rubyneat 0.3.5.alpha.2

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  1. checksums.yaml +7 -0
  2. data/.directory +4 -0
  3. data/.gitignore.orig +20 -0
  4. data/.idea/.name +1 -0
  5. data/.idea/.rakeTasks +7 -0
  6. data/.idea/dictionaries/trader.xml +3 -0
  7. data/.idea/encodings.xml +5 -0
  8. data/.idea/misc.xml +5 -0
  9. data/.idea/modules.xml +9 -0
  10. data/.idea/rubyneat.iml +197 -0
  11. data/.idea/runConfigurations/invpend_neat.xml +26 -0
  12. data/.idea/runConfigurations/sigdebug_neat.xml +24 -0
  13. data/.idea/runConfigurations/xor_neat.xml +26 -0
  14. data/.idea/runConfigurations/xordebug_neat.xml +24 -0
  15. data/.idea/runConfigurations/xorsin_neat.xml +24 -0
  16. data/.idea/scopes/scope_settings.xml +5 -0
  17. data/.idea/vcs.xml +7 -0
  18. data/.idea/workspace.xml +1124 -0
  19. data/.semver +5 -0
  20. data/.yardoc/checksums +11 -0
  21. data/.yardoc/object_types +0 -0
  22. data/.yardoc/objects/root.dat +0 -0
  23. data/.yardoc/proxy_types +0 -0
  24. data/Gemfile +32 -0
  25. data/Gemfile.lock +135 -0
  26. data/Gemfile.lock.orig +147 -0
  27. data/Guardfile +8 -0
  28. data/Rakefile +61 -0
  29. data/bin/neat +83 -0
  30. data/config/application.rb +5 -0
  31. data/doc/ControllerPoint.html +125 -0
  32. data/doc/CuteA.html +286 -0
  33. data/doc/CuteB.html +297 -0
  34. data/doc/DSL.html +883 -0
  35. data/doc/NEAT/BasicNeuronTypes/BiasNeuron.html +518 -0
  36. data/doc/NEAT/BasicNeuronTypes/CosineNeuron.html +274 -0
  37. data/doc/NEAT/BasicNeuronTypes/InputNeuron.html +366 -0
  38. data/doc/NEAT/BasicNeuronTypes/SigmoidNeuron.html +275 -0
  39. data/doc/NEAT/BasicNeuronTypes/SineNeuron.html +274 -0
  40. data/doc/NEAT/BasicNeuronTypes/TanhNeuron.html +274 -0
  41. data/doc/NEAT/BasicNeuronTypes.html +136 -0
  42. data/doc/NEAT/Controller/NeatSettings.html +3985 -0
  43. data/doc/NEAT/Controller.html +2490 -0
  44. data/doc/NEAT/Critter/Genotype/Gene.html +979 -0
  45. data/doc/NEAT/Critter/Genotype.html +1601 -0
  46. data/doc/NEAT/Critter/Phenotype.html +603 -0
  47. data/doc/NEAT/Critter.html +1037 -0
  48. data/doc/NEAT/DSL.html +1255 -0
  49. data/doc/NEAT/Evaluator.html +420 -0
  50. data/doc/NEAT/Evolver/CritterOp.html +551 -0
  51. data/doc/NEAT/Evolver.html +602 -0
  52. data/doc/NEAT/Expressor.html +327 -0
  53. data/doc/NEAT/Graph/DependencyResolver.html +478 -0
  54. data/doc/NEAT/Graph/GraphException.html +123 -0
  55. data/doc/NEAT/Graph.html +402 -0
  56. data/doc/NEAT/NeatException.html +123 -0
  57. data/doc/NEAT/NeatOb.html +567 -0
  58. data/doc/NEAT/Neuron.html +1067 -0
  59. data/doc/NEAT/Operator.html +162 -0
  60. data/doc/NEAT/Population.html +1961 -0
  61. data/doc/NEAT/Trait.html +169 -0
  62. data/doc/NEAT.html +588 -0
  63. data/doc/_index.html +373 -0
  64. data/doc/class_list.html +54 -0
  65. data/doc/css/common.css +1 -0
  66. data/doc/css/full_list.css +57 -0
  67. data/doc/css/style.css +339 -0
  68. data/doc/file_list.html +53 -0
  69. data/doc/frames.html +26 -0
  70. data/doc/index.html +373 -0
  71. data/doc/js/app.js +219 -0
  72. data/doc/js/full_list.js +178 -0
  73. data/doc/js/jquery.js +4 -0
  74. data/doc/method_list.html +1415 -0
  75. data/doc/top-level-namespace.html +164 -0
  76. data/foo/foo_aquarium_example.rb +38 -0
  77. data/foo/foo_gosu.rb +99 -0
  78. data/foo/foo_rubygoo.rb +104 -0
  79. data/foo/foo_sdl.rb +34 -0
  80. data/foo/icon.png +0 -0
  81. data/lib/rubyneat/critter.rb +374 -0
  82. data/lib/rubyneat/default_neat.rb +10 -0
  83. data/lib/rubyneat/dsl.rb +130 -0
  84. data/lib/rubyneat/evaluator.rb +51 -0
  85. data/lib/rubyneat/evolver.rb +315 -0
  86. data/lib/rubyneat/expressor.rb +110 -0
  87. data/lib/rubyneat/graph.rb +95 -0
  88. data/lib/rubyneat/neuron.rb +152 -0
  89. data/lib/rubyneat/population.rb +227 -0
  90. data/lib/rubyneat/rubyneat.rb +429 -0
  91. data/lib/rubyneat.rb +8 -0
  92. data/neater/invpend_neat.rb +150 -0
  93. data/neater/rnlib/inverted_pendulum.rb +380 -0
  94. data/neater/rnlib/xor.rb +10 -0
  95. data/neater/sigdebug_neat.rb +136 -0
  96. data/neater/xor_neat.rb +137 -0
  97. data/neater/xoranalog_neat.rb +138 -0
  98. data/neater/xorsin_neat.rb +143 -0
  99. data/projectFilesBackup/.idea/rubyneat.iml +180 -0
  100. data/public/.directory +4 -0
  101. data/public/background.png +0 -0
  102. data/public/background.xcf +0 -0
  103. data/public/cart.png +0 -0
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  126. data/rdoc/InvertedPendulum/Cart.html +668 -0
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  129. data/rdoc/InvertedPendulum.html +198 -0
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  131. data/rdoc/NEAT/BasicNeuronTypes/BiasNeuron.html +265 -0
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  140. data/rdoc/NEAT/Critter/Genotype/Gene.html +457 -0
  141. data/rdoc/NEAT/Critter/Genotype.html +735 -0
  142. data/rdoc/NEAT/Critter/Phenotype.html +330 -0
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  146. data/rdoc/NEAT/Evolver/CritterOp.html +349 -0
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  153. data/rdoc/NEAT/NeatOb.html +325 -0
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  159. data/rdoc/Object.html +384 -0
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  162. data/rdoc/Rakefile.html +254 -0
  163. data/rdoc/RubyNEAT/Application.html +105 -0
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  166. data/rdoc/SDL.html +98 -0
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  176. data/rdoc/doc/NEAT/BasicNeuronTypes/SigmoidNeuron_html.html +413 -0
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  195. data/rdoc/doc/NEAT/NeatOb_html.html +671 -0
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  197. data/rdoc/doc/NEAT/Operator_html.html +337 -0
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  199. data/rdoc/doc/NEAT/Trait_html.html +344 -0
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  203. data/rdoc/doc/css/common_css.html +188 -0
  204. data/rdoc/doc/css/full_list_css.html +243 -0
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  211. data/rdoc/doc/js/jquery_js.html +1536 -0
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  246. data/rdoc/index.html +282 -0
  247. data/rdoc/js/darkfish.js +140 -0
  248. data/rdoc/js/jquery.js +18 -0
  249. data/rdoc/js/navigation.js +142 -0
  250. data/rdoc/js/search.js +109 -0
  251. data/rdoc/js/search_index.js +1 -0
  252. data/rdoc/js/searcher.js +228 -0
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  256. data/rdoc/xordebug_log.html +170598 -0
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  258. data/rubyneat.gemspec +347 -0
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  260. data/spec/lib/rubyneat/rubyneat_spec.rb +132 -0
  261. metadata +555 -0
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+ <!DOCTYPE html>
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+ <html>
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+ <head>
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+ <meta charset="UTF-8">
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+ <title>Critter.html - rubyneat 0.3.4</title>
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+
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+ <link href="../../fonts.css" rel="stylesheet">
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+ <link href="../../rdoc.css" rel="stylesheet">
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+ <script type="text/javascript">
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+ var rdoc_rel_prefix = "../../";
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+ </script>
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+ <script src="../../js/jquery.js"></script>
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+ <script src="../../js/navigation.js"></script>
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+ <script src="../../js/search_index.js"></script>
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+ <script src="../../js/search.js"></script>
