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evosynth 0.1.0

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data/docs/rdoc/classes/EvoSynth/Mutations/GaussMutation.html ADDED

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+<!DOCTYPE html PUBLIC "-//W3C//DTD XHTML 1.0 Strict//EN"
+"http://www.w3.org/TR/xhtml1/DTD/xhtml1-strict.dtd">
+<html xmlns="http://www.w3.org/1999/xhtml" xml:lang="en" lang="en">
+<head>
+  <title>Class: EvoSynth::Mutations::GaussMutation [EvoSynth Documentation]</title>
+  <meta http-equiv="Content-Type" content="text/html; charset=UTF-8" />
+  <meta http-equiv="Content-Script-Type" content="text/javascript" />
+  <link rel="stylesheet" href="../../.././rdoc-style.css" type="text/css" media="screen" />
+  <script type="text/javascript">
+  // <![CDATA[
+  function popupCode( url ) {
+    window.open(url, "Code", "resizable=yes,scrollbars=yes,toolbar=no,status=no,height=150,width=400")
+  }
+  function toggleCode( id ) {
+    if ( document.getElementById )
+      elem = document.getElementById( id );
+    else if ( document.all )
+      elem = eval( "document.all." + id );
+    else
+      return false;
+    elemStyle = elem.style;
+    if ( elemStyle.display != "block" ) {
+      elemStyle.display = "block"
+    } else {
+      elemStyle.display = "none"
+    }
+    return true;
+  }
+  // Make codeblocks hidden by default
+  document.writeln( "<style type=\"text/css\">div.method-source-code { display: none }<\/style>" )
+  // ]]>
+  </script>
+</head>
+<body>
+    <div id="classHeader">
+        <table class="header-table">
+        <tr class="top-aligned-row">
+          <td><strong>Class</strong></td>
+          <td class="class-name-in-header">EvoSynth::Mutations::GaussMutation</td>
+        </tr>
+        <tr class="top-aligned-row">
+            <td><strong>In:</strong></td>
+            <td>
+                <a href="../../../files/lib/evosynth/operators/mutations/gauss_mutation_rb.html">
+                lib/evosynth/operators/mutations/gauss_mutation.rb
+                </a>
+        <br />
+            </td>
+        </tr>
+        <tr class="top-aligned-row">
+            <td><strong>Parent:</strong></td>
+            <td>
+                Object
+            </td>
+        </tr>
+        </table>
+    </div>
+  <!-- banner header -->
+  <div id="bodyContent">
+  <div id="contextContent">
+    <div id="description">
+      <p>
+GAUSS-MUTATION (Weicker page 60)
+</p>
+<p>
+TODO: needs rdoc
+</p>
+    </div>
+   </div>
+    <div id="method-list">
+      <h3 class="section-bar">Methods</h3>
+      <div class="name-list">
+        <a href="#M000082">mutate</a>&nbsp;&nbsp;
+        <a href="#M000081">new</a>&nbsp;&nbsp;
+        <a href="#M000083">to_s</a>&nbsp;&nbsp;
+      </div>
+    </div>
+  </div>
+    <!-- if includes -->
+    <div id="section">
+    <div id="constants-list">
+      <h3 class="section-bar">Constants</h3>
+      <div class="name-list">
+        <table summary="Constants">
+        <tr class="top-aligned-row context-row">
+          <td class="context-item-name">DEFAULT_SIGMA</td>
+          <td>=</td>
+          <td class="context-item-value">1.0</td>
+        </tr>
+        <tr class="top-aligned-row context-row">
+          <td class="context-item-name">DEFAULT_LOWER_BOUND</td>
+          <td>=</td>
+          <td class="context-item-value">-1 * Float::MAX</td>
+        </tr>
+        <tr class="top-aligned-row context-row">
+          <td class="context-item-name">DEFAULT_UPPER_BOUND</td>
+          <td>=</td>
+          <td class="context-item-value">Float::MAX</td>
+        </tr>
+        </table>
+      </div>
+    </div>
+    <div id="attribute-list">
+      <h3 class="section-bar">Attributes</h3>
+      <div class="name-list">
+        <table>
+        <tr class="top-aligned-row context-row">
+          <td class="context-item-name">lower_bound</td>
+          <td class="context-item-value">&nbsp;[RW]&nbsp;</td>
+          <td class="context-item-desc"></td>
+        </tr>
+        <tr class="top-aligned-row context-row">
+          <td class="context-item-name">sigma</td>
+          <td class="context-item-value">&nbsp;[RW]&nbsp;</td>
