>
+    </div>
+    <div id="main" tabindex="-1">
+      <div id="header">
+        <div id="menu">
+    <a href="_index.html">Index (E)</a> &raquo;
+    <span class="title">Evolvable</span>
+</div>
+        <div id="search">
+    <a class="full_list_link" id="class_list_link"
+        href="class_list.html">
+        <svg width="24" height="24">
+          <rect x="0" y="4" width="24" height="4" rx="1" ry="1"></rect>
+          <rect x="0" y="12" width="24" height="4" rx="1" ry="1"></rect>
+          <rect x="0" y="20" width="24" height="4" rx="1" ry="1"></rect>
+        </svg>
+    </a>
+</div>
+        <div class="clear"></div>
+      </div>
+      <div id="content"><h1>Module: Evolvable
+</h1>
+<div class="box_info">
+  <dl>
+      <dt>Extended by:</dt>
+      <dd>Forwardable</dd>
+  </dl>
+  <dl>
+    <dt>Defined in:</dt>
+    <dd>lib/evolvable.rb<span class="defines">,<br />
+  lib/evolvable/gene.rb,<br /> lib/evolvable/goal.rb,<br /> lib/evolvable/genome.rb,<br /> lib/evolvable/version.rb,<br /> lib/evolvable/mutation.rb,<br /> lib/evolvable/community.rb,<br /> lib/evolvable/evolution.rb,<br /> lib/evolvable/selection.rb,<br /> lib/evolvable/count_gene.rb,<br /> lib/evolvable/evaluation.rb,<br /> lib/evolvable/gene_space.rb,<br /> lib/evolvable/population.rb,<br /> lib/evolvable/serializer.rb,<br /> lib/evolvable/gene_cluster.rb,<br /> lib/evolvable/equalize_goal.rb,<br /> lib/evolvable/maximize_goal.rb,<br /> lib/evolvable/minimize_goal.rb,<br /> lib/evolvable/point_crossover.rb,<br /> lib/evolvable/gene_combination.rb,<br /> lib/evolvable/rigid_count_gene.rb,<br /> lib/evolvable/uniform_crossover.rb</span>
+</dd>
+  </dl>
+</div>
+<h2>Overview</h2><div class="docstring">
+  <div class="discussion">
+    <p><strong>Quick start</strong>:</p>
+<ol>
+<li>Include <code>Evolvable</code> in your Ruby class</li>
+<li>Define genes with the macro-style <code>gene</code> method</li>
+<li>Have the <code>#fitness</code> method return a numeric value</li>
+<li>Initialize a population and evolve it</li>
+</ol>
+<p>Example population of &quot;shirts&quot; with various colors, buttons, and collars.</p>
+<pre class="code ruby"><code class="ruby"><span class='comment'># Step 1
+</span><span class='kw'>class</span> <span class='const'>Shirt</span>
+  <span class='id identifier rubyid_include'>include</span> <span class='const'>Evolvable</span>
+  <span class='comment'># Step 2
+</span>  <span class='id identifier rubyid_gene'>gene</span> <span class='symbol'>:color</span><span class='comma'>,</span> <span class='label'>type:</span> <span class='const'>ColorGene</span> <span class='comment'># count: 1 default
+</span>  <span class='id identifier rubyid_gene'>gene</span> <span class='symbol'>:buttons</span><span class='comma'>,</span> <span class='label'>type:</span> <span class='const'>ButtonGene</span><span class='comma'>,</span> <span class='label'>count:</span> <span class='int'>0</span><span class='op'>..</span><span class='int'>10</span> <span class='comment'># Builds an array of genes that can vary in size
+</span>  <span class='id identifier rubyid_gene'>gene</span> <span class='symbol'>:collar</span><span class='comma'>,</span> <span class='label'>type:</span> <span class='const'>CollarGene</span><span class='comma'>,</span> <span class='label'>count:</span> <span class='int'>0</span><span class='op'>..</span><span class='int'>1</span> <span class='comment'># Collar optional
+</span>
+  <span class='comment'># Step 3
+</span>  <span class='id identifier rubyid_attr_accessor'>attr_accessor</span> <span class='symbol'>:fitness</span>
+<span class='kw'>end</span>
+<span class='comment'># Step 4
+</span><span class='id identifier rubyid_population'>population</span> <span class='op'>=</span> <span class='const'>Shirt</span><span class='period'>.</span><span class='id identifier rubyid_new_population'>new_population</span><span class='lparen'>(</span><span class='label'>size:</span> <span class='int'>10</span><span class='rparen'>)</span>
+<span class='id identifier rubyid_population'>population</span><span class='period'>.</span><span class='id identifier rubyid_evolvables'>evolvables</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_shirt'>shirt</span><span class='op'>|</span> <span class='id identifier rubyid_shirt'>shirt</span><span class='period'>.</span><span class='id identifier rubyid_fitness'>fitness</span> <span class='op'>=</span> <span class='id identifier rubyid_style_rating'>style_rating</span> <span class='rbrace'>}</span>
+</code></pre>
+<p>You are free to tailor the genes to your needs and find a style that suits you.</p>
+<p>The <code>ColorGene</code> could be as simple as this:</p>
+<pre class="code ruby"><code class="ruby"><span class='kw'>class</span> <span class='const'>ColorGene</span>
+  <span class='id identifier rubyid_include'>include</span> <span class='const'>Evolvable</span><span class='op'>::</span><span class='const'><span class='object_link'><a href="Evolvable/Gene.html" title="Evolvable::Gene (module)">Gene</a></span></span>
+  <span class='kw'>def</span> <span class='id identifier rubyid_to_s'>to_s</span>
+    <span class='ivar'>@to_s</span> <span class='op'>||=</span> <span class='qwords_beg'>%w[</span><span class='tstring_content'>red</span><span class='words_sep'> </span><span class='tstring_content'>green</span><span class='words_sep'> </span><span class='tstring_content'>blue</span><span class='tstring_end'>]</span></span><span class='period'>.</span><span class='id identifier rubyid_sample'>sample</span>
