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authorEduardo Pedroni <ep625@york.ac.uk>2014-05-06 14:29:37 +0100
committerEduardo Pedroni <ep625@york.ac.uk>2014-05-06 14:29:37 +0100
commit8189116ea4b5db4675e31dfd04a5687d55e29262 (patch)
treec1815021452a888f8838f1628d8fb4689777e73e /doc/jcgp/backend/modules/problem
parentaa9e74e7f67789f6353fc26e02ee8e68e40609a2 (diff)
Added javadocs, made minor changes to the comments
Diffstat (limited to 'doc/jcgp/backend/modules/problem')
-rw-r--r--doc/jcgp/backend/modules/problem/BestFitness.html341
-rw-r--r--doc/jcgp/backend/modules/problem/DigitalCircuitProblem.html455
-rw-r--r--doc/jcgp/backend/modules/problem/Problem.html508
-rw-r--r--doc/jcgp/backend/modules/problem/SymbolicRegressionProblem.html468
-rw-r--r--doc/jcgp/backend/modules/problem/TestCaseProblem.TestCase.html358
-rw-r--r--doc/jcgp/backend/modules/problem/TestCaseProblem.html427
-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.html217
-rw-r--r--doc/jcgp/backend/modules/problem/class-use/SymbolicRegressionProblem.html124
-rw-r--r--doc/jcgp/backend/modules/problem/class-use/TestCaseProblem.TestCase.html249
-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.html188
-rw-r--r--doc/jcgp/backend/modules/problem/package-tree.html163
-rw-r--r--doc/jcgp/backend/modules/problem/package-use.html305
18 files changed, 4951 insertions, 0 deletions
diff --git a/doc/jcgp/backend/modules/problem/BestFitness.html b/doc/jcgp/backend/modules/problem/BestFitness.html
new file mode 100644
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+++ b/doc/jcgp/backend/modules/problem/BestFitness.html
@@ -0,0 +1,341 @@
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+<!-- NewPage -->
+<html lang="en">
+<head>
+<!-- Generated by javadoc (1.8.0_05) on Tue May 06 14:28:07 BST 2014 -->
+<title>BestFitness</title>
+<meta name="date" content="2014-05-06">
+<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="BestFitness";
+ }
+ }
+ catch(err) {
+ }
+//-->
+var methods = {"i0":9,"i1":9};
+var tabs = {65535:["t0","All Methods"],1:["t1","Static Methods"],8:["t4","Concrete Methods"]};
+var altColor = "altColor";
+var rowColor = "rowColor";
+var tableTab = "tableTab";
+var activeTableTab = "activeTableTab";
+</script>
+<noscript>
+<div>JavaScript is disabled on your browser.</div>
+</noscript>
+<!-- ========= START OF TOP NAVBAR ======= -->
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+<a name="navbar.top.firstrow">
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+<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/BestFitness.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><a href="../../../../jcgp/backend/modules/problem/DigitalCircuitProblem.html" title="class in jcgp.backend.modules.problem"><span class="typeNameLink">Next&nbsp;Class</span></a></li>
+</ul>
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+ allClassesLink.style.display = "block";
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+ else {
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+ //-->
+</script>
+</div>
+<div>
+<ul class="subNavList">
+<li>Summary:&nbsp;</li>
+<li>Nested&nbsp;|&nbsp;</li>
+<li><a href="#enum.constant.summary">Enum Constants</a>&nbsp;|&nbsp;</li>
+<li>Field&nbsp;|&nbsp;</li>
+<li><a href="#method.summary">Method</a></li>
+</ul>
+<ul class="subNavList">
+<li>Detail:&nbsp;</li>
+<li><a href="#enum.constant.detail">Enum Constants</a>&nbsp;|&nbsp;</li>
+<li>Field&nbsp;|&nbsp;</li>
+<li><a href="#method.detail">Method</a></li>
+</ul>
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+<a name="skip.navbar.top">
+<!-- -->
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+<!-- ========= END OF TOP NAVBAR ========= -->
+<!-- ======== START OF CLASS DATA ======== -->
+<div class="header">
+<div class="subTitle">jcgp.backend.modules.problem</div>
+<h2 title="Enum BestFitness" class="title">Enum BestFitness</h2>
+</div>
+<div class="contentContainer">
+<ul class="inheritance">
+<li>java.lang.Object</li>
+<li>
+<ul class="inheritance">
+<li>java.lang.Enum&lt;<a href="../../../../jcgp/backend/modules/problem/BestFitness.html" title="enum in jcgp.backend.modules.problem">BestFitness</a>&gt;</li>
+<li>
+<ul class="inheritance">
+<li>jcgp.backend.modules.problem.BestFitness</li>
+</ul>
+</li>
+</ul>
+</li>
+</ul>
+<div class="description">
+<ul class="blockList">
+<li class="blockList">
+<dl>
+<dt>All Implemented Interfaces:</dt>
+<dd>java.io.Serializable, java.lang.Comparable&lt;<a href="../../../../jcgp/backend/modules/problem/BestFitness.html" title="enum in jcgp.backend.modules.problem">BestFitness</a>&gt;</dd>
+</dl>
+<hr>
+<br>
+<pre>public enum <span class="typeNameLabel">BestFitness</span>
