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<span class="target" id="module-GTree"></span><div class="section" id="gtree-and-gtreegp-the-tree-chromosomes">
<h1><a class="reference internal" href="#module-GTree" title="GTree"><tt class="xref py py-mod docutils literal"><span class="pre">GTree</span></tt></a> and GTreeGP – the tree chromosomes<a class="headerlink" href="#gtree-and-gtreegp-the-tree-chromosomes" title="Permalink to this headline">¶</a></h1>
<p>This is the rooted tree representation, this chromosome representation
can carry any data-type.</p>
<div class="section" id="default-parameters">
<h2>Default Parameters<a class="headerlink" href="#default-parameters" title="Permalink to this headline">¶</a></h2>
<p><em>Initializator</em></p>
<blockquote>
<div><p><a class="reference internal" href="module_initializators.html#Initializators.GTreeInitializatorInteger" title="Initializators.GTreeInitializatorInteger"><tt class="xref py py-func docutils literal"><span class="pre">Initializators.GTreeInitializatorInteger()</span></tt></a></p>
<blockquote>
<div>The Integer Initializator for GTree</div></blockquote>
</div></blockquote>
<p><em>Mutator</em></p>
<blockquote>
<div><p><a class="reference internal" href="module_mutators.html#Mutators.GTreeMutatorIntegerRange" title="Mutators.GTreeMutatorIntegerRange"><tt class="xref py py-func docutils literal"><span class="pre">Mutators.GTreeMutatorIntegerRange()</span></tt></a></p>
<p>The Integer Range mutator for GTree</p>
</div></blockquote>
<p><em>Crossover</em></p>
<blockquote>
<div><p><a class="reference internal" href="module_crossovers.html#Crossovers.GTreeCrossoverSinglePointStrict" title="Crossovers.GTreeCrossoverSinglePointStrict"><tt class="xref py py-func docutils literal"><span class="pre">Crossovers.GTreeCrossoverSinglePointStrict()</span></tt></a></p>
<p>The Strict Single Point crossover for GTree</p>
</div></blockquote>
<p class="versionadded">
<span class="versionmodified">New in version 0.6: </span>The <em>GTree</em> module.</p>
</div>
<div class="section" id="classes">
<h2>Classes<a class="headerlink" href="#classes" title="Permalink to this headline">¶</a></h2>
<dl class="class">
<dt id="GTree.GTree">
<em class="property">class </em><tt class="descclassname">GTree.</tt><tt class="descname">GTree</tt><big>(</big><em>root_node=None</em><big>)</big><a class="headerlink" href="#GTree.GTree" title="Permalink to this definition">¶</a></dt>
<dd><p>The GTree class - The tree chromosome representation</p>
<p>Inheritance diagram for <a class="reference internal" href="#GTree.GTree" title="GTree.GTree"><tt class="xref py py-class docutils literal"><span class="pre">GTree.GTree</span></tt></a>:</p>
<p class="graphviz">
<img src="_images/inheritance-6df795ac83c60379032ac4d4f40134b7ad63ac5e.png" alt="Inheritance diagram of GTree.GTree" usemap="#inheritanceb0e5c3336b" class="inheritance"/>
<map id="inheritanceb0e5c3336b" name="inheritanceb0e5c3336b">
<area shape="rect" id="node1" href="module_genomebase.html#GenomeBase.GenomeBase" title="GenomeBase.GenomeBase" alt="" coords="5,5,205,43"/>
<area shape="rect" id="node3" href="#GTree.GTree" title="GTree.GTree" alt="" coords="253,35,352,74"/>
<area shape="rect" id="node2" href="module_genomebase.html#GenomeBase.GTreeBase" title="GenomeBase.GTreeBase" alt="" coords="15,66,196,105"/>
</map>
</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Parameters:</th><td class="field-body"><strong>root_node</strong> – the root node of the tree</td>
</tr>
</tbody>
</table>
<dl class="method">
<dt id="GTree.GTree.clone">
<tt class="descname">clone</tt><big>(</big><big>)</big><a class="headerlink" href="#GTree.GTree.clone" title="Permalink to this definition">¶</a></dt>
<dd><p>Return a new instance of the genome</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Return type:</th><td class="field-body">new GTree instance</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTree.copy">
<tt class="descname">copy</tt><big>(</big><em>g</em><big>)</big><a class="headerlink" href="#GTree.GTree.copy" title="Permalink to this definition">¶</a></dt>
<dd><p>Copy the contents to the destination g</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Parameters:</th><td class="field-body"><strong>g</strong> – the GTree genome destination</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="attribute">
<dt id="GTree.GTree.crossover">
<tt class="descname">crossover</tt><a class="headerlink" href="#GTree.GTree.crossover" title="Permalink to this definition">¶</a></dt>
<dd><p>This is the reproduction function slot, the crossover. You
can change the default crossover method using:</p>
<div class="highlight-python"><div class="highlight"><pre><span class="n">genome</span><span class="o">.</span><span class="n">crossover</span><span class="o">.</span><span class="n">set</span><span class="p">(</span><span class="n">Crossovers</span><span class="o">.</span><span class="n">G1DListCrossoverUniform</span><span class="p">)</span>
</pre></div>
</div>
</dd></dl>
<dl class="method">
<dt id="GTree.GTree.evaluate">
<tt class="descname">evaluate</tt><big>(</big><em>**args</em><big>)</big><a class="headerlink" href="#GTree.GTree.evaluate" title="Permalink to this definition">¶</a></dt>
<dd><p>Called to evaluate genome</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Parameters:</th><td class="field-body"><strong>args</strong> – this parameters will be passes to the evaluator</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="attribute">
<dt id="GTree.GTree.evaluator">
<tt class="descname">evaluator</tt><a class="headerlink" href="#GTree.GTree.evaluator" title="Permalink to this definition">¶</a></dt>
<dd><p>This is the <a class="reference internal" href="intro.html#term-evaluation-function"><em class="xref std std-term">evaluation function</em></a> slot, you can add
a function with the <em>set</em> method:</p>
<div class="highlight-python"><div class="highlight"><pre><span class="n">genome</span><span class="o">.</span><span class="n">evaluator</span><span class="o">.</span><span class="n">set</span><span class="p">(</span><span class="n">eval_func</span><span class="p">)</span>
</pre></div>
</div>
</dd></dl>
<dl class="method">
<dt id="GTree.GTree.getAllNodes">
<tt class="descname">getAllNodes</tt><big>(</big><big>)</big><a class="headerlink" href="#GTree.GTree.getAllNodes" title="Permalink to this definition">¶</a></dt>
<dd><p>Return a new list with all nodes</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Return type:</th><td class="field-body">the list with all nodes</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTree.getFitnessScore">
<tt class="descname">getFitnessScore</tt><big>(</big><big>)</big><a class="headerlink" href="#GTree.GTree.getFitnessScore" title="Permalink to this definition">¶</a></dt>
<dd><p>Get the Fitness Score of the genome</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Return type:</th><td class="field-body">genome fitness score</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTree.getHeight">
<tt class="descname">getHeight</tt><big>(</big><big>)</big><a class="headerlink" href="#GTree.GTree.getHeight" title="Permalink to this definition">¶</a></dt>