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+ <script src="../../js/searcher.js"></script>
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+ <script src="../../js/darkfish.js"></script>
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+ <body id="top" role="document" class="file">
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+ <nav role="navigation">
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+ <div id="project-navigation">
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+ <div id="home-section" role="region" title="Quick navigation" class="nav-section">
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+ <h2>
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+ <a href="../../index.html" rel="home">Home</a>
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+ </h2>
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+ <div id="table-of-contents-navigation">
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+ <a href="../../table_of_contents.html#pages">Pages</a>
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+ <a href="../../table_of_contents.html#classes">Classes</a>
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+ <a href="../../table_of_contents.html#methods">Methods</a>
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+ </div>
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+ </div>
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+ <div id="search-section" role="search" class="project-section initially-hidden">
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+ <form action="#" method="get" accept-charset="utf-8">
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+ <div id="search-field-wrapper">
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+ <input id="search-field" role="combobox" aria-label="Search"
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+ aria-autocomplete="list" aria-controls="search-results"
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+ type="text" name="search" placeholder="Search" spellcheck="false"
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+ title="Type to search, Up and Down to navigate, Enter to load">
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+ </div>
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+ <ul id="search-results" aria-label="Search Results"
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+ aria-busy="false" aria-expanded="false"
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+ aria-atomic="false" class="initially-hidden"></ul>
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+ </form>
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+ </div>
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+ <div id="project-metadata">
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+ <div id="fileindex-section" class="nav-section">
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+ <h3>Pages</h3>
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+ <ul class="link-list">
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+ <li><a href="../../Gemfile.html">Gemfile</a>
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+ <li><a href="../../Gemfile_lock.html">Gemfile.lock</a>
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+ <li><a href="../../Guardfile.html">Guardfile</a>
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+ <li><a href="../../Rakefile.html">Rakefile</a>
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+ <li><a href="../../doc/ControllerPoint_html.html">ControllerPoint.html</a>
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+ <li><a href="../../doc/CuteA_html.html">CuteA.html</a>
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+ <li><a href="../../doc/CuteB_html.html">CuteB.html</a>
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+ <li><a href="../../doc/DSL_html.html">DSL.html</a>
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+ <li><a href="../../doc/NEAT/BasicNeuronTypes_html.html">BasicNeuronTypes.html</a>
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+ <li><a href="../../doc/NEAT/BasicNeuronTypes/BiasNeuron_html.html">BiasNeuron.html</a>
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+ <li><a href="../../doc/NEAT/BasicNeuronTypes/CosineNeuron_html.html">CosineNeuron.html</a>
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+ <li><a href="../../doc/NEAT/BasicNeuronTypes/InputNeuron_html.html">InputNeuron.html</a>
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+ <li><a href="../../doc/NEAT/BasicNeuronTypes/SigmoidNeuron_html.html">SigmoidNeuron.html</a>
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+ <li><a href="../../doc/NEAT/BasicNeuronTypes/SineNeuron_html.html">SineNeuron.html</a>
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+ <li><a href="../../doc/NEAT/BasicNeuronTypes/TanhNeuron_html.html">TanhNeuron.html</a>
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+ <li><a href="../../doc/NEAT/Critter_html.html">Critter.html</a>
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+ <li><a href="../../doc/NEAT/Graph/GraphException_html.html">GraphException.html</a>
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+ <li><a href="../../doc/NEAT/NeatException_html.html">NeatException.html</a>
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+ <li><a href="../../doc/NEAT/NeatOb_html.html">NeatOb.html</a>
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+ <li><a href="../../doc/css/style_css.html">style.css</a>
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+ <li><a href="../../doc/top-level-namespace_html.html">top-level-namespace.html</a>
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+
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+ <li><a href="../../foo_dump_log.html">foo.dump.log</a>
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+ <li><a href="../../rubyneat_gemspec.html">rubyneat.gemspec</a>
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+ <li><a href="../../xordebug_log.html">xordebug.log</a>
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+ </div>
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+ <main role="main" aria-label="Page doc/NEAT/Critter.html">
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+ <p>&lt;!DOCTYPE html PUBLIC “-//W3C//DTD XHTML 1.0 Transitional//EN”</p>
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+ &lt;meta http-equiv=&quot;Content-Type&quot; content=&quot;text/html; charset=utf-8&quot; /&gt;</pre>
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+
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+ <p>&lt;title&gt;</p>
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+
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+ <pre>Class: NEAT::Critter
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+
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+ &amp;mdash; Documentation by YARD 0.8.7.3</pre>
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+
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+ <p>&lt;/title&gt;</p>
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+
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+ <pre>&lt;link rel=&quot;stylesheet&quot; href=&quot;../css/style.css&quot; type=&quot;text/css&quot; charset=&quot;utf-8&quot; /&gt;
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+ relpath = &#39;../&#39;;
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+ framesUrl = &quot;../frames.html#!&quot; + escape(window.location.href);</pre>
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+ <pre>&lt;script type=&quot;text/javascript&quot; charset=&quot;utf-8&quot; src=&quot;../js/jquery.js&quot;&gt;&lt;/script&gt;
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+ &lt;script type=&quot;text/javascript&quot; charset=&quot;utf-8&quot; src=&quot;../js/app.js&quot;&gt;&lt;/script&gt;
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+
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+ &lt;body&gt;
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+ &lt;div id=&quot;header&quot;&gt;