+  <span class='kw'>end</span>
+<span class='kw'>end</span>
+</code></pre>
+<p>Shirts aren&#39;t your style?</p>
+<p>Here&#39;s a <a href="https://github.com/mattruzicka/evolvable/blob/main/exe/hello_evolvable_world">Hello World</a>
+command line demo.</p>
+  </div>
+</div>
+<div class="tags">
+</div><h2>Defined Under Namespace</h2>
+<p class="children">
+      <strong class="modules">Modules:</strong> <span class='object_link'><a href="Evolvable/ClassMethods.html" title="Evolvable::ClassMethods (module)">ClassMethods</a></span>, <span class='object_link'><a href="Evolvable/Community.html" title="Evolvable::Community (module)">Community</a></span>, <span class='object_link'><a href="Evolvable/Gene.html" title="Evolvable::Gene (module)">Gene</a></span>, <span class='object_link'><a href="Evolvable/GeneCluster.html" title="Evolvable::GeneCluster (module)">GeneCluster</a></span>
+      <strong class="classes">Classes:</strong> <span class='object_link'><a href="Evolvable/CountGene.html" title="Evolvable::CountGene (class)">CountGene</a></span>, <span class='object_link'><a href="Evolvable/EqualizeGoal.html" title="Evolvable::EqualizeGoal (class)">EqualizeGoal</a></span>, <span class='object_link'><a href="Evolvable/Error.html" title="Evolvable::Error (class)">Error</a></span>, <span class='object_link'><a href="Evolvable/Evaluation.html" title="Evolvable::Evaluation (class)">Evaluation</a></span>, <span class='object_link'><a href="Evolvable/Evolution.html" title="Evolvable::Evolution (class)">Evolution</a></span>, <span class='object_link'><a href="Evolvable/GeneCombination.html" title="Evolvable::GeneCombination (class)">GeneCombination</a></span>, <span class='object_link'><a href="Evolvable/GeneSpace.html" title="Evolvable::GeneSpace (class)">GeneSpace</a></span>, <span class='object_link'><a href="Evolvable/Genome.html" title="Evolvable::Genome (class)">Genome</a></span>, <span class='object_link'><a href="Evolvable/Goal.html" title="Evolvable::Goal (class)">Goal</a></span>, <span class='object_link'><a href="Evolvable/MaximizeGoal.html" title="Evolvable::MaximizeGoal (class)">MaximizeGoal</a></span>, <span class='object_link'><a href="Evolvable/MinimizeGoal.html" title="Evolvable::MinimizeGoal (class)">MinimizeGoal</a></span>, <span class='object_link'><a href="Evolvable/Mutation.html" title="Evolvable::Mutation (class)">Mutation</a></span>, <span class='object_link'><a href="Evolvable/PointCrossover.html" title="Evolvable::PointCrossover (class)">PointCrossover</a></span>, <span class='object_link'><a href="Evolvable/Population.html" title="Evolvable::Population (class)">Population</a></span>, <span class='object_link'><a href="Evolvable/RigidCountGene.html" title="Evolvable::RigidCountGene (class)">RigidCountGene</a></span>, <span class='object_link'><a href="Evolvable/Selection.html" title="Evolvable::Selection (class)">Selection</a></span>, <span class='object_link'><a href="Evolvable/Serializer.html" title="Evolvable::Serializer (class)">Serializer</a></span>, <span class='object_link'><a href="Evolvable/UniformCrossover.html" title="Evolvable::UniformCrossover (class)">UniformCrossover</a></span>
+</p>
+    <h2>
+      Constant Summary
+      <small><a href="#" class="constants_summary_toggle">collapse</a></small>
+    </h2>
+    <dl class="constants">
+        <dt id="VERSION-constant" class="">VERSION =
+        </dt>
+        <dd><pre class="code"><span class='tstring'><span class='tstring_beg'>&#39;</span><span class='tstring_content'>2.0.0</span><span class='tstring_end'>&#39;</span></span></pre></dd>
+        <dt id="DOC_URL-constant" class="">DOC_URL =
+        </dt>
+        <dd><pre class="code"><span class='tstring'><span class='tstring_beg'>&quot;</span><span class='tstring_content'>https://mattruzicka.github.io/evolvable</span><span class='tstring_end'>&quot;</span></span></pre></dd>
+    </dl>
+  <h2>Instance Attribute Summary <small><a href="#" class="summary_toggle">collapse</a></small></h2>
+  <ul class="summary">
+      <li class="public ">
+  <span class="summary_signature">
+      <a href="#fitness-instance_method" title="#fitness (instance method)">#<strong>fitness</strong>  &#x21d2; Object </a>
+  </span>
+    <span class="summary_desc"><div class='inline'><p>Returns the value of attribute fitness.</p>
+</div></span>
+</li>
+      <li class="public ">
+  <span class="summary_signature">
+      <a href="#generation_index-instance_method" title="#generation_index (instance method)">#<strong>generation_index</strong>  &#x21d2; Object </a>
+  </span>
+    <span class="summary_desc"><div class='inline'><p>Returns the value of attribute generation_index.</p>
+</div></span>
+</li>
+      <li class="public ">
+  <span class="summary_signature">
+      <a href="#genome-instance_method" title="#genome (instance method)">#<strong>genome</strong>  &#x21d2; Object </a>
+  </span>
+      <span class="note title readonly">readonly</span>
+    <span class="summary_desc"><div class='inline'><p>Returns the value of attribute genome.</p>
+</div></span>
+</li>
+      <li class="public ">
+  <span class="summary_signature">
+      <a href="#population-instance_method" title="#population (instance method)">#<strong>population</strong>  &#x21d2; Object </a>
+  </span>