<dd><p>Return the tree height</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Return type:</th><td class="field-body">the tree height</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTree.getNodeDepth">
<tt class="descname">getNodeDepth</tt><big>(</big><em>node</em><big>)</big><a class="headerlink" href="#GTree.GTree.getNodeDepth" title="Permalink to this definition">¶</a></dt>
<dd><p>Returns the depth of a node</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Return type:</th><td class="field-body">the depth of the node, the depth of root node is 0</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTree.getNodeHeight">
<tt class="descname">getNodeHeight</tt><big>(</big><em>node</em><big>)</big><a class="headerlink" href="#GTree.GTree.getNodeHeight" title="Permalink to this definition">¶</a></dt>
<dd><p>Returns the height of a node</p>
<div class="admonition note">
<p class="first admonition-title">Note</p>
<p class="last">If the node has no childs, the height will be 0.</p>
</div>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Return type:</th><td class="field-body">the height of the node</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTree.getNodesCount">
<tt class="descname">getNodesCount</tt><big>(</big><em>start_node=None</em><big>)</big><a class="headerlink" href="#GTree.GTree.getNodesCount" title="Permalink to this definition">¶</a></dt>
<dd><p>Return the number of the nodes on the tree
starting at the <em>start_node</em>, if <em>start_node</em> is None,
then the method will count all the tree nodes.</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Return type:</th><td class="field-body">the number of nodes</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTree.getParam">
<tt class="descname">getParam</tt><big>(</big><em>key</em>, <em>nvl=None</em><big>)</big><a class="headerlink" href="#GTree.GTree.getParam" title="Permalink to this definition">¶</a></dt>
<dd><p>Gets an internal parameter</p>
<dl class="docutils">
<dt>Example:</dt>
<dd><div class="first last highlight-python"><div class="highlight"><pre><span class="gp">>>> </span><span class="n">genome</span><span class="o">.</span><span class="n">getParam</span><span class="p">(</span><span class="s">"rangemax"</span><span class="p">)</span>
<span class="go">100</span>
</pre></div>
</div>
</dd>
</dl>
<div class="admonition note">
<p class="first admonition-title">Note</p>
<p class="last">All the individuals of the population shares this parameters and uses
the same instance of this dict.</p>
</div>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Parameters:</th><td class="field-body"><ul class="first last simple">
<li><strong>key</strong> – the key of param</li>
<li><strong>nvl</strong> – if the key doesn’t exist, the nvl will be returned</li>
</ul>
</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTree.getRandomNode">
<tt class="descname">getRandomNode</tt><big>(</big><em>node_type=0</em><big>)</big><a class="headerlink" href="#GTree.GTree.getRandomNode" title="Permalink to this definition">¶</a></dt>
<dd><p>Returns a random node from the Tree</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Parameters:</th><td class="field-body"><strong>node_type</strong> – 0 = Any, 1 = Leaf, 2 = Branch</td>
</tr>
<tr class="field"><th class="field-name">Return type:</th><td class="field-body">random node</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTree.getRawScore">
<tt class="descname">getRawScore</tt><big>(</big><big>)</big><a class="headerlink" href="#GTree.GTree.getRawScore" title="Permalink to this definition">¶</a></dt>
<dd><p>Get the Raw Score of the genome</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Return type:</th><td class="field-body">genome raw score</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTree.getRoot">
<tt class="descname">getRoot</tt><big>(</big><big>)</big><a class="headerlink" href="#GTree.GTree.getRoot" title="Permalink to this definition">¶</a></dt>
<dd><p>Return the tree root node</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Return type:</th><td class="field-body">the tree root node</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTree.getTraversalString">
<tt class="descname">getTraversalString</tt><big>(</big><em>start_node=None</em>, <em>spc=0</em><big>)</big><a class="headerlink" href="#GTree.GTree.getTraversalString" title="Permalink to this definition">¶</a></dt>
<dd><p>Returns a tree-formated string of the tree. This
method is used by the __repr__ method of the tree</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Return type:</th><td class="field-body">a string representing the tree</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="attribute">
<dt id="GTree.GTree.initializator">
<tt class="descname">initializator</tt><a class="headerlink" href="#GTree.GTree.initializator" title="Permalink to this definition">¶</a></dt>
<dd><p>This is the initialization function of the genome, you
can change the default initializator using the function slot:</p>
<div class="highlight-python"><div class="highlight"><pre><span class="n">genome</span><span class="o">.</span><span class="n">initializator</span><span class="o">.</span><span class="n">set</span><span class="p">(</span><span class="n">Initializators</span><span class="o">.</span><span class="n">G1DListInitializatorAllele</span><span class="p">)</span>
</pre></div>
</div>
<p>In this example, the initializator <a class="reference internal" href="module_initializators.html#Initializators.G1DListInitializatorAllele" title="Initializators.G1DListInitializatorAllele"><tt class="xref py py-func docutils literal"><span class="pre">Initializators.G1DListInitializatorAllele()</span></tt></a>
will be used to create the initial population.</p>
</dd></dl>
<dl class="method">
<dt id="GTree.GTree.initialize">
<tt class="descname">initialize</tt><big>(</big><em>**args</em><big>)</big><a class="headerlink" href="#GTree.GTree.initialize" title="Permalink to this definition">¶</a></dt>
<dd><p>Called to initialize genome</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Parameters:</th><td class="field-body"><strong>args</strong> – this parameters will be passed to the initializator</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTree.mutate">
<tt class="descname">mutate</tt><big>(</big><em>**args</em><big>)</big><a class="headerlink" href="#GTree.GTree.mutate" title="Permalink to this definition">¶</a></dt>
<dd><p>Called to mutate the genome</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Parameters:</th><td class="field-body"><strong>args</strong> – this parameters will be passed to the mutator</td>
</tr>
<tr class="field"><th class="field-name">Return type:</th><td class="field-body">the number of mutations returned by mutation operator</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="attribute">
<dt id="GTree.GTree.mutator">
<tt class="descname">mutator</tt><a class="headerlink" href="#GTree.GTree.mutator" title="Permalink to this definition">¶</a></dt>
<dd><p>This is the mutator function slot, you can change the default
mutator using the slot <em>set</em> function:</p>