+extends java.lang.Enum&lt;<a href="../../../../jcgp/backend/modules/problem/BestFitness.html" title="enum in jcgp.backend.modules.problem">BestFitness</a>&gt;</pre>
+</li>
+</ul>
+</div>
+<div class="summary">
+<ul class="blockList">
+<li class="blockList">
+<!-- =========== ENUM CONSTANT SUMMARY =========== -->
+<ul class="blockList">
+<li class="blockList"><a name="enum.constant.summary">
+<!-- -->
+</a>
+<h3>Enum Constant Summary</h3>
+<table class="memberSummary" border="0" cellpadding="3" cellspacing="0" summary="Enum Constant Summary table, listing enum constants, and an explanation">
+<caption><span>Enum Constants</span><span class="tabEnd">&nbsp;</span></caption>
+<tr>
+<th class="colOne" scope="col">Enum Constant and Description</th>
+</tr>
+<tr class="altColor">
+<td class="colOne"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/problem/BestFitness.html#HIGH">HIGH</a></span></code>&nbsp;</td>
+</tr>
+<tr class="rowColor">
+<td class="colOne"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/problem/BestFitness.html#LOW">LOW</a></span></code>&nbsp;</td>
+</tr>
+</table>
+</li>
+</ul>
+<!-- ========== METHOD SUMMARY =========== -->
+<ul class="blockList">
+<li class="blockList"><a name="method.summary">
+<!-- -->
+</a>
+<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="t1" class="tableTab"><span><a href="javascript:show(1);">Static 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>static <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/BestFitness.html#valueOf-java.lang.String-">valueOf</a></span>(java.lang.String&nbsp;name)</code>
+<div class="block">Returns the enum constant of this type with the specified name.</div>
+</td>
+</tr>
+<tr id="i1" 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>
+<td class="colLast"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/problem/BestFitness.html#values--">values</a></span>()</code>
+<div class="block">Returns an array containing the constants of this enum type, in
+the order they are declared.</div>
+</td>
+</tr>
+</table>
+<ul class="blockList">
+<li class="blockList"><a name="methods.inherited.from.class.java.lang.Enum">
+<!-- -->
+</a>
+<h3>Methods inherited from class&nbsp;java.lang.Enum</h3>
+<code>compareTo, equals, getDeclaringClass, hashCode, name, ordinal, toString, valueOf</code></li>
+</ul>
+<ul class="blockList">
+<li class="blockList"><a name="methods.inherited.from.class.java.lang.Object">
+<!-- -->
+</a>
+<h3>Methods inherited from class&nbsp;java.lang.Object</h3>
+<code>getClass, notify, notifyAll, wait, wait, wait</code></li>
+</ul>
+</li>
+</ul>
+</li>
+</ul>
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+<div class="details">
+<ul class="blockList">
+<li class="blockList">
+<!-- ============ ENUM CONSTANT DETAIL =========== -->
+<ul class="blockList">
+<li class="blockList"><a name="enum.constant.detail">
+<!-- -->
+</a>
+<h3>Enum Constant Detail</h3>
+<a name="HIGH">
+<!-- -->
+</a>
+<ul class="blockList">
+<li class="blockList">
+<h4>HIGH</h4>
+<pre>public static final&nbsp;<a href="../../../../jcgp/backend/modules/problem/BestFitness.html" title="enum in jcgp.backend.modules.problem">BestFitness</a> HIGH</pre>
+</li>
+</ul>
+<a name="LOW">
+<!-- -->
+</a>
+<ul class="blockListLast">
+<li class="blockList">
+<h4>LOW</h4>
+<pre>public static final&nbsp;<a href="../../../../jcgp/backend/modules/problem/BestFitness.html" title="enum in jcgp.backend.modules.problem">BestFitness</a> LOW</pre>
+</li>
+</ul>
+</li>
+</ul>
+<!-- ============ METHOD DETAIL ========== -->
+<ul class="blockList">
+<li class="blockList"><a name="method.detail">
+<!-- -->
+</a>
+<h3>Method Detail</h3>
+<a name="values--">
+<!-- -->
+</a>
+<ul class="blockList">
+<li class="blockList">
+<h4>values</h4>
+<pre>public static&nbsp;<a href="../../../../jcgp/backend/modules/problem/BestFitness.html" title="enum in jcgp.backend.modules.problem">BestFitness</a>[]&nbsp;values()</pre>
+<div class="block">Returns an array containing the constants of this enum type, in
+the order they are declared. This method may be used to iterate
+over the constants as follows:
+<pre>
+for (BestFitness c : BestFitness.values())
+&nbsp; System.out.println(c);
+</pre></div>
+<dl>
+<dt><span class="returnLabel">Returns:</span></dt>
+<dd>an array containing the constants of this enum type, in the order they are declared</dd>
+</dl>
+</li>
+</ul>
+<a name="valueOf-java.lang.String-">
+<!-- -->
+</a>
+<ul class="blockListLast">
+<li class="blockList">
+<h4>valueOf</h4>
+<pre>public static&nbsp;<a href="../../../../jcgp/backend/modules/problem/BestFitness.html" title="enum in jcgp.backend.modules.problem">BestFitness</a>&nbsp;valueOf(java.lang.String&nbsp;name)</pre>
+<div class="block">Returns the enum constant of this type with the specified name.