+    <span class="summary_desc"><div class='inline'><p>Returns the value of attribute population.</p>
+</div></span>
+</li>
+  </ul>
+    <h2>
+      Class Method Summary
+      <small><a href="#" class="summary_toggle">collapse</a></small>
+    </h2>
+    <ul class="summary">
+        <li class="public ">
+  <span class="summary_signature">
+      <a href="#included-class_method" title="included (class method)">.<strong>included</strong>(base)  &#x21d2; void </a>
+  </span>
+    <span class="summary_desc"><div class='inline'><p>Called when the Evolvable module is included in a class.</p>
+</div></span>
+</li>
+        <li class="public ">
+  <span class="summary_signature">
+      <a href="#new_object-class_method" title="new_object (class method)">.<strong>new_object</strong>(old_val, new_val, default_class)  &#x21d2; Object </a>
+  </span>
+    <span class="summary_desc"><div class='inline'><p>Helper method for creating or updating objects with hash parameters.</p>
+</div></span>
+</li>
+    </ul>
+    <h2>
+      Instance Method Summary
+      <small><a href="#" class="summary_toggle">collapse</a></small>
+    </h2>
+    <ul class="summary">
+        <li class="public ">
+  <span class="summary_signature">
+      <a href="#after_initialize_evolvable-instance_method" title="#after_initialize_evolvable (instance method)">#<strong>after_initialize_evolvable</strong>  &#x21d2; Object </a>
+  </span>
+    <span class="summary_desc"><div class='inline'></div></span>
+</li>
+        <li class="public ">
+  <span class="summary_signature">
+      <a href="#dump_genome-instance_method" title="#dump_genome (instance method)">#<strong>dump_genome</strong>(serializer: Serializer)  &#x21d2; String </a>
+  </span>
+    <span class="summary_desc"><div class='inline'><p>Dumps the genome to a serialized format.</p>
+</div></span>
+</li>
+        <li class="public ">
+  <span class="summary_signature">
+      <a href="#find_gene-instance_method" title="#find_gene (instance method)">#<strong>find_gene</strong>  &#x21d2; Object </a>
+  </span>
+    <span class="summary_desc"><div class='inline'></div></span>
+</li>
+        <li class="public ">
+  <span class="summary_signature">
+      <a href="#find_gene_cluster-instance_method" title="#find_gene_cluster (instance method)">#<strong>find_gene_cluster</strong>(cluster)  &#x21d2; Array&lt;Evolvable::Gene&gt; </a>
+  </span>
+    <span class="summary_desc"><div class='inline'><p>Finds an array of genes that belong to the specified cluster.</p>
+</div></span>
+</li>
+        <li class="public ">
+  <span class="summary_signature">
+      <a href="#find_genes-instance_method" title="#find_genes (instance method)">#<strong>find_genes</strong>  &#x21d2; Object </a>
+  </span>
+    <span class="summary_desc"><div class='inline'></div></span>
+</li>
+        <li class="public ">
+  <span class="summary_signature">
+      <a href="#genes-instance_method" title="#genes (instance method)">#<strong>genes</strong>  &#x21d2; Object </a>
+  </span>
+    <span class="summary_desc"><div class='inline'></div></span>
+</li>
+        <li class="public ">
+  <span class="summary_signature">
+      <a href="#load_and_merge_genome!-instance_method" title="#load_and_merge_genome! (instance method)">#<strong>load_and_merge_genome!</strong>(data, serializer: Serializer)  &#x21d2; Evolvable::Genome </a>
+  </span>
+    <span class="summary_desc"><div class='inline'><p>Loads a genome from serialized data and merges it with the current genome.</p>
+</div></span>
+</li>
+        <li class="public ">
+  <span class="summary_signature">
+      <a href="#load_genome-instance_method" title="#load_genome (instance method)">#<strong>load_genome</strong>(data, serializer: Serializer)  &#x21d2; Evolvable::Genome </a>
+  </span>
+    <span class="summary_desc"><div class='inline'><p>Loads a genome from serialized data.</p>
+</div></span>
+</li>
+        <li class="public ">
+  <span class="summary_signature">
+      <a href="#make_evolvable-instance_method" title="#make_evolvable (instance method)">#<strong>make_evolvable</strong>(population: nil, genome: nil, generation_index: nil)  &#x21d2; self </a>
+  </span>
+    <span class="summary_desc"><div class='inline'><p>Makes this object evolvable by setting up its population, genome, and generation index.</p>
+</div></span>
+</li>
+        <li class="public ">
+  <span class="summary_signature">
+      <a href="#merge_genome!-instance_method" title="#merge_genome! (instance method)">#<strong>merge_genome!</strong>(other_genome)  &#x21d2; Evolvable::Genome </a>
+  </span>
+    <span class="summary_desc"><div class='inline'><p>Merges another genome into this evolvable&#39;s genome.</p>
+</div></span>
+</li>
+    </ul>
+  <div id="instance_attr_details" class="attr_details">
+    <h2>Instance Attribute Details</h2>
+      <span id="fitness=-instance_method"></span>
+      <div class="method_details first">
+  <h3 class="signature first" id="fitness-instance_method">
+    #<strong>fitness</strong>  &#x21d2; <tt>Object</tt>
+</h3><div class="docstring">
+  <div class="discussion">
+    <p>Returns the value of attribute fitness.</p>
+  </div>
+</div>
+<div class="tags">
+</div><table class="source_code">
+  <tr>
+    <td>
+      <pre class="lines">
+302
+303
+304</pre>
+    </td>
+    <td>
+      <pre class="code"><span class="info file"># File 'lib/evolvable.rb', line 302</span>