<div class="highlight-python"><div class="highlight"><pre><span class="n">genome</span><span class="o">.</span><span class="n">mutator</span><span class="o">.</span><span class="n">set</span><span class="p">(</span><span class="n">Mutators</span><span class="o">.</span><span class="n">G1DListMutatorSwap</span><span class="p">)</span>
</pre></div>
</div>
</dd></dl>
<dl class="method">
<dt id="GTree.GTree.processNodes">
<tt class="descname">processNodes</tt><big>(</big><em>cloning=False</em><big>)</big><a class="headerlink" href="#GTree.GTree.processNodes" title="Permalink to this definition">¶</a></dt>
<dd><p>Creates a <em>cache</em> on the tree, this method must be called
every time you change the shape of the tree. It updates the
internal nodes list and the internal nodes properties such as
depth and height.</p>
</dd></dl>
<dl class="method">
<dt id="GTree.GTree.resetStats">
<tt class="descname">resetStats</tt><big>(</big><big>)</big><a class="headerlink" href="#GTree.GTree.resetStats" title="Permalink to this definition">¶</a></dt>
<dd><p>Clear score and fitness of genome</p>
</dd></dl>
<dl class="method">
<dt id="GTree.GTree.setParams">
<tt class="descname">setParams</tt><big>(</big><em>**args</em><big>)</big><a class="headerlink" href="#GTree.GTree.setParams" title="Permalink to this definition">¶</a></dt>
<dd><p>Set the internal params</p>
<dl class="docutils">
<dt>Example:</dt>
<dd><div class="first last highlight-python"><div class="highlight"><pre><span class="gp">>>> </span><span class="n">genome</span><span class="o">.</span><span class="n">setParams</span><span class="p">(</span><span class="n">rangemin</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="n">rangemax</span><span class="o">=</span><span class="mi">100</span><span class="p">,</span> <span class="n">gauss_mu</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="n">gauss_sigma</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span>
</pre></div>
</div>
</dd>
</dl>
<div class="admonition note">
<p class="first admonition-title">Note</p>
<p class="last">All the individuals of the population shares this parameters and uses
the same instance of this dict.</p>
</div>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Parameters:</th><td class="field-body"><strong>args</strong> – this params will saved in every chromosome for genetic op. use</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTree.setRoot">
<tt class="descname">setRoot</tt><big>(</big><em>root</em><big>)</big><a class="headerlink" href="#GTree.GTree.setRoot" title="Permalink to this definition">¶</a></dt>
<dd><p>Sets the root of the tree</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Parameters:</th><td class="field-body"><strong>root</strong> – the tree root node</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTree.traversal">
<tt class="descname">traversal</tt><big>(</big><em>callback</em>, <em>start_node=None</em><big>)</big><a class="headerlink" href="#GTree.GTree.traversal" title="Permalink to this definition">¶</a></dt>
<dd><p>Traversal the tree, this method will call the
user-defined callback function for each node on the tree</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Parameters:</th><td class="field-body"><ul class="first last simple">
<li><strong>callback</strong> – a function</li>
<li><strong>start_node</strong> – the start node to begin the traversal</li>
</ul>
</td>
</tr>
</tbody>
</table>
</dd></dl>
</dd></dl>
<dl class="class">
<dt id="GTree.GTreeGP">
<em class="property">class </em><tt class="descclassname">GTree.</tt><tt class="descname">GTreeGP</tt><big>(</big><em>root_node=None</em>, <em>cloning=False</em><big>)</big><a class="headerlink" href="#GTree.GTreeGP" title="Permalink to this definition">¶</a></dt>
<dd><p>The GTreeGP Class - The Genetic Programming Tree representation</p>
<p>Inheritance diagram for <a class="reference internal" href="#GTree.GTreeGP" title="GTree.GTreeGP"><tt class="xref py py-class docutils literal"><span class="pre">GTree.GTreeGP</span></tt></a>:</p>
<p class="graphviz">
<img src="_images/inheritance-d8d6df81f373f31ec8a039aa52a208acf9fe0965.png" alt="Inheritance diagram of GTree.GTreeGP" usemap="#inheritance7b0e4c7494" class="inheritance"/>
<map id="inheritance7b0e4c7494" name="inheritance7b0e4c7494">
<area shape="rect" id="node1" href="#GTree.GTreeGP" title="GTree.GTreeGP" alt="" coords="255,35,369,74"/>
<area shape="rect" id="node2" href="module_genomebase.html#GenomeBase.GenomeBase" title="GenomeBase.GenomeBase" alt="" coords="5,5,205,43"/>
<area shape="rect" id="node4" href="module_genomebase.html#GenomeBase.GTreeBase" title="GenomeBase.GTreeBase" alt="" coords="15,66,196,105"/>
</map>
</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Parameters:</th><td class="field-body"><strong>root_node</strong> – the Root node of the GP Tree</td>
</tr>
</tbody>
</table>
<dl class="method">
<dt id="GTree.GTreeGP.clone">
<tt class="descname">clone</tt><big>(</big><big>)</big><a class="headerlink" href="#GTree.GTreeGP.clone" title="Permalink to this definition">¶</a></dt>
<dd><p>Return a new instance of the genome</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Return type:</th><td class="field-body">the new GTreeGP instance</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeGP.compare">
<tt class="descname">compare</tt><big>(</big><em>other</em><big>)</big><a class="headerlink" href="#GTree.GTreeGP.compare" title="Permalink to this definition">¶</a></dt>
<dd><p>This method will compare the currently tree with another one</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Parameters:</th><td class="field-body"><strong>other</strong> – the other GTreeGP to compare</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeGP.copy">
<tt class="descname">copy</tt><big>(</big><em>g</em><big>)</big><a class="headerlink" href="#GTree.GTreeGP.copy" title="Permalink to this definition">¶</a></dt>
<dd><p>Copy the contents to the destination g</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Parameters:</th><td class="field-body"><strong>g</strong> – the GTreeGP genome destination</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeGP.evaluate">
<tt class="descname">evaluate</tt><big>(</big><em>**args</em><big>)</big><a class="headerlink" href="#GTree.GTreeGP.evaluate" title="Permalink to this definition">¶</a></dt>
<dd><p>Called to evaluate genome</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Parameters:</th><td class="field-body"><strong>args</strong> – this parameters will be passes to the evaluator</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeGP.getAllNodes">
<tt class="descname">getAllNodes</tt><big>(</big><big>)</big><a class="headerlink" href="#GTree.GTreeGP.getAllNodes" title="Permalink to this definition">¶</a></dt>
<dd><p>Return a new list with all nodes</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Return type:</th><td class="field-body">the list with all nodes</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeGP.getCompiledCode">
<tt class="descname">getCompiledCode</tt><big>(</big><big>)</big><a class="headerlink" href="#GTree.GTreeGP.getCompiledCode" title="Permalink to this definition">¶</a></dt>
<dd><p>Get the compiled code for the Tree expression
After getting the compiled code object, you just need to evaluate it using