+The string must match <i>exactly</i> an identifier used to declare an
+enum constant in this type. (Extraneous whitespace characters are
+not permitted.)</div>
+<dl>
+<dt><span class="paramLabel">Parameters:</span></dt>
+<dd><code>name</code> - the name of the enum constant to be returned.</dd>
+<dt><span class="returnLabel">Returns:</span></dt>
+<dd>the enum constant with the specified name</dd>
+<dt><span class="throwsLabel">Throws:</span></dt>
+<dd><code>java.lang.IllegalArgumentException</code> - if this enum type has no constant with the specified name</dd>
+<dd><code>java.lang.NullPointerException</code> - if the argument is null</dd>
+</dl>
+</li>
+</ul>
+</li>
+</ul>
+</li>
+</ul>
+</div>
+</div>
+<!-- ========= END OF CLASS DATA ========= -->
+<!-- ======= START OF BOTTOM NAVBAR ====== -->
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+<li><a href="package-summary.html">Package</a></li>
+<li class="navBarCell1Rev">Class</li>
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+</ul>
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+</ul>
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diff --git a/doc/jcgp/backend/modules/problem/DigitalCircuitProblem.html b/doc/jcgp/backend/modules/problem/DigitalCircuitProblem.html
new file mode 100644
index 0000000..d9d3011
--- /dev/null
+++ b/doc/jcgp/backend/modules/problem/DigitalCircuitProblem.html
@@ -0,0 +1,455 @@
+<!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 Tue May 06 14:28:07 BST 2014 -->
+<title>DigitalCircuitProblem</title>
+<meta name="date" content="2014-05-06">
+<link rel="stylesheet" type="text/css" href="../../../../stylesheet.css" title="Style">
+<script type="text/javascript" src="../../../../script.js"></script>
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+<script type="text/javascript"><!--
+ try {
+ if (location.href.indexOf('is-external=true') == -1) {
+ parent.document.title="DigitalCircuitProblem";
+ }
+ }
+ catch(err) {
+ }
+//-->
+var methods = {"i0":10,"i1":10,"i2":10,"i3":10};
+var tabs = {65535:["t0","All Methods"],2:["t2","Instance Methods"],8:["t4","Concrete Methods"]};
+var altColor = "altColor";
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+</noscript>
+<!-- ========= START OF TOP NAVBAR ======= -->
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+<a name="navbar.top.firstrow">
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+<ul class="navList" title="Navigation">
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+<li><a href="package-summary.html">Package</a></li>
+<li class="navBarCell1Rev">Class</li>
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+</ul>
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+<li><a href="../../../../jcgp/backend/modules/problem/BestFitness.html" title="enum in jcgp.backend.modules.problem"><span class="typeNameLink">Prev&nbsp;Class</span></a></li>
+<li><a href="../../../../jcgp/backend/modules/problem/Problem.html" title="class in jcgp.backend.modules.problem"><span class="typeNameLink">Next&nbsp;Class</span></a></li>
+</ul>
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+</div>
+<div>
+<ul class="subNavList">
+<li>Summary:&nbsp;</li>
+<li><a href="#nested.classes.inherited.from.class.jcgp.backend.modules.problem.TestCaseProblem">Nested</a>&nbsp;|&nbsp;</li>
+<li>Field&nbsp;|&nbsp;</li>
+<li><a href="#constructor.summary">Constr</a>&nbsp;|&nbsp;</li>
+<li><a href="#method.summary">Method</a></li>
+</ul>
+<ul class="subNavList">
+<li>Detail:&nbsp;</li>
+<li>Field&nbsp;|&nbsp;</li>
+<li><a href="#constructor.detail">Constr</a>&nbsp;|&nbsp;</li>
+<li><a href="#method.detail">Method</a></li>
+</ul>
+</div>
+<a name="skip.navbar.top">
+<!-- -->
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+<!-- ========= END OF TOP NAVBAR ========= -->
+<!-- ======== START OF CLASS DATA ======== -->
+<div class="header">
+<div class="subTitle">jcgp.backend.modules.problem</div>
+<h2 title="Class DigitalCircuitProblem" class="title">Class DigitalCircuitProblem</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;<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>
+</ul>
+</li>
+</ul>
+</li>
+</ul>
+<div class="description">
+<ul class="blockList">
+<li class="blockList">
+<hr>
+<br>
+<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>
+</ul>
+</div>
+<div class="summary">
+<ul class="blockList">
+<li class="blockList">
+<!-- ======== NESTED CLASS SUMMARY ======== -->
+<ul class="blockList">
+<li class="blockList"><a name="nested.class.summary">
+<!-- -->
+</a>
