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authorEduardo Pedroni <e.pedroni91@gmail.com>2014-10-18 15:21:45 +0200
committerEduardo Pedroni <e.pedroni91@gmail.com>2014-10-18 15:21:45 +0200
commit4f26361eb08aa09334d1eea0a124110c20d809ce (patch)
treeea2652193f376eee5c9c44776895378b123be7c8 /doc/jcgp/backend/modules
parentfc0f9ce2aa46444ff69e89e9b9e09f3610eedd74 (diff)
Moved javadocs to a different repository for hosting, updated README
Diffstat (limited to 'doc/jcgp/backend/modules')
-rw-r--r--doc/jcgp/backend/modules/Module.html288
-rw-r--r--doc/jcgp/backend/modules/class-use/Module.html292
-rw-r--r--doc/jcgp/backend/modules/es/EvolutionaryStrategy.html290
-rw-r--r--doc/jcgp/backend/modules/es/MuPlusLambda.html330
-rw-r--r--doc/jcgp/backend/modules/es/TournamentSelection.html333
-rw-r--r--doc/jcgp/backend/modules/es/class-use/EvolutionaryStrategy.html204
-rw-r--r--doc/jcgp/backend/modules/es/class-use/MuPlusLambda.html124
-rw-r--r--doc/jcgp/backend/modules/es/class-use/TournamentSelection.html124
-rw-r--r--doc/jcgp/backend/modules/es/package-frame.html22
-rw-r--r--doc/jcgp/backend/modules/es/package-summary.html162
-rw-r--r--doc/jcgp/backend/modules/es/package-tree.html146
-rw-r--r--doc/jcgp/backend/modules/es/package-use.html180
-rw-r--r--doc/jcgp/backend/modules/mutator/FixedPointMutator.html284
-rw-r--r--doc/jcgp/backend/modules/mutator/Mutator.html281
-rw-r--r--doc/jcgp/backend/modules/mutator/PercentPointMutator.html285
-rw-r--r--doc/jcgp/backend/modules/mutator/PointMutator.html281
-rw-r--r--doc/jcgp/backend/modules/mutator/ProbabilisticMutator.html319
-rw-r--r--doc/jcgp/backend/modules/mutator/class-use/FixedPointMutator.html124
-rw-r--r--doc/jcgp/backend/modules/mutator/class-use/Mutator.html260
-rw-r--r--doc/jcgp/backend/modules/mutator/class-use/PercentPointMutator.html124
-rw-r--r--doc/jcgp/backend/modules/mutator/class-use/PointMutator.html179
-rw-r--r--doc/jcgp/backend/modules/mutator/class-use/ProbabilisticMutator.html124
-rw-r--r--doc/jcgp/backend/modules/mutator/package-frame.html24
-rw-r--r--doc/jcgp/backend/modules/mutator/package-summary.html182
-rw-r--r--doc/jcgp/backend/modules/mutator/package-tree.html151
-rw-r--r--doc/jcgp/backend/modules/mutator/package-use.html210
-rw-r--r--doc/jcgp/backend/modules/package-frame.html20
-rw-r--r--doc/jcgp/backend/modules/package-summary.html144
-rw-r--r--doc/jcgp/backend/modules/package-tree.html137
-rw-r--r--doc/jcgp/backend/modules/package-use.html201
-rw-r--r--doc/jcgp/backend/modules/problem/BestFitness.html352
-rw-r--r--doc/jcgp/backend/modules/problem/DigitalCircuitProblem.html423
-rw-r--r--doc/jcgp/backend/modules/problem/Problem.html464
-rw-r--r--doc/jcgp/backend/modules/problem/SymbolicRegressionProblem.html436
-rw-r--r--doc/jcgp/backend/modules/problem/TestCaseProblem.TestCase.html320
-rw-r--r--doc/jcgp/backend/modules/problem/TestCaseProblem.html415
-rw-r--r--doc/jcgp/backend/modules/problem/TravellingSalesmanProblem.html433
-rw-r--r--doc/jcgp/backend/modules/problem/class-use/BestFitness.html212
-rw-r--r--doc/jcgp/backend/modules/problem/class-use/DigitalCircuitProblem.html124
-rw-r--r--doc/jcgp/backend/modules/problem/class-use/Problem.html208
-rw-r--r--doc/jcgp/backend/modules/problem/class-use/SymbolicRegressionProblem.html124
-rw-r--r--doc/jcgp/backend/modules/problem/class-use/TestCaseProblem.TestCase.html251
-rw-r--r--doc/jcgp/backend/modules/problem/class-use/TestCaseProblem.html227
-rw-r--r--doc/jcgp/backend/modules/problem/class-use/TravellingSalesmanProblem.html124
-rw-r--r--doc/jcgp/backend/modules/problem/package-frame.html28
-rw-r--r--doc/jcgp/backend/modules/problem/package-summary.html191
-rw-r--r--doc/jcgp/backend/modules/problem/package-tree.html163
-rw-r--r--doc/jcgp/backend/modules/problem/package-use.html311
48 files changed, 0 insertions, 10631 deletions
diff --git a/doc/jcgp/backend/modules/Module.html b/doc/jcgp/backend/modules/Module.html
deleted file mode 100644
index 86a859e..0000000
--- a/doc/jcgp/backend/modules/Module.html
+++ /dev/null
@@ -1,288 +0,0 @@
-<!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.01 Transitional//EN" "http://www.w3.org/TR/html4/loose.dtd">
-<!-- NewPage -->
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-<head>
-<!-- Generated by javadoc (1.8.0_05) on Thu May 22 06:02:30 BST 2014 -->
-<title>Module</title>
-<meta name="date" content="2014-05-22">
-<link rel="stylesheet" type="text/css" href="../../../stylesheet.css" title="Style">
-<script type="text/javascript" src="../../../script.js"></script>
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-<body>
-<script type="text/javascript"><!--
- try {
- if (location.href.indexOf('is-external=true') == -1) {
- parent.document.title="Module";
- }
- }
- catch(err) {
- }
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-var methods = {"i0":10,"i1":10};
-var tabs = {65535:["t0","All Methods"],2:["t2","Instance Methods"],8:["t4","Concrete Methods"]};
-var altColor = "altColor";
-var rowColor = "rowColor";
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-<div class="topNav"><a name="navbar.top">
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-<a name="navbar.top.firstrow">
-<!-- -->
-</a>
-<ul class="navList" title="Navigation">
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-<li><a href="class-use/Module.html">Use</a></li>
-<li><a href="package-tree.html">Tree</a></li>
-<li><a href="../../../deprecated-list.html">Deprecated</a></li>
-<li><a href="../../../index-files/index-1.html">Index</a></li>
-<li><a href="../../../help-doc.html">Help</a></li>
-</ul>
-</div>
-<div class="subNav">
-<ul class="navList">
-<li>Prev&nbsp;Class</li>
-<li>Next&nbsp;Class</li>
-</ul>
-<ul class="navList">
-<li><a href="../../../index.html?jcgp/backend/modules/Module.html" target="_top">Frames</a></li>
-<li><a href="Module.html" target="_top">No&nbsp;Frames</a></li>
-</ul>
-<ul class="navList" id="allclasses_navbar_top">
-<li><a href="../../../allclasses-noframe.html">All&nbsp;Classes</a></li>
-</ul>
-<div>
-<script type="text/javascript"><!--
- allClassesLink = document.getElementById("allclasses_navbar_top");
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-<li>Field&nbsp;|&nbsp;</li>
-<li>Constr&nbsp;|&nbsp;</li>
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-</ul>
-</div>
-<a name="skip.navbar.top">
-<!-- -->
-</a></div>
-<!-- ========= END OF TOP NAVBAR ========= -->
-<!-- ======== START OF CLASS DATA ======== -->
-<div class="header">
-<div class="subTitle">jcgp.backend.modules</div>
-<h2 title="Class Module" class="title">Class Module</h2>
-</div>
-<div class="contentContainer">
-<ul class="inheritance">
-<li>java.lang.Object</li>
-<li>
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-<dl>
-<dt>Direct Known Subclasses:</dt>
-<dd><a href="../../../jcgp/backend/modules/es/EvolutionaryStrategy.html" title="class in jcgp.backend.modules.es">EvolutionaryStrategy</a>, <a href="../../../jcgp/backend/modules/mutator/Mutator.html" title="class in jcgp.backend.modules.mutator">Mutator</a>, <a href="../../../jcgp/backend/modules/problem/Problem.html" title="class in jcgp.backend.modules.problem">Problem</a></dd>
-</dl>
-<hr>
-<br>
-<pre>public abstract class <span class="typeNameLabel">Module</span>
-extends java.lang.Object</pre>
-<div class="block">This class defines the expected behaviour of a module. Generally, modules
- are entities which contain parameters; these can be retrieved using
- <code>getLocalParameters()</code>. GUIs should make use of this getter
- to display visual parameter controls to users. Subclasses don't have direct
- access to the list; instead they must use <code>registerParameter()</code> (ideally
- in the constructor) to make sure the parameters are returned.
- <br>
- In addition, implementations of <code>Module</code> should specify a module name
- in their constructor using <code>setName()</code>. If a name is not provided,
- the simple name of the class will be used.
- <br>
- All modules, by definition, contain a reference to the experiment's resources, which
- must be passed at construction. The resources should be accessed with <code>getResources()</code>.</div>
-<dl>
-<dt><span class="simpleTagLabel">Author:</span></dt>
-<dd>Eduardo Pedroni</dd>
-<dt><span class="seeLabel">See Also:</span></dt>
-<dd><a href="../../../jcgp/backend/parameters/Parameter.html" title="class in jcgp.backend.parameters"><code>Parameter</code></a></dd>
-</dl>
-</li>
-</ul>
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-<ul class="blockList">
-<li class="blockList">
-<!-- ========== METHOD SUMMARY =========== -->
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-<caption><span id="t0" class="activeTableTab"><span>All Methods</span><span class="tabEnd">&nbsp;</span></span><span id="t2" class="tableTab"><span><a href="javascript:show(2);">Instance Methods</a></span><span class="tabEnd">&nbsp;</span></span><span id="t4" class="tableTab"><span><a href="javascript:show(8);">Concrete Methods</a></span><span class="tabEnd">&nbsp;</span></span></caption>
-<tr>
-<th class="colFirst" scope="col">Modifier and Type</th>
-<th class="colLast" scope="col">Method and Description</th>
-</tr>
-<tr id="i0" class="altColor">
-<td class="colFirst"><code>java.util.ArrayList&lt;<a href="../../../jcgp/backend/parameters/Parameter.html" title="class in jcgp.backend.parameters">Parameter</a>&lt;?&gt;&gt;</code></td>
-<td class="colLast"><code><span class="memberNameLink"><a href="../../../jcgp/backend/modules/Module.html#getLocalParameters--">getLocalParameters</a></span>()</code>
-<div class="block">This method is used by the GUI in order to build visual
- representations of all parameters used by the module.</div>
-</td>
-</tr>
-<tr id="i1" class="rowColor">
-<td class="colFirst"><code>java.lang.String</code></td>
-<td class="colLast"><code><span class="memberNameLink"><a href="../../../jcgp/backend/modules/Module.html#toString--">toString</a></span>()</code>&nbsp;</td>
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-<div class="block">This method is used by the GUI in order to build visual
- representations of all parameters used by the module.
- Therefore, any parameters returned here will be displayed
- visually.</div>
-<dl>
-<dt><span class="returnLabel">Returns:</span></dt>
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-</dl>
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-<dl>
-<dt><span class="overrideSpecifyLabel">Overrides:</span></dt>
-<dd><code>toString</code>&nbsp;in class&nbsp;<code>java.lang.Object</code></dd>
-</dl>
-</li>
-</ul>
-</li>
-</ul>
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-</ul>
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-</div>
-<!-- ========= END OF CLASS DATA ========= -->
-<!-- ======= START OF BOTTOM NAVBAR ====== -->
-<div class="bottomNav"><a name="navbar.bottom">
-<!-- -->
-</a>
-<div class="skipNav"><a href="#skip.navbar.bottom" title="Skip navigation links">Skip navigation links</a></div>
-<a name="navbar.bottom.firstrow">
-<!-- -->
-</a>
-<ul class="navList" title="Navigation">
-<li><a href="../../../overview-summary.html">Overview</a></li>
-<li><a href="package-summary.html">Package</a></li>
-<li class="navBarCell1Rev">Class</li>
-<li><a href="class-use/Module.html">Use</a></li>
-<li><a href="package-tree.html">Tree</a></li>
-<li><a href="../../../deprecated-list.html">Deprecated</a></li>
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-<div class="subNav">
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-<li>Next&nbsp;Class</li>
-</ul>
-<ul class="navList">
-<li><a href="../../../index.html?jcgp/backend/modules/Module.html" target="_top">Frames</a></li>
-<li><a href="Module.html" target="_top">No&nbsp;Frames</a></li>
-</ul>
-<ul class="navList" id="allclasses_navbar_bottom">
-<li><a href="../../../allclasses-noframe.html">All&nbsp;Classes</a></li>
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-<div>
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- allClassesLink = document.getElementById("allclasses_navbar_bottom");
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-</div>
-<div>
-<ul class="subNavList">
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-<li>Nested&nbsp;|&nbsp;</li>
-<li>Field&nbsp;|&nbsp;</li>
-<li>Constr&nbsp;|&nbsp;</li>
-<li><a href="#method.summary">Method</a></li>
-</ul>
-<ul class="subNavList">
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diff --git a/doc/jcgp/backend/modules/class-use/Module.html b/doc/jcgp/backend/modules/class-use/Module.html
deleted file mode 100644
index 604d98d..0000000
--- a/doc/jcgp/backend/modules/class-use/Module.html
+++ /dev/null
@@ -1,292 +0,0 @@
-<!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.01 Transitional//EN" "http://www.w3.org/TR/html4/loose.dtd">
-<!-- NewPage -->
-<html lang="en">
-<head>
-<!-- Generated by javadoc (1.8.0_05) on Thu May 22 06:02:33 BST 2014 -->
-<title>Uses of Class jcgp.backend.modules.Module</title>
-<meta name="date" content="2014-05-22">
-<link rel="stylesheet" type="text/css" href="../../../../stylesheet.css" title="Style">
-<script type="text/javascript" src="../../../../script.js"></script>
-</head>
-<body>
-<script type="text/javascript"><!--
- try {
- if (location.href.indexOf('is-external=true') == -1) {
- parent.document.title="Uses of Class jcgp.backend.modules.Module";
- }
- }
- catch(err) {
- }
-//-->
-</script>
-<noscript>
-<div>JavaScript is disabled on your browser.</div>
-</noscript>
-<!-- ========= START OF TOP NAVBAR ======= -->
-<div class="topNav"><a name="navbar.top">
-<!-- -->
-</a>
-<div class="skipNav"><a href="#skip.navbar.top" title="Skip navigation links">Skip navigation links</a></div>
-<a name="navbar.top.firstrow">
-<!-- -->
-</a>
-<ul class="navList" title="Navigation">
-<li><a href="../../../../overview-summary.html">Overview</a></li>
-<li><a href="../package-summary.html">Package</a></li>
-<li><a href="../../../../jcgp/backend/modules/Module.html" title="class in jcgp.backend.modules">Class</a></li>
-<li class="navBarCell1Rev">Use</li>
-<li><a href="../package-tree.html">Tree</a></li>
-<li><a href="../../../../deprecated-list.html">Deprecated</a></li>
-<li><a href="../../../../index-files/index-1.html">Index</a></li>
-<li><a href="../../../../help-doc.html">Help</a></li>
-</ul>
-</div>
-<div class="subNav">
-<ul class="navList">
-<li>Prev</li>
-<li>Next</li>
-</ul>
-<ul class="navList">
-<li><a href="../../../../index.html?jcgp/backend/modules/class-use/Module.html" target="_top">Frames</a></li>
-<li><a href="Module.html" target="_top">No&nbsp;Frames</a></li>
-</ul>
-<ul class="navList" id="allclasses_navbar_top">
-<li><a href="../../../../allclasses-noframe.html">All&nbsp;Classes</a></li>
-</ul>
-<div>
-<script type="text/javascript"><!--
- allClassesLink = document.getElementById("allclasses_navbar_top");
- if(window==top) {
- allClassesLink.style.display = "block";
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-<!-- ========= END OF TOP NAVBAR ========= -->
-<div class="header">
-<h2 title="Uses of Class jcgp.backend.modules.Module" class="title">Uses of Class<br>jcgp.backend.modules.Module</h2>
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-<tr>