the <tt class="xref py py-func docutils literal"><span class="pre">eval()</span></tt> native Python method.</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Return type:</th><td class="field-body">compiled python code</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeGP.getFitnessScore">
<tt class="descname">getFitnessScore</tt><big>(</big><big>)</big><a class="headerlink" href="#GTree.GTreeGP.getFitnessScore" title="Permalink to this definition">¶</a></dt>
<dd><p>Get the Fitness Score of the genome</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Return type:</th><td class="field-body">genome fitness score</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeGP.getHeight">
<tt class="descname">getHeight</tt><big>(</big><big>)</big><a class="headerlink" href="#GTree.GTreeGP.getHeight" title="Permalink to this definition">¶</a></dt>
<dd><p>Return the tree height</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Return type:</th><td class="field-body">the tree height</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeGP.getNodeDepth">
<tt class="descname">getNodeDepth</tt><big>(</big><em>node</em><big>)</big><a class="headerlink" href="#GTree.GTreeGP.getNodeDepth" title="Permalink to this definition">¶</a></dt>
<dd><p>Returns the depth of a node</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Return type:</th><td class="field-body">the depth of the node, the depth of root node is 0</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeGP.getNodeHeight">
<tt class="descname">getNodeHeight</tt><big>(</big><em>node</em><big>)</big><a class="headerlink" href="#GTree.GTreeGP.getNodeHeight" title="Permalink to this definition">¶</a></dt>
<dd><p>Returns the height of a node</p>
<div class="admonition note">
<p class="first admonition-title">Note</p>
<p class="last">If the node has no childs, the height will be 0.</p>
</div>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Return type:</th><td class="field-body">the height of the node</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeGP.getNodesCount">
<tt class="descname">getNodesCount</tt><big>(</big><em>start_node=None</em><big>)</big><a class="headerlink" href="#GTree.GTreeGP.getNodesCount" title="Permalink to this definition">¶</a></dt>
<dd><p>Return the number of the nodes on the tree
starting at the <em>start_node</em>, if <em>start_node</em> is None,
then the method will count all the tree nodes.</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Return type:</th><td class="field-body">the number of nodes</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeGP.getParam">
<tt class="descname">getParam</tt><big>(</big><em>key</em>, <em>nvl=None</em><big>)</big><a class="headerlink" href="#GTree.GTreeGP.getParam" title="Permalink to this definition">¶</a></dt>
<dd><p>Gets an internal parameter</p>
<dl class="docutils">
<dt>Example:</dt>
<dd><div class="first last highlight-python"><div class="highlight"><pre><span class="gp">>>> </span><span class="n">genome</span><span class="o">.</span><span class="n">getParam</span><span class="p">(</span><span class="s">"rangemax"</span><span class="p">)</span>
<span class="go">100</span>
</pre></div>
</div>
</dd>
</dl>
<div class="admonition note">
<p class="first admonition-title">Note</p>
<p class="last">All the individuals of the population shares this parameters and uses
the same instance of this dict.</p>
</div>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Parameters:</th><td class="field-body"><ul class="first last simple">
<li><strong>key</strong> – the key of param</li>
<li><strong>nvl</strong> – if the key doesn’t exist, the nvl will be returned</li>
</ul>
</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeGP.getPreOrderExpression">
<tt class="descname">getPreOrderExpression</tt><big>(</big><em>start_node=None</em><big>)</big><a class="headerlink" href="#GTree.GTreeGP.getPreOrderExpression" title="Permalink to this definition">¶</a></dt>
<dd><p>Return the pre order expression string of the Tree, used
to python <em>eval</em>.</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Return type:</th><td class="field-body">the expression string</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeGP.getRandomNode">
<tt class="descname">getRandomNode</tt><big>(</big><em>node_type=0</em><big>)</big><a class="headerlink" href="#GTree.GTreeGP.getRandomNode" title="Permalink to this definition">¶</a></dt>
<dd><p>Returns a random node from the Tree</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Parameters:</th><td class="field-body"><strong>node_type</strong> – 0 = Any, 1 = Leaf, 2 = Branch</td>
</tr>
<tr class="field"><th class="field-name">Return type:</th><td class="field-body">random node</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeGP.getRawScore">
<tt class="descname">getRawScore</tt><big>(</big><big>)</big><a class="headerlink" href="#GTree.GTreeGP.getRawScore" title="Permalink to this definition">¶</a></dt>
<dd><p>Get the Raw Score of the genome</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Return type:</th><td class="field-body">genome raw score</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeGP.getRoot">
<tt class="descname">getRoot</tt><big>(</big><big>)</big><a class="headerlink" href="#GTree.GTreeGP.getRoot" title="Permalink to this definition">¶</a></dt>
<dd><p>Return the tree root node</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Return type:</th><td class="field-body">the tree root node</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeGP.getSExpression">
<tt class="descname">getSExpression</tt><big>(</big><em>start_node=None</em><big>)</big><a class="headerlink" href="#GTree.GTreeGP.getSExpression" title="Permalink to this definition">¶</a></dt>
<dd><p>Returns a tree-formated string (s-expression) of the tree.</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Return type:</th><td class="field-body">a S-Expression representing the tree</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeGP.getTraversalString">
<tt class="descname">getTraversalString</tt><big>(</big><em>start_node=None</em>, <em>spc=0</em><big>)</big><a class="headerlink" href="#GTree.GTreeGP.getTraversalString" title="Permalink to this definition">¶</a></dt>
<dd><p>Returns a tree-formated string of the tree. This
method is used by the __repr__ method of the tree</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Return type:</th><td class="field-body">a string representing the tree</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeGP.initialize">
<tt class="descname">initialize</tt><big>(</big><em>**args</em><big>)</big><a class="headerlink" href="#GTree.GTreeGP.initialize" title="Permalink to this definition">¶</a></dt>
<dd><p>Called to initialize genome</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Parameters:</th><td class="field-body"><strong>args</strong> – this parameters will be passed to the initializator</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeGP.mutate">
<tt class="descname">mutate</tt><big>(</big><em>**args</em><big>)</big><a class="headerlink" href="#GTree.GTreeGP.mutate" title="Permalink to this definition">¶</a></dt>
<dd><p>Called to mutate the genome</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Parameters:</th><td class="field-body"><strong>args</strong> – this parameters will be passed to the mutator</td>