+<span class='kw'>def</span> <span class='id identifier rubyid_fitness'>fitness</span>
+  <span class='ivar'>@fitness</span>
+<span class='kw'>end</span></pre>
+    </td>
+  </tr>
+</table>
+</div>
+      <span id="generation_index=-instance_method"></span>
+      <div class="method_details ">
+  <h3 class="signature " id="generation_index-instance_method">
+    #<strong>generation_index</strong>  &#x21d2; <tt>Object</tt>
+</h3><div class="docstring">
+  <div class="discussion">
+    <p>Returns the value of attribute generation_index.</p>
+  </div>
+</div>
+<div class="tags">
+</div><table class="source_code">
+  <tr>
+    <td>
+      <pre class="lines">
+312
+313
+314</pre>
+    </td>
+    <td>
+      <pre class="code"><span class="info file"># File 'lib/evolvable.rb', line 312</span>
+<span class='kw'>def</span> <span class='id identifier rubyid_generation_index'>generation_index</span>
+  <span class='ivar'>@generation_index</span>
+<span class='kw'>end</span></pre>
+    </td>
+  </tr>
+</table>
+</div>
+      <span id=""></span>
+      <div class="method_details ">
+  <h3 class="signature " id="genome-instance_method">
+    #<strong>genome</strong>  &#x21d2; <tt>Object</tt>  <span class="extras">(readonly)</span>
+</h3><div class="docstring">
+  <div class="discussion">
+    <p>Returns the value of attribute genome.</p>
+  </div>
+</div>
+<div class="tags">
+</div><table class="source_code">
+  <tr>
+    <td>
+      <pre class="lines">
+312
+313
+314</pre>
+    </td>
+    <td>
+      <pre class="code"><span class="info file"># File 'lib/evolvable.rb', line 312</span>
+<span class='kw'>def</span> <span class='id identifier rubyid_genome'>genome</span>
+  <span class='ivar'>@genome</span>
+<span class='kw'>end</span></pre>
+    </td>
+  </tr>
+</table>
+</div>
+      <span id="population=-instance_method"></span>
+      <div class="method_details ">
+  <h3 class="signature " id="population-instance_method">
+    #<strong>population</strong>  &#x21d2; <tt>Object</tt>
+</h3><div class="docstring">
+  <div class="discussion">
+    <p>Returns the value of attribute population.</p>
+  </div>
+</div>
+<div class="tags">
+</div><table class="source_code">
+  <tr>
+    <td>
+      <pre class="lines">
+312
+313
+314</pre>
+    </td>
+    <td>
+      <pre class="code"><span class="info file"># File 'lib/evolvable.rb', line 312</span>
+<span class='kw'>def</span> <span class='id identifier rubyid_population'>population</span>
+  <span class='ivar'>@population</span>
+<span class='kw'>end</span></pre>
+    </td>
+  </tr>
+</table>
+</div>
+  </div>
+  <div id="class_method_details" class="method_details_list">
+    <h2>Class Method Details</h2>
+      <div class="method_details first">
+  <h3 class="signature first" id="included-class_method">
+    .<strong>included</strong>(base)  &#x21d2; <tt>void</tt>
+</h3><div class="docstring">
+  <div class="discussion">
+    <p class="note returns_void">This method returns an undefined value.</p><p>Called when the Evolvable module is included in a class.
+Sets up the necessary instance variables and extends the class with ClassMethods.</p>
+  </div>
+</div>
+<div class="tags">
+  <p class="tag_title">Parameters:</p>
+<ul class="param">
+    <li>
+        <span class='name'>base</span>
+        <span class='type'>(<tt>Class</tt>)</span>
+        &mdash;
+        <div class='inline'><p>The class that is including the Evolvable module</p>
+</div>
+    </li>
+</ul>
+</div><table class="source_code">
+  <tr>
+    <td>
+      <pre class="lines">
+89
+90
+91
+92
+93</pre>
+    </td>
+    <td>
+      <pre class="code"><span class="info file"># File 'lib/evolvable.rb', line 89</span>
+<span class='kw'>def</span> <span class='kw'>self</span><span class='period'>.</span><span class='id identifier rubyid_included'>included</span><span class='lparen'>(</span><span class='id identifier rubyid_base'>base</span><span class='rparen'>)</span>
+  <span class='id identifier rubyid_base'>base</span><span class='period'>.</span><span class='id identifier rubyid_instance_variable_set'>instance_variable_set</span><span class='lparen'>(</span><span class='symbol'>:@gene_config</span><span class='comma'>,</span> <span class='lbrace'>{</span><span class='rbrace'>}</span><span class='rparen'>)</span>
+  <span class='id identifier rubyid_base'>base</span><span class='period'>.</span><span class='id identifier rubyid_instance_variable_set'>instance_variable_set</span><span class='lparen'>(</span><span class='symbol'>:@cluster_config</span><span class='comma'>,</span> <span class='lbrace'>{</span><span class='rbrace'>}</span><span class='rparen'>)</span>
+  <span class='id identifier rubyid_base'>base</span><span class='period'>.</span><span class='id identifier rubyid_extend'>extend</span><span class='lparen'>(</span><span class='const'><span class='object_link'><a href="Evolvable/ClassMethods.html" title="Evolvable::ClassMethods (module)">ClassMethods</a></span></span><span class='rparen'>)</span>
+<span class='kw'>end</span></pre>
+    </td>
+  </tr>
+</table>
+</div>
+      <div class="method_details ">
+  <h3 class="signature " id="new_object-class_method">
+    .<strong>new_object</strong>(old_val, new_val, default_class)  &#x21d2; <tt>Object</tt>
+</h3><div class="docstring">
+  <div class="discussion">
+    <p>Helper method for creating or updating objects with hash parameters.