-<th class="colFirst" scope="col">Package</th>
-<th class="colLast" scope="col">Description</th>
-</tr>
-<tbody>
-<tr class="altColor">
-<td class="colFirst"><a href="#jcgp.backend.modules.es">jcgp.backend.modules.es</a></td>
-<td class="colLast">&nbsp;</td>
-</tr>
-<tr class="rowColor">
-<td class="colFirst"><a href="#jcgp.backend.modules.mutator">jcgp.backend.modules.mutator</a></td>
-<td class="colLast">&nbsp;</td>
-</tr>
-<tr class="altColor">
-<td class="colFirst"><a href="#jcgp.backend.modules.problem">jcgp.backend.modules.problem</a></td>
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-<table class="useSummary" border="0" cellpadding="3" cellspacing="0" summary="Use table, listing subclasses, and an explanation">
-<caption><span>Subclasses of <a href="../../../../jcgp/backend/modules/Module.html" title="class in jcgp.backend.modules">Module</a> in <a href="../../../../jcgp/backend/modules/es/package-summary.html">jcgp.backend.modules.es</a></span><span class="tabEnd">&nbsp;</span></caption>
-<tr>
-<th class="colFirst" scope="col">Modifier and Type</th>
-<th class="colLast" scope="col">Class and Description</th>
-</tr>
-<tbody>
-<tr class="altColor">
-<td class="colFirst"><code>class&nbsp;</code></td>
-<td class="colLast"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/es/EvolutionaryStrategy.html" title="class in jcgp.backend.modules.es">EvolutionaryStrategy</a></span></code>
-<div class="block">This class specifies the characteristics of an evolutionary strategy.</div>
-</td>
-</tr>
-<tr class="rowColor">
-<td class="colFirst"><code>class&nbsp;</code></td>
-<td class="colLast"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/es/MuPlusLambda.html" title="class in jcgp.backend.modules.es">MuPlusLambda</a></span></code>
-<div class="block">(μ + λ)-ES
- <br><br>
- This strategy selects the μ fittest chromosomes from the population.</div>
-</td>
-</tr>
-<tr class="altColor">
-<td class="colFirst"><code>class&nbsp;</code></td>
-<td class="colLast"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/es/TournamentSelection.html" title="class in jcgp.backend.modules.es">TournamentSelection</a></span></code>
-<div class="block">Tournament selection
- <br><br>
- This strategy generates a new population by selecting a specified number
- of chromosomes from the original population and selecting the fittest out
- of the isolated subset (the tournament).</div>
-</td>
-</tr>
-</tbody>
-</table>
-</li>
-<li class="blockList"><a name="jcgp.backend.modules.mutator">
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-<h3>Uses of <a href="../../../../jcgp/backend/modules/Module.html" title="class in jcgp.backend.modules">Module</a> in <a href="../../../../jcgp/backend/modules/mutator/package-summary.html">jcgp.backend.modules.mutator</a></h3>
-<table class="useSummary" border="0" cellpadding="3" cellspacing="0" summary="Use table, listing subclasses, and an explanation">
-<caption><span>Subclasses of <a href="../../../../jcgp/backend/modules/Module.html" title="class in jcgp.backend.modules">Module</a> in <a href="../../../../jcgp/backend/modules/mutator/package-summary.html">jcgp.backend.modules.mutator</a></span><span class="tabEnd">&nbsp;</span></caption>
-<tr>
-<th class="colFirst" scope="col">Modifier and Type</th>
-<th class="colLast" scope="col">Class and Description</th>
-</tr>
-<tbody>
-<tr class="altColor">
-<td class="colFirst"><code>class&nbsp;</code></td>
-<td class="colLast"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/mutator/FixedPointMutator.html" title="class in jcgp.backend.modules.mutator">FixedPointMutator</a></span></code>
-<div class="block">Fixed point mutator
- <br><br>
- This operator uses the point mutator
- algorithm to mutate a user-defined fixed
- number of genes.</div>
-</td>
-</tr>
-<tr class="rowColor">
-<td class="colFirst"><code>class&nbsp;</code></td>
-<td class="colLast"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/mutator/Mutator.html" title="class in jcgp.backend.modules.mutator">Mutator</a></span></code>
-<div class="block">This class specifies the basic characteristics of a mutation operator.</div>
-</td>
-</tr>
-<tr class="altColor">
-<td class="colFirst"><code>class&nbsp;</code></td>
-<td class="colLast"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/mutator/PercentPointMutator.html" title="class in jcgp.backend.modules.mutator">PercentPointMutator</a></span></code>
-<div class="block">Percent point mutator
- <br><br>
- This operator calculates how many genes to mutate based on the mutation rate
- parameter.</div>
-</td>
-</tr>
-<tr class="rowColor">
-<td class="colFirst"><code>class&nbsp;</code></td>
-<td class="colLast"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/mutator/PointMutator.html" title="class in jcgp.backend.modules.mutator">PointMutator</a></span></code>
-<div class="block">Point mutator
- <br><br>
- In point mutation, a number of random genes
- is picked and mutated until all required
- mutations have been performed.</div>
-</td>
-</tr>
-<tr class="altColor">
-<td class="colFirst"><code>class&nbsp;</code></td>
-<td class="colLast"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/mutator/ProbabilisticMutator.html" title="class in jcgp.backend.modules.mutator">ProbabilisticMutator</a></span></code>
-<div class="block">Probabilistic mutator
- <br><br>
- This operator iterates through every mutable gene in the chromosome and
- decides whether to mutate each of them individually.</div>
-</td>
-</tr>
-</tbody>
-</table>
-</li>
-<li class="blockList"><a name="jcgp.backend.modules.problem">
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-</a>
-<h3>Uses of <a href="../../../../jcgp/backend/modules/Module.html" title="class in jcgp.backend.modules">Module</a> in <a href="../../../../jcgp/backend/modules/problem/package-summary.html">jcgp.backend.modules.problem</a></h3>
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-<caption><span>Subclasses of <a href="../../../../jcgp/backend/modules/Module.html" title="class in jcgp.backend.modules">Module</a> in <a href="../../../../jcgp/backend/modules/problem/package-summary.html">jcgp.backend.modules.problem</a></span><span class="tabEnd">&nbsp;</span></caption>
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-<th class="colFirst" scope="col">Modifier and Type</th>
-<th class="colLast" scope="col">Class and Description</th>
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-<tbody>
-<tr class="altColor">
-<td class="colFirst"><code>class&nbsp;</code></td>
-<td class="colLast"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/problem/DigitalCircuitProblem.html" title="class in jcgp.backend.modules.problem">DigitalCircuitProblem</a></span></code>
-<div class="block">Digital circuit problem
- <br><br>
- Using this problem type, digital logic circuits can be evolved.</div>
-</td>
-</tr>
-<tr class="rowColor">
-<td class="colFirst"><code>class&nbsp;</code></td>
-<td class="colLast"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/problem/Problem.html" title="class in jcgp.backend.modules.problem">Problem</a></span></code>
-<div class="block">Defines the general behaviour of a CGP problem.</div>
-</td>
-</tr>
-<tr class="altColor">
-<td class="colFirst"><code>class&nbsp;</code></td>
-<td class="colLast"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/problem/SymbolicRegressionProblem.html" title="class in jcgp.backend.modules.problem">SymbolicRegressionProblem</a></span></code>
-<div class="block">Symbolic regression functions
- <br><br>
- Using this problem type, regression problems can be solved.</div>
-</td>
-</tr>
-<tr class="rowColor">
-<td class="colFirst"><code>class&nbsp;</code></td>
-<td class="colLast"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.html" title="class in jcgp.backend.modules.problem">TestCaseProblem</a>&lt;T&gt;</span></code>
-<div class="block">Abstract model for a problem that uses test cases.</div>
-</td>
-</tr>
-</tbody>
-</table>
-</li>
-</ul>
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diff --git a/doc/jcgp/backend/modules/es/EvolutionaryStrategy.html b/doc/jcgp/backend/modules/es/EvolutionaryStrategy.html
deleted file mode 100644
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-<div class="subTitle">jcgp.backend.modules.es</div>
-<h2 title="Class EvolutionaryStrategy" class="title">Class EvolutionaryStrategy</h2>
-</div>
-<div class="contentContainer">
-<ul class="inheritance">
-<li>java.lang.Object</li>
-<li>
-<ul class="inheritance">
-<li><a href="../../../../jcgp/backend/modules/Module.html" title="class in jcgp.backend.modules">jcgp.backend.modules.Module</a></li>
-<li>
-<ul class="inheritance">
-<li>jcgp.backend.modules.es.EvolutionaryStrategy</li>
-</ul>
-</li>
-</ul>
-</li>
-</ul>
-<div class="description">
-<ul class="blockList">
-<li class="blockList">
-<dl>
-<dt>Direct Known Subclasses:</dt>
-<dd><a href="../../../../jcgp/backend/modules/es/MuPlusLambda.html" title="class in jcgp.backend.modules.es">MuPlusLambda</a>, <a href="../../../../jcgp/backend/modules/es/TournamentSelection.html" title="class in jcgp.backend.modules.es">TournamentSelection</a></dd>
-</dl>
-<hr>
-<br>
-<pre>public abstract class <span class="typeNameLabel">EvolutionaryStrategy</span>
-extends <a href="../../../../jcgp/backend/modules/Module.html" title="class in jcgp.backend.modules">Module</a></pre>
-<div class="block">This class specifies the characteristics of an evolutionary strategy. The evolutionary
- strategy's job is to generate the next population of solutions. In JCGP this is done by modifying
- the provided population object rather than creating a new one.
- <br><br>
- A typical implementation of EvolutionaryStratey iterates through the chromosomes
- in the population and selects the individual(s) to be promoted. It then uses
- <code>mutator.mutate()</code> to generically mutate the promoted individual(s). Parameter-dependent
- strategies can be implemented by accessing the parameters via the resources
- argument.
- <br><br>
- Parameters may be specified to control the implemented strategy. Any parameters
- registered with <code>registerParameters()</code> should be displayed by the user interface,
- if it is being used. See <a href="../../../../jcgp/backend/modules/Module.html" title="class in jcgp.backend.modules"><code>Module</code></a> for more information.
- <br><br>
- It is advisable to use <code>Resources.reportln()</code> and <code>Resources.report()</code>
- to print any relevant information. Note that reportln() and report() are affected
- by the report interval base parameter. Use <code>Resources.println()</code> and
- <code>Resources.print()</code> to print information regardless of the current generation.
- See <a href="../../../../jcgp/backend/resources/Resources.html" title="class in jcgp.backend.resources"><code>Resources</code></a> for more information.</div>
-<dl>
-<dt><span class="simpleTagLabel">Author:</span></dt>
-<dd>Eduardo Pedroni</dd>
-<dt><span class="seeLabel">See Also:</span></dt>
-<dd><a href="../../../../jcgp/backend/modules/Module.html" title="class in jcgp.backend.modules"><code>Module</code></a></dd>
-</dl>
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-</ul>
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-<table class="memberSummary" border="0" cellpadding="3" cellspacing="0" summary="Method Summary table, listing methods, and an explanation">
-<caption><span id="t0" class="activeTableTab"><span>All Methods</span><span class="tabEnd">&nbsp;</span></span><span id="t2" class="tableTab"><span><a href="javascript:show(2);">Instance Methods</a></span><span class="tabEnd">&nbsp;</span></span><span id="t3" class="tableTab"><span><a href="javascript:show(4);">Abstract Methods</a></span><span class="tabEnd">&nbsp;</span></span></caption>
-<tr>
-<th class="colFirst" scope="col">Modifier and Type</th>
-<th class="colLast" scope="col">Method and Description</th>
-</tr>
-<tr id="i0" class="altColor">
-<td class="colFirst"><code>abstract void</code></td>
-<td class="colLast"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/es/EvolutionaryStrategy.html#evolve-jcgp.backend.population.Population-jcgp.backend.modules.mutator.Mutator-">evolve</a></span>(<a href="../../../../jcgp/backend/population/Population.html" title="class in jcgp.backend.population">Population</a>&nbsp;population,
- <a href="../../../../jcgp/backend/modules/mutator/Mutator.html" title="class in jcgp.backend.modules.mutator">Mutator</a>&nbsp;mutator)</code>
-<div class="block">Performs the selection algorithm and uses the mutator to create
- the next generation of solutions.</div>
-</td>
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-</table>
-<ul class="blockList">
-<li class="blockList"><a name="methods.inherited.from.class.jcgp.backend.modules.Module">
-<!-- -->
-</a>
-<h3>Methods inherited from class&nbsp;jcgp.backend.modules.<a href="../../../../jcgp/backend/modules/Module.html" title="class in jcgp.backend.modules">Module</a></h3>
-<code><a href="../../../../jcgp/backend/modules/Module.html#getLocalParameters--">getLocalParameters</a>, <a href="../../../../jcgp/backend/modules/Module.html#toString--">toString</a></code></li>
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-<code>equals, getClass, hashCode, notify, notifyAll, wait, wait, wait</code></li>
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-<h4>evolve</h4>
-<pre>public abstract&nbsp;void&nbsp;evolve(<a href="../../../../jcgp/backend/population/Population.html" title="class in jcgp.backend.population">Population</a>&nbsp;population,
- <a href="../../../../jcgp/backend/modules/mutator/Mutator.html" title="class in jcgp.backend.modules.mutator">Mutator</a>&nbsp;mutator)</pre>
-<div class="block">Performs the selection algorithm and uses the mutator to create
- the next generation of solutions.</div>
-<dl>
-<dt><span class="paramLabel">Parameters:</span></dt>
-<dd><code>population</code> - the population to evolve.</dd>
-<dd><code>mutator</code> - the mutator with which to mutate the promoted individuals.</dd>
-</dl>
-</li>
-</ul>
-</li>
-</ul>
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diff --git a/doc/jcgp/backend/modules/es/MuPlusLambda.html b/doc/jcgp/backend/modules/es/MuPlusLambda.html
deleted file mode 100644
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-<li>
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-<li>
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-<li>jcgp.backend.modules.es.MuPlusLambda</li>
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-extends <a href="../../../../jcgp/backend/modules/es/EvolutionaryStrategy.html" title="class in jcgp.backend.modules.es">EvolutionaryStrategy</a></pre>
-<div class="block">(μ + λ)-ES
- <br><br>
- This strategy selects the μ fittest chromosomes from the population.
- The promoted individuals are copied into the new population and mutated
- λ times, but also carried forward unchanged. The total population size
- is μ + λ.
- <br><br>
- Two integer parameters are used to control this strategy: parents
- and offspring. They are constrained in that they must always add up to
- the population size, and must never be smaller than 1.