+<h3>Nested Class Summary</h3>
+<ul class="blockList">
+<li class="blockList"><a name="nested.classes.inherited.from.class.jcgp.backend.modules.problem.TestCaseProblem">
+<!-- -->
+</a>
+<h3>Nested classes/interfaces inherited from class&nbsp;jcgp.backend.modules.problem.<a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.html" title="class in jcgp.backend.modules.problem">TestCaseProblem</a></h3>
+<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>
+</ul>
+</li>
+</ul>
+<!-- ======== CONSTRUCTOR SUMMARY ======== -->
+<ul class="blockList">
+<li class="blockList"><a name="constructor.summary">
+<!-- -->
+</a>
+<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/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>
+</tr>
+</table>
+</li>
+</ul>
+<!-- ========== METHOD SUMMARY =========== -->
+<ul class="blockList">
+<li class="blockList"><a name="method.summary">
+<!-- -->
+</a>
+<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/DigitalCircuitProblem.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>int</code></td>
+<td class="colLast"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/problem/DigitalCircuitProblem.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="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>
+</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/DigitalCircuitProblem.html#perfectSolutionFound-jcgp.backend.population.Population-">perfectSolutionFound</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>
+</table>
+<ul class="blockList">
+<li class="blockList"><a name="methods.inherited.from.class.jcgp.backend.modules.problem.TestCaseProblem">
+<!-- -->
+</a>
+<h3>Methods inherited from class&nbsp;jcgp.backend.modules.problem.<a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.html" title="class in jcgp.backend.modules.problem">TestCaseProblem</a></h3>
+<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#parseProblemData-java.io.File-jcgp.backend.resources.ModifiableResources-">parseProblemData</a></code></li>
+</ul>
+<ul class="blockList">
+<li class="blockList"><a name="methods.inherited.from.class.jcgp.backend.modules.problem.Problem">
+<!-- -->
+</a>
+<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>
+</ul>
+<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>
+</ul>
+<ul class="blockList">
+<li class="blockList"><a name="methods.inherited.from.class.java.lang.Object">
+<!-- -->
+</a>
+<h3>Methods inherited from class&nbsp;java.lang.Object</h3>
+<code>equals, getClass, hashCode, notify, notifyAll, wait, wait, wait</code></li>
+</ul>
+</li>
+</ul>
+</li>
+</ul>
+</div>
+<div class="details">
+<ul class="blockList">
+<li class="blockList">
+<!-- ========= CONSTRUCTOR DETAIL ======== -->
+<ul class="blockList">
+<li class="blockList"><a name="constructor.detail">
+<!-- -->
+</a>
+<h3>Constructor Detail</h3>
+<a name="DigitalCircuitProblem-jcgp.backend.resources.Resources-">
+<!-- -->
+</a>
+<ul class="blockListLast">
+<li class="blockList">
+<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>
+</li>
+</ul>
+<!-- ============ METHOD DETAIL ========== -->
+<ul class="blockList">
+<li class="blockList"><a name="method.detail">
+<!-- -->
+</a>
+<h3>Method Detail</h3>
+<a name="evaluate-jcgp.backend.population.Population-jcgp.backend.resources.Resources-">
+<!-- -->
+</a>
+<ul class="blockList">
+<li class="blockList">
+<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="parseTestCase-java.lang.String:A-java.lang.String:A-">
+<!-- -->
+</a>
+<ul class="blockList">
+<li class="blockList">
+<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>
+<a name="perfectSolutionFound-jcgp.backend.population.Population-">
+<!-- -->
+</a>
+<ul class="blockList">
+<li class="blockList">
+<h4>perfectSolutionFound</h4>
+<pre>public&nbsp;int&nbsp;perfectSolutionFound(<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#perfectSolutionFound-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#perfectSolutionFound-jcgp.backend.population.Population-">perfectSolutionFound</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>
+<a name="hasImprovement-jcgp.backend.population.Population-">
+<!-- -->
+</a>
+<ul class="blockListLast">
+<li class="blockList">
+<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 ====== -->
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+<li><a href="../../../../jcgp/backend/modules/problem/BestFitness.html" title="enum in jcgp.backend.modules.problem"><span class="typeNameLink">Prev&nbsp;Class</span></a></li>