+This is used internally for creating evaluation, selection, mutation, etc. objects
+from configuration hashes.</p>
+  </div>
+</div>
+<div class="tags">
+  <p class="tag_title">Parameters:</p>
+<ul class="param">
+    <li>
+        <span class='name'>old_val</span>
+        <span class='type'>(<tt>Object</tt>, <tt>nil</tt>)</span>
+        &mdash;
+        <div class='inline'><p>The existing object to update, if any</p>
+</div>
+    </li>
+    <li>
+        <span class='name'>new_val</span>
+        <span class='type'>(<tt>Object</tt>, <tt>Hash</tt>)</span>
+        &mdash;
+        <div class='inline'><p>The new object or configuration hash</p>
+</div>
+    </li>
+    <li>
+        <span class='name'>default_class</span>
+        <span class='type'>(<tt>Class</tt>)</span>
+        &mdash;
+        <div class='inline'><p>The default class to instantiate if new_val is a Hash</p>
+</div>
+    </li>
+</ul>
+<p class="tag_title">Returns:</p>
+<ul class="return">
+    <li>
+        <span class='type'>(<tt>Object</tt>)</span>
+        &mdash;
+        <div class='inline'><p>The new or updated object</p>
+</div>
+    </li>
+</ul>
+</div><table class="source_code">
+  <tr>
+    <td>
+      <pre class="lines">
+105
+106
+107</pre>
+    </td>
+    <td>
+      <pre class="code"><span class="info file"># File 'lib/evolvable.rb', line 105</span>
+<span class='kw'>def</span> <span class='kw'>self</span><span class='period'>.</span><span class='id identifier rubyid_new_object'>new_object</span><span class='lparen'>(</span><span class='id identifier rubyid_old_val'>old_val</span><span class='comma'>,</span> <span class='id identifier rubyid_new_val'>new_val</span><span class='comma'>,</span> <span class='id identifier rubyid_default_class'>default_class</span><span class='rparen'>)</span>
+  <span class='id identifier rubyid_new_val'>new_val</span><span class='period'>.</span><span class='id identifier rubyid_is_a?'>is_a?</span><span class='lparen'>(</span><span class='const'>Hash</span><span class='rparen'>)</span> <span class='op'>?</span> <span class='lparen'>(</span><span class='id identifier rubyid_old_val'>old_val</span><span class='op'>&amp;.</span><span class='id identifier rubyid_class'>class</span> <span class='op'>||</span> <span class='id identifier rubyid_default_class'>default_class</span><span class='rparen'>)</span><span class='period'>.</span><span class='id identifier rubyid_new'>new</span><span class='lparen'>(</span><span class='op'>**</span><span class='id identifier rubyid_new_val'>new_val</span><span class='rparen'>)</span> <span class='op'>:</span> <span class='id identifier rubyid_new_val'>new_val</span>
+<span class='kw'>end</span></pre>
+    </td>
+  </tr>
+</table>
+</div>
+  </div>
+  <div id="instance_method_details" class="method_details_list">
+    <h2>Instance Method Details</h2>
+      <div class="method_details first">
+  <h3 class="signature first" id="after_initialize_evolvable-instance_method">
+    #<strong>after_initialize_evolvable</strong>  &#x21d2; <tt>Object</tt>
+</h3><table class="source_code">
+  <tr>
+    <td>
+      <pre class="lines">
+300</pre>
+    </td>
+    <td>
+      <pre class="code"><span class="info file"># File 'lib/evolvable.rb', line 300</span>
+<span class='kw'>def</span> <span class='id identifier rubyid_after_initialize_evolvable'>after_initialize_evolvable</span><span class='semicolon'>;</span> <span class='kw'>end</span></pre>
+    </td>
+  </tr>
+</table>
+</div>
+      <div class="method_details ">
+  <h3 class="signature " id="dump_genome-instance_method">
+    #<strong>dump_genome</strong>(serializer: Serializer)  &#x21d2; <tt>String</tt>
+</h3><div class="docstring">
+  <div class="discussion">
+    <p>Dumps the genome to a serialized format.
+Useful for saving the state of an evolvable.</p>
+  </div>
+</div>
+<div class="tags">
+  <p class="tag_title">Parameters:</p>
+<ul class="param">
+    <li>
+        <span class='name'>serializer</span>
+        <span class='type'>(<tt><span class='object_link'><a href="Evolvable/Serializer.html" title="Evolvable::Serializer (class)">Evolvable::Serializer</a></span></tt>)</span>
+        <em class="default">(defaults to: <tt>Serializer</tt>)</em>
+        &mdash;
+        <div class='inline'><p>The serializer to use</p>
+</div>
+    </li>
+</ul>
+<p class="tag_title">Returns:</p>
+<ul class="return">
+    <li>
+        <span class='type'>(<tt>String</tt>)</span>
+        &mdash;
+        <div class='inline'><p>The serialized genome</p>
+</div>
+    </li>
+</ul>
+</div><table class="source_code">
+  <tr>
+    <td>
+      <pre class="lines">
+363
+364
+365</pre>
+    </td>
+    <td>
+      <pre class="code"><span class="info file"># File 'lib/evolvable.rb', line 363</span>
+<span class='kw'>def</span> <span class='id identifier rubyid_dump_genome'>dump_genome</span><span class='lparen'>(</span><span class='label'>serializer:</span> <span class='const'><span class='object_link'><a href="Evolvable/Serializer.html" title="Evolvable::Serializer (class)">Serializer</a></span></span><span class='rparen'>)</span>
+  <span class='ivar'>@genome</span><span class='period'>.</span><span class='id identifier rubyid_dump'>dump</span><span class='lparen'>(</span><span class='label'>serializer:</span> <span class='id identifier rubyid_serializer'>serializer</span><span class='rparen'>)</span>
+<span class='kw'>end</span></pre>
+    </td>
+  </tr>
+</table>
+</div>
+      <div class="method_details ">
+  <h3 class="signature " id="find_gene-instance_method">
+    #<strong>find_gene</strong>  &#x21d2; <tt>Object</tt>
+</h3><table class="source_code">
+  <tr>
+    <td>
+      <pre class="lines">
+304
+305
+306</pre>
+    </td>
+    <td>
+      <pre class="code"><span class="info file"># File 'lib/evolvable.rb', line 304</span>
+<span class='kw'>def</span> <span class='id identifier rubyid_find_gene'>find_gene</span><span class='lparen'>(</span><span class='op'>...</span><span class='rparen'>)</span>
+  <span class='ivar'>@genome</span><span class='op'>&amp;.</span><span class='id identifier rubyid_find_gene'>find_gene</span><span class='lparen'>(</span><span class='op'>...</span><span class='rparen'>)</span>
+<span class='kw'>end</span></pre>
+    </td>
+  </tr>
+</table>
+</div>
+      <div class="method_details ">
+  <h3 class="signature " id="find_gene_cluster-instance_method">
+    #<strong>find_gene_cluster</strong>(cluster)  &#x21d2; <tt>Array&lt;<span class='object_link'><a href="Evolvable/Gene.html" title="Evolvable::Gene (module)">Evolvable::Gene</a></span>&gt;</tt>
+</h3><div class="docstring">
+  <div class="discussion">
+    <p>Finds an array of genes that belong to the specified cluster.