</tr>
<tr class="field"><th class="field-name">Return type:</th><td class="field-body">the number of mutations returned by mutation operator</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeGP.processNodes">
<tt class="descname">processNodes</tt><big>(</big><em>cloning=False</em><big>)</big><a class="headerlink" href="#GTree.GTreeGP.processNodes" title="Permalink to this definition">¶</a></dt>
<dd><p>Creates a <em>cache</em> on the tree, this method must be called
every time you change the shape of the tree. It updates the
internal nodes list and the internal nodes properties such as
depth and height.</p>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeGP.resetStats">
<tt class="descname">resetStats</tt><big>(</big><big>)</big><a class="headerlink" href="#GTree.GTreeGP.resetStats" title="Permalink to this definition">¶</a></dt>
<dd><p>Clear score and fitness of genome</p>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeGP.setParams">
<tt class="descname">setParams</tt><big>(</big><em>**args</em><big>)</big><a class="headerlink" href="#GTree.GTreeGP.setParams" title="Permalink to this definition">¶</a></dt>
<dd><p>Set the internal params</p>
<dl class="docutils">
<dt>Example:</dt>
<dd><div class="first last highlight-python"><div class="highlight"><pre><span class="gp">>>> </span><span class="n">genome</span><span class="o">.</span><span class="n">setParams</span><span class="p">(</span><span class="n">rangemin</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="n">rangemax</span><span class="o">=</span><span class="mi">100</span><span class="p">,</span> <span class="n">gauss_mu</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="n">gauss_sigma</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span>
</pre></div>
</div>
</dd>
</dl>
<div class="admonition note">
<p class="first admonition-title">Note</p>
<p class="last">All the individuals of the population shares this parameters and uses
the same instance of this dict.</p>
</div>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Parameters:</th><td class="field-body"><strong>args</strong> – this params will saved in every chromosome for genetic op. use</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeGP.setRoot">
<tt class="descname">setRoot</tt><big>(</big><em>root</em><big>)</big><a class="headerlink" href="#GTree.GTreeGP.setRoot" title="Permalink to this definition">¶</a></dt>
<dd><p>Sets the root of the tree</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Parameters:</th><td class="field-body"><strong>root</strong> – the tree root node</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeGP.traversal">
<tt class="descname">traversal</tt><big>(</big><em>callback</em>, <em>start_node=None</em><big>)</big><a class="headerlink" href="#GTree.GTreeGP.traversal" title="Permalink to this definition">¶</a></dt>
<dd><p>Traversal the tree, this method will call the
user-defined callback function for each node on the tree</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Parameters:</th><td class="field-body"><ul class="first last simple">
<li><strong>callback</strong> – a function</li>
<li><strong>start_node</strong> – the start node to begin the traversal</li>
</ul>
</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeGP.writeDotGraph">
<tt class="descname">writeDotGraph</tt><big>(</big><em>graph</em>, <em>startNode=0</em><big>)</big><a class="headerlink" href="#GTree.GTreeGP.writeDotGraph" title="Permalink to this definition">¶</a></dt>
<dd><p>Write a graph to the pydot Graph instance</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Parameters:</th><td class="field-body"><ul class="first last simple">
<li><strong>graph</strong> – the pydot Graph instance</li>
<li><strong>startNode</strong> – used to plot more than one individual</li>
</ul>
</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeGP.writeDotImage">
<tt class="descname">writeDotImage</tt><big>(</big><em>filename</em><big>)</big><a class="headerlink" href="#GTree.GTreeGP.writeDotImage" title="Permalink to this definition">¶</a></dt>
<dd><p>Writes a image representation of the individual</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Parameters:</th><td class="field-body"><strong>filename</strong> – the output file image</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeGP.writeDotRaw">
<tt class="descname">writeDotRaw</tt><big>(</big><em>filename</em><big>)</big><a class="headerlink" href="#GTree.GTreeGP.writeDotRaw" title="Permalink to this definition">¶</a></dt>
<dd><p>Writes the raw dot file (text-file used by dot/neato) with the
representation of the individual</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Parameters:</th><td class="field-body"><strong>filename</strong> – the output file, ex: individual.dot</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="staticmethod">
<dt id="GTree.GTreeGP.writePopulationDot">
<em class="property">static </em><tt class="descname">writePopulationDot</tt><big>(</big><em>ga_engine</em>, <em>filename</em>, <em>format='jpeg'</em>, <em>start=0</em>, <em>end=0</em><big>)</big><a class="headerlink" href="#GTree.GTreeGP.writePopulationDot" title="Permalink to this definition">¶</a></dt>
<dd><p>Writes to a graphical file using pydot, the population of trees</p>
<dl class="docutils">
<dt>Example:</dt>
<dd><div class="first last highlight-python"><div class="highlight"><pre><span class="gp">>>> </span><span class="n">GTreeGP</span><span class="o">.</span><span class="n">writePopulationDot</span><span class="p">(</span><span class="n">ga_engine</span><span class="p">,</span> <span class="s">"pop.jpg"</span><span class="p">,</span> <span class="s">"jpeg"</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">10</span><span class="p">)</span>
</pre></div>
</div>
</dd>
</dl>
<p>This example will draw the first ten individuals of the population into
the file called “pop.jpg”.</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Parameters:</th><td class="field-body"><ul class="first last simple">
<li><strong>ga_engine</strong> – the GA Engine</li>
<li><strong>filename</strong> – the filename, ie. population.jpg</li>
<li><strong>start</strong> – the start index of individuals</li>
<li><strong>end</strong> – the end index of individuals</li>
</ul>
</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="staticmethod">
<dt id="GTree.GTreeGP.writePopulationDotRaw">
<em class="property">static </em><tt class="descname">writePopulationDotRaw</tt><big>(</big><em>ga_engine</em>, <em>filename</em>, <em>start=0</em>, <em>end=0</em><big>)</big><a class="headerlink" href="#GTree.GTreeGP.writePopulationDotRaw" title="Permalink to this definition">¶</a></dt>
<dd><p>Writes to a raw dot file using pydot, the population of trees</p>
<dl class="docutils">
<dt>Example:</dt>
<dd><div class="first last highlight-python"><div class="highlight"><pre><span class="gp">>>> </span><span class="n">GTreeGP</span><span class="o">.</span><span class="n">writePopulationDotRaw</span><span class="p">(</span><span class="n">ga_engine</span><span class="p">,</span> <span class="s">"pop.dot"</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">10</span><span class="p">)</span>