- <br>
- One additional parameter, report, controls whether a detailed log of the
- algorithm's operation is to be printed or not. Reports respect the report
- interval base parameter.</div>
-<dl>
-<dt><span class="simpleTagLabel">Author:</span></dt>
-<dd>Eduardo Pedroni</dd>
-<dt><span class="seeLabel">See Also:</span></dt>
-<dd><a href="../../../../jcgp/backend/modules/es/EvolutionaryStrategy.html" title="class in jcgp.backend.modules.es"><code>EvolutionaryStrategy</code></a></dd>
-</dl>
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-<caption><span>Constructors</span><span class="tabEnd">&nbsp;</span></caption>
-<tr>
-<th class="colOne" scope="col">Constructor and Description</th>
-</tr>
-<tr class="altColor">
-<td class="colOne"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/es/MuPlusLambda.html#MuPlusLambda-jcgp.backend.resources.Resources-">MuPlusLambda</a></span>(<a href="../../../../jcgp/backend/resources/Resources.html" title="class in jcgp.backend.resources">Resources</a>&nbsp;resources)</code>
-<div class="block">Creates a new instance of MuPlusLambda.</div>
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-<caption><span id="t0" class="activeTableTab"><span>All Methods</span><span class="tabEnd">&nbsp;</span></span><span id="t2" class="tableTab"><span><a href="javascript:show(2);">Instance Methods</a></span><span class="tabEnd">&nbsp;</span></span><span id="t4" class="tableTab"><span><a href="javascript:show(8);">Concrete Methods</a></span><span class="tabEnd">&nbsp;</span></span></caption>
-<tr>
-<th class="colFirst" scope="col">Modifier and Type</th>
-<th class="colLast" scope="col">Method and Description</th>
-</tr>
-<tr id="i0" class="altColor">
-<td class="colFirst"><code>void</code></td>
-<td class="colLast"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/es/MuPlusLambda.html#evolve-jcgp.backend.population.Population-jcgp.backend.modules.mutator.Mutator-">evolve</a></span>(<a href="../../../../jcgp/backend/population/Population.html" title="class in jcgp.backend.population">Population</a>&nbsp;population,
- <a href="../../../../jcgp/backend/modules/mutator/Mutator.html" title="class in jcgp.backend.modules.mutator">Mutator</a>&nbsp;mutator)</code>
-<div class="block">Performs the selection algorithm and uses the mutator to create
- the next generation of solutions.</div>
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-<pre>public&nbsp;MuPlusLambda(<a href="../../../../jcgp/backend/resources/Resources.html" title="class in jcgp.backend.resources">Resources</a>&nbsp;resources)</pre>
-<div class="block">Creates a new instance of MuPlusLambda.</div>
-<dl>
-<dt><span class="paramLabel">Parameters:</span></dt>
-<dd><code>resources</code> - a reference to the experiment's resources.</dd>
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-<pre>public&nbsp;void&nbsp;evolve(<a href="../../../../jcgp/backend/population/Population.html" title="class in jcgp.backend.population">Population</a>&nbsp;population,
- <a href="../../../../jcgp/backend/modules/mutator/Mutator.html" title="class in jcgp.backend.modules.mutator">Mutator</a>&nbsp;mutator)</pre>
-<div class="block"><span class="descfrmTypeLabel">Description copied from class:&nbsp;<code><a href="../../../../jcgp/backend/modules/es/EvolutionaryStrategy.html#evolve-jcgp.backend.population.Population-jcgp.backend.modules.mutator.Mutator-">EvolutionaryStrategy</a></code></span></div>
-<div class="block">Performs the selection algorithm and uses the mutator to create
- the next generation of solutions.</div>
-<dl>
-<dt><span class="overrideSpecifyLabel">Specified by:</span></dt>
-<dd><code><a href="../../../../jcgp/backend/modules/es/EvolutionaryStrategy.html#evolve-jcgp.backend.population.Population-jcgp.backend.modules.mutator.Mutator-">evolve</a></code>&nbsp;in class&nbsp;<code><a href="../../../../jcgp/backend/modules/es/EvolutionaryStrategy.html" title="class in jcgp.backend.modules.es">EvolutionaryStrategy</a></code></dd>
-<dt><span class="paramLabel">Parameters:</span></dt>
-<dd><code>population</code> - the population to evolve.</dd>
-<dd><code>mutator</code> - the mutator with which to mutate the promoted individuals.</dd>
-</dl>
-</li>
-</ul>
-</li>
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diff --git a/doc/jcgp/backend/modules/es/TournamentSelection.html b/doc/jcgp/backend/modules/es/TournamentSelection.html
deleted file mode 100644
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-<div class="subTitle">jcgp.backend.modules.es</div>
-<h2 title="Class TournamentSelection" class="title">Class TournamentSelection</h2>
-</div>
-<div class="contentContainer">
-<ul class="inheritance">
-<li>java.lang.Object</li>
-<li>
-<ul class="inheritance">
-<li><a href="../../../../jcgp/backend/modules/Module.html" title="class in jcgp.backend.modules">jcgp.backend.modules.Module</a></li>
-<li>
-<ul class="inheritance">
-<li><a href="../../../../jcgp/backend/modules/es/EvolutionaryStrategy.html" title="class in jcgp.backend.modules.es">jcgp.backend.modules.es.EvolutionaryStrategy</a></li>
-<li>
-<ul class="inheritance">
-<li>jcgp.backend.modules.es.TournamentSelection</li>
-</ul>
-</li>
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-<div class="block">Tournament selection
- <br><br>
- This strategy generates a new population by selecting a specified number
- of chromosomes from the original population and selecting the fittest out
- of the isolated subset (the tournament). The selected individual is mutated
- using the specified mutator. This process is repeated until the new population
- is complete.
- <br><br>
- One integer parameter is used to control this strategy: tournament
- size. This must always be greater than 0 and smaller than or equal to the
- population size. Setting it to equal population size results in the same
- chromosome being selected for every tournament, and setting it to 1 leads
- to an effectively random search.
- <br>
- One additional parameter, report, controls whether a detailed log of the
- algorithm's operation is to be printed or not. Reports respect the report
- interval base parameter.</div>
-<dl>
-<dt><span class="simpleTagLabel">Author:</span></dt>
-<dd>Eduardo Pedroni</dd>
-<dt><span class="seeLabel">See Also:</span></dt>
-<dd><a href="../../../../jcgp/backend/modules/es/EvolutionaryStrategy.html" title="class in jcgp.backend.modules.es"><code>EvolutionaryStrategy</code></a></dd>
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-<div class="block">Creates a new instance of TournamentSelection.</div>
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-<td class="colFirst"><code>void</code></td>
-<td class="colLast"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/es/TournamentSelection.html#evolve-jcgp.backend.population.Population-jcgp.backend.modules.mutator.Mutator-">evolve</a></span>(<a href="../../../../jcgp/backend/population/Population.html" title="class in jcgp.backend.population">Population</a>&nbsp;population,
- <a href="../../../../jcgp/backend/modules/mutator/Mutator.html" title="class in jcgp.backend.modules.mutator">Mutator</a>&nbsp;mutator)</code>
-<div class="block">Performs the selection algorithm and uses the mutator to create
- the next generation of solutions.</div>
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-<div class="block">Creates a new instance of TournamentSelection.</div>
-<dl>
-<dt><span class="paramLabel">Parameters:</span></dt>
-<dd><code>resources</code> - a reference to the experiment's resources.</dd>
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-<pre>public&nbsp;void&nbsp;evolve(<a href="../../../../jcgp/backend/population/Population.html" title="class in jcgp.backend.population">Population</a>&nbsp;population,
- <a href="../../../../jcgp/backend/modules/mutator/Mutator.html" title="class in jcgp.backend.modules.mutator">Mutator</a>&nbsp;mutator)</pre>
-<div class="block"><span class="descfrmTypeLabel">Description copied from class:&nbsp;<code><a href="../../../../jcgp/backend/modules/es/EvolutionaryStrategy.html#evolve-jcgp.backend.population.Population-jcgp.backend.modules.mutator.Mutator-">EvolutionaryStrategy</a></code></span></div>
-<div class="block">Performs the selection algorithm and uses the mutator to create
- the next generation of solutions.</div>
-<dl>
-<dt><span class="overrideSpecifyLabel">Specified by:</span></dt>
-<dd><code><a href="../../../../jcgp/backend/modules/es/EvolutionaryStrategy.html#evolve-jcgp.backend.population.Population-jcgp.backend.modules.mutator.Mutator-">evolve</a></code>&nbsp;in class&nbsp;<code><a href="../../../../jcgp/backend/modules/es/EvolutionaryStrategy.html" title="class in jcgp.backend.modules.es">EvolutionaryStrategy</a></code></dd>
-<dt><span class="paramLabel">Parameters:</span></dt>
-<dd><code>population</code> - the population to evolve.</dd>
-<dd><code>mutator</code> - the mutator with which to mutate the promoted individuals.</dd>
-</dl>
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-<div class="block">(μ + λ)-ES
- <br><br>
- This strategy selects the μ fittest chromosomes from the population.</div>
-</td>
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-<tr class="rowColor">
-<td class="colFirst"><code>class&nbsp;</code></td>
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-<div class="block">Tournament selection
- <br><br>
- This strategy generates a new population by selecting a specified number
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-<div class="block">This class specifies the characteristics of an evolutionary strategy.</div>
-</td>
-</tr>
-<tr class="rowColor">
-<td class="colFirst"><a href="../../../../jcgp/backend/modules/es/MuPlusLambda.html" title="class in jcgp.backend.modules.es">MuPlusLambda</a></td>
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-<div class="block">(μ + λ)-ES
- <br><br>
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-<tr class="altColor">
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- <br><br>
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- of chromosomes from the original population and selecting the fittest out
- of the isolated subset (the tournament).</div>
-</td>
-</tr>
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diff --git a/doc/jcgp/backend/modules/es/package-tree.html b/doc/jcgp/backend/modules/es/package-tree.html
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diff --git a/doc/jcgp/backend/modules/es/package-use.html b/doc/jcgp/backend/modules/es/package-use.html
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-<tr>
-<th class="colFirst" scope="col">Package</th>
-<th class="colLast" scope="col">Description</th>
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-<tr class="altColor">
-<td class="colFirst"><a href="#jcgp">jcgp</a></td>
-<td class="colLast">&nbsp;</td>
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-<td class="colFirst"><a href="#jcgp.backend.modules.es">jcgp.backend.modules.es</a></td>
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-<th class="colOne" scope="col">Class and Description</th>
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-<tbody>
-<tr class="altColor">
-<td class="colOne"><a href="../../../../jcgp/backend/modules/es/class-use/EvolutionaryStrategy.html#jcgp">EvolutionaryStrategy</a>
-<div class="block">This class specifies the characteristics of an evolutionary strategy.</div>
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-<tr class="altColor">
-<td class="colOne"><a href="../../../../jcgp/backend/modules/es/class-use/EvolutionaryStrategy.html#jcgp.backend.modules.es">EvolutionaryStrategy</a>
-<div class="block">This class specifies the characteristics of an evolutionary strategy.</div>
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diff --git a/doc/jcgp/backend/modules/mutator/FixedPointMutator.html b/doc/jcgp/backend/modules/mutator/FixedPointMutator.html
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-<script type="text/javascript"><!--
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-<h2 title="Class FixedPointMutator" class="title">Class FixedPointMutator</h2>
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-<div class="block">Fixed point mutator
- <br><br>
- This operator uses the point mutator
- algorithm to mutate a user-defined fixed
- number of genes.</div>
-<dl>
-<dt><span class="simpleTagLabel">Author:</span></dt>
-<dd>Eduardo Pedroni</dd>
-<dt><span class="seeLabel">See Also:</span></dt>
-<dd><a href="../../../../jcgp/backend/modules/mutator/PointMutator.html" title="class in jcgp.backend.modules.mutator"><code>PointMutator</code></a></dd>
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-<h2 title="Class Mutator" class="title">Class Mutator</h2>
-</div>
-<div class="contentContainer">
-<ul class="inheritance">
-<li>java.lang.Object</li>
-<li>
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-<li><a href="../../../../jcgp/backend/modules/Module.html" title="class in jcgp.backend.modules">jcgp.backend.modules.Module</a></li>
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-<div class="block">This class specifies the basic characteristics of a mutation operator. Its job is
- to modify the connections and functions of the chromosome according to the operator's
- parameters.
- <br><br>
- Parameters may be specified to control the implemented mutation. Any parameters
- registered with <code>registerParameters()</code> should be displayed by the user interface,
- if it is being used. See <a href="../../../../jcgp/backend/modules/Module.html" title="class in jcgp.backend.modules"><code>Module</code></a> for more information.
- <br><br>
- It is advisable to use <code>Resources.reportln()</code> and <code>Resources.report()</code>
- to print any relevant information. Note that reportln() and report() are affected
- by the report interval base parameter. Use <code>Resources.println()</code> and
- <code>Resources.print()</code> to print information regardless of the current generation.
- See <a href="../../../../jcgp/backend/resources/Resources.html" title="class in jcgp.backend.resources"><code>Resources</code></a> for more information.</div>
-<dl>
-<dt><span class="simpleTagLabel">Author:</span></dt>
-<dd>Eduardo Pedroni</dd>
-<dt><span class="seeLabel">See Also:</span></dt>
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-<td class="colFirst"><code>abstract void</code></td>
-<td class="colLast"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/mutator/Mutator.html#mutate-jcgp.backend.population.Chromosome-">mutate</a></span>(<a href="../../../../jcgp/backend/population/Chromosome.html" title="class in jcgp.backend.population">Chromosome</a>&nbsp;chromosome)</code>
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-<div class="block">Applies mutations to the specified chromosome according
- to the parameter values.</div>
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-<dt><span class="paramLabel">Parameters:</span></dt>
-<dd><code>chromosome</code> - the chromosome to mutate.</dd>
-</dl>
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diff --git a/doc/jcgp/backend/modules/mutator/PercentPointMutator.html b/doc/jcgp/backend/modules/mutator/PercentPointMutator.html
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-<h2 title="Class PercentPointMutator" class="title">Class PercentPointMutator</h2>
-</div>
-<div class="contentContainer">
-<ul class="inheritance">
-<li>java.lang.Object</li>
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-<div class="block">Percent point mutator
- <br><br>
- This operator calculates how many genes to mutate based on the mutation rate
- parameter. The total number of genes is computed from the number of nodes,
- the arity and the number of outputs. It then uses the point mutation
- algorithm to perform the required number of mutations.</div>
-<dl>
-<dt><span class="simpleTagLabel">Author:</span></dt>
-<dd>Eduardo Pedroni</dd>
-<dt><span class="seeLabel">See Also:</span></dt>
-<dd><a href="../../../../jcgp/backend/modules/mutator/PointMutator.html" title="class in jcgp.backend.modules.mutator"><code>PointMutator</code></a></dd>
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-<td class="colOne"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/mutator/PercentPointMutator.html#PercentPointMutator-jcgp.backend.resources.Resources-">PercentPointMutator</a></span>(<a href="../../../../jcgp/backend/resources/Resources.html" title="class in jcgp.backend.resources">Resources</a>&nbsp;resources)</code>
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-<h2 title="Class PointMutator" class="title">Class PointMutator</h2>
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-<div class="block">Point mutator
- <br><br>
- In point mutation, a number of random genes
- is picked and mutated until all required
- mutations have been performed. The actual number
- of genes to be mutated can be defined in any
- arbitrary way.</div>
-<dl>
-<dt><span class="simpleTagLabel">Author:</span></dt>
-<dd>Eduardo Pedroni</dd>
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-<td class="colFirst"><code>void</code></td>
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-<div class="block">Applies mutations to the specified chromosome according
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diff --git a/doc/jcgp/backend/modules/mutator/ProbabilisticMutator.html b/doc/jcgp/backend/modules/mutator/ProbabilisticMutator.html
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-<h2 title="Class ProbabilisticMutator" class="title">Class ProbabilisticMutator</h2>
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-<li>java.lang.Object</li>
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-<li><a href="../../../../jcgp/backend/modules/Module.html" title="class in jcgp.backend.modules">jcgp.backend.modules.Module</a></li>
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-<ul class="inheritance">
-<li><a href="../../../../jcgp/backend/modules/mutator/Mutator.html" title="class in jcgp.backend.modules.mutator">jcgp.backend.modules.mutator.Mutator</a></li>
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-<li>jcgp.backend.modules.mutator.ProbabilisticMutator</li>
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-<pre>public class <span class="typeNameLabel">ProbabilisticMutator</span>
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-<div class="block">Probabilistic mutator
- <br><br>
- This operator iterates through every mutable gene in the chromosome and
- decides whether to mutate each of them individually.