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+ &lt;div id=&quot;menu&quot;&gt;
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+
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+ &lt;a href=&quot;../_index.html&quot;&gt;Index (C)&lt;/a&gt; &amp;raquo;
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+ &lt;span class=&#39;title&#39;&gt;&lt;span class=&#39;object_link&#39;&gt;&lt;a href=&quot;../NEAT.html&quot; title=&quot;NEAT (module)&quot;&gt;NEAT&lt;/a&gt;&lt;/span&gt;&lt;/span&gt;
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+ &amp;raquo;
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+ &lt;span class=&quot;title&quot;&gt;Critter&lt;/span&gt;
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+
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+ &lt;div class=&quot;noframes&quot;&gt;&lt;span class=&quot;title&quot;&gt;(&lt;/span&gt;&lt;a href=&quot;.&quot; target=&quot;_top&quot;&gt;no frames&lt;/a&gt;&lt;span class=&quot;title&quot;&gt;)&lt;/span&gt;&lt;/div&gt;</pre>
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+ <pre> &lt;div id=&quot;search&quot;&gt;
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+ href=&quot;../class_list.html&quot;&gt;
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+ Class List
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+ &lt;/a&gt;
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+
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+ &lt;a class=&quot;full_list_link&quot; id=&quot;method_list_link&quot;
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+ href=&quot;../method_list.html&quot;&gt;
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+ Method List
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+ &lt;/a&gt;
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+
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+ &lt;a class=&quot;full_list_link&quot; id=&quot;file_list_link&quot;
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+ href=&quot;../file_list.html&quot;&gt;
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+ File List
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+ &lt;/a&gt;</pre>
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+
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+ <p>&lt;/div&gt;</p>
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+
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+ <pre> &lt;div class=&quot;clear&quot;&gt;&lt;/div&gt;
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+ &lt;/div&gt;
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+
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+ &lt;iframe id=&quot;search_frame&quot;&gt;&lt;/iframe&gt;
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+
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+ &lt;div id=&quot;content&quot;&gt;&lt;h1&gt;Class: NEAT::Critter</pre>
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+
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+ <p>&lt;/h1&gt;</p>
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+
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+ <p>&lt;dl class=“box”&gt;</p>
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+
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+ <pre>&lt;dt class=&quot;r1&quot;&gt;Inherits:&lt;/dt&gt;
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+ &lt;dd class=&quot;r1&quot;&gt;
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+ &lt;span class=&quot;inheritName&quot;&gt;&lt;span class=&#39;object_link&#39;&gt;&lt;a href=&quot;NeatOb.html&quot; title=&quot;NEAT::NeatOb (class)&quot;&gt;NeatOb&lt;/a&gt;&lt;/span&gt;&lt;/span&gt;
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+
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+ &lt;ul class=&quot;fullTree&quot;&gt;
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+ &lt;li&gt;Object&lt;/li&gt;
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+
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+ &lt;li class=&quot;next&quot;&gt;&lt;span class=&#39;object_link&#39;&gt;&lt;a href=&quot;NeatOb.html&quot; title=&quot;NEAT::NeatOb (class)&quot;&gt;NeatOb&lt;/a&gt;&lt;/span&gt;&lt;/li&gt;
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+
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+ &lt;li class=&quot;next&quot;&gt;NEAT::Critter&lt;/li&gt;
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+
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+ &lt;/ul&gt;
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+ &lt;a href=&quot;#&quot; class=&quot;inheritanceTree&quot;&gt;show all&lt;/a&gt;
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+
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+ &lt;/dd&gt;
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+
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+ &lt;dt class=&quot;r2 last&quot;&gt;Defined in:&lt;/dt&gt;
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+ &lt;dd class=&quot;r2 last&quot;&gt;lib/rubyneat/critter.rb&lt;/dd&gt;</pre>
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+
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+ <p>&lt;/dl&gt; &lt;div class=“clear”&gt;&lt;/div&gt;</p>
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+
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+ <p>&lt;h2&gt;Overview&lt;/h2&gt;&lt;div class=“docstring”&gt;</p>
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+
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+ <pre>&lt;div class=&quot;discussion&quot;&gt;</pre>
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+
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+ <p>&lt;h1 id=“label-Critters+for+NEAT”&gt;Critters for <a
283
+ href="../../NEAT.html">NEAT</a>&lt;/h1&gt;</p>
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+
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+ <p>&lt;p&gt;The Critter class comprises a Genotype and a Phenotype. The
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+ Genotype comprises Genes and Neurons.&lt;/p&gt;</p>
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+
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+ <pre>&lt;/div&gt;</pre>
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+
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+ <p>&lt;/div&gt; &lt;div class=“tags”&gt;</p>
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+
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+ <p>&lt;/div&gt;&lt;h2&gt;Defined Under Namespace&lt;/h2&gt; &lt;p
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+ class=“children”&gt;</p>
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+
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+ <pre>&lt;strong class=&quot;classes&quot;&gt;Classes:&lt;/strong&gt; &lt;span class=&#39;object_link&#39;&gt;&lt;a href=&quot;Critter/Genotype.html&quot; title=&quot;NEAT::Critter::Genotype (class)&quot;&gt;Genotype&lt;/a&gt;&lt;/span&gt;, &lt;span class=&#39;object_link&#39;&gt;&lt;a href=&quot;Critter/Phenotype.html&quot; title=&quot;NEAT::Critter::Phenotype (class)&quot;&gt;Phenotype&lt;/a&gt;&lt;/span&gt;</pre>
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+
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+ <p>&lt;/p&gt;</p>
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+
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+ <pre>&lt;h2&gt;Instance Attribute Summary &lt;small&gt;(&lt;a href=&quot;#&quot; class=&quot;summary_toggle&quot;&gt;collapse&lt;/a&gt;)&lt;/small&gt;&lt;/h2&gt;
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+ &lt;ul class=&quot;summary&quot;&gt;
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+
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+ &lt;li class=&quot;public &quot;&gt;
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+ &lt;span class=&quot;summary_signature&quot;&gt;
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+
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+ &lt;a href=&quot;#fitness-instance_method&quot; title=&quot;#fitness (instance method)&quot;&gt;- (Object) &lt;strong&gt;fitness&lt;/strong&gt; &lt;/a&gt;