</pre></div>
</div>
</dd>
</dl>
<p>This example will draw the first ten individuals of the population into
the file called “pop.dot”.</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Parameters:</th><td class="field-body"><ul class="first last simple">
<li><strong>ga_engine</strong> – the GA Engine</li>
<li><strong>filename</strong> – the filename, ie. population.dot</li>
<li><strong>start</strong> – the start index of individuals</li>
<li><strong>end</strong> – the end index of individuals</li>
</ul>
</td>
</tr>
</tbody>
</table>
</dd></dl>
</dd></dl>
<dl class="class">
<dt id="GTree.GTreeNode">
<em class="property">class </em><tt class="descclassname">GTree.</tt><tt class="descname">GTreeNode</tt><big>(</big><em>data</em>, <em>parent=None</em><big>)</big><a class="headerlink" href="#GTree.GTreeNode" title="Permalink to this definition">¶</a></dt>
<dd><p>The GTreeNode class - The node representation</p>
<p>Inheritance diagram for <a class="reference internal" href="#GTree.GTreeNode" title="GTree.GTreeNode"><tt class="xref py py-class docutils literal"><span class="pre">GTree.GTreeNode</span></tt></a>:</p>
<p class="graphviz">
<img src="_images/inheritance-59bab46cd29bf3c621fd5376d17d5af31313fc17.png" alt="Inheritance diagram of GTree.GTreeNode" usemap="#inheritancef3f13e0f21" class="inheritance"/>
<map id="inheritancef3f13e0f21" name="inheritancef3f13e0f21">
<area shape="rect" id="node1" href="module_genomebase.html#GenomeBase.GTreeNodeBase" title="GenomeBase.GTreeNodeBase" alt="" coords="7,5,220,43"/>
<area shape="rect" id="node2" href="#GTree.GTreeNode" title="GTree.GTreeNode" alt="" coords="271,5,401,43"/>
</map>
</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Parameters:</th><td class="field-body"><ul class="first last simple">
<li><strong>data</strong> – the root node of the tree</li>
<li><strong>parent</strong> – the parent node, if root, this
must be <em>None</em></li>
</ul>
</td>
</tr>
</tbody>
</table>
<dl class="method">
<dt id="GTree.GTreeNode.addChild">
<tt class="descname">addChild</tt><big>(</big><em>child</em><big>)</big><a class="headerlink" href="#GTree.GTreeNode.addChild" title="Permalink to this definition">¶</a></dt>
<dd><p>Adds a child to the node</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Parameters:</th><td class="field-body"><strong>child</strong> – the node to be added</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeNode.clone">
<tt class="descname">clone</tt><big>(</big><big>)</big><a class="headerlink" href="#GTree.GTreeNode.clone" title="Permalink to this definition">¶</a></dt>
<dd><p>Return a new instance of the genome</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Return type:</th><td class="field-body">new GTree instance</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeNode.copy">
<tt class="descname">copy</tt><big>(</big><em>g</em><big>)</big><a class="headerlink" href="#GTree.GTreeNode.copy" title="Permalink to this definition">¶</a></dt>
<dd><p>Copy the contents to the destination g</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Parameters:</th><td class="field-body"><strong>g</strong> – the GTreeNode genome destination</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeNode.getChild">
<tt class="descname">getChild</tt><big>(</big><em>index</em><big>)</big><a class="headerlink" href="#GTree.GTreeNode.getChild" title="Permalink to this definition">¶</a></dt>
<dd><p>Returns the index-child of the node</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Return type:</th><td class="field-body">child node</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeNode.getChilds">
<tt class="descname">getChilds</tt><big>(</big><big>)</big><a class="headerlink" href="#GTree.GTreeNode.getChilds" title="Permalink to this definition">¶</a></dt>
<dd><p>Return the childs of the node</p>
<div class="admonition warning">
<p class="first admonition-title">Warning</p>
<p class="last">use .getChilds()[:] if you’ll change the list itself, like using childs.reverse(),
otherwise the original genome child order will be changed.</p>
</div>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Return type:</th><td class="field-body">a list of nodes</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeNode.getData">
<tt class="descname">getData</tt><big>(</big><big>)</big><a class="headerlink" href="#GTree.GTreeNode.getData" title="Permalink to this definition">¶</a></dt>
<dd><p>Return the data of the node</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Return type:</th><td class="field-body">the data of the node</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeNode.getParent">
<tt class="descname">getParent</tt><big>(</big><big>)</big><a class="headerlink" href="#GTree.GTreeNode.getParent" title="Permalink to this definition">¶</a></dt>
<dd><p>Get the parent node of the node</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Return type:</th><td class="field-body">the parent node</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeNode.isLeaf">
<tt class="descname">isLeaf</tt><big>(</big><big>)</big><a class="headerlink" href="#GTree.GTreeNode.isLeaf" title="Permalink to this definition">¶</a></dt>
<dd><p>Return True if the node is a leaf</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Return type:</th><td class="field-body">True or False</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeNode.newNode">
<tt class="descname">newNode</tt><big>(</big><em>data</em><big>)</big><a class="headerlink" href="#GTree.GTreeNode.newNode" title="Permalink to this definition">¶</a></dt>
<dd><p>Created a new child node</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Parameters:</th><td class="field-body"><strong>data</strong> – the data of the new created node</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeNode.replaceChild">
<tt class="descname">replaceChild</tt><big>(</big><em>older</em>, <em>newer</em><big>)</big><a class="headerlink" href="#GTree.GTreeNode.replaceChild" title="Permalink to this definition">¶</a></dt>
<dd><p>Replaces a child of the node</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Parameters:</th><td class="field-body"><ul class="first last simple">
<li><strong>older</strong> – the child to be replaces</li>
<li><strong>newer</strong> – the new child which replaces the older</li>
</ul>
</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeNode.setData">
<tt class="descname">setData</tt><big>(</big><em>data</em><big>)</big><a class="headerlink" href="#GTree.GTreeNode.setData" title="Permalink to this definition">¶</a></dt>
<dd><p>Sets the data of the node</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Parameters:</th><td class="field-body"><strong>data</strong> – the data of the node</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeNode.setParent">
<tt class="descname">setParent</tt><big>(</big><em>parent</em><big>)</big><a class="headerlink" href="#GTree.GTreeNode.setParent" title="Permalink to this definition">¶</a></dt>
<dd><p>Sets the parent of the node</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Parameters:</th><td class="field-body"><strong>parent</strong> – the parent node</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeNode.swapNodeData">