+          <td class="context-item-desc"></td>
+        </tr>
+        <tr class="top-aligned-row context-row">
+          <td class="context-item-name">upper_bound</td>
+          <td class="context-item-value">&nbsp;[RW]&nbsp;</td>
+          <td class="context-item-desc"></td>
+        </tr>
+        </table>
+      </div>
+    </div>
+    <!-- if method_list -->
+    <div id="methods">
+      <h3 class="section-bar">Public Class methods</h3>
+      <div id="method-M000081" class="method-detail">
+        <a name="M000081"></a>
+        <div class="method-heading">
+          <a href="#M000081" class="method-signature">
+          <span class="method-name">new</span><span class="method-args">(sigma = DEFAULT_SIGMA, lower_bound = DEFAULT_LOWER_BOUND, upper_bound = DEFAULT_UPPER_BOUND)</span>
+          </a>
+        </div>
+        <div class="method-description">
+          <p><a class="source-toggle" href="#"
+            onclick="toggleCode('M000081-source');return false;">[Source]</a></p>
+          <div class="method-source-code" id="M000081-source">
+<pre>
+    <span class="ruby-comment cmt"># File lib/evosynth/operators/mutations/gauss_mutation.rb, line 39</span>
+39:                         <span class="ruby-keyword kw">def</span> <span class="ruby-identifier">initialize</span>(<span class="ruby-identifier">sigma</span> = <span class="ruby-constant">DEFAULT_SIGMA</span>, <span class="ruby-identifier">lower_bound</span> = <span class="ruby-constant">DEFAULT_LOWER_BOUND</span>, <span class="ruby-identifier">upper_bound</span> = <span class="ruby-constant">DEFAULT_UPPER_BOUND</span>)
+40:                                 <span class="ruby-ivar">@sigma</span> = <span class="ruby-identifier">sigma</span>
+41:                                 <span class="ruby-ivar">@lower_bound</span> = <span class="ruby-identifier">lower_bound</span>
+42:                                 <span class="ruby-ivar">@upper_bound</span> = <span class="ruby-identifier">upper_bound</span>
+43:                         <span class="ruby-keyword kw">end</span>
+</pre>
+          </div>
+        </div>
+      </div>
+      <h3 class="section-bar">Public Instance methods</h3>
+      <div id="method-M000082" class="method-detail">
+        <a name="M000082"></a>
+        <div class="method-heading">
+          <a href="#M000082" class="method-signature">
+          <span class="method-name">mutate</span><span class="method-args">(individual)</span>
+          </a>
+        </div>
+        <div class="method-description">
+          <p><a class="source-toggle" href="#"
+            onclick="toggleCode('M000082-source');return false;">[Source]</a></p>
+          <div class="method-source-code" id="M000082-source">
+<pre>
+    <span class="ruby-comment cmt"># File lib/evosynth/operators/mutations/gauss_mutation.rb, line 45</span>
+45:                         <span class="ruby-keyword kw">def</span> <span class="ruby-identifier">mutate</span>(<span class="ruby-identifier">individual</span>)
+46:                                 <span class="ruby-identifier">mutated</span> = <span class="ruby-identifier">individual</span>.<span class="ruby-identifier">deep_clone</span>
+47:
+48:                                 <span class="ruby-identifier">mutated</span>.<span class="ruby-identifier">genome</span>.<span class="ruby-identifier">map!</span> <span class="ruby-keyword kw">do</span> <span class="ruby-operator">|</span><span class="ruby-identifier">gene</span><span class="ruby-operator">|</span>
+49:                                         <span class="ruby-identifier">gene</span> <span class="ruby-operator">+=</span> <span class="ruby-constant">EvoSynth</span>.<span class="ruby-identifier">nrand</span>(<span class="ruby-value">0</span><span class="ruby-value">.0</span>, <span class="ruby-ivar">@sigma</span>)
+50:                                         <span class="ruby-identifier">gene</span> = <span class="ruby-ivar">@lower_bound</span> <span class="ruby-keyword kw">if</span> <span class="ruby-identifier">gene</span> <span class="ruby-operator">&lt;</span> <span class="ruby-ivar">@lower_bound</span>