- The decision is made based on the difference between the mutation probability
- and a randomly generated double between 0 and 100.</div>
-<dl>
-<dt><span class="simpleTagLabel">Author:</span></dt>
-<dd>Eduardo Pedroni</dd>
-<dt><span class="seeLabel">See Also:</span></dt>
-<dd><a href="../../../../jcgp/backend/modules/mutator/Mutator.html" title="class in jcgp.backend.modules.mutator"><code>Mutator</code></a></dd>
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-<td class="colOne"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/mutator/ProbabilisticMutator.html#ProbabilisticMutator-jcgp.backend.resources.Resources-">ProbabilisticMutator</a></span>(<a href="../../../../jcgp/backend/resources/Resources.html" title="class in jcgp.backend.resources">Resources</a>&nbsp;resources)</code>
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-<td class="colFirst"><code>void</code></td>
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-<div class="block">Creates a new instance of ProbabilisticMutator.</div>
-<dl>
-<dt><span class="paramLabel">Parameters:</span></dt>
-<dd><code>resources</code> - a reference to the experiment's resources.</dd>
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-<div class="block"><span class="descfrmTypeLabel">Description copied from class:&nbsp;<code><a href="../../../../jcgp/backend/modules/mutator/Mutator.html#mutate-jcgp.backend.population.Chromosome-">Mutator</a></code></span></div>
-<div class="block">Applies mutations to the specified chromosome according
- to the parameter values.</div>
-<dl>
-<dt><span class="overrideSpecifyLabel">Specified by:</span></dt>
-<dd><code><a href="../../../../jcgp/backend/modules/mutator/Mutator.html#mutate-jcgp.backend.population.Chromosome-">mutate</a></code>&nbsp;in class&nbsp;<code><a href="../../../../jcgp/backend/modules/mutator/Mutator.html" title="class in jcgp.backend.modules.mutator">Mutator</a></code></dd>
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-<dd><code>chromosome</code> - the chromosome to mutate.</dd>
-</dl>
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-<td class="colFirst"><a href="#jcgp.backend.modules.mutator">jcgp.backend.modules.mutator</a></td>
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-<table class="useSummary" border="0" cellpadding="3" cellspacing="0" summary="Use table, listing methods, and an explanation">
-<caption><span>Methods in <a href="../../../../../jcgp/package-summary.html">jcgp</a> that return <a href="../../../../../jcgp/backend/modules/mutator/Mutator.html" title="class in jcgp.backend.modules.mutator">Mutator</a></span><span class="tabEnd">&nbsp;</span></caption>
-<tr>
-<th class="colFirst" scope="col">Modifier and Type</th>
-<th class="colLast" scope="col">Method and Description</th>
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-<tbody>
-<tr class="altColor">
-<td class="colFirst"><code><a href="../../../../../jcgp/backend/modules/mutator/Mutator.html" title="class in jcgp.backend.modules.mutator">Mutator</a></code></td>
-<td class="colLast"><span class="typeNameLabel">JCGP.</span><code><span class="memberNameLink"><a href="../../../../../jcgp/JCGP.html#getMutator--">getMutator</a></span>()</code>&nbsp;</td>
-</tr>
-<tr class="rowColor">
-<td class="colFirst"><code><a href="../../../../../jcgp/backend/modules/mutator/Mutator.html" title="class in jcgp.backend.modules.mutator">Mutator</a>[]</code></td>
-<td class="colLast"><span class="typeNameLabel">JCGP.</span><code><span class="memberNameLink"><a href="../../../../../jcgp/JCGP.html#getMutators--">getMutators</a></span>()</code>&nbsp;</td>
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-<h3>Uses of <a href="../../../../../jcgp/backend/modules/mutator/Mutator.html" title="class in jcgp.backend.modules.mutator">Mutator</a> in <a href="../../../../../jcgp/backend/modules/es/package-summary.html">jcgp.backend.modules.es</a></h3>
-<table class="useSummary" border="0" cellpadding="3" cellspacing="0" summary="Use table, listing methods, and an explanation">
-<caption><span>Methods in <a href="../../../../../jcgp/backend/modules/es/package-summary.html">jcgp.backend.modules.es</a> with parameters of type <a href="../../../../../jcgp/backend/modules/mutator/Mutator.html" title="class in jcgp.backend.modules.mutator">Mutator</a></span><span class="tabEnd">&nbsp;</span></caption>
-<tr>
-<th class="colFirst" scope="col">Modifier and Type</th>
-<th class="colLast" scope="col">Method and Description</th>
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-<tr class="altColor">
-<td class="colFirst"><code>void</code></td>
-<td class="colLast"><span class="typeNameLabel">TournamentSelection.</span><code><span class="memberNameLink"><a href="../../../../../jcgp/backend/modules/es/TournamentSelection.html#evolve-jcgp.backend.population.Population-jcgp.backend.modules.mutator.Mutator-">evolve</a></span>(<a href="../../../../../jcgp/backend/population/Population.html" title="class in jcgp.backend.population">Population</a>&nbsp;population,
- <a href="../../../../../jcgp/backend/modules/mutator/Mutator.html" title="class in jcgp.backend.modules.mutator">Mutator</a>&nbsp;mutator)</code>&nbsp;</td>
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-<tr class="rowColor">
-<td class="colFirst"><code>abstract void</code></td>
-<td class="colLast"><span class="typeNameLabel">EvolutionaryStrategy.</span><code><span class="memberNameLink"><a href="../../../../../jcgp/backend/modules/es/EvolutionaryStrategy.html#evolve-jcgp.backend.population.Population-jcgp.backend.modules.mutator.Mutator-">evolve</a></span>(<a href="../../../../../jcgp/backend/population/Population.html" title="class in jcgp.backend.population">Population</a>&nbsp;population,
- <a href="../../../../../jcgp/backend/modules/mutator/Mutator.html" title="class in jcgp.backend.modules.mutator">Mutator</a>&nbsp;mutator)</code>
-<div class="block">Performs the selection algorithm and uses the mutator to create
- the next generation of solutions.</div>
-</td>
-</tr>
-<tr class="altColor">
-<td class="colFirst"><code>void</code></td>
-<td class="colLast"><span class="typeNameLabel">MuPlusLambda.</span><code><span class="memberNameLink"><a href="../../../../../jcgp/backend/modules/es/MuPlusLambda.html#evolve-jcgp.backend.population.Population-jcgp.backend.modules.mutator.Mutator-">evolve</a></span>(<a href="../../../../../jcgp/backend/population/Population.html" title="class in jcgp.backend.population">Population</a>&nbsp;population,
- <a href="../../../../../jcgp/backend/modules/mutator/Mutator.html" title="class in jcgp.backend.modules.mutator">Mutator</a>&nbsp;mutator)</code>&nbsp;</td>
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-<table class="useSummary" border="0" cellpadding="3" cellspacing="0" summary="Use table, listing subclasses, and an explanation">
-<caption><span>Subclasses of <a href="../../../../../jcgp/backend/modules/mutator/Mutator.html" title="class in jcgp.backend.modules.mutator">Mutator</a> in <a href="../../../../../jcgp/backend/modules/mutator/package-summary.html">jcgp.backend.modules.mutator</a></span><span class="tabEnd">&nbsp;</span></caption>
-<tr>
-<th class="colFirst" scope="col">Modifier and Type</th>
-<th class="colLast" scope="col">Class and Description</th>
-</tr>
-<tbody>
-<tr class="altColor">
-<td class="colFirst"><code>class&nbsp;</code></td>
-<td class="colLast"><code><span class="memberNameLink"><a href="../../../../../jcgp/backend/modules/mutator/FixedPointMutator.html" title="class in jcgp.backend.modules.mutator">FixedPointMutator</a></span></code>
-<div class="block">Fixed point mutator
- <br><br>
- This operator uses the point mutator
- algorithm to mutate a user-defined fixed
- number of genes.</div>
-</td>
-</tr>
-<tr class="rowColor">
-<td class="colFirst"><code>class&nbsp;</code></td>
-<td class="colLast"><code><span class="memberNameLink"><a href="../../../../../jcgp/backend/modules/mutator/PercentPointMutator.html" title="class in jcgp.backend.modules.mutator">PercentPointMutator</a></span></code>
-<div class="block">Percent point mutator
- <br><br>
- This operator calculates how many genes to mutate based on the mutation rate
- parameter.</div>
-</td>
-</tr>
-<tr class="altColor">
-<td class="colFirst"><code>class&nbsp;</code></td>
-<td class="colLast"><code><span class="memberNameLink"><a href="../../../../../jcgp/backend/modules/mutator/PointMutator.html" title="class in jcgp.backend.modules.mutator">PointMutator</a></span></code>
-<div class="block">Point mutator
- <br><br>
- In point mutation, a number of random genes
- is picked and mutated until all required
- mutations have been performed.</div>
-</td>
-</tr>
-<tr class="rowColor">
-<td class="colFirst"><code>class&nbsp;</code></td>
-<td class="colLast"><code><span class="memberNameLink"><a href="../../../../../jcgp/backend/modules/mutator/ProbabilisticMutator.html" title="class in jcgp.backend.modules.mutator">ProbabilisticMutator</a></span></code>
-<div class="block">Probabilistic mutator
- <br><br>
- This operator iterates through every mutable gene in the chromosome and
- decides whether to mutate each of them individually.</div>
-</td>
-</tr>
-</tbody>
-</table>
-</li>
-</ul>
-</li>
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-<div class="bottomNav"><a name="navbar.bottom">
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diff --git a/doc/jcgp/backend/modules/mutator/class-use/PointMutator.html b/doc/jcgp/backend/modules/mutator/class-use/PointMutator.html
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-<link rel="stylesheet" type="text/css" href="../../../../../stylesheet.css" title="Style">
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-<li><a href="../../../../../jcgp/backend/modules/mutator/PointMutator.html" title="class in jcgp.backend.modules.mutator">Class</a></li>
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-<li><a href="../package-tree.html">Tree</a></li>
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-<h2 title="Uses of Class jcgp.backend.modules.mutator.PointMutator" class="title">Uses of Class<br>jcgp.backend.modules.mutator.PointMutator</h2>
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-<tr>
-<th class="colFirst" scope="col">Package</th>
-<th class="colLast" scope="col">Description</th>
-</tr>
-<tbody>
-<tr class="altColor">
-<td class="colFirst"><a href="#jcgp.backend.modules.mutator">jcgp.backend.modules.mutator</a></td>
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-<table class="useSummary" border="0" cellpadding="3" cellspacing="0" summary="Use table, listing subclasses, and an explanation">
-<caption><span>Subclasses of <a href="../../../../../jcgp/backend/modules/mutator/PointMutator.html" title="class in jcgp.backend.modules.mutator">PointMutator</a> in <a href="../../../../../jcgp/backend/modules/mutator/package-summary.html">jcgp.backend.modules.mutator</a></span><span class="tabEnd">&nbsp;</span></caption>
-<tr>
-<th class="colFirst" scope="col">Modifier and Type</th>
-<th class="colLast" scope="col">Class and Description</th>
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-<tbody>
-<tr class="altColor">
-<td class="colFirst"><code>class&nbsp;</code></td>
-<td class="colLast"><code><span class="memberNameLink"><a href="../../../../../jcgp/backend/modules/mutator/FixedPointMutator.html" title="class in jcgp.backend.modules.mutator">FixedPointMutator</a></span></code>
-<div class="block">Fixed point mutator
- <br><br>
- This operator uses the point mutator
- algorithm to mutate a user-defined fixed
- number of genes.</div>
-</td>
-</tr>
-<tr class="rowColor">
-<td class="colFirst"><code>class&nbsp;</code></td>
-<td class="colLast"><code><span class="memberNameLink"><a href="../../../../../jcgp/backend/modules/mutator/PercentPointMutator.html" title="class in jcgp.backend.modules.mutator">PercentPointMutator</a></span></code>
-<div class="block">Percent point mutator
- <br><br>
- This operator calculates how many genes to mutate based on the mutation rate
- parameter.</div>
-</td>
-</tr>
-</tbody>
-</table>
-</li>
-</ul>
-</li>
-</ul>
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-<!-- ======= START OF BOTTOM NAVBAR ====== -->
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-<li><a href="../../../../../overview-summary.html">Overview</a></li>
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-<li><a href="../../../../../jcgp/backend/modules/mutator/PointMutator.html" title="class in jcgp.backend.modules.mutator">Class</a></li>
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diff --git a/doc/jcgp/backend/modules/mutator/class-use/ProbabilisticMutator.html b/doc/jcgp/backend/modules/mutator/class-use/ProbabilisticMutator.html
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-<th class="colFirst" scope="col">Class</th>
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-<td class="colFirst"><a href="../../../../jcgp/backend/modules/mutator/FixedPointMutator.html" title="class in jcgp.backend.modules.mutator">FixedPointMutator</a></td>
-<td class="colLast">
-<div class="block">Fixed point mutator
- <br><br>
- This operator uses the point mutator
- algorithm to mutate a user-defined fixed
- number of genes.</div>
-</td>
-</tr>
-<tr class="rowColor">
-<td class="colFirst"><a href="../../../../jcgp/backend/modules/mutator/Mutator.html" title="class in jcgp.backend.modules.mutator">Mutator</a></td>
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-<div class="block">This class specifies the basic characteristics of a mutation operator.</div>
-</td>
-</tr>
-<tr class="altColor">
-<td class="colFirst"><a href="../../../../jcgp/backend/modules/mutator/PercentPointMutator.html" title="class in jcgp.backend.modules.mutator">PercentPointMutator</a></td>
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-<div class="block">Percent point mutator
- <br><br>
- This operator calculates how many genes to mutate based on the mutation rate
- parameter.</div>
-</td>
-</tr>
-<tr class="rowColor">
-<td class="colFirst"><a href="../../../../jcgp/backend/modules/mutator/PointMutator.html" title="class in jcgp.backend.modules.mutator">PointMutator</a></td>
-<td class="colLast">
-<div class="block">Point mutator
- <br><br>
- In point mutation, a number of random genes
- is picked and mutated until all required
- mutations have been performed.</div>
-</td>
-</tr>
-<tr class="altColor">
-<td class="colFirst"><a href="../../../../jcgp/backend/modules/mutator/ProbabilisticMutator.html" title="class in jcgp.backend.modules.mutator">ProbabilisticMutator</a></td>
-<td class="colLast">
-<div class="block">Probabilistic mutator
- <br><br>
- This operator iterates through every mutable gene in the chromosome and
- decides whether to mutate each of them individually.</div>
-</td>
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-<li type="circle">java.lang.Object
-<ul>
-<li type="circle">jcgp.backend.modules.<a href="../../../../jcgp/backend/modules/Module.html" title="class in jcgp.backend.modules"><span class="typeNameLink">Module</span></a>
-<ul>
-<li type="circle">jcgp.backend.modules.mutator.<a href="../../../../jcgp/backend/modules/mutator/Mutator.html" title="class in jcgp.backend.modules.mutator"><span class="typeNameLink">Mutator</span></a>
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-<li type="circle">jcgp.backend.modules.mutator.<a href="../../../../jcgp/backend/modules/mutator/PointMutator.html" title="class in jcgp.backend.modules.mutator"><span class="typeNameLink">PointMutator</span></a>
-<ul>
-<li type="circle">jcgp.backend.modules.mutator.<a href="../../../../jcgp/backend/modules/mutator/FixedPointMutator.html" title="class in jcgp.backend.modules.mutator"><span class="typeNameLink">FixedPointMutator</span></a></li>
-<li type="circle">jcgp.backend.modules.mutator.<a href="../../../../jcgp/backend/modules/mutator/PercentPointMutator.html" title="class in jcgp.backend.modules.mutator"><span class="typeNameLink">PercentPointMutator</span></a></li>
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-<div class="subTitle">jcgp.backend.modules.problem</div>
-<h2 title="Enum BestFitness" class="title">Enum BestFitness</h2>
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-<pre>public enum <span class="typeNameLabel">BestFitness</span>
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-<div class="block">Enum type to allow problems to indicate their fitness
- orientation.