<tt class="descname">swapNodeData</tt><big>(</big><em>node</em><big>)</big><a class="headerlink" href="#GTree.GTreeNode.swapNodeData" title="Permalink to this definition">¶</a></dt>
<dd><p>Swaps the node data with another node</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Parameters:</th><td class="field-body"><strong>node</strong> – the node to do the data swap</td>
</tr>
</tbody>
</table>
</dd></dl>
</dd></dl>
<dl class="class">
<dt id="GTree.GTreeNodeGP">
<em class="property">class </em><tt class="descclassname">GTree.</tt><tt class="descname">GTreeNodeGP</tt><big>(</big><em>data</em>, <em>node_type=0</em>, <em>parent=None</em><big>)</big><a class="headerlink" href="#GTree.GTreeNodeGP" title="Permalink to this definition">¶</a></dt>
<dd><p>The GTreeNodeGP Class - The Genetic Programming Node representation</p>
<p>Inheritance diagram for <a class="reference internal" href="#GTree.GTreeNodeGP" title="GTree.GTreeNodeGP"><tt class="xref py py-class docutils literal"><span class="pre">GTree.GTreeNodeGP</span></tt></a>:</p>
<p class="graphviz">
<img src="_images/inheritance-a9ddd5c7d712a4a53fc1b07b4d3f855da2b5efed.png" alt="Inheritance diagram of GTree.GTreeNodeGP" usemap="#inheritance6a68aede0c" class="inheritance"/>
<map id="inheritance6a68aede0c" name="inheritance6a68aede0c">
<area shape="rect" id="node1" href="module_genomebase.html#GenomeBase.GTreeNodeBase" title="GenomeBase.GTreeNodeBase" alt="" coords="7,5,220,43"/>
<area shape="rect" id="node2" href="#GTree.GTreeNodeGP" title="GTree.GTreeNodeGP" alt="" coords="271,5,420,43"/>
</map>
</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Parameters:</th><td class="field-body"><ul class="first last simple">
<li><strong>data</strong> – the node data</li>
<li><strong>type</strong> – the node type</li>
<li><strong>parent</strong> – the node parent</li>
</ul>
</td>
</tr>
</tbody>
</table>
<dl class="method">
<dt id="GTree.GTreeNodeGP.addChild">
<tt class="descname">addChild</tt><big>(</big><em>child</em><big>)</big><a class="headerlink" href="#GTree.GTreeNodeGP.addChild" title="Permalink to this definition">¶</a></dt>
<dd><p>Adds a child to the node</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Parameters:</th><td class="field-body"><strong>child</strong> – the node to be added</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeNodeGP.clone">
<tt class="descname">clone</tt><big>(</big><big>)</big><a class="headerlink" href="#GTree.GTreeNodeGP.clone" title="Permalink to this definition">¶</a></dt>
<dd><p>Return a new copy of the node</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Return type:</th><td class="field-body">the new GTreeNodeGP instance</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeNodeGP.compare">
<tt class="descname">compare</tt><big>(</big><em>other</em><big>)</big><a class="headerlink" href="#GTree.GTreeNodeGP.compare" title="Permalink to this definition">¶</a></dt>
<dd><p>Compare this node with other</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Parameters:</th><td class="field-body"><strong>other</strong> – the other GTreeNodeGP</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeNodeGP.copy">
<tt class="descname">copy</tt><big>(</big><em>g</em><big>)</big><a class="headerlink" href="#GTree.GTreeNodeGP.copy" title="Permalink to this definition">¶</a></dt>
<dd><p>Copy the contents to the destination g</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Parameters:</th><td class="field-body"><strong>g</strong> – the GTreeNodeGP genome destination</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeNodeGP.getChild">
<tt class="descname">getChild</tt><big>(</big><em>index</em><big>)</big><a class="headerlink" href="#GTree.GTreeNodeGP.getChild" title="Permalink to this definition">¶</a></dt>
<dd><p>Returns the index-child of the node</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Return type:</th><td class="field-body">child node</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeNodeGP.getChilds">
<tt class="descname">getChilds</tt><big>(</big><big>)</big><a class="headerlink" href="#GTree.GTreeNodeGP.getChilds" title="Permalink to this definition">¶</a></dt>
<dd><p>Return the childs of the node</p>
<div class="admonition warning">
<p class="first admonition-title">Warning</p>
<p class="last">use .getChilds()[:] if you’ll change the list itself, like using childs.reverse(),
otherwise the original genome child order will be changed.</p>
</div>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Return type:</th><td class="field-body">a list of nodes</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeNodeGP.getData">
<tt class="descname">getData</tt><big>(</big><big>)</big><a class="headerlink" href="#GTree.GTreeNodeGP.getData" title="Permalink to this definition">¶</a></dt>
<dd><p>Gets the node internal data</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Return type:</th><td class="field-body">the internal data</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeNodeGP.getParent">
<tt class="descname">getParent</tt><big>(</big><big>)</big><a class="headerlink" href="#GTree.GTreeNodeGP.getParent" title="Permalink to this definition">¶</a></dt>
<dd><p>Get the parent node of the node</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Return type:</th><td class="field-body">the parent node</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeNodeGP.getType">
<tt class="descname">getType</tt><big>(</big><big>)</big><a class="headerlink" href="#GTree.GTreeNodeGP.getType" title="Permalink to this definition">¶</a></dt>
<dd><p>Get the node type</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Return type:</th><td class="field-body">the node type is type of Consts.nodeType</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeNodeGP.isLeaf">
<tt class="descname">isLeaf</tt><big>(</big><big>)</big><a class="headerlink" href="#GTree.GTreeNodeGP.isLeaf" title="Permalink to this definition">¶</a></dt>
<dd><p>Return True if the node is a leaf</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Return type:</th><td class="field-body">True or False</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeNodeGP.newNode">
<tt class="descname">newNode</tt><big>(</big><em>data</em><big>)</big><a class="headerlink" href="#GTree.GTreeNodeGP.newNode" title="Permalink to this definition">¶</a></dt>
<dd><p>Creates a new node and adds this
node as children of current node</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Parameters:</th><td class="field-body"><strong>data</strong> – the internal node data</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeNodeGP.replaceChild">
<tt class="descname">replaceChild</tt><big>(</big><em>older</em>, <em>newer</em><big>)</big><a class="headerlink" href="#GTree.GTreeNodeGP.replaceChild" title="Permalink to this definition">¶</a></dt>
<dd><p>Replaces a child of the node</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Parameters:</th><td class="field-body"><ul class="first last simple">
<li><strong>older</strong> – the child to be replaces</li>
<li><strong>newer</strong> – the new child which replaces the older</li>
</ul>
</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeNodeGP.setData">