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+
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+ &lt;/span&gt;
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+
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+ &lt;span class=&quot;summary_desc&quot;&gt;&lt;div class=&#39;inline&#39;&gt;</pre>
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+
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+ <p>&lt;p&gt;Ratings assigned by Evaluator.&lt;/p&gt; &lt;/div&gt;&lt;/span&gt;</p>
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+
313
+ <p>&lt;/li&gt;</p>
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+
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+ <pre> &lt;li class=&quot;public &quot;&gt;
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+ &lt;span class=&quot;summary_signature&quot;&gt;
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+
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+ &lt;a href=&quot;#genotype-instance_method&quot; title=&quot;#genotype (instance method)&quot;&gt;- (Object) &lt;strong&gt;genotype&lt;/strong&gt; &lt;/a&gt;
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+
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+ &lt;/span&gt;
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+
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+ &lt;span class=&quot;summary_desc&quot;&gt;&lt;div class=&#39;inline&#39;&gt;</pre>
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+
324
+ <p>&lt;p&gt;Returns the value of attribute genotype.&lt;/p&gt;
325
+ &lt;/div&gt;&lt;/span&gt;</p>
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+
327
+ <p>&lt;/li&gt;</p>
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+
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+ <pre> &lt;li class=&quot;public &quot;&gt;
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+ &lt;span class=&quot;summary_signature&quot;&gt;
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+
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+ &lt;a href=&quot;#novelty-instance_method&quot; title=&quot;#novelty (instance method)&quot;&gt;- (Object) &lt;strong&gt;novelty&lt;/strong&gt; &lt;/a&gt;
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+
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+ &lt;/span&gt;
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+
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+ &lt;span class=&quot;summary_desc&quot;&gt;&lt;div class=&#39;inline&#39;&gt;</pre>
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+
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+ <p>&lt;p&gt;Ratings assigned by Evaluator.&lt;/p&gt; &lt;/div&gt;&lt;/span&gt;</p>
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+
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+ <p>&lt;/li&gt;</p>
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+
342
+ <pre> &lt;li class=&quot;public &quot;&gt;
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+ &lt;span class=&quot;summary_signature&quot;&gt;
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+
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+ &lt;a href=&quot;#phenotype-instance_method&quot; title=&quot;#phenotype (instance method)&quot;&gt;- (Object) &lt;strong&gt;phenotype&lt;/strong&gt; &lt;/a&gt;
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+
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+ &lt;/span&gt;
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+
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+ &lt;span class=&quot;summary_desc&quot;&gt;&lt;div class=&#39;inline&#39;&gt;</pre>
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+
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+ <p>&lt;p&gt;Returns the value of attribute phenotype.&lt;/p&gt;
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+ &lt;/div&gt;&lt;/span&gt;</p>
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+
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+ <p>&lt;/li&gt;</p>
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+
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+ <pre> &lt;li class=&quot;public &quot;&gt;
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+ &lt;span class=&quot;summary_signature&quot;&gt;
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+
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+ &lt;a href=&quot;#population-instance_method&quot; title=&quot;#population (instance method)&quot;&gt;- (Object) &lt;strong&gt;population&lt;/strong&gt; &lt;/a&gt;
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+
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+ &lt;/span&gt;
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+
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+ &lt;span class=&quot;note title readonly&quot;&gt;readonly&lt;/span&gt;
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+
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+ &lt;span class=&quot;summary_desc&quot;&gt;&lt;div class=&#39;inline&#39;&gt;</pre>
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+
367
+ <p>&lt;p&gt;Returns the value of attribute population.&lt;/p&gt;
368
+ &lt;/div&gt;&lt;/span&gt;</p>
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+
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+ <p>&lt;/li&gt;</p>
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+
372
+ <pre>&lt;/ul&gt;
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+
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+ &lt;h3 class=&quot;inherited&quot;&gt;Attributes inherited from &lt;span class=&#39;object_link&#39;&gt;&lt;a href=&quot;NeatOb.html&quot; title=&quot;NEAT::NeatOb (class)&quot;&gt;NeatOb&lt;/a&gt;&lt;/span&gt;&lt;/h3&gt;
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+ &lt;p class=&quot;inherited&quot;&gt;&lt;span class=&#39;object_link&#39;&gt;&lt;a href=&quot;NeatOb.html#controller-instance_method&quot; title=&quot;NEAT::NeatOb#controller (method)&quot;&gt;#controller&lt;/a&gt;&lt;/span&gt;, &lt;span class=&#39;object_link&#39;&gt;&lt;a href=&quot;NeatOb.html#name-instance_method&quot; title=&quot;NEAT::NeatOb#name (method)&quot;&gt;#name&lt;/a&gt;&lt;/span&gt;&lt;/p&gt;
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+
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+ &lt;h2&gt;
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+ Instance Method Summary
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+ &lt;small&gt;(&lt;a href=&quot;#&quot; class=&quot;summary_toggle&quot;&gt;collapse&lt;/a&gt;)&lt;/small&gt;
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+ &lt;/h2&gt;
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+
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+ &lt;ul class=&quot;summary&quot;&gt;
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+
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+ &lt;li class=&quot;public &quot;&gt;
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+ &lt;span class=&quot;summary_signature&quot;&gt;
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+
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+ &lt;a href=&quot;#compare-instance_method&quot; title=&quot;#compare (instance method)&quot;&gt;- (Object) &lt;strong&gt;compare&lt;/strong&gt;(oc) &lt;/a&gt;
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+
389
+ &lt;/span&gt;
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+
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+ &lt;span class=&quot;summary_desc&quot;&gt;&lt;div class=&#39;inline&#39;&gt;</pre>
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+
393
+ <p>&lt;p&gt;Compare ourselves against another critter for
394
+ compability.&lt;/p&gt; &lt;/div&gt;&lt;/span&gt;</p>
395
+
396
+ <p>&lt;/li&gt;</p>
397
+
398
+ <pre> &lt;li class=&quot;public &quot;&gt;
399
+ &lt;span class=&quot;summary_signature&quot;&gt;
400
+
401
+ &lt;a href=&quot;#dump_s-instance_method&quot; title=&quot;#dump_s (instance method)&quot;&gt;- (Object) &lt;strong&gt;dump_s&lt;/strong&gt; &lt;/a&gt;