- <br><br>
- <code>BestFitness.HIGH</code> means high fitness values are
- better than low. Conversely, <code>BestFitness.LOW</code>
- signals that low fitness values indicate better fitness
- than high values.</div>
-<dl>
-<dt><span class="simpleTagLabel">Author:</span></dt>
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-<div class="block">Returns the enum constant of this type with the specified name.</div>
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-<td class="colFirst"><code>static <a href="../../../../jcgp/backend/modules/problem/BestFitness.html" title="enum in jcgp.backend.modules.problem">BestFitness</a>[]</code></td>
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-<div class="block">Returns an array containing the constants of this enum type, in
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-over the constants as follows:
-<pre>
-for (BestFitness c : BestFitness.values())
-&nbsp; System.out.println(c);
-</pre></div>
-<dl>
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-<dt><span class="throwsLabel">Throws:</span></dt>
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diff --git a/doc/jcgp/backend/modules/problem/DigitalCircuitProblem.html b/doc/jcgp/backend/modules/problem/DigitalCircuitProblem.html
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-<meta name="date" content="2014-05-22">
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-<script type="text/javascript"><!--
- try {
- if (location.href.indexOf('is-external=true') == -1) {
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-<!-- ======== START OF CLASS DATA ======== -->
-<div class="header">
-<div class="subTitle">jcgp.backend.modules.problem</div>
-<h2 title="Class DigitalCircuitProblem" class="title">Class DigitalCircuitProblem</h2>
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-<li>
-<ul class="inheritance">
-<li><a href="../../../../jcgp/backend/modules/problem/Problem.html" title="class in jcgp.backend.modules.problem">jcgp.backend.modules.problem.Problem</a></li>
-<li>
-<ul class="inheritance">
-<li><a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.html" title="class in jcgp.backend.modules.problem">jcgp.backend.modules.problem.TestCaseProblem</a>&lt;<a href="../../../../jcgp/backend/function/UnsignedInteger.html" title="class in jcgp.backend.function">UnsignedInteger</a>&gt;</li>
-<li>
-<ul class="inheritance">
-<li>jcgp.backend.modules.problem.DigitalCircuitProblem</li>
-</ul>
-</li>
-</ul>
-</li>
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-<pre>public class <span class="typeNameLabel">DigitalCircuitProblem</span>
-extends <a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.html" title="class in jcgp.backend.modules.problem">TestCaseProblem</a>&lt;<a href="../../../../jcgp/backend/function/UnsignedInteger.html" title="class in jcgp.backend.function">UnsignedInteger</a>&gt;</pre>
-<div class="block">Digital circuit problem
- <br><br>
- Using this problem type, digital logic circuits can be evolved.
- <code>parseData()</code> must be used to load the desired circuit
- truth table in the standard CGP .plu format.</div>
-<dl>
-<dt><span class="simpleTagLabel">Author:</span></dt>
-<dd>Eduardo Pedroni</dd>
-<dt><span class="seeLabel">See Also:</span></dt>
-<dd><a href="../../../../jcgp/backend/function/DigitalCircuitFunctions.html" title="class in jcgp.backend.function"><code>DigitalCircuitFunctions</code></a></dd>
-</dl>
-</li>
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-<code><a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.TestCase.html" title="class in jcgp.backend.modules.problem">TestCaseProblem.TestCase</a>&lt;<a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.TestCase.html" title="type parameter in TestCaseProblem.TestCase">U</a>&gt;</code></li>
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-<caption><span>Constructors</span><span class="tabEnd">&nbsp;</span></caption>
-<tr>
-<th class="colOne" scope="col">Constructor and Description</th>
-</tr>
-<tr class="altColor">
-<td class="colOne"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/problem/DigitalCircuitProblem.html#DigitalCircuitProblem-jcgp.backend.resources.Resources-">DigitalCircuitProblem</a></span>(<a href="../../../../jcgp/backend/resources/Resources.html" title="class in jcgp.backend.resources">Resources</a>&nbsp;resources)</code>
-<div class="block">Construct a new instance of DigitalCircuitProblem.</div>
-</td>
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-</table>
-</li>
-</ul>
-<!-- ========== METHOD SUMMARY =========== -->
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-<table class="memberSummary" border="0" cellpadding="3" cellspacing="0" summary="Method Summary table, listing methods, and an explanation">
-<caption><span id="t0" class="activeTableTab"><span>All Methods</span><span class="tabEnd">&nbsp;</span></span><span id="t2" class="tableTab"><span><a href="javascript:show(2);">Instance Methods</a></span><span class="tabEnd">&nbsp;</span></span><span id="t4" class="tableTab"><span><a href="javascript:show(8);">Concrete Methods</a></span><span class="tabEnd">&nbsp;</span></span></caption>
-<tr>
-<th class="colFirst" scope="col">Modifier and Type</th>
-<th class="colLast" scope="col">Method and Description</th>
-</tr>
-<tr id="i0" class="altColor">
-<td class="colFirst"><code>void</code></td>
-<td class="colLast"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/problem/DigitalCircuitProblem.html#evaluate-jcgp.backend.population.Population-">evaluate</a></span>(<a href="../../../../jcgp/backend/population/Population.html" title="class in jcgp.backend.population">Population</a>&nbsp;population)</code>
-<div class="block">The most important method of the problem type.</div>
-</td>
-</tr>
-<tr id="i1" class="rowColor">
-<td class="colFirst"><code>int</code></td>
-<td class="colLast"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/problem/DigitalCircuitProblem.html#hasPerfectSolution-jcgp.backend.population.Population-">hasPerfectSolution</a></span>(<a href="../../../../jcgp/backend/population/Population.html" title="class in jcgp.backend.population">Population</a>&nbsp;population)</code>
-<div class="block">Used to assert whether a given population contains a perfect solution
- to the problem.</div>
-</td>
-</tr>
-<tr id="i2" class="altColor">
-<td class="colFirst"><code><a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.TestCase.html" title="class in jcgp.backend.modules.problem">TestCaseProblem.TestCase</a>&lt;<a href="../../../../jcgp/backend/function/UnsignedInteger.html" title="class in jcgp.backend.function">UnsignedInteger</a>&gt;</code></td>
-<td class="colLast"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/problem/DigitalCircuitProblem.html#parseTestCase-java.lang.String:A-java.lang.String:A-">parseTestCase</a></span>(java.lang.String[]&nbsp;inputs,
- java.lang.String[]&nbsp;outputs)</code>
-<div class="block">This method is used internally by <code>addTestCase()</code> in order
- to appropriately parse strings into the right data type for the
- test cases.</div>
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-<code><a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.html#addTestCase-java.lang.String:A-java.lang.String:A-">addTestCase</a>, <a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.html#clearTestCases--">clearTestCases</a>, <a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.html#getTestCases--">getTestCases</a>, <a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.html#hasImprovement-jcgp.backend.population.Population-">hasImprovement</a>, <a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.html#parseProblemData-java.io.File-jcgp.backend.resources.ModifiableResources-">parseProblemData</a></code></li>
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-<h3>Methods inherited from class&nbsp;jcgp.backend.modules.problem.<a href="../../../../jcgp/backend/modules/problem/Problem.html" title="class in jcgp.backend.modules.problem">Problem</a></h3>
-<code><a href="../../../../jcgp/backend/modules/problem/Problem.html#getBestFitness--">getBestFitness</a>, <a href="../../../../jcgp/backend/modules/problem/Problem.html#getFileExtension--">getFileExtension</a>, <a href="../../../../jcgp/backend/modules/problem/Problem.html#getFitnessOrientation--">getFitnessOrientation</a>, <a href="../../../../jcgp/backend/modules/problem/Problem.html#getFunctionSet--">getFunctionSet</a>, <a href="../../../../jcgp/backend/modules/problem/Problem.html#reset--">reset</a></code></li>
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-<code><a href="../../../../jcgp/backend/modules/Module.html#getLocalParameters--">getLocalParameters</a>, <a href="../../../../jcgp/backend/modules/Module.html#toString--">toString</a></code></li>
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-<h3>Methods inherited from class&nbsp;java.lang.Object</h3>
-<code>equals, getClass, hashCode, notify, notifyAll, wait, wait, wait</code></li>
-</ul>
-</li>
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-<!-- ========= CONSTRUCTOR DETAIL ======== -->
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-<h4>DigitalCircuitProblem</h4>
-<pre>public&nbsp;DigitalCircuitProblem(<a href="../../../../jcgp/backend/resources/Resources.html" title="class in jcgp.backend.resources">Resources</a>&nbsp;resources)</pre>
-<div class="block">Construct a new instance of DigitalCircuitProblem.</div>
-<dl>
-<dt><span class="paramLabel">Parameters:</span></dt>
-<dd><code>resources</code> - a reference to the experiment's resources.</dd>
-</dl>
-</li>
-</ul>
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-<h4>evaluate</h4>
-<pre>public&nbsp;void&nbsp;evaluate(<a href="../../../../jcgp/backend/population/Population.html" title="class in jcgp.backend.population">Population</a>&nbsp;population)</pre>
-<div class="block"><span class="descfrmTypeLabel">Description copied from class:&nbsp;<code><a href="../../../../jcgp/backend/modules/problem/Problem.html#evaluate-jcgp.backend.population.Population-">Problem</a></code></span></div>
-<div class="block">The most important method of the problem type. This is called once
- per generation, when the new population has been generated.
- <br><br>
- The basic functionality of this method is to loop through all chromosomes
- in the population and decode them according to the problem type. The
- fitness of each chromosome is then calculated using the problem data
- or otherwise (subjective problem types such as art generation might
- leave fitness evaluations up to the user) and assigned to the appropriate
- chromosome.
- <br><br>
- In addition, realisations of this method should update the value of
- bestFitness as appropriate, since the value of this parameter is displayed
- if a GUI is in use.</div>
-<dl>
-<dt><span class="overrideSpecifyLabel">Specified by:</span></dt>
-<dd><code><a href="../../../../jcgp/backend/modules/problem/Problem.html#evaluate-jcgp.backend.population.Population-">evaluate</a></code>&nbsp;in class&nbsp;<code><a href="../../../../jcgp/backend/modules/problem/Problem.html" title="class in jcgp.backend.modules.problem">Problem</a></code></dd>
-<dt><span class="paramLabel">Parameters:</span></dt>
-<dd><code>population</code> - the population to be evaluated.</dd>
-</dl>
-</li>
-</ul>
-<a name="parseTestCase-java.lang.String:A-java.lang.String:A-">
-<!-- -->
-</a>
-<ul class="blockList">
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-<h4>parseTestCase</h4>
-<pre>public&nbsp;<a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.TestCase.html" title="class in jcgp.backend.modules.problem">TestCaseProblem.TestCase</a>&lt;<a href="../../../../jcgp/backend/function/UnsignedInteger.html" title="class in jcgp.backend.function">UnsignedInteger</a>&gt;&nbsp;parseTestCase(java.lang.String[]&nbsp;inputs,
- java.lang.String[]&nbsp;outputs)</pre>
-<div class="block"><span class="descfrmTypeLabel">Description copied from class:&nbsp;<code><a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.html#parseTestCase-java.lang.String:A-java.lang.String:A-">TestCaseProblem</a></code></span></div>
-<div class="block">This method is used internally by <code>addTestCase()</code> in order
- to appropriately parse strings into the right data type for the
- test cases. Since the data type is problem-dependent, subclasses must
- implement this method. This method must return a built <code>TestCase</code>
- object from the arguments given.</div>
-<dl>
-<dt><span class="paramLabel">Parameters:</span></dt>
-<dd><code>inputs</code> - the inputs represented as strings.</dd>
-<dd><code>outputs</code> - the outputs represented as strings.</dd>
-<dt><span class="returnLabel">Returns:</span></dt>
-<dd>the parsed test case.</dd>
-</dl>
-</li>
-</ul>
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-<h4>hasPerfectSolution</h4>
-<pre>public&nbsp;int&nbsp;hasPerfectSolution(<a href="../../../../jcgp/backend/population/Population.html" title="class in jcgp.backend.population">Population</a>&nbsp;population)</pre>
-<div class="block"><span class="descfrmTypeLabel">Description copied from class:&nbsp;<code><a href="../../../../jcgp/backend/modules/problem/Problem.html#hasPerfectSolution-jcgp.backend.population.Population-">Problem</a></code></span></div>
-<div class="block">Used to assert whether a given population contains a perfect solution
- to the problem. It is up to the problem to define what qualifies
- a perfect solution, as some problems (subject ones such as music and
- art evolution, for example) might not have perfect solutions at all.</div>
-<dl>
-<dt><span class="overrideSpecifyLabel">Specified by:</span></dt>
-<dd><code><a href="../../../../jcgp/backend/modules/problem/Problem.html#hasPerfectSolution-jcgp.backend.population.Population-">hasPerfectSolution</a></code>&nbsp;in class&nbsp;<code><a href="../../../../jcgp/backend/modules/problem/Problem.html" title="class in jcgp.backend.modules.problem">Problem</a></code></dd>
-<dt><span class="paramLabel">Parameters:</span></dt>
-<dd><code>population</code> - the population to search through for a perfect chromosome.</dd>
-<dt><span class="returnLabel">Returns:</span></dt>
-<dd>the perfect solution index, if one exits, -1 if no perfect solution was found.</dd>
-</dl>
-</li>
-</ul>
-</li>
-</ul>
-</li>
-</ul>
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diff --git a/doc/jcgp/backend/modules/problem/Problem.html b/doc/jcgp/backend/modules/problem/Problem.html
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-<title>Problem</title>
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-<div class="subTitle">jcgp.backend.modules.problem</div>
-<h2 title="Class Problem" class="title">Class Problem</h2>
-</div>
-<div class="contentContainer">
-<ul class="inheritance">
-<li>java.lang.Object</li>
-<li>
-<ul class="inheritance">
-<li><a href="../../../../jcgp/backend/modules/Module.html" title="class in jcgp.backend.modules">jcgp.backend.modules.Module</a></li>
-<li>
-<ul class="inheritance">
-<li>jcgp.backend.modules.problem.Problem</li>
-</ul>
-</li>
-</ul>
-</li>
-</ul>
-<div class="description">
-<ul class="blockList">
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-<dl>
-<dt>Direct Known Subclasses:</dt>
-<dd><a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.html" title="class in jcgp.backend.modules.problem">TestCaseProblem</a></dd>
-</dl>
-<hr>
-<br>
-<pre>public abstract class <span class="typeNameLabel">Problem</span>
-extends <a href="../../../../jcgp/backend/modules/Module.html" title="class in jcgp.backend.modules">Module</a></pre>
-<div class="block">Defines the general behaviour of a CGP problem. The primary function of <code>Problem</code>
- is to evaluate a population and assign a fitness value to each chromosome.
- <br>
- Problems are free to define whether better fitness means a higher or lower fitness value.
- In some problem types, it is more convenient to treat fitness 0 as the best possible value.
- This can be done by changing the fitness orientation to <code>BestFitness.HIGH</code> or <code>BestFitness.LOW</code> as appropriate.
- Fitness orientation is set to high by default.
- <br><br>
- When extending this class, the constructor should call a few methods in order to
- properly construct the problem type: <code>setFunctionSet()</code>, <code>setFileExtension()</code> and <code>setFitnessOrientation()</code>,
- with the respective arguments. As with all subclasses of <code>Module</code>, <code>setName()</code> and
- <code>registerParameters()</code> should be used where appropriate as well.
- <br><br>
- It is advisable to use <code>Resources.reportln()</code> and <code>Resources.report()</code>
- to print any relevant information. Note that reportln() and report() are affected
- by the report interval base parameter. Use <code>Resources.println()</code> and
- <code>Resources.print()</code> to print information regardless of the current generation.