+51:                                         <span class="ruby-identifier">gene</span> = <span class="ruby-ivar">@upper_bound</span> <span class="ruby-keyword kw">if</span> <span class="ruby-identifier">gene</span> <span class="ruby-operator">&gt;</span> <span class="ruby-ivar">@upper_bound</span>
+52:                                         <span class="ruby-identifier">gene</span>
+53:                                 <span class="ruby-keyword kw">end</span>
+54:
+55:                                 <span class="ruby-identifier">mutated</span>
+56:                         <span class="ruby-keyword kw">end</span>
+</pre>
+          </div>
+        </div>
+      </div>
+      <div id="method-M000083" class="method-detail">
+        <a name="M000083"></a>
+        <div class="method-heading">
+          <a href="#M000083" class="method-signature">
+          <span class="method-name">to_s</span><span class="method-args">()</span>
+          </a>
+        </div>
+        <div class="method-description">
+          <p><a class="source-toggle" href="#"
+            onclick="toggleCode('M000083-source');return false;">[Source]</a></p>
+          <div class="method-source-code" id="M000083-source">
+<pre>
+    <span class="ruby-comment cmt"># File lib/evosynth/operators/mutations/gauss_mutation.rb, line 58</span>
+58:                         <span class="ruby-keyword kw">def</span> <span class="ruby-identifier">to_s</span>
+59:                                 <span class="ruby-node">&quot;gauss mutation &lt;sigma: #{@sigma}, lower bound: #{@lower_bound}, upper_bound: #{@upper_bound}&gt;&quot;</span>
+60:                         <span class="ruby-keyword kw">end</span>
+</pre>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+<div id="validator-badges">
+  <p><small><a href="http://validator.w3.org/check/referer">[Validate]</a></small></p>
+</div>
+</body>
+</html>

data/docs/rdoc/classes/EvoSynth/Mutations/Identity.html ADDED

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+<!DOCTYPE html PUBLIC "-//W3C//DTD XHTML 1.0 Strict//EN"
+"http://www.w3.org/TR/xhtml1/DTD/xhtml1-strict.dtd">
+<html xmlns="http://www.w3.org/1999/xhtml" xml:lang="en" lang="en">
+<head>
+  <title>Class: EvoSynth::Mutations::Identity [EvoSynth Documentation]</title>
+  <meta http-equiv="Content-Type" content="text/html; charset=UTF-8" />
+  <meta http-equiv="Content-Script-Type" content="text/javascript" />
+  <link rel="stylesheet" href="../../.././rdoc-style.css" type="text/css" media="screen" />
+  <script type="text/javascript">
+  // <![CDATA[
+  function popupCode( url ) {
+    window.open(url, "Code", "resizable=yes,scrollbars=yes,toolbar=no,status=no,height=150,width=400")
+  }
+  function toggleCode( id ) {
+    if ( document.getElementById )
+      elem = document.getElementById( id );
+    else if ( document.all )
+      elem = eval( "document.all." + id );
+    else
+      return false;
+    elemStyle = elem.style;
+    if ( elemStyle.display != "block" ) {
+      elemStyle.display = "block"
+    } else {
+      elemStyle.display = "none"
+    }
+    return true;
+  }
+  // Make codeblocks hidden by default
+  document.writeln( "<style type=\"text/css\">div.method-source-code { display: none }<\/style>" )
+  // ]]>
+  </script>
+</head>
+<body>
+    <div id="classHeader">
+        <table class="header-table">
+        <tr class="top-aligned-row">
+          <td><strong>Class</strong></td>
+          <td class="class-name-in-header">EvoSynth::Mutations::Identity</td>
+        </tr>
+        <tr class="top-aligned-row">
+            <td><strong>In:</strong></td>
+            <td>
+                <a href="../../../files/lib/evosynth/operators/mutations/identity_rb.html">
+                lib/evosynth/operators/mutations/identity.rb
+                </a>
+        <br />
+            </td>
+        </tr>
+        <tr class="top-aligned-row">
+            <td><strong>Parent:</strong></td>
+            <td>
+                Object
+            </td>
+        </tr>
+        </table>
+    </div>
+  <!-- banner header -->
+  <div id="bodyContent">
+  <div id="contextContent">
+    <div id="description">
+      <p>
+The <a href="Identity.html">Identity</a> mutation does not change the
+genome of the given individual, it will return a clone.