+This is used internally when accessing gene clusters.</p>
+  </div>
+</div>
+<div class="tags">
+  <p class="tag_title">Parameters:</p>
+<ul class="param">
+    <li>
+        <span class='name'>cluster</span>
+        <span class='type'>(<tt>Symbol</tt>)</span>
+        &mdash;
+        <div class='inline'><p>The cluster name</p>
+</div>
+    </li>
+</ul>
+<p class="tag_title">Returns:</p>
+<ul class="return">
+    <li>
+        <span class='type'>(<tt>Array&lt;<span class='object_link'><a href="Evolvable/Gene.html" title="Evolvable::Gene (module)">Evolvable::Gene</a></span>&gt;</tt>)</span>
+        &mdash;
+        <div class='inline'><p>The genes belonging to the cluster</p>
+</div>
+    </li>
+</ul>
+</div><table class="source_code">
+  <tr>
+    <td>
+      <pre class="lines">
+352
+353
+354</pre>
+    </td>
+    <td>
+      <pre class="code"><span class="info file"># File 'lib/evolvable.rb', line 352</span>
+<span class='kw'>def</span> <span class='id identifier rubyid_find_gene_cluster'>find_gene_cluster</span><span class='lparen'>(</span><span class='id identifier rubyid_cluster'>cluster</span><span class='rparen'>)</span>
+  <span class='id identifier rubyid_find_genes'>find_genes</span><span class='lparen'>(</span><span class='op'>*</span><span class='kw'>self</span><span class='period'>.</span><span class='id identifier rubyid_class'>class</span><span class='period'>.</span><span class='id identifier rubyid_cluster_config'>cluster_config</span><span class='lbracket'>[</span><span class='id identifier rubyid_cluster'>cluster</span><span class='rbracket'>]</span><span class='rparen'>)</span>
+<span class='kw'>end</span></pre>
+    </td>
+  </tr>
+</table>
+</div>
+      <div class="method_details ">
+  <h3 class="signature " id="find_genes-instance_method">
+    #<strong>find_genes</strong>  &#x21d2; <tt>Object</tt>
+</h3><table class="source_code">
+  <tr>
+    <td>
+      <pre class="lines">
+308
+309
+310</pre>
+    </td>
+    <td>
+      <pre class="code"><span class="info file"># File 'lib/evolvable.rb', line 308</span>
+<span class='kw'>def</span> <span class='id identifier rubyid_find_genes'>find_genes</span><span class='lparen'>(</span><span class='op'>...</span><span class='rparen'>)</span>
+  <span class='ivar'>@genome</span><span class='op'>&amp;.</span><span class='id identifier rubyid_find_genes'>find_genes</span><span class='lparen'>(</span><span class='op'>...</span><span class='rparen'>)</span> <span class='op'>||</span> <span class='lbracket'>[</span><span class='rbracket'>]</span>
+<span class='kw'>end</span></pre>
+    </td>
+  </tr>
+</table>
+</div>
+      <div class="method_details ">
+  <h3 class="signature " id="genes-instance_method">
+    #<strong>genes</strong>  &#x21d2; <tt>Object</tt>
+</h3><table class="source_code">
+  <tr>
+    <td>
+      <pre class="lines">
+316
+317
+318</pre>
+    </td>
+    <td>
+      <pre class="code"><span class="info file"># File 'lib/evolvable.rb', line 316</span>
+<span class='kw'>def</span> <span class='id identifier rubyid_genes'>genes</span>
+  <span class='ivar'>@genome</span><span class='op'>&amp;.</span><span class='id identifier rubyid_genes'>genes</span> <span class='op'>||</span> <span class='lbracket'>[</span><span class='rbracket'>]</span>
+<span class='kw'>end</span></pre>
+    </td>
+  </tr>
+</table>
+</div>
+      <div class="method_details ">
+  <h3 class="signature " id="load_and_merge_genome!-instance_method">
+    #<strong>load_and_merge_genome!</strong>(data, serializer: Serializer)  &#x21d2; <tt><span class='object_link'><a href="Evolvable/Genome.html" title="Evolvable::Genome (class)">Evolvable::Genome</a></span></tt>
+</h3><div class="docstring">
+  <div class="discussion">
+    <p>Loads a genome from serialized data and merges it with the current genome.