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diff --git a/doc/jcgp/backend/modules/problem/Problem.html b/doc/jcgp/backend/modules/problem/Problem.html
new file mode 100644
index 0000000..0d08b2a
--- /dev/null
+++ b/doc/jcgp/backend/modules/problem/Problem.html
@@ -0,0 +1,508 @@
+<!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 Tue May 06 14:28:07 BST 2014 -->
+<title>Problem</title>
+<meta name="date" content="2014-05-06">
+<link rel="stylesheet" type="text/css" href="../../../../stylesheet.css" title="Style">
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+ if (location.href.indexOf('is-external=true') == -1) {
+ parent.document.title="Problem";
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+ }
+ catch(err) {
+ }
+//-->
+var methods = {"i0":6,"i1":10,"i2":10,"i3":10,"i4":10,"i5":6,"i6":6,"i7":6,"i8":10};
+var tabs = {65535:["t0","All Methods"],2:["t2","Instance Methods"],4:["t3","Abstract Methods"],8:["t4","Concrete Methods"]};
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+<!-- ========= END OF TOP NAVBAR ========= -->
+<!-- ======== START OF CLASS DATA ======== -->
+<div class="header">
+<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">
+<li class="blockList">
+<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>
+</dl>
+</li>
+</ul>
+</div>
+<div class="summary">
+<ul class="blockList">
+<li class="blockList">
+<!-- ======== CONSTRUCTOR SUMMARY ======== -->
+<ul class="blockList">
+<li class="blockList"><a name="constructor.summary">
+<!-- -->
+</a>
+<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/Problem.html#Problem-jcgp.backend.resources.Resources-">Problem</a></span>(<a href="../../../../jcgp/backend/resources/Resources.html" title="class in jcgp.backend.resources">Resources</a>&nbsp;resources)</code>
+<div class="block">Initialises the two problem-wide parameters, maxFitness and bestFitness.</div>
+</td>
+</tr>
+</table>
+</li>
+</ul>
+<!-- ========== METHOD SUMMARY =========== -->
+<ul class="blockList">
+<li class="blockList"><a name="method.summary">
+<!-- -->
+</a>
+<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="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-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>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>
+</tr>
+<tr id="i2" class="altColor">
+<td class="colFirst"><code>java.lang.String</code></td>
+<td class="colLast"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/problem/Problem.html#getFileExtension--">getFileExtension</a></span>()</code>&nbsp;</td>
+</tr>
+<tr id="i3" class="rowColor">
+<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>
+<tr id="i4" class="altColor">
+<td class="colFirst"><code><a href="../../../../jcgp/backend/function/FunctionSet.html" title="class in jcgp.backend.function">FunctionSet</a></code></td>
+<td class="colLast"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/problem/Problem.html#getFunctionSet--">getFunctionSet</a></span>()</code>&nbsp;</td>
+</tr>
+<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 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,
+ <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
+ set up the problem type instance appropriately.</div>
+</td>
+</tr>
+<tr id="i7" 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#perfectSolutionFound-jcgp.backend.population.Population-">perfectSolutionFound</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="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>
+<div class="block">Resets the bestFitness parameter.</div>
+</td>
+</tr>
+</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>
+</ul>
+<ul class="blockList">
+<li class="blockList"><a name="methods.inherited.from.class.java.lang.Object">
+<!-- -->
+</a>
+<h3>Methods inherited from class&nbsp;java.lang.Object</h3>
+<code>equals, getClass, hashCode, notify, notifyAll, wait, wait, wait</code></li>
+</ul>
+</li>
+</ul>
+</li>
+</ul>
+</div>
+<div class="details">
+<ul class="blockList">
+<li class="blockList">
+<!-- ========= CONSTRUCTOR DETAIL ======== -->
+<ul class="blockList">
+<li class="blockList"><a name="constructor.detail">
+<!-- -->
+</a>
+<h3>Constructor Detail</h3>
+<a name="Problem-jcgp.backend.resources.Resources-">
+<!-- -->
+</a>
+<ul class="blockListLast">
+<li class="blockList">
+<h4>Problem</h4>
+<pre>public&nbsp;Problem(<a href="../../../../jcgp/backend/resources/Resources.html" title="class in jcgp.backend.resources">Resources</a>&nbsp;resources)</pre>
+<div class="block">Initialises the two problem-wide parameters, maxFitness and bestFitness.</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>