<tt class="descname">setData</tt><big>(</big><em>data</em><big>)</big><a class="headerlink" href="#GTree.GTreeNodeGP.setData" title="Permalink to this definition">¶</a></dt>
<dd><p>Sets the node internal data</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Parameters:</th><td class="field-body"><strong>data</strong> – the internal data</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeNodeGP.setParent">
<tt class="descname">setParent</tt><big>(</big><em>parent</em><big>)</big><a class="headerlink" href="#GTree.GTreeNodeGP.setParent" title="Permalink to this definition">¶</a></dt>
<dd><p>Sets the parent of the node</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Parameters:</th><td class="field-body"><strong>parent</strong> – the parent node</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeNodeGP.setType">
<tt class="descname">setType</tt><big>(</big><em>node_type</em><big>)</big><a class="headerlink" href="#GTree.GTreeNodeGP.setType" title="Permalink to this definition">¶</a></dt>
<dd><p>Sets the node type</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Parameters:</th><td class="field-body"><strong>node_type</strong> – the node type is type of Consts.nodeType</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="method">
<dt id="GTree.GTreeNodeGP.swapNodeData">
<tt class="descname">swapNodeData</tt><big>(</big><em>node</em><big>)</big><a class="headerlink" href="#GTree.GTreeNodeGP.swapNodeData" title="Permalink to this definition">¶</a></dt>
<dd><p>Swaps the node data and type with another node</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Parameters:</th><td class="field-body"><strong>node</strong> – the node</td>
</tr>
</tbody>
</table>
</dd></dl>
</dd></dl>
<dl class="function">
<dt id="GTree.buildGTreeFull">
<tt class="descclassname">GTree.</tt><tt class="descname">buildGTreeFull</tt><big>(</big><em>depth</em>, <em>value_callback</em>, <em>max_siblings</em>, <em>max_depth</em><big>)</big><a class="headerlink" href="#GTree.buildGTreeFull" title="Permalink to this definition">¶</a></dt>
<dd><p>Random generates a Tree structure using the value_callback
for data generation and the method “Full”</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Parameters:</th><td class="field-body"><ul class="first simple">
<li><strong>depth</strong> – the initial depth, zero</li>
<li><strong>value_callback</strong> – the function which generates the random
values for nodes</li>
<li><strong>max_siblings</strong> – the maximum number of sisters of a node</li>
<li><strong>max_depth</strong> – the maximum depth of the tree</li>
</ul>
</td>
</tr>
<tr class="field"><th class="field-name">Return type:</th><td class="field-body"><p class="first last">the root node of created tree</p>
</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="function">
<dt id="GTree.buildGTreeGPFull">
<tt class="descclassname">GTree.</tt><tt class="descname">buildGTreeGPFull</tt><big>(</big><em>ga_engine</em>, <em>depth</em>, <em>max_depth</em><big>)</big><a class="headerlink" href="#GTree.buildGTreeGPFull" title="Permalink to this definition">¶</a></dt>
<dd><p>Creates a new random GTreeGP root node with subtrees using
the “Full” method.</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Parameters:</th><td class="field-body"><ul class="first simple">
<li><strong>ga_engine</strong> – the GA Core</li>
<li><strong>depth</strong> – the initial depth</li>
</ul>
</td>
</tr>
<tr class="field"><th class="field-name">Max_depth :</th><td class="field-body"><p class="first">the maximum depth of the tree</p>
</td>
</tr>
<tr class="field"><th class="field-name">Return type:</th><td class="field-body"><p class="first last">the root node</p>
</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="function">
<dt id="GTree.buildGTreeGPGrow">
<tt class="descclassname">GTree.</tt><tt class="descname">buildGTreeGPGrow</tt><big>(</big><em>ga_engine</em>, <em>depth</em>, <em>max_depth</em><big>)</big><a class="headerlink" href="#GTree.buildGTreeGPGrow" title="Permalink to this definition">¶</a></dt>
<dd><p>Creates a new random GTreeGP root node with subtrees using
the “Grow” method.</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Parameters:</th><td class="field-body"><ul class="first simple">
<li><strong>ga_engine</strong> – the GA Core</li>
<li><strong>depth</strong> – the initial depth</li>
</ul>
</td>
</tr>
<tr class="field"><th class="field-name">Max_depth :</th><td class="field-body"><p class="first">the maximum depth of the tree</p>
</td>
</tr>
<tr class="field"><th class="field-name">Return type:</th><td class="field-body"><p class="first last">the root node</p>
</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="function">
<dt id="GTree.buildGTreeGrow">
<tt class="descclassname">GTree.</tt><tt class="descname">buildGTreeGrow</tt><big>(</big><em>depth</em>, <em>value_callback</em>, <em>max_siblings</em>, <em>max_depth</em><big>)</big><a class="headerlink" href="#GTree.buildGTreeGrow" title="Permalink to this definition">¶</a></dt>
<dd><p>Random generates a Tree structure using the value_callback
for data generation and the method “Grow”</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Parameters:</th><td class="field-body"><ul class="first simple">
<li><strong>depth</strong> – the initial depth, zero</li>
<li><strong>value_callback</strong> – the function which generates the random
values for nodes</li>
<li><strong>max_siblings</strong> – the maximum number of sisters of a node</li>
<li><strong>max_depth</strong> – the maximum depth of the tree</li>
</ul>
</td>
</tr>
<tr class="field"><th class="field-name">Return type:</th><td class="field-body"><p class="first last">the root node of created tree</p>
</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="function">
<dt id="GTree.checkTerminal">
<tt class="descclassname">GTree.</tt><tt class="descname">checkTerminal</tt><big>(</big><em>terminal</em><big>)</big><a class="headerlink" href="#GTree.checkTerminal" title="Permalink to this definition">¶</a></dt>
<dd><p>Do some check on the terminal, to evaluate ephemeral constants</p>
<table class="docutils field-list" frame="void" rules="none">
<col class="field-name" />
<col class="field-body" />
<tbody valign="top">
<tr class="field"><th class="field-name">Parameters:</th><td class="field-body"><strong>terminal</strong> – the terminal string</td>
</tr>
</tbody>
</table>
</dd></dl>
<dl class="function">
<dt id="GTree.gpdec">
<tt class="descclassname">GTree.</tt><tt class="descname">gpdec</tt><big>(</big><em>**kwds</em><big>)</big><a class="headerlink" href="#GTree.gpdec" title="Permalink to this definition">¶</a></dt>
<dd><p>This is a decorator to use with genetic programming non-terminals</p>
<p>It currently accepts the attributes: shape, color and representation.</p>
</dd></dl>
</div>
</div>
</div>
</div>
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<li><a class="reference internal" href="#"><tt class="docutils literal"><span class="pre">GTree</span></tt> and GTreeGP – the tree chromosomes</a><ul>
<li><a class="reference internal" href="#default-parameters">Default Parameters</a></li>
<li><a class="reference internal" href="#classes">Classes</a></li>
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