+Useful for combining genomes from different sources.</p>
+  </div>
+</div>
+<div class="tags">
+  <p class="tag_title">Parameters:</p>
+<ul class="param">
+    <li>
+        <span class='name'>data</span>
+        <span class='type'>(<tt>String</tt>)</span>
+        &mdash;
+        <div class='inline'><p>The serialized genome data</p>
+</div>
+    </li>
+    <li>
+        <span class='name'>serializer</span>
+        <span class='type'>(<tt><span class='object_link'><a href="Evolvable/Serializer.html" title="Evolvable::Serializer (class)">Evolvable::Serializer</a></span></tt>)</span>
+        <em class="default">(defaults to: <tt>Serializer</tt>)</em>
+        &mdash;
+        <div class='inline'><p>The serializer to use</p>
+</div>
+    </li>
+</ul>
+<p class="tag_title">Returns:</p>
+<ul class="return">
+    <li>
+        <span class='type'>(<tt><span class='object_link'><a href="Evolvable/Genome.html" title="Evolvable::Genome (class)">Evolvable::Genome</a></span></tt>)</span>
+        &mdash;
+        <div class='inline'><p>The merged genome</p>
+</div>
+    </li>
+</ul>
+</div><table class="source_code">
+  <tr>
+    <td>
+      <pre class="lines">
+387
+388
+389
+390</pre>
+    </td>
+    <td>
+      <pre class="code"><span class="info file"># File 'lib/evolvable.rb', line 387</span>
+<span class='kw'>def</span> <span class='id identifier rubyid_load_and_merge_genome!'>load_and_merge_genome!</span><span class='lparen'>(</span><span class='id identifier rubyid_data'>data</span><span class='comma'>,</span> <span class='label'>serializer:</span> <span class='const'><span class='object_link'><a href="Evolvable/Serializer.html" title="Evolvable::Serializer (class)">Serializer</a></span></span><span class='rparen'>)</span>
+  <span class='id identifier rubyid_genome'>genome</span> <span class='op'>=</span> <span class='const'><span class='object_link'><a href="Evolvable/Genome.html" title="Evolvable::Genome (class)">Genome</a></span></span><span class='period'>.</span><span class='id identifier rubyid_load'><span class='object_link'><a href="Evolvable/Genome.html#load-class_method" title="Evolvable::Genome.load (method)">load</a></span></span><span class='lparen'>(</span><span class='id identifier rubyid_data'>data</span><span class='comma'>,</span> <span class='label'>serializer:</span> <span class='id identifier rubyid_serializer'>serializer</span><span class='rparen'>)</span>
+  <span class='id identifier rubyid_merge_genome!'>merge_genome!</span><span class='lparen'>(</span><span class='id identifier rubyid_genome'>genome</span><span class='rparen'>)</span>
+<span class='kw'>end</span></pre>
+    </td>
+  </tr>
+</table>
+</div>
+      <div class="method_details ">
+  <h3 class="signature " id="load_genome-instance_method">
+    #<strong>load_genome</strong>(data, serializer: Serializer)  &#x21d2; <tt><span class='object_link'><a href="Evolvable/Genome.html" title="Evolvable::Genome (class)">Evolvable::Genome</a></span></tt>
+</h3><div class="docstring">
+  <div class="discussion">
+    <p>Loads a genome from serialized data.
+Useful for restoring the state of an evolvable.</p>
+  </div>
+</div>
+<div class="tags">
+  <p class="tag_title">Parameters:</p>
+<ul class="param">
+    <li>
+        <span class='name'>data</span>
+        <span class='type'>(<tt>String</tt>)</span>
+        &mdash;
+        <div class='inline'><p>The serialized genome data</p>
+</div>
+    </li>
+    <li>
+        <span class='name'>serializer</span>
+        <span class='type'>(<tt><span class='object_link'><a href="Evolvable/Serializer.html" title="Evolvable::Serializer (class)">Evolvable::Serializer</a></span></tt>)</span>
+        <em class="default">(defaults to: <tt>Serializer</tt>)</em>
+        &mdash;
+        <div class='inline'><p>The serializer to use</p>
+</div>
+    </li>
+</ul>
+<p class="tag_title">Returns:</p>
+<ul class="return">
+    <li>
+        <span class='type'>(<tt><span class='object_link'><a href="Evolvable/Genome.html" title="Evolvable::Genome (class)">Evolvable::Genome</a></span></tt>)</span>
+        &mdash;
+        <div class='inline'><p>The loaded genome</p>
+</div>
+    </li>
+</ul>
+</div><table class="source_code">
+  <tr>
+    <td>
+      <pre class="lines">
+375
+376
+377</pre>
+    </td>
+    <td>
+      <pre class="code"><span class="info file"># File 'lib/evolvable.rb', line 375</span>
+<span class='kw'>def</span> <span class='id identifier rubyid_load_genome'>load_genome</span><span class='lparen'>(</span><span class='id identifier rubyid_data'>data</span><span class='comma'>,</span> <span class='label'>serializer:</span> <span class='const'><span class='object_link'><a href="Evolvable/Serializer.html" title="Evolvable::Serializer (class)">Serializer</a></span></span><span class='rparen'>)</span>
+  <span class='ivar'>@genome</span> <span class='op'>=</span> <span class='const'><span class='object_link'><a href="Evolvable/Genome.html" title="Evolvable::Genome (class)">Genome</a></span></span><span class='period'>.</span><span class='id identifier rubyid_load'><span class='object_link'><a href="Evolvable/Genome.html#load-class_method" title="Evolvable::Genome.load (method)">load</a></span></span><span class='lparen'>(</span><span class='id identifier rubyid_data'>data</span><span class='comma'>,</span> <span class='label'>serializer:</span> <span class='id identifier rubyid_serializer'>serializer</span><span class='rparen'>)</span>
+<span class='kw'>end</span></pre>
+    </td>
+  </tr>
+</table>
+</div>
+      <div class="method_details ">
+  <h3 class="signature " id="make_evolvable-instance_method">
+    #<strong>make_evolvable</strong>(population: nil, genome: nil, generation_index: nil)  &#x21d2; <tt>self</tt>
+</h3><div class="docstring">
+  <div class="discussion">
+    <p>Makes this object evolvable by setting up its population, genome, and generation index.