+</ul>
+<!-- ============ METHOD DETAIL ========== -->
+<ul class="blockList">
+<li class="blockList"><a name="method.detail">
+<!-- -->
+</a>
+<h3>Method Detail</h3>
+<a name="evaluate-jcgp.backend.population.Population-jcgp.backend.resources.Resources-">
+<!-- -->
+</a>
+<ul class="blockList">
+<li class="blockList">
+<h4>evaluate</h4>
+<pre>public abstract&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">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>
+<dd><code>resources</code> - parameters and utilities for optional reference.</dd>
+</dl>
+</li>
+</ul>
+<a name="perfectSolutionFound-jcgp.backend.population.Population-">
+<!-- -->
+</a>
+<ul class="blockList">
+<li class="blockList">
+<h4>perfectSolutionFound</h4>
+<pre>public abstract&nbsp;int&nbsp;perfectSolutionFound(<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>
+<a name="hasImprovement-jcgp.backend.population.Population-">
+<!-- -->
+</a>
+<ul class="blockList">
+<li class="blockList">
+<h4>hasImprovement</h4>
+<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>
+</ul>
+<a name="parseProblemData-java.io.File-jcgp.backend.resources.ModifiableResources-">
+<!-- -->
+</a>
+<ul class="blockList">
+<li class="blockList">
+<h4>parseProblemData</h4>
+<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>
+</dl>
+</li>
+</ul>
+<a name="getFunctionSet--">
+<!-- -->
+</a>
+<ul class="blockList">
+<li class="blockList">
+<h4>getFunctionSet</h4>
+<pre>public&nbsp;<a href="../../../../jcgp/backend/function/FunctionSet.html" title="class in jcgp.backend.function">FunctionSet</a>&nbsp;getFunctionSet()</pre>
+<dl>
+<dt><span class="returnLabel">Returns:</span></dt>
+<dd>the FunctionSet object used by this problem type.</dd>
+</dl>
+</li>
+</ul>
+<a name="getFileExtension--">
+<!-- -->
+</a>
+<ul class="blockList">
+<li class="blockList">
+<h4>getFileExtension</h4>
+<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>
+</li>
+</ul>
+<a name="getFitnessOrientation--">
+<!-- -->
+</a>
+<ul class="blockList">
+<li class="blockList">
+<h4>getFitnessOrientation</h4>
+<pre>public&nbsp;<a href="../../../../jcgp/backend/modules/problem/BestFitness.html" title="enum in jcgp.backend.modules.problem">BestFitness</a>&nbsp;getFitnessOrientation()</pre>
+<dl>
+<dt><span class="returnLabel">Returns:</span></dt>
+<dd>the fitness orientation of this particular problem.</dd>
+</dl>
+</li>
+</ul>
+<a name="getBestFitness--">
+<!-- -->
+</a>
+<ul class="blockList">
+<li class="blockList">
+<h4>getBestFitness</h4>
+<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>
+</dl>
+</li>
+</ul>
+<a name="reset--">
+<!-- -->
+</a>
+<ul class="blockListLast">
+<li class="blockList">
+<h4>reset</h4>
+<pre>public&nbsp;void&nbsp;reset()</pre>
+<div class="block">Resets the bestFitness parameter.</div>
+</li>
+</ul>
+</li>
+</ul>
+</li>
+</ul>
+</div>
+</div>
+<!-- ========= END OF CLASS DATA ========= -->
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+<div class="header">
+<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>
+</ul>
+<div class="description">
+<ul class="blockList">
+<li class="blockList">
+<hr>
+<br>
+<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>
+</ul>
+</div>
+<div class="summary">
+<ul class="blockList">
+<li class="blockList">
+<!-- ======== NESTED CLASS SUMMARY ======== -->
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+<h3>Nested Class Summary</h3>
+<ul class="blockList">
+<li class="blockList"><a name="nested.classes.inherited.from.class.jcgp.backend.modules.problem.TestCaseProblem">
+<!-- -->
+</a>
+<h3>Nested classes/interfaces inherited from class&nbsp;jcgp.backend.modules.problem.<a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.html" title="class in jcgp.backend.modules.problem">TestCaseProblem</a></h3>
+<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>
+</ul>
+</li>
+</ul>
+<!-- ======== CONSTRUCTOR SUMMARY ======== -->
+<ul class="blockList">
+<li class="blockList"><a name="constructor.summary">
+<!-- -->
+</a>
+<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/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>
+<div class="block">Creates a new instance of SymbolicRegressionProblem.</div>
+</td>
+</tr>
+</table>
+</li>
+</ul>
+<!-- ========== METHOD SUMMARY =========== -->
+<ul class="blockList">
+<li class="blockList"><a name="method.summary">
+<!-- -->
+</a>
+<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/SymbolicRegressionProblem.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>int</code></td>