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+
403
+ &lt;/span&gt;
404
+
405
+ &lt;span class=&quot;summary_desc&quot;&gt;&lt;div class=&#39;inline&#39;&gt;</pre>
406
+
407
+ <p>&lt;p&gt;Critter print.&lt;/p&gt; &lt;/div&gt;&lt;/span&gt;</p>
408
+
409
+ <p>&lt;/li&gt;</p>
410
+
411
+ <pre> &lt;li class=&quot;public &quot;&gt;
412
+ &lt;span class=&quot;summary_signature&quot;&gt;
413
+
414
+ &lt;a href=&quot;#evaluate%21-instance_method&quot; title=&quot;#evaluate! (instance method)&quot;&gt;- (Object) &lt;strong&gt;evaluate!&lt;/strong&gt; &lt;/a&gt;
415
+
416
+ &lt;/span&gt;
417
+
418
+ &lt;span class=&quot;summary_desc&quot;&gt;&lt;div class=&#39;inline&#39;&gt;</pre>
419
+
420
+ <p>&lt;p&gt;A single evaluation step.&lt;/p&gt; &lt;/div&gt;&lt;/span&gt;</p>
421
+
422
+ <p>&lt;/li&gt;</p>
423
+
424
+ <pre> &lt;li class=&quot;public &quot;&gt;
425
+ &lt;span class=&quot;summary_signature&quot;&gt;
426
+
427
+ &lt;a href=&quot;#express%21-instance_method&quot; title=&quot;#express! (instance method)&quot;&gt;- (Object) &lt;strong&gt;express!&lt;/strong&gt; &lt;/a&gt;
428
+
429
+ &lt;/span&gt;
430
+
431
+ &lt;span class=&quot;summary_desc&quot;&gt;&lt;div class=&#39;inline&#39;&gt;</pre>
432
+
433
+ <p>&lt;p&gt;Exoress this critter using the Expressor plugin.&lt;/p&gt;
434
+ &lt;/div&gt;&lt;/span&gt;</p>
435
+
436
+ <p>&lt;/li&gt;</p>
437
+
438
+ <pre> &lt;li class=&quot;public &quot;&gt;
439
+ &lt;span class=&quot;summary_signature&quot;&gt;
440
+
441
+ &lt;a href=&quot;#initialize-instance_method&quot; title=&quot;#initialize (instance method)&quot;&gt;- (Critter) &lt;strong&gt;initialize&lt;/strong&gt;(pop, mating = false, &amp;amp;block) &lt;/a&gt;
442
+
443
+ &lt;/span&gt;
444
+
445
+ &lt;span class=&quot;note title constructor&quot;&gt;constructor&lt;/span&gt;
446
+
447
+ &lt;span class=&quot;summary_desc&quot;&gt;&lt;div class=&#39;inline&#39;&gt;</pre>
448
+
449
+ <p>&lt;p&gt;Critter construction.&lt;/p&gt; &lt;/div&gt;&lt;/span&gt;</p>
450
+
451
+ <p>&lt;/li&gt;</p>
452
+
453
+ <pre> &lt;li class=&quot;public &quot;&gt;
454
+ &lt;span class=&quot;summary_signature&quot;&gt;
455
+
456
+ &lt;a href=&quot;#initialize_neurons%21-instance_method&quot; title=&quot;#initialize_neurons! (instance method)&quot;&gt;- (Object) &lt;strong&gt;initialize_neurons!&lt;/strong&gt; &lt;/a&gt;
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+
458
+ &lt;/span&gt;
459
+
460
+ &lt;span class=&quot;summary_desc&quot;&gt;&lt;div class=&#39;inline&#39;&gt;</pre>
461
+
462
+ <p>&lt;p&gt;This initializes neurons in preparation for recurrence.&lt;/p&gt;
463
+ &lt;/div&gt;&lt;/span&gt;</p>
464
+
465
+ <p>&lt;/li&gt;</p>
466
+
467
+ <pre> &lt;li class=&quot;public &quot;&gt;
468
+ &lt;span class=&quot;summary_signature&quot;&gt;
469
+
470
+ &lt;a href=&quot;#ready_for_expression%21-instance_method&quot; title=&quot;#ready_for_expression! (instance method)&quot;&gt;- (Object) &lt;strong&gt;ready_for_expression!&lt;/strong&gt; &lt;/a&gt;
471
+
472
+ &lt;/span&gt;
473
+
474
+ &lt;span class=&quot;summary_desc&quot;&gt;&lt;div class=&#39;inline&#39;&gt;</pre>
475
+
476
+ <p>&lt;p&gt;Get the Critter ready for the Expressor to express the
477
+ geneotype.&lt;/p&gt; &lt;/div&gt;&lt;/span&gt;</p>
478
+
479
+ <p>&lt;/li&gt;</p>
480
+
481
+ <pre> &lt;/ul&gt;
482
+
483
+ &lt;h3 class=&quot;inherited&quot;&gt;Methods inherited from &lt;span class=&#39;object_link&#39;&gt;&lt;a href=&quot;NeatOb.html&quot; title=&quot;NEAT::NeatOb (class)&quot;&gt;NeatOb&lt;/a&gt;&lt;/span&gt;&lt;/h3&gt;
484
+ &lt;p class=&quot;inherited&quot;&gt;&lt;span class=&#39;object_link&#39;&gt;&lt;a href=&quot;NeatOb.html#log-instance_method&quot; title=&quot;NEAT::NeatOb#log (method)&quot;&gt;#log&lt;/a&gt;&lt;/span&gt;, &lt;span class=&#39;object_link&#39;&gt;&lt;a href=&quot;NeatOb.html#log-class_method&quot; title=&quot;NEAT::NeatOb.log (method)&quot;&gt;log&lt;/a&gt;&lt;/span&gt;, &lt;span class=&#39;object_link&#39;&gt;&lt;a href=&quot;NeatOb.html#to_s-instance_method&quot; title=&quot;NEAT::NeatOb#to_s (method)&quot;&gt;#to_s&lt;/a&gt;&lt;/span&gt;&lt;/p&gt;
485
+
486
+ &lt;div id=&quot;constructor_details&quot; class=&quot;method_details_list&quot;&gt;
487
+ &lt;h2&gt;Constructor Details&lt;/h2&gt;
488
+
489
+ &lt;div class=&quot;method_details first&quot;&gt;
490
+ &lt;h3 class=&quot;signature first&quot; id=&quot;initialize-instance_method&quot;&gt;
491
+
492
+ - (&lt;tt&gt;&lt;span class=&#39;object_link&#39;&gt;&lt;a href=&quot;&quot; title=&quot;NEAT::Critter (class)&quot;&gt;Critter&lt;/a&gt;&lt;/span&gt;&lt;/tt&gt;) &lt;strong&gt;initialize&lt;/strong&gt;(pop, mating = false, &amp;amp;block)</pre>
493
+
494
+ <p>&lt;/h3&gt;&lt;div class=“docstring”&gt;</p>
495
+
496
+ <pre>&lt;div class=&quot;discussion&quot;&gt;</pre>
497
+
498
+ <p>&lt;p&gt;Critter construction. We construct the genotype. The phenotype
499
+ will be constructed by the Expressor operator.&lt;/p&gt;</p>
500
+
501
+ <pre>&lt;/div&gt;</pre>
502
+
503
+ <p>&lt;/div&gt; &lt;div class=“tags”&gt;</p>
504
+
505
+ <p>&lt;/div&gt;&lt;table class=“source_code”&gt;</p>
506
+
507
+ <pre>&lt;tr&gt;
508
+ &lt;td&gt;
509
+ &lt;pre class=&quot;lines&quot;&gt;</pre>
510
+
511
+ <p>20 21 22 23 24 25&lt;/pre&gt;</p>
512
+
513
+ <pre>&lt;/td&gt;
514
+ &lt;td&gt;
515
+ &lt;pre class=&quot;code&quot;&gt;&lt;span class=&quot;info file&quot;&gt;# File &#39;lib/rubyneat/critter.rb&#39;, line 20&lt;/span&gt;</pre>
516
+
517
+ <p>&lt;span class=&#39;kw&#39;&gt;def&lt;/span&gt; &lt;span class=&#39;id
518
+ identifier rubyid_initialize&#39;&gt;initialize&lt;/span&gt;&lt;span
519
+ class=&#39;lparen&#39;&gt;(&lt;/span&gt;&lt;span class=&#39;id identifier
520
+ rubyid_pop&#39;&gt;pop&lt;/span&gt;&lt;span
521
+ class=&#39;comma&#39;&gt;,&lt;/span&gt; &lt;span class=&#39;id identifier
522
+ rubyid_mating&#39;&gt;mating&lt;/span&gt; &lt;span
523
+ class=&#39;op&#39;&gt;=&lt;/span&gt; &lt;span
524
+ class=&#39;kw&#39;&gt;false&lt;/span&gt;&lt;span
525
+ class=&#39;comma&#39;&gt;,&lt;/span&gt; &lt;span
526
+ class=&#39;op&#39;&gt;&amp;amp;&lt;/span&gt;&lt;span class=&#39;id
527
+ identifier rubyid_block&#39;&gt;block&lt;/span&gt;&lt;span
528
+ class=&#39;rparen&#39;&gt;)&lt;/span&gt;</p>
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+
530
+ <pre>&lt;span class=&#39;kw&#39;&gt;super&lt;/span&gt; &lt;span class=&#39;id identifier rubyid_pop&#39;&gt;pop&lt;/span&gt;&lt;span class=&#39;period&#39;&gt;.&lt;/span&gt;&lt;span class=&#39;id identifier rubyid_controller&#39;&gt;controller&lt;/span&gt;
531
+ &lt;span class=&#39;ivar&#39;&gt;@population&lt;/span&gt; &lt;span class=&#39;op&#39;&gt;=&lt;/span&gt; &lt;span class=&#39;id identifier rubyid_pop&#39;&gt;pop&lt;/span&gt;
532
+ &lt;span class=&#39;ivar&#39;&gt;@genotype&lt;/span&gt; &lt;span class=&#39;op&#39;&gt;=&lt;/span&gt; &lt;span class=&#39;const&#39;&gt;Genotype&lt;/span&gt;&lt;span class=&#39;period&#39;&gt;.&lt;/span&gt;&lt;span class=&#39;id identifier rubyid_new&#39;&gt;new&lt;/span&gt;&lt;span class=&#39;lparen&#39;&gt;(&lt;/span&gt;&lt;span class=&#39;kw&#39;&gt;self&lt;/span&gt;&lt;span class=&#39;comma&#39;&gt;,&lt;/span&gt; &lt;span class=&#39;id identifier rubyid_mating&#39;&gt;mating&lt;/span&gt;&lt;span class=&#39;rparen&#39;&gt;)&lt;/span&gt;
533
+ &lt;span class=&#39;id identifier rubyid_block&#39;&gt;block&lt;/span&gt;&lt;span class=&#39;period&#39;&gt;.&lt;/span&gt;&lt;span class=&#39;lparen&#39;&gt;(&lt;/span&gt;&lt;span class=&#39;kw&#39;&gt;self&lt;/span&gt;&lt;span class=&#39;rparen&#39;&gt;)&lt;/span&gt; &lt;span class=&#39;kw&#39;&gt;unless&lt;/span&gt; &lt;span class=&#39;id identifier rubyid_block&#39;&gt;block&lt;/span&gt;&lt;span class=&#39;period&#39;&gt;.&lt;/span&gt;&lt;span class=&#39;id identifier rubyid_nil?&#39;&gt;nil?&lt;/span&gt;</pre>
534
+
535
+ <p>&lt;span class=&#39;kw&#39;&gt;end&lt;/span&gt;&lt;/pre&gt;</p>
536
+
537
+ <pre> &lt;/td&gt;
538
+ &lt;/tr&gt;</pre>
539
+
540
+ <p>&lt;/table&gt; &lt;/div&gt;</p>
541
+
542
+ <p>&lt;/div&gt;</p>
543
+
544
+ <pre>&lt;div id=&quot;instance_attr_details&quot; class=&quot;attr_details&quot;&gt;