- See <a href="../../../../jcgp/backend/resources/Resources.html" title="class in jcgp.backend.resources"><code>Resources</code></a> for more information.</div>
-<dl>
-<dt><span class="simpleTagLabel">Author:</span></dt>
-<dd>Eduardo Pedroni</dd>
-<dt><span class="seeLabel">See Also:</span></dt>
-<dd><a href="../../../../jcgp/backend/modules/Module.html" title="class in jcgp.backend.modules"><code>Module</code></a></dd>
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-</ul>
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-<caption><span id="t0" class="activeTableTab"><span>All Methods</span><span class="tabEnd">&nbsp;</span></span><span id="t2" class="tableTab"><span><a href="javascript:show(2);">Instance Methods</a></span><span class="tabEnd">&nbsp;</span></span><span id="t3" class="tableTab"><span><a href="javascript:show(4);">Abstract Methods</a></span><span class="tabEnd">&nbsp;</span></span><span id="t4" class="tableTab"><span><a href="javascript:show(8);">Concrete Methods</a></span><span class="tabEnd">&nbsp;</span></span></caption>
-<tr>
-<th class="colFirst" scope="col">Modifier and Type</th>
-<th class="colLast" scope="col">Method and Description</th>
-</tr>
-<tr id="i0" class="altColor">
-<td class="colFirst"><code>abstract void</code></td>
-<td class="colLast"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/problem/Problem.html#evaluate-jcgp.backend.population.Population-">evaluate</a></span>(<a href="../../../../jcgp/backend/population/Population.html" title="class in jcgp.backend.population">Population</a>&nbsp;population)</code>
-<div class="block">The most important method of the problem type.</div>
-</td>
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-<tr id="i1" class="rowColor">
-<td class="colFirst"><code>double</code></td>
-<td class="colLast"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/problem/Problem.html#getBestFitness--">getBestFitness</a></span>()</code>&nbsp;</td>
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-<td class="colFirst"><code><a href="../../../../jcgp/backend/modules/problem/BestFitness.html" title="enum in jcgp.backend.modules.problem">BestFitness</a></code></td>
-<td class="colLast"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/problem/Problem.html#getFitnessOrientation--">getFitnessOrientation</a></span>()</code>&nbsp;</td>
-</tr>
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-<td class="colFirst"><code><a href="../../../../jcgp/backend/function/FunctionSet.html" title="class in jcgp.backend.function">FunctionSet</a></code></td>
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-<tr id="i5" class="rowColor">
-<td class="colFirst"><code>abstract int</code></td>
-<td class="colLast"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/problem/Problem.html#hasImprovement-jcgp.backend.population.Population-">hasImprovement</a></span>(<a href="../../../../jcgp/backend/population/Population.html" title="class in jcgp.backend.population">Population</a>&nbsp;population)</code>
-<div class="block">Used to assert whether a given population has a chromosome that is an improvement over
- the current best chromosome.</div>
-</td>
-</tr>
-<tr id="i6" class="altColor">
-<td class="colFirst"><code>abstract int</code></td>
-<td class="colLast"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/problem/Problem.html#hasPerfectSolution-jcgp.backend.population.Population-">hasPerfectSolution</a></span>(<a href="../../../../jcgp/backend/population/Population.html" title="class in jcgp.backend.population">Population</a>&nbsp;population)</code>
-<div class="block">Used to assert whether a given population contains a perfect solution
- to the problem.</div>
-</td>
-</tr>
-<tr id="i7" class="rowColor">
-<td class="colFirst"><code>abstract void</code></td>
-<td class="colLast"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/problem/Problem.html#parseProblemData-java.io.File-jcgp.backend.resources.ModifiableResources-">parseProblemData</a></span>(java.io.File&nbsp;file,
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-<div class="block">Parses the specified file and uses the parsed data to
- set up the problem type instance appropriately.</div>
-</td>
-</tr>
-<tr id="i8" class="altColor">
-<td class="colFirst"><code>void</code></td>
-<td class="colLast"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/problem/Problem.html#reset--">reset</a></span>()</code>
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-<pre>public abstract&nbsp;void&nbsp;evaluate(<a href="../../../../jcgp/backend/population/Population.html" title="class in jcgp.backend.population">Population</a>&nbsp;population)</pre>
-<div class="block">The most important method of the problem type. This is called once
- per generation, when the new population has been generated.
- <br><br>
- The basic functionality of this method is to loop through all chromosomes
- in the population and decode them according to the problem type. The
- fitness of each chromosome is then calculated using the problem data
- or otherwise (subjective problem types such as art generation might
- leave fitness evaluations up to the user) and assigned to the appropriate
- chromosome.
- <br><br>
- In addition, realisations of this method should update the value of
- bestFitness as appropriate, since the value of this parameter is displayed
- if a GUI is in use.</div>
-<dl>
-<dt><span class="paramLabel">Parameters:</span></dt>
-<dd><code>population</code> - the population to be evaluated.</dd>
-</dl>
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-<pre>public abstract&nbsp;int&nbsp;hasPerfectSolution(<a href="../../../../jcgp/backend/population/Population.html" title="class in jcgp.backend.population">Population</a>&nbsp;population)</pre>
-<div class="block">Used to assert whether a given population contains a perfect solution
- to the problem. It is up to the problem to define what qualifies
- a perfect solution, as some problems (subject ones such as music and
- art evolution, for example) might not have perfect solutions at all.</div>
-<dl>
-<dt><span class="paramLabel">Parameters:</span></dt>
-<dd><code>population</code> - the population to search through for a perfect chromosome.</dd>
-<dt><span class="returnLabel">Returns:</span></dt>
-<dd>the perfect solution index, if one exits, -1 if no perfect solution was found.</dd>
-</dl>
-</li>
-</ul>
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-<pre>public abstract&nbsp;int&nbsp;hasImprovement(<a href="../../../../jcgp/backend/population/Population.html" title="class in jcgp.backend.population">Population</a>&nbsp;population)</pre>
-<div class="block">Used to assert whether a given population has a chromosome that is an improvement over
- the current best chromosome. A typical implementation of this method
- will simply compare chromosome fitness values, though the problem type
- is free to implement this in any way.</div>
-<dl>
-<dt><span class="paramLabel">Parameters:</span></dt>
-<dd><code>population</code> - the population potentially containing a fitter chromosome.</dd>
-<dt><span class="returnLabel">Returns:</span></dt>
-<dd>the index of the first chromosome in the population that is an improvement, -1 if none is found.</dd>
-</dl>
-</li>
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-<pre>public abstract&nbsp;void&nbsp;parseProblemData(java.io.File&nbsp;file,
- <a href="../../../../jcgp/backend/resources/ModifiableResources.html" title="class in jcgp.backend.resources">ModifiableResources</a>&nbsp;resources)</pre>
-<div class="block">Parses the specified file and uses the parsed data to
- set up the problem type instance appropriately. Any necessary
- resource changes can be performed using the provided <code>ModifiableResources</code>
- instance.
- <br><br>
- In addition, realisations of this method should update the value of
- maxFitness where appropriate, as this may be displayed to the user
- if a GUI is in use.</div>
-<dl>
-<dt><span class="paramLabel">Parameters:</span></dt>
-<dd><code>file</code> - the data file to parse.</dd>
-<dd><code>resources</code> - a modifiable reference to the experiment's resources.</dd>
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-<dl>
-<dt><span class="returnLabel">Returns:</span></dt>
-<dd>the FunctionSet object used by this problem type.</dd>
-</dl>
-</li>
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-<pre>public&nbsp;java.lang.String&nbsp;getFileExtension()</pre>
-<dl>
-<dt><span class="returnLabel">Returns:</span></dt>
-<dd>the file extension accepted by this problem type for problem data files.</dd>
-</dl>
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-<dl>
-<dt><span class="returnLabel">Returns:</span></dt>
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-<pre>public&nbsp;double&nbsp;getBestFitness()</pre>
-<dl>
-<dt><span class="returnLabel">Returns:</span></dt>
-<dd>the current best fitness, in other words, the fitness
- value of the fittest chromosome in the current generation.</dd>
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-<ul class="blockListLast">
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-<h4>reset</h4>
-<pre>public&nbsp;void&nbsp;reset()</pre>
-<div class="block">Resets the bestFitness parameter.</div>
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-<div class="subTitle">jcgp.backend.modules.problem</div>
-<h2 title="Class SymbolicRegressionProblem" class="title">Class SymbolicRegressionProblem</h2>
-</div>
-<div class="contentContainer">
-<ul class="inheritance">
-<li>java.lang.Object</li>
-<li>
-<ul class="inheritance">
-<li><a href="../../../../jcgp/backend/modules/Module.html" title="class in jcgp.backend.modules">jcgp.backend.modules.Module</a></li>
-<li>
-<ul class="inheritance">
-<li><a href="../../../../jcgp/backend/modules/problem/Problem.html" title="class in jcgp.backend.modules.problem">jcgp.backend.modules.problem.Problem</a></li>
-<li>
-<ul class="inheritance">
-<li><a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.html" title="class in jcgp.backend.modules.problem">jcgp.backend.modules.problem.TestCaseProblem</a>&lt;java.lang.Double&gt;</li>
-<li>
-<ul class="inheritance">
-<li>jcgp.backend.modules.problem.SymbolicRegressionProblem</li>
-</ul>
-</li>
-</ul>
-</li>
-</ul>
-</li>
-</ul>
-</li>
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-<pre>public class <span class="typeNameLabel">SymbolicRegressionProblem</span>
-extends <a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.html" title="class in jcgp.backend.modules.problem">TestCaseProblem</a>&lt;java.lang.Double&gt;</pre>
-<div class="block">Symbolic regression functions
- <br><br>
- Using this problem type, regression problems can be solved.
- <code>parseData()</code> must be used to load the desired function
- data in the standard CGP .dat format.
- <br><br>
- This problem uses quite a few parameters:
- <ul>
- <li>Error threshold: the maximum difference allowed between an
- evolved output and the equivalent output from the problem data.
- Outputs within the error threshold will be considered correct.
- This is only used if hits is enabled.</li>
- <li>Perfection threshold: if the fitness is calculated without
- using the hits method, it is a decimal value. A solution is
- considered perfect when the difference between its fitness and
- the maximum possible fitness is within the perfection threshold.</li>
- <li>Hits-based fitness: increment the fitness by 1 whenever the
- chromosome output is within the error threshold.</li></ul></div>
-<dl>
-<dt><span class="simpleTagLabel">Author:</span></dt>
-<dd>Eduardo Pedroni</dd>
-<dt><span class="seeLabel">See Also:</span></dt>
-<dd><a href="../../../../jcgp/backend/function/SymbolicRegressionFunctions.html" title="class in jcgp.backend.function"><code>SymbolicRegressionFunctions</code></a></dd>
-</dl>
-</li>
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-<td class="colOne"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/problem/SymbolicRegressionProblem.html#SymbolicRegressionProblem-jcgp.backend.resources.Resources-">SymbolicRegressionProblem</a></span>(<a href="../../../../jcgp/backend/resources/Resources.html" title="class in jcgp.backend.resources">Resources</a>&nbsp;resources)</code>
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-<td class="colLast"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/problem/SymbolicRegressionProblem.html#evaluate-jcgp.backend.population.Population-">evaluate</a></span>(<a href="../../../../jcgp/backend/population/Population.html" title="class in jcgp.backend.population">Population</a>&nbsp;population)</code>
-<div class="block">The most important method of the problem type.</div>
-</td>
-</tr>
-<tr id="i1" class="rowColor">
-<td class="colFirst"><code>int</code></td>
-<td class="colLast"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/problem/SymbolicRegressionProblem.html#hasPerfectSolution-jcgp.backend.population.Population-">hasPerfectSolution</a></span>(<a href="../../../../jcgp/backend/population/Population.html" title="class in jcgp.backend.population">Population</a>&nbsp;population)</code>
-<div class="block">Used to assert whether a given population contains a perfect solution
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-<pre>public&nbsp;SymbolicRegressionProblem(<a href="../../../../jcgp/backend/resources/Resources.html" title="class in jcgp.backend.resources">Resources</a>&nbsp;resources)</pre>
-<div class="block">Creates a new instance of SymbolicRegressionProblem.</div>
-<dl>
-<dt><span class="paramLabel">Parameters:</span></dt>
-<dd><code>resources</code> - a reference to the experiment's resources.</dd>
-</dl>
-</li>
-</ul>
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-<pre>public&nbsp;void&nbsp;evaluate(<a href="../../../../jcgp/backend/population/Population.html" title="class in jcgp.backend.population">Population</a>&nbsp;population)</pre>
-<div class="block"><span class="descfrmTypeLabel">Description copied from class:&nbsp;<code><a href="../../../../jcgp/backend/modules/problem/Problem.html#evaluate-jcgp.backend.population.Population-">Problem</a></code></span></div>
-<div class="block">The most important method of the problem type. This is called once
- per generation, when the new population has been generated.
- <br><br>
- The basic functionality of this method is to loop through all chromosomes
- in the population and decode them according to the problem type. The
- fitness of each chromosome is then calculated using the problem data
- or otherwise (subjective problem types such as art generation might
- leave fitness evaluations up to the user) and assigned to the appropriate
- chromosome.
- <br><br>
- In addition, realisations of this method should update the value of
- bestFitness as appropriate, since the value of this parameter is displayed
- if a GUI is in use.</div>
-<dl>
-<dt><span class="overrideSpecifyLabel">Specified by:</span></dt>
-<dd><code><a href="../../../../jcgp/backend/modules/problem/Problem.html#evaluate-jcgp.backend.population.Population-">evaluate</a></code>&nbsp;in class&nbsp;<code><a href="../../../../jcgp/backend/modules/problem/Problem.html" title="class in jcgp.backend.modules.problem">Problem</a></code></dd>
-<dt><span class="paramLabel">Parameters:</span></dt>
-<dd><code>population</code> - the population to be evaluated.</dd>
-</dl>
-</li>
-</ul>
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-<pre>public&nbsp;<a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.TestCase.html" title="class in jcgp.backend.modules.problem">TestCaseProblem.TestCase</a>&lt;java.lang.Double&gt;&nbsp;parseTestCase(java.lang.String[]&nbsp;inputs,
- java.lang.String[]&nbsp;outputs)</pre>
-<div class="block"><span class="descfrmTypeLabel">Description copied from class:&nbsp;<code><a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.html#parseTestCase-java.lang.String:A-java.lang.String:A-">TestCaseProblem</a></code></span></div>
-<div class="block">This method is used internally by <code>addTestCase()</code> in order
- to appropriately parse strings into the right data type for the
- test cases. Since the data type is problem-dependent, subclasses must
- implement this method. This method must return a built <code>TestCase</code>
- object from the arguments given.</div>
-<dl>
-<dt><span class="paramLabel">Parameters:</span></dt>
-<dd><code>inputs</code> - the inputs represented as strings.</dd>
-<dd><code>outputs</code> - the outputs represented as strings.</dd>
-<dt><span class="returnLabel">Returns:</span></dt>
-<dd>the parsed test case.</dd>
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-<div class="block"><span class="descfrmTypeLabel">Description copied from class:&nbsp;<code><a href="../../../../jcgp/backend/modules/problem/Problem.html#hasPerfectSolution-jcgp.backend.population.Population-">Problem</a></code></span></div>
-<div class="block">Used to assert whether a given population contains a perfect solution
- to the problem. It is up to the problem to define what qualifies
- a perfect solution, as some problems (subject ones such as music and
- art evolution, for example) might not have perfect solutions at all.</div>
-<dl>
-<dt><span class="overrideSpecifyLabel">Specified by:</span></dt>
-<dd><code><a href="../../../../jcgp/backend/modules/problem/Problem.html#hasPerfectSolution-jcgp.backend.population.Population-">hasPerfectSolution</a></code>&nbsp;in class&nbsp;<code><a href="../../../../jcgp/backend/modules/problem/Problem.html" title="class in jcgp.backend.modules.problem">Problem</a></code></dd>
-<dt><span class="paramLabel">Parameters:</span></dt>
-<dd><code>population</code> - the population to search through for a perfect chromosome.</dd>
-<dt><span class="returnLabel">Returns:</span></dt>
-<dd>the perfect solution index, if one exits, -1 if no perfect solution was found.</dd>
-</dl>
-</li>
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-<h2 title="Class TestCaseProblem.TestCase" class="title">Class TestCaseProblem.TestCase&lt;U&gt;</h2>
-</div>
-<div class="contentContainer">
-<ul class="inheritance">
-<li>java.lang.Object</li>
-<li>
-<ul class="inheritance">
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-<dl>
-<dt><span class="paramLabel">Type Parameters:</span></dt>
-<dd><code>U</code> - the data type of the test case.</dd>
-</dl>
-<dl>
-<dt>Enclosing class:</dt>
-<dd><a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.html" title="class in jcgp.backend.modules.problem">TestCaseProblem</a>&lt;<a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.html" title="type parameter in TestCaseProblem">T</a>&gt;</dd>
-</dl>
-<hr>
-<br>
-<pre>public static class <span class="typeNameLabel">TestCaseProblem.TestCase&lt;U&gt;</span>
-extends java.lang.Object</pre>
-<div class="block">Basic data type for encapsulating test cases, it simply
- contains arrays of inputs and outputs and associated getters.</div>
-<dl>
-<dt><span class="simpleTagLabel">Author:</span></dt>
-<dd>Eduardo Pedroni</dd>
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-<td class="colOne"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.TestCase.html#TestCase-U:A-U:A-">TestCase</a></span>(<a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.TestCase.html" title="type parameter in TestCaseProblem.TestCase">U</a>[]&nbsp;inputs,
- <a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.TestCase.html" title="type parameter in TestCaseProblem.TestCase">U</a>[]&nbsp;outputs)</code>
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- <a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.TestCase.html" title="type parameter in TestCaseProblem.TestCase">U</a>[]&nbsp;outputs)</pre>
-<div class="block">Creates a new test case, inputs and outputs
- must be specified upon instantiation.</div>
-<dl>
-<dt><span class="paramLabel">Parameters:</span></dt>
-<dd><code>inputs</code> - the array of inputs.</dd>
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-<div class="subTitle">jcgp.backend.modules.problem</div>
-<h2 title="Class TestCaseProblem" class="title">Class TestCaseProblem&lt;T&gt;</h2>
-</div>
-<div class="contentContainer">
-<ul class="inheritance">
-<li>java.lang.Object</li>
-<li>
-<ul class="inheritance">
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-<li>
-<ul class="inheritance">
-<li><a href="../../../../jcgp/backend/modules/problem/Problem.html" title="class in jcgp.backend.modules.problem">jcgp.backend.modules.problem.Problem</a></li>
-<li>
-<ul class="inheritance">
-<li>jcgp.backend.modules.problem.TestCaseProblem&lt;T&gt;</li>
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-<dd><code>T</code> - the data type to be used by the TestCaseProblem.</dd>
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-<dl>
-<dt>Direct Known Subclasses:</dt>
-<dd><a href="../../../../jcgp/backend/modules/problem/DigitalCircuitProblem.html" title="class in jcgp.backend.modules.problem">DigitalCircuitProblem</a>, <a href="../../../../jcgp/backend/modules/problem/SymbolicRegressionProblem.html" title="class in jcgp.backend.modules.problem">SymbolicRegressionProblem</a></dd>
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-<pre>public abstract class <span class="typeNameLabel">TestCaseProblem&lt;T&gt;</span>
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-<div class="block">Abstract model for a problem that uses test cases. A test case
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- an expected output taken from a table of input-output mappings.