+</p>
+<p>
+This mutations does not destroy permutations.
+</p>
+    </div>
+   </div>
+    <div id="method-list">
+      <h3 class="section-bar">Methods</h3>
+      <div class="name-list">
+        <a href="#M000084">mutate</a>&nbsp;&nbsp;
+        <a href="#M000085">to_s</a>&nbsp;&nbsp;
+      </div>
+    </div>
+  </div>
+    <!-- if includes -->
+    <div id="section">
+    <!-- if method_list -->
+    <div id="methods">
+      <h3 class="section-bar">Public Instance methods</h3>
+      <div id="method-M000084" class="method-detail">
+        <a name="M000084"></a>
+        <div class="method-heading">
+          <a href="#M000084" class="method-signature">
+          <span class="method-name">mutate(Individual) &rarr; Individual<br />
+</span>
+          </a>
+        </div>
+        <div class="method-description">
+          <p>
+Returns a clone of a given individual.
+</p>
+<pre>
+    m = Identity.new
+    m.mutate(a_individual)   #=&gt; a_new_individual
+</pre>
+          <p><a class="source-toggle" href="#"
+            onclick="toggleCode('M000084-source');return false;">[Source]</a></p>
+          <div class="method-source-code" id="M000084-source">
+<pre>
+    <span class="ruby-comment cmt"># File lib/evosynth/operators/mutations/identity.rb, line 42</span>
+42:                         <span class="ruby-keyword kw">def</span> <span class="ruby-identifier">mutate</span>(<span class="ruby-identifier">individual</span>)
+43:                                 <span class="ruby-identifier">mutated</span> = <span class="ruby-identifier">individual</span>.<span class="ruby-identifier">deep_clone</span>
+44:                                 <span class="ruby-identifier">mutated</span>
+45:                         <span class="ruby-keyword kw">end</span>
+</pre>
+          </div>
+        </div>
+      </div>
+      <div id="method-M000085" class="method-detail">
+        <a name="M000085"></a>
+        <div class="method-heading">
+          <a href="#M000085" class="method-signature">
+          <span class="method-name">to_s &rarr; string<br />
+</span>
+          </a>
+        </div>
+        <div class="method-description">
+          <p>
+Returns description of this mutation
+</p>
+<pre>
+    m = Identity.new
+    m.to_s                   #=&gt; &quot;identity (just clones individual)&quot;
+</pre>
+          <p><a class="source-toggle" href="#"
+            onclick="toggleCode('M000085-source');return false;">[Source]</a></p>
+          <div class="method-source-code" id="M000085-source">
+<pre>
+    <span class="ruby-comment cmt"># File lib/evosynth/operators/mutations/identity.rb, line 55</span>
+55:                         <span class="ruby-keyword kw">def</span> <span class="ruby-identifier">to_s</span>
+56:                                 <span class="ruby-value str">&quot;identity (just clones individual)&quot;</span>
+57:                         <span class="ruby-keyword kw">end</span>
+</pre>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+<div id="validator-badges">
+  <p><small><a href="http://validator.w3.org/check/referer">[Validate]</a></small></p>
+</div>
+</body>
+</html>