545
+ &lt;h2&gt;Instance Attribute Details&lt;/h2&gt;
546
+
547
+ &lt;span id=&quot;fitness=-instance_method&quot;&gt;&lt;/span&gt;
548
+ &lt;div class=&quot;method_details first&quot;&gt;
549
+ &lt;h3 class=&quot;signature first&quot; id=&quot;fitness-instance_method&quot;&gt;
550
+
551
+ - (&lt;tt&gt;Object&lt;/tt&gt;) &lt;strong&gt;fitness&lt;/strong&gt;</pre>
552
+
553
+ <p>&lt;/h3&gt;&lt;div class=“docstring”&gt;</p>
554
+
555
+ <pre>&lt;div class=&quot;discussion&quot;&gt;</pre>
556
+
557
+ <p>&lt;p&gt;Ratings assigned by Evaluator&lt;/p&gt;</p>
558
+
559
+ <pre>&lt;/div&gt;</pre>
560
+
561
+ <p>&lt;/div&gt; &lt;div class=“tags”&gt;</p>
562
+
563
+ <p>&lt;/div&gt;&lt;table class=“source_code”&gt;</p>
564
+
565
+ <pre>&lt;tr&gt;
566
+ &lt;td&gt;
567
+ &lt;pre class=&quot;lines&quot;&gt;</pre>
568
+
569
+ <p>16 17 18&lt;/pre&gt;</p>
570
+
571
+ <pre>&lt;/td&gt;
572
+ &lt;td&gt;
573
+ &lt;pre class=&quot;code&quot;&gt;&lt;span class=&quot;info file&quot;&gt;# File &#39;lib/rubyneat/critter.rb&#39;, line 16&lt;/span&gt;</pre>
574
+
575
+ <p>&lt;span class=&#39;kw&#39;&gt;def&lt;/span&gt; &lt;span class=&#39;id
576
+ identifier rubyid_fitness&#39;&gt;fitness&lt;/span&gt;</p>
577
+
578
+ <pre>&lt;span class=&#39;ivar&#39;&gt;@fitness&lt;/span&gt;</pre>
579
+
580
+ <p>&lt;span class=&#39;kw&#39;&gt;end&lt;/span&gt;&lt;/pre&gt;</p>
581
+
582
+ <pre> &lt;/td&gt;
583
+ &lt;/tr&gt;</pre>
584
+
585
+ <p>&lt;/table&gt; &lt;/div&gt;</p>
586
+
587
+ <pre> &lt;span id=&quot;genotype=-instance_method&quot;&gt;&lt;/span&gt;
588
+ &lt;div class=&quot;method_details &quot;&gt;
589
+ &lt;h3 class=&quot;signature &quot; id=&quot;genotype-instance_method&quot;&gt;
590
+
591
+ - (&lt;tt&gt;Object&lt;/tt&gt;) &lt;strong&gt;genotype&lt;/strong&gt;</pre>
592
+
593
+ <p>&lt;/h3&gt;&lt;div class=“docstring”&gt;</p>
594
+
595
+ <pre>&lt;div class=&quot;discussion&quot;&gt;</pre>
596
+
597
+ <p>&lt;p&gt;Returns the value of attribute genotype&lt;/p&gt;</p>
598
+
599
+ <pre>&lt;/div&gt;</pre>
600
+
601
+ <p>&lt;/div&gt; &lt;div class=“tags”&gt;</p>
602
+
603
+ <p>&lt;/div&gt;&lt;table class=“source_code”&gt;</p>
604
+
605
+ <pre>&lt;tr&gt;
606
+ &lt;td&gt;
607
+ &lt;pre class=&quot;lines&quot;&gt;</pre>
608
+
609
+ <p>13 14 15&lt;/pre&gt;</p>
610
+
611
+ <pre>&lt;/td&gt;
612
+ &lt;td&gt;
613
+ &lt;pre class=&quot;code&quot;&gt;&lt;span class=&quot;info file&quot;&gt;# File &#39;lib/rubyneat/critter.rb&#39;, line 13&lt;/span&gt;</pre>
614
+
615
+ <p>&lt;span class=&#39;kw&#39;&gt;def&lt;/span&gt; &lt;span class=&#39;id
616
+ identifier rubyid_genotype&#39;&gt;genotype&lt;/span&gt;</p>
617
+
618
+ <pre>&lt;span class=&#39;ivar&#39;&gt;@genotype&lt;/span&gt;</pre>
619
+
620
+ <p>&lt;span class=&#39;kw&#39;&gt;end&lt;/span&gt;&lt;/pre&gt;</p>
621
+
622
+ <pre> &lt;/td&gt;
623
+ &lt;/tr&gt;</pre>
624
+
625
+ <p>&lt;/table&gt; &lt;/div&gt;</p>
626
+
627
+ <pre> &lt;span id=&quot;novelty=-instance_method&quot;&gt;&lt;/span&gt;
628
+ &lt;div class=&quot;method_details &quot;&gt;
629
+ &lt;h3 class=&quot;signature &quot; id=&quot;novelty-instance_method&quot;&gt;
630
+
631
+ - (&lt;tt&gt;Object&lt;/tt&gt;) &lt;strong&gt;novelty&lt;/strong&gt;</pre>
632
+
633
+ <p>&lt;/h3&gt;&lt;div class=“docstring”&gt;</p>
634
+
635
+ <pre>&lt;div class=&quot;discussion&quot;&gt;</pre>
636
+
637
+ <p>&lt;p&gt;Ratings assigned by Evaluator&lt;/p&gt;</p>
638
+
639
+ <pre>&lt;/div&gt;</pre>
640
+
641
+ <p>&lt;/div&gt; &lt;div class=“tags”&gt;</p>
642
+
643
+ <p>&lt;/div&gt;&lt;table class=“source_code”&gt;</p>
644
+
645
+ <pre>&lt;tr&gt;
646
+ &lt;td&gt;
647
+ &lt;pre class=&quot;lines&quot;&gt;</pre>
648
+
649
+ <p>16 17 18&lt;/pre&gt;</p>
650
+
651
+ <pre>&lt;/td&gt;
652
+ &lt;td&gt;
653
+ &lt;pre class=&quot;code&quot;&gt;&lt;span class=&quot;info file&quot;&gt;# File &#39;lib/rubyneat/critter.rb&#39;, line 16&lt;/span&gt;</pre>
654
+
655
+ <p>&lt;span class=&#39;kw&#39;&gt;def&lt;/span&gt; &lt;span class=&#39;id
656
+ identifier rubyid_novelty&#39;&gt;novelty&lt;/span&gt;</p>
657
+
658
+ <pre>&lt;span class=&#39;ivar&#39;&gt;@novelty&lt;/span&gt;</pre>
659
+
660
+ <p>&lt;span class=&#39;kw&#39;&gt;end&lt;/span&gt;&lt;/pre&gt;</p>
661
+
662
+ <pre> &lt;/td&gt;
663
+ &lt;/tr&gt;</pre>
664
+
665
+ <p>&lt;/table&gt; &lt;/div&gt;</p>
666
+
667
+ <pre> &lt;span id=&quot;phenotype=-instance_method&quot;&gt;&lt;/span&gt;
668
+ &lt;div class=&quot;method_details &quot;&gt;
669
+ &lt;h3 class=&quot;signature &quot; id=&quot;phenotype-instance_method&quot;&gt;
670
+
671
+ - (&lt;tt&gt;Object&lt;/tt&gt;) &lt;strong&gt;phenotype&lt;/strong&gt;</pre>
672
+
673
+ <p>&lt;/h3&gt;&lt;div class=“docstring”&gt;</p>
674
+
675
+ <pre>&lt;div class=&quot;discussion&quot;&gt;</pre>
676
+
677
+ <p>&lt;p&gt;Returns the value of attribute phenotype&lt;/p&gt;</p>
678
+
679
+ <pre>&lt;/div&gt;</pre>
680
+
681
+ <p>&lt;/div&gt; &lt;div class=“tags”&gt;</p>
682
+
683
+ <p>&lt;/div&gt;&lt;table class=“source_code”&gt;</p>
684
+
685
+ <pre>&lt;tr&gt;
686
+ &lt;td&gt;
687
+ &lt;pre class=&quot;lines&quot;&gt;</pre>
688
+
689
+ <p>13 14 15&lt;/pre&gt;</p>
690
+
691
+ <pre>&lt;/td&gt;
692
+ &lt;td&gt;
693
+ &lt;pre class=&quot;code&quot;&gt;&lt;span class=&quot;info file&quot;&gt;# File &#39;lib/rubyneat/critter.rb&#39;, line 13&lt;/span&gt;</pre>
694
+
695
+ <p>&lt;span class=&#39;kw&#39;&gt;def&lt;/span&gt; &lt;span class=&#39;id
696
+ identifier rubyid_phenotype&#39;&gt;phenotype&lt;/span&gt;</p>
697
+
698
+ <pre>&lt;span class=&#39;ivar&#39;&gt;@phenotype&lt;/span&gt;</pre>
699
+
700
+ <p>&lt;span class=&#39;kw&#39;&gt;end&lt;/span&gt;&lt;/pre&gt;</p>
701
+
702
+ <pre> &lt;/td&gt;
703
+ &lt;/tr&gt;</pre>
704
+
705
+ <p>&lt;/table&gt; &lt;/div&gt;</p>
706
+
707
+ <pre> &lt;span id=&quot;&quot;&gt;&lt;/span&gt;
708
+ &lt;div class=&quot;method_details &quot;&gt;
709
+ &lt;h3 class=&quot;signature &quot; id=&quot;population-instance_method&quot;&gt;
710
+
711
+ - (&lt;tt&gt;Object&lt;/tt&gt;) &lt;strong&gt;population&lt;/strong&gt; &lt;span class=&quot;extras&quot;&gt;(readonly)&lt;/span&gt;</pre>
712
+
713
+ <p>&lt;/h3&gt;&lt;div class=“docstring”&gt;</p>
714
+
715
+ <pre>&lt;div class=&quot;discussion&quot;&gt;</pre>
716
+
717
+ <p>&lt;p&gt;Returns the value of attribute population&lt;/p&gt;</p>
718
+
719
+ <pre>&lt;/div&gt;</pre>
720
+
721
+ <p>&lt;/div&gt; &lt;div class=“tags”&gt;</p>
722
+
723
+ <p>&lt;/div&gt;&lt;table class=“source_code”&gt;</p>
724
+
725
+ <pre>&lt;tr&gt;
726
+ &lt;td&gt;
727
+ &lt;pre class=&quot;lines&quot;&gt;</pre>
728
+
729
+ <p>12 13 14&lt;/pre&gt;</p>
730
+
731
+ <pre>&lt;/td&gt;
732
+ &lt;td&gt;
733
+ &lt;pre class=&quot;code&quot;&gt;&lt;span class=&quot;info file&quot;&gt;# File &#39;lib/rubyneat/critter.rb&#39;, line 12&lt;/span&gt;</pre>
734
+
735
+ <p>&lt;span class=&#39;kw&#39;&gt;def&lt;/span&gt; &lt;span class=&#39;id
736
+ identifier rubyid_population&#39;&gt;population&lt;/span&gt;</p>
737
+
738
+ <pre>&lt;span class=&#39;ivar&#39;&gt;@population&lt;/span&gt;</pre>
739
+
740
+ <p>&lt;span class=&#39;kw&#39;&gt;end&lt;/span&gt;&lt;/pre&gt;</p>
741
+
742
+ <pre> &lt;/td&gt;
743
+ &lt;/tr&gt;</pre>
744
+
745
+ <p>&lt;/table&gt; &lt;/div&gt;</p>
746
+
747
+ <pre>&lt;/div&gt;
748
+
749
+ &lt;div id=&quot;instance_method_details&quot; class=&quot;method_details_list&quot;&gt;
750
+ &lt;h2&gt;Instance Method Details&lt;/h2&gt;
751
+
752
+ &lt;div class=&quot;method_details first&quot;&gt;
753
+ &lt;h3 class=&quot;signature first&quot; id=&quot;compare-instance_method&quot;&gt;
754
+
755
+ - (&lt;tt&gt;Object&lt;/tt&gt;) &lt;strong&gt;compare&lt;/strong&gt;(oc)</pre>
756
+
757
+ <p>&lt;/h3&gt;&lt;div class=“docstring”&gt;</p>
758
+
759
+ <pre>&lt;div class=&quot;discussion&quot;&gt;</pre>
760
+
761
+ <p>&lt;p&gt;Compare ourselves against another critter for
762
+ compability.&lt;/p&gt;</p>
763
+
764
+ <p>&lt;p&gt;The function to be used here is: distance = c1*E + c2*D +
765
+ c3*W&lt;/p&gt;</p>
766
+
767
+ <p>&lt;p&gt;Where: E, D - The number of excess and disjoint genes
768
+ repesctively. N - The number of genes in the largest genome. W - The sum of