- <br><br>
- This class defines a basic data type for storing test cases,
- TestCase, and provides core functionality to add and manipulate
- test cases in the problem. A subclass of <code>TestCaseProblem</code>
- must simply override <code>parseTestCase()</code> to convert parsed
- problem data strings into the required data type (T).</div>
-<dl>
-<dt><span class="simpleTagLabel">Author:</span></dt>
-<dd>Eduardo Pedroni</dd>
-<dt><span class="seeLabel">See Also:</span></dt>
-<dd><a href="../../../../jcgp/backend/modules/problem/Problem.html" title="class in jcgp.backend.modules.problem"><code>Problem</code></a></dd>
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-<td class="colLast"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.html#addTestCase-java.lang.String:A-java.lang.String:A-">addTestCase</a></span>(java.lang.String[]&nbsp;inputs,
- java.lang.String[]&nbsp;outputs)</code>
-<div class="block">Adds test cases to the problem instance as they get parsed from a
- problem data file.</div>
-</td>
-</tr>
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-<td class="colFirst"><code>void</code></td>
-<td class="colLast"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.html#clearTestCases--">clearTestCases</a></span>()</code>
-<div class="block">Remove all test cases.</div>
-</td>
-</tr>
-<tr id="i2" class="altColor">
-<td class="colFirst"><code>javafx.collections.ObservableList&lt;<a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.TestCase.html" title="class in jcgp.backend.modules.problem">TestCaseProblem.TestCase</a>&lt;<a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.html" title="type parameter in TestCaseProblem">T</a>&gt;&gt;</code></td>
-<td class="colLast"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.html#getTestCases--">getTestCases</a></span>()</code>&nbsp;</td>
-</tr>
-<tr id="i3" class="rowColor">
-<td class="colFirst"><code>int</code></td>
-<td class="colLast"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.html#hasImprovement-jcgp.backend.population.Population-">hasImprovement</a></span>(<a href="../../../../jcgp/backend/population/Population.html" title="class in jcgp.backend.population">Population</a>&nbsp;population)</code>
-<div class="block">Used to assert whether a given population has a chromosome that is an improvement over
- the current best chromosome.</div>
-</td>
-</tr>
-<tr id="i4" class="altColor">
-<td class="colFirst"><code>void</code></td>
-<td class="colLast"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.html#parseProblemData-java.io.File-jcgp.backend.resources.ModifiableResources-">parseProblemData</a></span>(java.io.File&nbsp;file,
- <a href="../../../../jcgp/backend/resources/ModifiableResources.html" title="class in jcgp.backend.resources">ModifiableResources</a>&nbsp;resources)</code>
-<div class="block">Parses the specified file and uses the parsed data to
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-<code><a href="../../../../jcgp/backend/modules/problem/Problem.html#evaluate-jcgp.backend.population.Population-">evaluate</a>, <a href="../../../../jcgp/backend/modules/problem/Problem.html#getBestFitness--">getBestFitness</a>, <a href="../../../../jcgp/backend/modules/problem/Problem.html#getFileExtension--">getFileExtension</a>, <a href="../../../../jcgp/backend/modules/problem/Problem.html#getFitnessOrientation--">getFitnessOrientation</a>, <a href="../../../../jcgp/backend/modules/problem/Problem.html#getFunctionSet--">getFunctionSet</a>, <a href="../../../../jcgp/backend/modules/problem/Problem.html#hasPerfectSolution-jcgp.backend.population.Population-">hasPerfectSolution</a>, <a href="../../../../jcgp/backend/modules/problem/Problem.html#reset--">reset</a></code></li>
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-<pre>public&nbsp;javafx.collections.ObservableList&lt;<a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.TestCase.html" title="class in jcgp.backend.modules.problem">TestCaseProblem.TestCase</a>&lt;<a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.html" title="type parameter in TestCaseProblem">T</a>&gt;&gt;&nbsp;getTestCases()</pre>
-<dl>
-<dt><span class="returnLabel">Returns:</span></dt>
-<dd>a list containing the test cases.</dd>
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-</li>
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-<pre>public final&nbsp;void&nbsp;addTestCase(java.lang.String[]&nbsp;inputs,
- java.lang.String[]&nbsp;outputs)</pre>
-<div class="block">Adds test cases to the problem instance as they get parsed from a
- problem data file. This template method uses <code>parseTestCase</code>, which
- must be implemented by subclasses.</div>
-<dl>
-<dt><span class="paramLabel">Parameters:</span></dt>
-<dd><code>inputs</code> - the inputs represented as strings.</dd>
-<dd><code>outputs</code> - the outputs represented as strings.</dd>
-</dl>
-</li>
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-<a name="clearTestCases--">
-<!-- -->
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-<ul class="blockList">
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-<h4>clearTestCases</h4>
-<pre>public&nbsp;void&nbsp;clearTestCases()</pre>
-<div class="block">Remove all test cases.</div>
-</li>
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-<a name="parseProblemData-java.io.File-jcgp.backend.resources.ModifiableResources-">
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-<ul class="blockList">
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-<h4>parseProblemData</h4>
-<pre>public&nbsp;void&nbsp;parseProblemData(java.io.File&nbsp;file,
- <a href="../../../../jcgp/backend/resources/ModifiableResources.html" title="class in jcgp.backend.resources">ModifiableResources</a>&nbsp;resources)</pre>
-<div class="block"><span class="descfrmTypeLabel">Description copied from class:&nbsp;<code><a href="../../../../jcgp/backend/modules/problem/Problem.html#parseProblemData-java.io.File-jcgp.backend.resources.ModifiableResources-">Problem</a></code></span></div>
-<div class="block">Parses the specified file and uses the parsed data to
- set up the problem type instance appropriately. Any necessary
- resource changes can be performed using the provided <code>ModifiableResources</code>
- instance.
- <br><br>
- In addition, realisations of this method should update the value of
- maxFitness where appropriate, as this may be displayed to the user
- if a GUI is in use.</div>
-<dl>
-<dt><span class="overrideSpecifyLabel">Specified by:</span></dt>
-<dd><code><a href="../../../../jcgp/backend/modules/problem/Problem.html#parseProblemData-java.io.File-jcgp.backend.resources.ModifiableResources-">parseProblemData</a></code>&nbsp;in class&nbsp;<code><a href="../../../../jcgp/backend/modules/problem/Problem.html" title="class in jcgp.backend.modules.problem">Problem</a></code></dd>
-<dt><span class="paramLabel">Parameters:</span></dt>
-<dd><code>file</code> - the data file to parse.</dd>
-<dd><code>resources</code> - a modifiable reference to the experiment's resources.</dd>
-</dl>
-</li>
-</ul>
-<a name="hasImprovement-jcgp.backend.population.Population-">
-<!-- -->
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-<h4>hasImprovement</h4>
-<pre>public&nbsp;int&nbsp;hasImprovement(<a href="../../../../jcgp/backend/population/Population.html" title="class in jcgp.backend.population">Population</a>&nbsp;population)</pre>
-<div class="block"><span class="descfrmTypeLabel">Description copied from class:&nbsp;<code><a href="../../../../jcgp/backend/modules/problem/Problem.html#hasImprovement-jcgp.backend.population.Population-">Problem</a></code></span></div>
-<div class="block">Used to assert whether a given population has a chromosome that is an improvement over
- the current best chromosome. A typical implementation of this method
- will simply compare chromosome fitness values, though the problem type
- is free to implement this in any way.</div>
-<dl>
-<dt><span class="overrideSpecifyLabel">Specified by:</span></dt>
-<dd><code><a href="../../../../jcgp/backend/modules/problem/Problem.html#hasImprovement-jcgp.backend.population.Population-">hasImprovement</a></code>&nbsp;in class&nbsp;<code><a href="../../../../jcgp/backend/modules/problem/Problem.html" title="class in jcgp.backend.modules.problem">Problem</a></code></dd>
-<dt><span class="paramLabel">Parameters:</span></dt>
-<dd><code>population</code> - the population potentially containing a fitter chromosome.</dd>
-<dt><span class="returnLabel">Returns:</span></dt>
-<dd>the index of the first chromosome in the population that is an improvement, -1 if none is found.</dd>
-</dl>
-</li>
-</ul>
-</li>
-</ul>
-</li>
-</ul>
-</div>
-</div>
-<!-- ========= END OF CLASS DATA ========= -->
-<!-- ======= START OF BOTTOM NAVBAR ====== -->
-<div class="bottomNav"><a name="navbar.bottom">
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-<div class="subTitle">jcgp.backend.modules.problem</div>
-<h2 title="Class TravellingSalesmanProblem" class="title">Class TravellingSalesmanProblem</h2>
-</div>
-<div class="contentContainer">
-<ul class="inheritance">
-<li>java.lang.Object</li>
-<li>
-<ul class="inheritance">
-<li><a href="../../../../jcgp/backend/modules/Module.html" title="class in jcgp.backend.modules">jcgp.backend.modules.Module</a></li>
-<li>
-<ul class="inheritance">
-<li><a href="../../../../jcgp/backend/modules/problem/Problem.html" title="class in jcgp.backend.modules.problem">jcgp.backend.modules.problem.Problem</a></li>
-<li>
-<ul class="inheritance">
-<li>jcgp.backend.modules.problem.TravellingSalesmanProblem</li>
-</ul>
-</li>
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-</li>
-</ul>
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-<pre>public class <span class="typeNameLabel">TravellingSalesmanProblem</span>
-extends <a href="../../../../jcgp/backend/modules/problem/Problem.html" title="class in jcgp.backend.modules.problem">Problem</a></pre>
-<div class="block">Travelling salesman problem
- <br><br>
- Using this problem type, travelling salesman tours can be evolved.
- <code>parseData()</code> must be used to load the desired city
- coordinates in the standard .tsp format.</div>
-<dl>
-<dt><span class="simpleTagLabel">Author:</span></dt>
-<dd>Eduardo Pedroni</dd>
-<dt><span class="seeLabel">See Also:</span></dt>
-<dd><a href="../../../../jcgp/backend/function/TravellingSalesmanFunctions.html" title="class in jcgp.backend.function"><code>TravellingSalesmanFunctions</code></a></dd>
-</dl>
-</li>
-</ul>
-</div>
-<div class="summary">
-<ul class="blockList">
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-<!-- ======== CONSTRUCTOR SUMMARY ======== -->
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-<h3>Constructor Summary</h3>
-<table class="memberSummary" border="0" cellpadding="3" cellspacing="0" summary="Constructor Summary table, listing constructors, and an explanation">
-<caption><span>Constructors</span><span class="tabEnd">&nbsp;</span></caption>
-<tr>
-<th class="colOne" scope="col">Constructor and Description</th>
-</tr>
-<tr class="altColor">
-<td class="colOne"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/problem/TravellingSalesmanProblem.html#TravellingSalesmanProblem-jcgp.backend.resources.Resources-">TravellingSalesmanProblem</a></span>(<a href="../../../../jcgp/backend/resources/Resources.html" title="class in jcgp.backend.resources">Resources</a>&nbsp;resources)</code>
-<div class="block">Construct a new instance of TravellingSalesmanProblem.</div>
-</td>
-</tr>
-</table>
-</li>
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-<!-- ========== METHOD SUMMARY =========== -->
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-<h3>Method Summary</h3>
-<table class="memberSummary" border="0" cellpadding="3" cellspacing="0" summary="Method Summary table, listing methods, and an explanation">
-<caption><span id="t0" class="activeTableTab"><span>All Methods</span><span class="tabEnd">&nbsp;</span></span><span id="t2" class="tableTab"><span><a href="javascript:show(2);">Instance Methods</a></span><span class="tabEnd">&nbsp;</span></span><span id="t4" class="tableTab"><span><a href="javascript:show(8);">Concrete Methods</a></span><span class="tabEnd">&nbsp;</span></span></caption>
-<tr>
-<th class="colFirst" scope="col">Modifier and Type</th>
-<th class="colLast" scope="col">Method and Description</th>
-</tr>
-<tr id="i0" class="altColor">
-<td class="colFirst"><code>void</code></td>
-<td class="colLast"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/problem/TravellingSalesmanProblem.html#evaluate-jcgp.backend.population.Population-jcgp.backend.resources.Resources-">evaluate</a></span>(<a href="../../../../jcgp/backend/population/Population.html" title="class in jcgp.backend.population">Population</a>&nbsp;population,
- <a href="../../../../jcgp/backend/resources/Resources.html" title="class in jcgp.backend.resources">Resources</a>&nbsp;resources)</code>
-<div class="block">The most important method of the problem type.</div>
-</td>
-</tr>
-<tr id="i1" class="rowColor">
-<td class="colFirst"><code>boolean</code></td>
-<td class="colLast"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/problem/TravellingSalesmanProblem.html#isImprovement-jcgp.backend.population.Chromosome-">isImprovement</a></span>(<a href="../../../../jcgp/backend/population/Chromosome.html" title="class in jcgp.backend.population">Chromosome</a>&nbsp;fittest)</code>
-<div class="block">Used to assert whether a given chromosome is an improvement over
- the current best chromosome.</div>
-</td>
-</tr>
-<tr id="i2" class="altColor">
-<td class="colFirst"><code>boolean</code></td>
-<td class="colLast"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/problem/TravellingSalesmanProblem.html#isPerfectSolution-jcgp.backend.population.Chromosome-">isPerfectSolution</a></span>(<a href="../../../../jcgp/backend/population/Chromosome.html" title="class in jcgp.backend.population">Chromosome</a>&nbsp;fittest)</code>
-<div class="block">Used to assert whether a given chromosome is a perfect solution
- to the problem.</div>
-</td>
-</tr>
-<tr id="i3" class="rowColor">
-<td class="colFirst"><code>void</code></td>
-<td class="colLast"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/problem/TravellingSalesmanProblem.html#parseProblemData-java.io.File-jcgp.backend.resources.ModifiableResources-">parseProblemData</a></span>(java.io.File&nbsp;file,
- <a href="../../../../jcgp/backend/resources/ModifiableResources.html" title="class in jcgp.backend.resources">ModifiableResources</a>&nbsp;resources)</code>
-<div class="block">Parses the specified file and uses the parsed data to
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-<code><a href="../../../../jcgp/backend/modules/problem/Problem.html#getBestFitness--">getBestFitness</a>, <a href="../../../../jcgp/backend/modules/problem/Problem.html#getFileExtension--">getFileExtension</a>, <a href="../../../../jcgp/backend/modules/problem/Problem.html#getFunctionSet--">getFunctionSet</a>, <a href="../../../../jcgp/backend/modules/problem/Problem.html#reset--">reset</a></code></li>
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-<code><a href="../../../../jcgp/backend/modules/Module.html#getLocalParameters--">getLocalParameters</a>, <a href="../../../../jcgp/backend/modules/Module.html#toString--">toString</a></code></li>
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-<h4>TravellingSalesmanProblem</h4>
-<pre>public&nbsp;TravellingSalesmanProblem(<a href="../../../../jcgp/backend/resources/Resources.html" title="class in jcgp.backend.resources">Resources</a>&nbsp;resources)</pre>
-<div class="block">Construct a new instance of TravellingSalesmanProblem.</div>
-<dl>
-<dt><span class="paramLabel">Parameters:</span></dt>
-<dd><code>resources</code> - a reference to the experiment's resources.</dd>
-</dl>
-</li>
-</ul>
-</li>
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-<!-- ============ METHOD DETAIL ========== -->
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-</a>
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-<h4>evaluate</h4>
-<pre>public&nbsp;void&nbsp;evaluate(<a href="../../../../jcgp/backend/population/Population.html" title="class in jcgp.backend.population">Population</a>&nbsp;population,
- <a href="../../../../jcgp/backend/resources/Resources.html" title="class in jcgp.backend.resources">Resources</a>&nbsp;resources)</pre>
-<div class="block"><span class="descfrmTypeLabel">Description copied from class:&nbsp;<code><a href="../../../../jcgp/backend/modules/problem/Problem.html#evaluate-jcgp.backend.population.Population-jcgp.backend.resources.Resources-">Problem</a></code></span></div>
-<div class="block">The most important method of the problem type. This is called once
- per generation, when the new population has been generated.