+<td class="colLast"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/problem/SymbolicRegressionProblem.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="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;java.lang.Double&gt;</code></td>
+<td class="colLast"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/problem/SymbolicRegressionProblem.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>
+</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/SymbolicRegressionProblem.html#perfectSolutionFound-jcgp.backend.population.Population-">perfectSolutionFound</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>
+</table>
+<ul class="blockList">
+<li class="blockList"><a name="methods.inherited.from.class.jcgp.backend.modules.problem.TestCaseProblem">
+<!-- -->
+</a>
+<h3>Methods inherited from class&nbsp;jcgp.backend.modules.problem.<a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.html" title="class in jcgp.backend.modules.problem">TestCaseProblem</a></h3>
+<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#parseProblemData-java.io.File-jcgp.backend.resources.ModifiableResources-">parseProblemData</a></code></li>
+</ul>
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+<!-- -->
+</a>
+<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>
+</ul>
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+<li class="blockList"><a name="methods.inherited.from.class.jcgp.backend.modules.Module">
+<!-- -->
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+<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>
+</ul>
+<ul class="blockList">
+<li class="blockList"><a name="methods.inherited.from.class.java.lang.Object">
+<!-- -->
+</a>
+<h3>Methods inherited from class&nbsp;java.lang.Object</h3>
+<code>equals, getClass, hashCode, notify, notifyAll, wait, wait, wait</code></li>
+</ul>
+</li>
+</ul>
+</li>
+</ul>
+</div>
+<div class="details">
+<ul class="blockList">
+<li class="blockList">
+<!-- ========= CONSTRUCTOR DETAIL ======== -->
+<ul class="blockList">
+<li class="blockList"><a name="constructor.detail">
+<!-- -->
+</a>
+<h3>Constructor Detail</h3>
+<a name="SymbolicRegressionProblem-jcgp.backend.resources.Resources-">
+<!-- -->
+</a>
+<ul class="blockListLast">
+<li class="blockList">
+<h4>SymbolicRegressionProblem</h4>
+<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>
+</li>
+</ul>
+<!-- ============ METHOD DETAIL ========== -->
+<ul class="blockList">
+<li class="blockList"><a name="method.detail">
+<!-- -->
+</a>
+<h3>Method Detail</h3>
+<a name="evaluate-jcgp.backend.population.Population-jcgp.backend.resources.Resources-">
+<!-- -->
+</a>
+<ul class="blockList">
+<li class="blockList">
+<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="parseTestCase-java.lang.String:A-java.lang.String:A-">
+<!-- -->
+</a>
+<ul class="blockList">
+<li class="blockList">
+<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;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>
+</dl>
+</li>
+</ul>
+<a name="perfectSolutionFound-jcgp.backend.population.Population-">
+<!-- -->
+</a>
+<ul class="blockList">
+<li class="blockList">
+<h4>perfectSolutionFound</h4>
+<pre>public&nbsp;int&nbsp;perfectSolutionFound(<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#perfectSolutionFound-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#perfectSolutionFound-jcgp.backend.population.Population-">perfectSolutionFound</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>
+<a name="hasImprovement-jcgp.backend.population.Population-">
+<!-- -->
+</a>
+<ul class="blockListLast">
+<li class="blockList">
+<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 ========= -->
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diff --git a/doc/jcgp/backend/modules/problem/TestCaseProblem.TestCase.html b/doc/jcgp/backend/modules/problem/TestCaseProblem.TestCase.html
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+++ b/doc/jcgp/backend/modules/problem/TestCaseProblem.TestCase.html
@@ -0,0 +1,358 @@
+<!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.01 Transitional//EN" "http://www.w3.org/TR/html4/loose.dtd">
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+<div class="header">
+<div class="subTitle">jcgp.backend.modules.problem</div>
+<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">
+<li>jcgp.backend.modules.problem.TestCaseProblem.TestCase&lt;U&gt;</li>
+</ul>
+</li>
+</ul>
+<div class="description">
+<ul class="blockList">
+<li class="blockList">
+<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>