769
+ absolute weight differences.&lt;/p&gt;</p>
770
+
771
+ <p>&lt;p&gt;This is a variation of the formulation suggested by the Stanley
772
+ paper, which normalizes the E and D terms by N.&lt;/p&gt;</p>
773
+
774
+ <pre>&lt;/div&gt;</pre>
775
+
776
+ <p>&lt;/div&gt; &lt;div class=“tags”&gt;</p>
777
+
778
+ <p>&lt;/div&gt;&lt;table class=“source_code”&gt;</p>
779
+
780
+ <pre>&lt;tr&gt;
781
+ &lt;td&gt;
782
+ &lt;pre class=&quot;lines&quot;&gt;</pre>
783
+
784
+ <p>333 334 335 336 337 338 339 340 341&lt;/pre&gt;</p>
785
+
786
+ <pre>&lt;/td&gt;
787
+ &lt;td&gt;
788
+ &lt;pre class=&quot;code&quot;&gt;&lt;span class=&quot;info file&quot;&gt;# File &#39;lib/rubyneat/critter.rb&#39;, line 333&lt;/span&gt;</pre>
789
+
790
+ <p>&lt;span class=&#39;kw&#39;&gt;def&lt;/span&gt; &lt;span class=&#39;id
791
+ identifier rubyid_compare&#39;&gt;compare&lt;/span&gt;&lt;span
792
+ class=&#39;lparen&#39;&gt;(&lt;/span&gt;&lt;span class=&#39;id identifier
793
+ rubyid_oc&#39;&gt;oc&lt;/span&gt;&lt;span
794
+ class=&#39;rparen&#39;&gt;)&lt;/span&gt;</p>
795
+
796
+ <pre>&lt;span class=&#39;id identifier rubyid_c1&#39;&gt;c1&lt;/span&gt; &lt;span class=&#39;op&#39;&gt;=&lt;/span&gt; &lt;span class=&#39;ivar&#39;&gt;@controller&lt;/span&gt;&lt;span class=&#39;period&#39;&gt;.&lt;/span&gt;&lt;span class=&#39;id identifier rubyid_parms&#39;&gt;parms&lt;/span&gt;&lt;span class=&#39;period&#39;&gt;.&lt;/span&gt;&lt;span class=&#39;id identifier rubyid_excess_coefficient&#39;&gt;excess_coefficient&lt;/span&gt;
797
+ &lt;span class=&#39;id identifier rubyid_c2&#39;&gt;c2&lt;/span&gt; &lt;span class=&#39;op&#39;&gt;=&lt;/span&gt; &lt;span class=&#39;ivar&#39;&gt;@controller&lt;/span&gt;&lt;span class=&#39;period&#39;&gt;.&lt;/span&gt;&lt;span class=&#39;id identifier rubyid_parms&#39;&gt;parms&lt;/span&gt;&lt;span class=&#39;period&#39;&gt;.&lt;/span&gt;&lt;span class=&#39;id identifier rubyid_disjoint_coefficient&#39;&gt;disjoint_coefficient&lt;/span&gt;
798
+ &lt;span class=&#39;id identifier rubyid_c3&#39;&gt;c3&lt;/span&gt; &lt;span class=&#39;op&#39;&gt;=&lt;/span&gt; &lt;span class=&#39;ivar&#39;&gt;@controller&lt;/span&gt;&lt;span class=&#39;period&#39;&gt;.&lt;/span&gt;&lt;span class=&#39;id identifier rubyid_parms&#39;&gt;parms&lt;/span&gt;&lt;span class=&#39;period&#39;&gt;.&lt;/span&gt;&lt;span class=&#39;id identifier rubyid_weight_coefficient&#39;&gt;weight_coefficient&lt;/span&gt;
799
+ &lt;span class=&#39;id identifier rubyid_e&#39;&gt;e&lt;/span&gt; &lt;span class=&#39;op&#39;&gt;=&lt;/span&gt; &lt;span class=&#39;id identifier rubyid_excess&#39;&gt;excess&lt;/span&gt;&lt;span class=&#39;lparen&#39;&gt;(&lt;/span&gt;&lt;span class=&#39;id identifier rubyid_oc&#39;&gt;oc&lt;/span&gt;&lt;span class=&#39;rparen&#39;&gt;)&lt;/span&gt;
800
+ &lt;span class=&#39;id identifier rubyid_d&#39;&gt;d&lt;/span&gt; &lt;span class=&#39;op&#39;&gt;=&lt;/span&gt; &lt;span class=&#39;id identifier rubyid_disjoint&#39;&gt;disjoint&lt;/span&gt;&lt;span class=&#39;lparen&#39;&gt;(&lt;/span&gt;&lt;span class=&#39;id identifier rubyid_oc&#39;&gt;oc&lt;/span&gt;&lt;span class=&#39;rparen&#39;&gt;)&lt;/span&gt;
801
+ &lt;span class=&#39;id identifier rubyid_w&#39;&gt;w&lt;/span&gt; &lt;span class=&#39;op&#39;&gt;=&lt;/span&gt; &lt;span class=&#39;id identifier rubyid_weight_diff&#39;&gt;weight_diff&lt;/span&gt;&lt;span class=&#39;lparen&#39;&gt;(&lt;/span&gt;&lt;span class=&#39;id identifier rubyid_oc&#39;&gt;oc&lt;/span&gt;&lt;span class=&#39;rparen&#39;&gt;)&lt;/span&gt;
802
+ &lt;span class=&#39;kw&#39;&gt;return&lt;/span&gt; &lt;span class=&#39;id identifier rubyid_c1&#39;&gt;c1&lt;/span&gt; &lt;span class=&#39;op&#39;&gt;*&lt;/span&gt; &lt;span class=&#39;id identifier rubyid_e&#39;&gt;e&lt;/span&gt; &lt;span class=&#39;op&#39;&gt;+&lt;/span&gt; &lt;span class=&#39;id identifier rubyid_c2&#39;&gt;c2&lt;/span&gt; &lt;span class=&#39;op&#39;&gt;*&lt;/span&gt; &lt;span class=&#39;id identifier rubyid_d&#39;&gt;d&lt;/span&gt; &lt;span class=&#39;op&#39;&gt;+&lt;/span&gt; &lt;span class=&#39;id identifier rubyid_c3&#39;&gt;c3&lt;/span&gt; &lt;span class=&#39;op&#39;&gt;*&lt;/span&gt; &lt;span class=&#39;id identifier rubyid_w&#39;&gt;w&lt;/span&gt;</pre>
803
+
804
+ <p>&lt;span class=&#39;kw&#39;&gt;end&lt;/span&gt;&lt;/pre&gt;</p>
805
+
806
+ <pre> &lt;/td&gt;
807
+ &lt;/tr&gt;</pre>
808
+
809
+ <p>&lt;/table&gt; &lt;/div&gt;</p>
810
+
811
+ <pre> &lt;div class=&quot;method_details &quot;&gt;
812
+ &lt;h3 class=&quot;signature &quot; id=&quot;dump_s-instance_method&quot;&gt;
813
+
814
+ - (&lt;tt&gt;Object&lt;/tt&gt;) &lt;strong&gt;dump_s&lt;/strong&gt;</pre>
815
+
816
+ <p>&lt;/h3&gt;&lt;div class=“docstring”&gt;</p>
817
+
818
+ <pre>&lt;div class=&quot;discussion&quot;&gt;</pre>
819
+
820
+ <p>&lt;p&gt;Critter print&lt;/p&gt;</p>
821
+
822
+ <pre>&lt;/div&gt;</pre>
823
+
824
+ <p>&lt;/div&gt; &lt;div class=“tags”&gt;</p>
825
+
826
+ <p>&lt;/div&gt;&lt;table class=“source_code”&gt;</p>
827
+
828
+ <pre>&lt;tr&gt;
829
+ &lt;td&gt;
830
+ &lt;pre class=&quot;lines&quot;&gt;</pre>
831
+
832
+ <p>344 345 346&lt;/pre&gt;</p>
833
+
834
+ <pre>&lt;/td&gt;
835
+ &lt;td&gt;
836
+ &lt;pre class=&quot;code&quot;&gt;&lt;span class=&quot;info file&quot;&gt;# File &#39;lib/rubyneat/critter.rb&#39;, line 344&lt;/span&gt;</pre>
837
+
838
+ <p>&lt;span class=&#39;kw&#39;&gt;def&lt;/span&gt; &lt;span class=&#39;id
839
+ identifier rubyid_dump_s&#39;&gt;dump_s&lt;/span&gt;</p>
840
+
841
+ <pre>&lt;span class=&#39;id identifier rubyid_to_s&#39;&gt;to_s&lt;/span&gt; &lt;span class=&#39;op&#39;&gt;+&lt;/span&gt; &lt;span class=&#39;ivar&#39;&gt;@genotype&lt;/span&gt;&lt;span class=&#39;period&#39;&gt;.&lt;/span&gt;&lt;span class=&#39;id identifier rubyid_dump_s&#39;&gt;dump_s&lt;/span&gt; &lt;span class=&#39;op&#39;&gt;+&lt;/span&gt; &lt;span class=&#39;tstring&#39;&gt;&lt;span class=&#39;tstring_beg&#39;&gt;&amp;quot;&lt;/span&gt;&lt;span class=&#39;tstring_content&#39;&gt;\n&lt;/span&gt;&lt;span class=&#39;tstring_end&#39;&gt;&amp;quot;&lt;/span&gt;&lt;/span&gt; &lt;span class=&#39;op&#39;&gt;+&lt;/span&gt; &lt;span class=&#39;ivar&#39;&gt;@phenotype&lt;/span&gt;&lt;span class=&#39;period&#39;&gt;.&lt;/span&gt;&lt;span class=&#39;id identifier rubyid_to_s&#39;&gt;to_s&lt;/span&gt; &lt;span class=&#39;op&#39;&gt;+&lt;/span&gt; &lt;span class=&#39;tstring&#39;&gt;&lt;span class=&#39;tstring_beg&#39;&gt;&amp;quot;&lt;/span&gt;&lt;span class=&#39;tstring_content&#39;&gt;\n&lt;/span&gt;&lt;span class=&#39;tstring_end&#39;&gt;&amp;quot;&lt;/span&gt;&lt;/span&gt;</pre>
842
+
843
+ <p>&lt;span class=&#39;kw&#39;&gt;end&lt;/span&gt;&lt;/pre&gt;</p>
844
+
845
+ <pre> &lt;/td&gt;
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+ &lt;/tr&gt;</pre>
847
+
848
+ <p>&lt;/table&gt; &lt;/div&gt;</p>
849
+
850
+ <pre> &lt;div class=&quot;method_details &quot;&gt;
851
+ &lt;h3 class=&quot;signature &quot; id=&quot;evaluate!-instance_method&quot;&gt;
852
+
853
+ - (&lt;tt&gt;Object&lt;/tt&gt;) &lt;strong&gt;evaluate!&lt;/strong&gt;</pre>
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+
855
+ <p>&lt;/h3&gt;&lt;div class=“docstring”&gt;</p>
856
+
857
+ <pre>&lt;div class=&quot;discussion&quot;&gt;</pre>
858
+
859
+ <p>&lt;p&gt;A single evaluation step. Evaluate and generate fitness, novelty,
860
+ etc. Returns the result.&lt;/p&gt;</p>
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+
862
+ <pre>&lt;/div&gt;</pre>
863
+
864
+ <p>&lt;/div&gt; &lt;div class=“tags”&gt;</p>
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+
866
+ <p>&lt;/div&gt;&lt;table class=“source_code”&gt;</p>
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+
868
+ <pre>&lt;tr&gt;
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+ &lt;td&gt;
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+ &lt;pre class=&quot;lines&quot;&gt;</pre>
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+
872
+ <p>50 51 52&lt;/pre&gt;</p>
873
+
874
+ <pre>&lt;/td&gt;
875
+ &lt;td&gt;
876
+ &lt;pre class=&quot;code&quot;&gt;&lt;span class=&quot;info file&quot;&gt;# File &#39;lib/rubyneat/critter.rb&#39;, line 50&lt;/span&gt;</pre>