- <br><br>
- The basic functionality of this method is to loop through all chromosomes
- in the population and decode them according to the problem type. The
- fitness of each chromosome is then calculated using the problem data
- or otherwise (subjective problem types such as art generation might
- leave fitness evaluations up to the user) and assigned to the appropriate
- chromosome.
- <br><br>
- In addition, realisations of this method should update the value of
- bestFitness as appropriate, since the value of this parameter is displayed
- if a GUI is in use.</div>
-<dl>
-<dt><span class="overrideSpecifyLabel">Specified by:</span></dt>
-<dd><code><a href="../../../../jcgp/backend/modules/problem/Problem.html#evaluate-jcgp.backend.population.Population-jcgp.backend.resources.Resources-">evaluate</a></code>&nbsp;in class&nbsp;<code><a href="../../../../jcgp/backend/modules/problem/Problem.html" title="class in jcgp.backend.modules.problem">Problem</a></code></dd>
-<dt><span class="paramLabel">Parameters:</span></dt>
-<dd><code>population</code> - the population to be evaluated.</dd>
-<dd><code>resources</code> - parameters and utilities for optional reference.</dd>
-</dl>
-</li>
-</ul>
-<a name="isPerfectSolution-jcgp.backend.population.Chromosome-">
-<!-- -->
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-<h4>isPerfectSolution</h4>
-<pre>public&nbsp;boolean&nbsp;isPerfectSolution(<a href="../../../../jcgp/backend/population/Chromosome.html" title="class in jcgp.backend.population">Chromosome</a>&nbsp;fittest)</pre>
-<div class="block"><span class="descfrmTypeLabel">Description copied from class:&nbsp;<code><a href="../../../../jcgp/backend/modules/problem/Problem.html#isPerfectSolution-jcgp.backend.population.Chromosome-">Problem</a></code></span></div>
-<div class="block">Used to assert whether a given chromosome is a perfect solution
- to the problem. It is up to the problem to define what qualifies
- a perfect solution, as some problems (subject ones such as music and
- art evolution, for example) might not have perfect solutions at all.
- <br><br>
- Note that if this method returns true, the experiment will move on
- to the next run, or finish if no more runs are left.</div>
-<dl>
-<dt><span class="overrideSpecifyLabel">Specified by:</span></dt>
-<dd><code><a href="../../../../jcgp/backend/modules/problem/Problem.html#isPerfectSolution-jcgp.backend.population.Chromosome-">isPerfectSolution</a></code>&nbsp;in class&nbsp;<code><a href="../../../../jcgp/backend/modules/problem/Problem.html" title="class in jcgp.backend.modules.problem">Problem</a></code></dd>
-<dt><span class="paramLabel">Parameters:</span></dt>
-<dd><code>fittest</code> - the potentially perfect chromosome.</dd>
-<dt><span class="returnLabel">Returns:</span></dt>
-<dd>true if the argument is a perfect solution.</dd>
-</dl>
-</li>
-</ul>
-<a name="parseProblemData-java.io.File-jcgp.backend.resources.ModifiableResources-">
-<!-- -->
-</a>
-<ul class="blockList">
-<li class="blockList">
-<h4>parseProblemData</h4>
-<pre>public&nbsp;void&nbsp;parseProblemData(java.io.File&nbsp;file,
- <a href="../../../../jcgp/backend/resources/ModifiableResources.html" title="class in jcgp.backend.resources">ModifiableResources</a>&nbsp;resources)</pre>
-<div class="block"><span class="descfrmTypeLabel">Description copied from class:&nbsp;<code><a href="../../../../jcgp/backend/modules/problem/Problem.html#parseProblemData-java.io.File-jcgp.backend.resources.ModifiableResources-">Problem</a></code></span></div>
-<div class="block">Parses the specified file and uses the parsed data to
- set up the problem type instance appropriately. Any necessary
- resource changes can be performed using the provided <code>ModifiableResources</code>
- instance.
- <br><br>
- In addition, realisations of this method should update the value of
- maxFitness where appropriate, as this may be displayed to the user
- if a GUI is in use.</div>
-<dl>
-<dt><span class="overrideSpecifyLabel">Specified by:</span></dt>
-<dd><code><a href="../../../../jcgp/backend/modules/problem/Problem.html#parseProblemData-java.io.File-jcgp.backend.resources.ModifiableResources-">parseProblemData</a></code>&nbsp;in class&nbsp;<code><a href="../../../../jcgp/backend/modules/problem/Problem.html" title="class in jcgp.backend.modules.problem">Problem</a></code></dd>
-<dt><span class="paramLabel">Parameters:</span></dt>
-<dd><code>file</code> - the data file to parse.</dd>
-<dd><code>resources</code> - a modifiable reference to the experiment's resources.</dd>
-</dl>
-</li>
-</ul>
-<a name="isImprovement-jcgp.backend.population.Chromosome-">
-<!-- -->
-</a>
-<ul class="blockListLast">
-<li class="blockList">
-<h4>isImprovement</h4>
-<pre>public&nbsp;boolean&nbsp;isImprovement(<a href="../../../../jcgp/backend/population/Chromosome.html" title="class in jcgp.backend.population">Chromosome</a>&nbsp;fittest)</pre>
-<div class="block"><span class="descfrmTypeLabel">Description copied from class:&nbsp;<code><a href="../../../../jcgp/backend/modules/problem/Problem.html#isImprovement-jcgp.backend.population.Chromosome-">Problem</a></code></span></div>
-<div class="block">Used to assert whether a given chromosome is an improvement over
- the current best chromosome. A typical implementation of this method
- will simply compare chromosome fitness values, though the problem type
- is free to implement this in any way.</div>
-<dl>
-<dt><span class="overrideSpecifyLabel">Specified by:</span></dt>
-<dd><code><a href="../../../../jcgp/backend/modules/problem/Problem.html#isImprovement-jcgp.backend.population.Chromosome-">isImprovement</a></code>&nbsp;in class&nbsp;<code><a href="../../../../jcgp/backend/modules/problem/Problem.html" title="class in jcgp.backend.modules.problem">Problem</a></code></dd>
-<dt><span class="paramLabel">Parameters:</span></dt>
-<dd><code>fittest</code> - the potentially fitter chromosome.</dd>
-<dt><span class="returnLabel">Returns:</span></dt>
-<dd>true if the argument is fitter than the currently fittest chromosome.</dd>
-</dl>
-</li>
-</ul>
-</li>
-</ul>
-</li>
-</ul>
-</div>
-</div>
-<!-- ========= END OF CLASS DATA ========= -->
-<!-- ======= START OF BOTTOM NAVBAR ====== -->
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diff --git a/doc/jcgp/backend/modules/problem/class-use/BestFitness.html b/doc/jcgp/backend/modules/problem/class-use/BestFitness.html
deleted file mode 100644
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+++ /dev/null
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-<caption><span>Methods in <a href="../../../../../jcgp/backend/modules/problem/package-summary.html">jcgp.backend.modules.problem</a> that return <a href="../../../../../jcgp/backend/modules/problem/BestFitness.html" title="enum in jcgp.backend.modules.problem">BestFitness</a></span><span class="tabEnd">&nbsp;</span></caption>
-<tr>
-<th class="colFirst" scope="col">Modifier and Type</th>
-<th class="colLast" scope="col">Method and Description</th>
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-<tbody>
-<tr class="altColor">
-<td class="colFirst"><code><a href="../../../../../jcgp/backend/modules/problem/BestFitness.html" title="enum in jcgp.backend.modules.problem">BestFitness</a></code></td>
-<td class="colLast"><span class="typeNameLabel">Problem.</span><code><span class="memberNameLink"><a href="../../../../../jcgp/backend/modules/problem/Problem.html#getFitnessOrientation--">getFitnessOrientation</a></span>()</code>&nbsp;</td>
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-<tr class="rowColor">
-<td class="colFirst"><code>static <a href="../../../../../jcgp/backend/modules/problem/BestFitness.html" title="enum in jcgp.backend.modules.problem">BestFitness</a></code></td>
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-<td class="colFirst"><code>static <a href="../../../../../jcgp/backend/modules/problem/BestFitness.html" title="enum in jcgp.backend.modules.problem">BestFitness</a>[]</code></td>
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-<caption><span>Methods in <a href="../../../../../jcgp/backend/resources/package-summary.html">jcgp.backend.resources</a> that return <a href="../../../../../jcgp/backend/modules/problem/BestFitness.html" title="enum in jcgp.backend.modules.problem">BestFitness</a></span><span class="tabEnd">&nbsp;</span></caption>
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-<th class="colLast" scope="col">Method and Description</th>
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-<tbody>
-<tr class="altColor">
-<td class="colFirst"><code><a href="../../../../../jcgp/backend/modules/problem/BestFitness.html" title="enum in jcgp.backend.modules.problem">BestFitness</a></code></td>
-<td class="colLast"><span class="typeNameLabel">Resources.</span><code><span class="memberNameLink"><a href="../../../../../jcgp/backend/resources/Resources.html#fitnessOrientation--">fitnessOrientation</a></span>()</code>&nbsp;</td>
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-<td class="colFirst"><code>void</code></td>
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-<tr>
-<th class="colFirst" scope="col">Package</th>
-<th class="colLast" scope="col">Description</th>
-</tr>
-<tbody>
-<tr class="altColor">
-<td class="colFirst"><a href="#jcgp">jcgp</a></td>
-<td class="colLast">&nbsp;</td>
-</tr>
-<tr class="rowColor">
-<td class="colFirst"><a href="#jcgp.backend.modules.problem">jcgp.backend.modules.problem</a></td>
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-<table class="useSummary" border="0" cellpadding="3" cellspacing="0" summary="Use table, listing methods, and an explanation">
-<caption><span>Methods in <a href="../../../../../jcgp/package-summary.html">jcgp</a> that return <a href="../../../../../jcgp/backend/modules/problem/Problem.html" title="class in jcgp.backend.modules.problem">Problem</a></span><span class="tabEnd">&nbsp;</span></caption>
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-<th class="colFirst" scope="col">Modifier and Type</th>
-<th class="colLast" scope="col">Method and Description</th>
-</tr>
-<tbody>
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-<td class="colFirst"><code><a href="../../../../../jcgp/backend/modules/problem/Problem.html" title="class in jcgp.backend.modules.problem">Problem</a></code></td>
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-<td class="colFirst"><code>class&nbsp;</code></td>
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-<td class="colFirst"><code>class&nbsp;</code></td>
-<td class="colLast"><code><span class="memberNameLink"><a href="../../../../../jcgp/backend/modules/problem/SymbolicRegressionProblem.html" title="class in jcgp.backend.modules.problem">SymbolicRegressionProblem</a></span></code>
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-<td class="colFirst"><a href="#jcgp.gui">jcgp.gui</a></td>
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-<caption><span>Methods in <a href="../../../../../jcgp/backend/modules/problem/package-summary.html">jcgp.backend.modules.problem</a> that return <a href="../../../../../jcgp/backend/modules/problem/TestCaseProblem.TestCase.html" title="class in jcgp.backend.modules.problem">TestCaseProblem.TestCase</a></span><span class="tabEnd">&nbsp;</span></caption>
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-<th class="colLast" scope="col">Method and Description</th>
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-<tbody>
-<tr class="altColor">
-<td class="colFirst"><code><a href="../../../../../jcgp/backend/modules/problem/TestCaseProblem.TestCase.html" title="class in jcgp.backend.modules.problem">TestCaseProblem.TestCase</a>&lt;java.lang.Double&gt;</code></td>
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-<th class="colLast" scope="col">Method and Description</th>
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-</tr>
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-<tr class="altColor">
-<td class="colFirst"><code>void</code></td>
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-</tr>
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-<tr class="altColor">
-<td class="colFirst"><code>void</code></td>
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-<th class="colLast" scope="col">Method and Description</th>
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-<td class="colFirst"><code>javafx.scene.control.TableView&lt;<a href="../../../../../jcgp/backend/modules/problem/TestCaseProblem.TestCase.html" title="class in jcgp.backend.modules.problem">TestCaseProblem.TestCase</a>&lt;java.lang.Object&gt;&gt;</code></td>
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-<tr class="rowColor">
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-<td class="colFirst"><code>static void</code></td>
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diff --git a/doc/jcgp/backend/modules/problem/class-use/TravellingSalesmanProblem.html b/doc/jcgp/backend/modules/problem/class-use/TravellingSalesmanProblem.html
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diff --git a/doc/jcgp/backend/modules/problem/package-frame.html b/doc/jcgp/backend/modules/problem/package-frame.html
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diff --git a/doc/jcgp/backend/modules/problem/package-summary.html b/doc/jcgp/backend/modules/problem/package-summary.html
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-<td class="colFirst"><a href="../../../../jcgp/backend/modules/problem/DigitalCircuitProblem.html" title="class in jcgp.backend.modules.problem">DigitalCircuitProblem</a></td>
-<td class="colLast">
-<div class="block">Digital circuit problem
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- Using this problem type, digital logic circuits can be evolved.</div>
-</td>
-</tr>
-<tr class="rowColor">
-<td class="colFirst"><a href="../../../../jcgp/backend/modules/problem/Problem.html" title="class in jcgp.backend.modules.problem">Problem</a></td>
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-<div class="block">Defines the general behaviour of a CGP problem.</div>
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-<tr class="altColor">
-<td class="colFirst"><a href="../../../../jcgp/backend/modules/problem/SymbolicRegressionProblem.html" title="class in jcgp.backend.modules.problem">SymbolicRegressionProblem</a></td>
-<td class="colLast">
-<div class="block">Symbolic regression functions
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- Using this problem type, regression problems can be solved.</div>
-</td>
-</tr>
-<tr class="rowColor">
-<td class="colFirst"><a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.html" title="class in jcgp.backend.modules.problem">TestCaseProblem</a>&lt;T&gt;</td>
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