+This is called internally by the class method <code>new_evolvable</code>.</p>
+  </div>
+</div>
+<div class="tags">
+  <p class="tag_title">Parameters:</p>
+<ul class="param">
+    <li>
+        <span class='name'>population</span>
+        <span class='type'>(<tt><span class='object_link'><a href="Evolvable/Population.html" title="Evolvable::Population (class)">Evolvable::Population</a></span></tt>, <tt>nil</tt>)</span>
+        <em class="default">(defaults to: <tt>nil</tt>)</em>
+        &mdash;
+        <div class='inline'><p>The population this evolvable belongs to</p>
+</div>
+    </li>
+    <li>
+        <span class='name'>genome</span>
+        <span class='type'>(<tt><span class='object_link'><a href="Evolvable/Genome.html" title="Evolvable::Genome (class)">Evolvable::Genome</a></span></tt>, <tt>nil</tt>)</span>
+        <em class="default">(defaults to: <tt>nil</tt>)</em>
+        &mdash;
+        <div class='inline'><p>The genome to initialize with</p>
+</div>
+    </li>
+    <li>
+        <span class='name'>generation_index</span>
+        <span class='type'>(<tt>Integer</tt>, <tt>nil</tt>)</span>
+        <em class="default">(defaults to: <tt>nil</tt>)</em>
+        &mdash;
+        <div class='inline'><p>The generation index</p>
+</div>
+    </li>
+</ul>
+<p class="tag_title">Returns:</p>
+<ul class="return">
+    <li>
+        <span class='type'>(<tt>self</tt>)</span>
+        &mdash;
+        <div class='inline'><p>This evolvable object</p>
+</div>
+    </li>
+</ul>
+</div><table class="source_code">
+  <tr>
+    <td>
+      <pre class="lines">
+329
+330
+331
+332
+333
+334</pre>
+    </td>
+    <td>
+      <pre class="code"><span class="info file"># File 'lib/evolvable.rb', line 329</span>
+<span class='kw'>def</span> <span class='id identifier rubyid_make_evolvable'>make_evolvable</span><span class='lparen'>(</span><span class='label'>population:</span> <span class='kw'>nil</span><span class='comma'>,</span> <span class='label'>genome:</span> <span class='kw'>nil</span><span class='comma'>,</span> <span class='label'>generation_index:</span> <span class='kw'>nil</span><span class='rparen'>)</span>
+  <span class='kw'>self</span><span class='period'>.</span><span class='id identifier rubyid_population'>population</span> <span class='op'>=</span> <span class='id identifier rubyid_population'>population</span>
+  <span class='ivar'>@genome</span> <span class='op'>=</span> <span class='id identifier rubyid_genome'>genome</span>
+  <span class='kw'>self</span><span class='period'>.</span><span class='id identifier rubyid_generation_index'>generation_index</span> <span class='op'>=</span> <span class='id identifier rubyid_generation_index'>generation_index</span>
+  <span class='kw'>self</span>
+<span class='kw'>end</span></pre>
+    </td>
+  </tr>
+</table>
+</div>
+      <div class="method_details ">
+  <h3 class="signature " id="merge_genome!-instance_method">
+    #<strong>merge_genome!</strong>(other_genome)  &#x21d2; <tt><span class='object_link'><a href="Evolvable/Genome.html" title="Evolvable::Genome (class)">Evolvable::Genome</a></span></tt>
+</h3><div class="docstring">
+  <div class="discussion">
+    <p>Merges another genome into this evolvable&#39;s genome.
+Useful for combining genetic traits from different evolvables.</p>
+  </div>
+</div>
+<div class="tags">
+  <p class="tag_title">Parameters:</p>
+<ul class="param">
+    <li>
+        <span class='name'>other_genome</span>
+        <span class='type'>(<tt><span class='object_link'><a href="Evolvable/Genome.html" title="Evolvable::Genome (class)">Evolvable::Genome</a></span></tt>)</span>
+        &mdash;
+        <div class='inline'><p>The genome to merge</p>
+</div>
+    </li>
+</ul>
+<p class="tag_title">Returns:</p>
+<ul class="return">
+    <li>
+        <span class='type'>(<tt><span class='object_link'><a href="Evolvable/Genome.html" title="Evolvable::Genome (class)">Evolvable::Genome</a></span></tt>)</span>
+        &mdash;
+        <div class='inline'><p>The merged genome</p>
+</div>
+    </li>
+</ul>
+</div><table class="source_code">
+  <tr>
+    <td>
+      <pre class="lines">
+399
+400
+401</pre>
+    </td>
+    <td>
+      <pre class="code"><span class="info file"># File 'lib/evolvable.rb', line 399</span>
+<span class='kw'>def</span> <span class='id identifier rubyid_merge_genome!'>merge_genome!</span><span class='lparen'>(</span><span class='id identifier rubyid_other_genome'>other_genome</span><span class='rparen'>)</span>
+  <span class='ivar'>@genome</span><span class='period'>.</span><span class='id identifier rubyid_merge!'>merge!</span><span class='lparen'>(</span><span class='id identifier rubyid_other_genome'>other_genome</span><span class='rparen'>)</span>
+<span class='kw'>end</span></pre>
+    </td>
+  </tr>
+</table>
+</div>
+  </div>
+</div>
+      <div id="footer">
+  Generated on Sat May 10 18:39:22 2025 by
+  <a href="https://yardoc.org" title="Yay! A Ruby Documentation Tool" target="_parent">yard</a>
+  0.9.37 (ruby-3.4.2).
+</div>
+    </div>
+  </body>
+</html>