877
+
878
+ <p>&lt;span class=&#39;kw&#39;&gt;def&lt;/span&gt; &lt;span class=&#39;id
879
+ identifier rubyid_evaluate!&#39;&gt;evaluate!&lt;/span&gt;</p>
880
+
881
+ <pre>&lt;span class=&#39;ivar&#39;&gt;@controller&lt;/span&gt;&lt;span class=&#39;period&#39;&gt;.&lt;/span&gt;&lt;span class=&#39;id identifier rubyid_evaluator&#39;&gt;evaluator&lt;/span&gt;&lt;span class=&#39;period&#39;&gt;.&lt;/span&gt;&lt;span class=&#39;id identifier rubyid_evaluate!&#39;&gt;evaluate!&lt;/span&gt; &lt;span class=&#39;kw&#39;&gt;self&lt;/span&gt;</pre>
882
+
883
+ <p>&lt;span class=&#39;kw&#39;&gt;end&lt;/span&gt;&lt;/pre&gt;</p>
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+
885
+ <pre> &lt;/td&gt;
886
+ &lt;/tr&gt;</pre>
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+
888
+ <p>&lt;/table&gt; &lt;/div&gt;</p>
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+
890
+ <pre> &lt;div class=&quot;method_details &quot;&gt;
891
+ &lt;h3 class=&quot;signature &quot; id=&quot;express!-instance_method&quot;&gt;
892
+
893
+ - (&lt;tt&gt;Object&lt;/tt&gt;) &lt;strong&gt;express!&lt;/strong&gt;</pre>
894
+
895
+ <p>&lt;/h3&gt;&lt;div class=“docstring”&gt;</p>
896
+
897
+ <pre>&lt;div class=&quot;discussion&quot;&gt;</pre>
898
+
899
+ <p>&lt;p&gt;Exoress this critter using the Expressor plugin.&lt;/p&gt;</p>
900
+
901
+ <pre>&lt;/div&gt;</pre>
902
+
903
+ <p>&lt;/div&gt; &lt;div class=“tags”&gt;</p>
904
+
905
+ <p>&lt;/div&gt;&lt;table class=“source_code”&gt;</p>
906
+
907
+ <pre>&lt;tr&gt;
908
+ &lt;td&gt;
909
+ &lt;pre class=&quot;lines&quot;&gt;</pre>
910
+
911
+ <p>36 37 38&lt;/pre&gt;</p>
912
+
913
+ <pre>&lt;/td&gt;
914
+ &lt;td&gt;
915
+ &lt;pre class=&quot;code&quot;&gt;&lt;span class=&quot;info file&quot;&gt;# File &#39;lib/rubyneat/critter.rb&#39;, line 36&lt;/span&gt;</pre>
916
+
917
+ <p>&lt;span class=&#39;kw&#39;&gt;def&lt;/span&gt; &lt;span class=&#39;id
918
+ identifier rubyid_express!&#39;&gt;express!&lt;/span&gt;</p>
919
+
920
+ <pre>&lt;span class=&#39;ivar&#39;&gt;@controller&lt;/span&gt;&lt;span class=&#39;period&#39;&gt;.&lt;/span&gt;&lt;span class=&#39;id identifier rubyid_expressor&#39;&gt;expressor&lt;/span&gt;&lt;span class=&#39;period&#39;&gt;.&lt;/span&gt;&lt;span class=&#39;id identifier rubyid_express!&#39;&gt;express!&lt;/span&gt; &lt;span class=&#39;kw&#39;&gt;self&lt;/span&gt;</pre>
921
+
922
+ <p>&lt;span class=&#39;kw&#39;&gt;end&lt;/span&gt;&lt;/pre&gt;</p>
923
+
924
+ <pre> &lt;/td&gt;
925
+ &lt;/tr&gt;</pre>
926
+
927
+ <p>&lt;/table&gt; &lt;/div&gt;</p>
928
+
929
+ <pre> &lt;div class=&quot;method_details &quot;&gt;
930
+ &lt;h3 class=&quot;signature &quot; id=&quot;initialize_neurons!-instance_method&quot;&gt;
931
+
932
+ - (&lt;tt&gt;Object&lt;/tt&gt;) &lt;strong&gt;initialize_neurons!&lt;/strong&gt;</pre>
933
+
934
+ <p>&lt;/h3&gt;&lt;div class=“docstring”&gt;</p>
935
+
936
+ <pre>&lt;div class=&quot;discussion&quot;&gt;</pre>
937
+
938
+ <p>&lt;p&gt;This initializes neurons in preparation for recurrence. Note that
939
+ the Critter should already have expressed its genotype before this is
940
+ called.&lt;/p&gt;</p>
941
+
942
+ <pre>&lt;/div&gt;</pre>
943
+
944
+ <p>&lt;/div&gt; &lt;div class=“tags”&gt;</p>
945
+
946
+ <p>&lt;/div&gt;&lt;table class=“source_code”&gt;</p>
947
+
948
+ <pre>&lt;tr&gt;
949
+ &lt;td&gt;
950
+ &lt;pre class=&quot;lines&quot;&gt;</pre>
951
+
952
+ <p>43 44 45&lt;/pre&gt;</p>
953
+
954
+ <pre>&lt;/td&gt;
955
+ &lt;td&gt;
956
+ &lt;pre class=&quot;code&quot;&gt;&lt;span class=&quot;info file&quot;&gt;# File &#39;lib/rubyneat/critter.rb&#39;, line 43&lt;/span&gt;</pre>
957
+
958
+ <p>&lt;span class=&#39;kw&#39;&gt;def&lt;/span&gt; &lt;span class=&#39;id
959
+ identifier
960
+ rubyid_initialize_neurons!&#39;&gt;initialize_neurons!&lt;/span&gt;</p>
961
+
962
+ <pre>&lt;span class=&#39;ivar&#39;&gt;@phenotype&lt;/span&gt;&lt;span class=&#39;period&#39;&gt;.&lt;/span&gt;&lt;span class=&#39;id identifier rubyid_initialize_neurons&#39;&gt;initialize_neurons&lt;/span&gt;</pre>
963
+
964
+ <p>&lt;span class=&#39;kw&#39;&gt;end&lt;/span&gt;&lt;/pre&gt;</p>
965
+
966
+ <pre> &lt;/td&gt;
967
+ &lt;/tr&gt;</pre>
968
+
969
+ <p>&lt;/table&gt; &lt;/div&gt;</p>
970
+
971
+ <pre> &lt;div class=&quot;method_details &quot;&gt;
972
+ &lt;h3 class=&quot;signature &quot; id=&quot;ready_for_expression!-instance_method&quot;&gt;
973
+
974
+ - (&lt;tt&gt;Object&lt;/tt&gt;) &lt;strong&gt;ready_for_expression!&lt;/strong&gt;</pre>
975
+
976
+ <p>&lt;/h3&gt;&lt;div class=“docstring”&gt;</p>
977
+
978
+ <pre>&lt;div class=&quot;discussion&quot;&gt;</pre>
979
+
980
+ <p>&lt;p&gt;Get the Critter ready for the Expressor to express the
981
+ geneotype.&lt;/p&gt;</p>
982
+
983
+ <pre>&lt;/div&gt;</pre>
984
+
985
+ <p>&lt;/div&gt; &lt;div class=“tags”&gt;</p>
986
+
987
+ <p>&lt;/div&gt;&lt;table class=“source_code”&gt;</p>
988
+
989
+ <pre>&lt;tr&gt;
990
+ &lt;td&gt;
991
+ &lt;pre class=&quot;lines&quot;&gt;</pre>
992
+
993
+ <p>29 30 31 32 33&lt;/pre&gt;</p>
994
+
995
+ <pre>&lt;/td&gt;
996
+ &lt;td&gt;
997
+ &lt;pre class=&quot;code&quot;&gt;&lt;span class=&quot;info file&quot;&gt;# File &#39;lib/rubyneat/critter.rb&#39;, line 29&lt;/span&gt;</pre>
998
+
999
+ <p>&lt;span class=&#39;kw&#39;&gt;def&lt;/span&gt; &lt;span class=&#39;id
1000
+ identifier
1001
+ rubyid_ready_for_expression!&#39;&gt;ready_for_expression!&lt;/span&gt;</p>
1002
+
1003
+ <pre>&lt;span class=&#39;ivar&#39;&gt;@genotype&lt;/span&gt;&lt;span class=&#39;period&#39;&gt;.&lt;/span&gt;&lt;span class=&#39;id identifier rubyid_wire!&#39;&gt;wire!&lt;/span&gt;
1004
+ &lt;span class=&#39;ivar&#39;&gt;@phenotype&lt;/span&gt; &lt;span class=&#39;op&#39;&gt;=&lt;/span&gt; &lt;span class=&#39;const&#39;&gt;NEAT&lt;/span&gt;&lt;span class=&#39;op&#39;&gt;::&lt;/span&gt;&lt;span class=&#39;const&#39;&gt;Critter&lt;/span&gt;&lt;span class=&#39;op&#39;&gt;::&lt;/span&gt;&lt;span class=&#39;const&#39;&gt;Phenotype&lt;/span&gt;&lt;span class=&#39;lbracket&#39;&gt;[&lt;/span&gt;&lt;span class=&#39;kw&#39;&gt;self&lt;/span&gt;&lt;span class=&#39;rbracket&#39;&gt;]&lt;/span&gt;
1005
+ &lt;span class=&#39;ivar&#39;&gt;@phenotype&lt;/span&gt;</pre>
1006
+
1007
+ <p>&lt;span class=&#39;kw&#39;&gt;end&lt;/span&gt;&lt;/pre&gt;</p>
1008
+
1009
+ <pre> &lt;/td&gt;
1010
+ &lt;/tr&gt;</pre>
1011
+
1012
+ <p>&lt;/table&gt; &lt;/div&gt;</p>
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+
1014
+ <pre>&lt;/div&gt;</pre>
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+
1016
+ <p>&lt;/div&gt;</p>
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+
1018
+ <pre> &lt;div id=&quot;footer&quot;&gt;
1019
+ Generated on Sun Mar 16 16:36:51 2014 by
1020
+ &lt;a href=&quot;http://yardoc.org&quot; title=&quot;Yay! A Ruby Documentation Tool&quot; target=&quot;_parent&quot;&gt;yard&lt;/a&gt;
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+ 0.8.7.3 (ruby-2.1.1).</pre>
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+
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+ <p>&lt;/div&gt;</p>
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+
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+ <pre>&lt;/body&gt;</pre>
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+
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+ <p>&lt;/html&gt;</p>
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+ </main>
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+
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+
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+
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+ <footer id="validator-badges" role="contentinfo">
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+ <p><a href="http://validator.w3.org/check/referer">Validate</a>
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+ <p>Generated by <a href="http://rdoc.rubyforge.org">RDoc</a> 4.1.1.
1035
+ <p>Based on <a href="http://deveiate.org/projects/Darkfish-Rdoc/">Darkfish</a> by <a href="http://deveiate.org">Michael Granger</a>.
1036
+ </footer>
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+