+</dl>
+</li>
+</ul>
+</div>
+<div class="summary">
+<ul class="blockList">
+<li class="blockList">
+<!-- ======== CONSTRUCTOR SUMMARY ======== -->
+<ul class="blockList">
+<li class="blockList"><a name="constructor.summary">
+<!-- -->
+</a>
+<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/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>
+<div class="block">Creates a new test case, inputs and outputs
+ must be specified upon instantiation.</div>
+</td>
+</tr>
+</table>
+</li>
+</ul>
+<!-- ========== 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><a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.TestCase.html" title="type parameter in TestCaseProblem.TestCase">U</a></code></td>
+<td class="colLast"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.TestCase.html#getInput-int-">getInput</a></span>(int&nbsp;index)</code>&nbsp;</td>
+</tr>
+<tr id="i1" class="rowColor">
+<td class="colFirst"><code><a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.TestCase.html" title="type parameter in TestCaseProblem.TestCase">U</a>[]</code></td>
+<td class="colLast"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.TestCase.html#getInputs--">getInputs</a></span>()</code>&nbsp;</td>
+</tr>
+<tr id="i2" class="altColor">
+<td class="colFirst"><code><a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.TestCase.html" title="type parameter in TestCaseProblem.TestCase">U</a></code></td>
+<td class="colLast"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.TestCase.html#getOutput-int-">getOutput</a></span>(int&nbsp;index)</code>&nbsp;</td>
+</tr>
+<tr id="i3" class="rowColor">
+<td class="colFirst"><code><a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.TestCase.html" title="type parameter in TestCaseProblem.TestCase">U</a>[]</code></td>
+<td class="colLast"><code><span class="memberNameLink"><a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.TestCase.html#getOutputs--">getOutputs</a></span>()</code>&nbsp;</td>
+</tr>
+</table>
+<ul class="blockList">
+<li class="blockList"><a name="methods.inherited.from.class.java.lang.Object">
+<!-- -->
+</a>
+<h3>Methods inherited from class&nbsp;java.lang.Object</h3>
+<code>equals, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait</code></li>
+</ul>
+</li>
+</ul>
+</li>
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+<ul class="blockList">
+<li class="blockList"><a name="constructor.detail">
+<!-- -->
+</a>
+<h3>Constructor Detail</h3>
+<a name="TestCase-java.lang.Object:A-java.lang.Object:A-">
+<!-- -->
+</a><a name="TestCase-U:A-U:A-">
+<!-- -->
+</a>
+<ul class="blockListLast">
+<li class="blockList">
+<h4>TestCase</h4>
+<pre>public&nbsp;TestCase(<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)</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>
+<dd><code>outputs</code> - the array of outputs.</dd>
+</dl>
+</li>
+</ul>
+</li>
+</ul>
+<!-- ============ METHOD DETAIL ========== -->
+<ul class="blockList">
+<li class="blockList"><a name="method.detail">
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+<h3>Method Detail</h3>
+<a name="getInput-int-">
+<!-- -->
+</a>
+<ul class="blockList">
+<li class="blockList">
+<h4>getInput</h4>
+<pre>public&nbsp;<a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.TestCase.html" title="type parameter in TestCaseProblem.TestCase">U</a>&nbsp;getInput(int&nbsp;index)</pre>
+<dl>
+<dt><span class="paramLabel">Parameters:</span></dt>
+<dd><code>index</code> - the index to return.</dd>
+<dt><span class="returnLabel">Returns:</span></dt>
+<dd>the indexed input.</dd>
+</dl>
+</li>
+</ul>
+<a name="getOutput-int-">
+<!-- -->
+</a>
+<ul class="blockList">
+<li class="blockList">
+<h4>getOutput</h4>
+<pre>public&nbsp;<a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.TestCase.html" title="type parameter in TestCaseProblem.TestCase">U</a>&nbsp;getOutput(int&nbsp;index)</pre>
+<dl>
+<dt><span class="paramLabel">Parameters:</span></dt>
+<dd><code>index</code> - the index to return.</dd>
+<dt><span class="returnLabel">Returns:</span></dt>
+<dd>the indexed output.</dd>
+</dl>
+</li>
+</ul>
+<a name="getInputs--">
+<!-- -->
+</a>
+<ul class="blockList">
+<li class="blockList">
+<h4>getInputs</h4>
+<pre>public&nbsp;<a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.TestCase.html" title="type parameter in TestCaseProblem.TestCase">U</a>[]&nbsp;getInputs()</pre>
+<dl>
+<dt><span class="returnLabel">Returns:</span></dt>
+<dd>the complete array of inputs.</dd>
+</dl>
+</li>
+</ul>
+<a name="getOutputs--">
+<!-- -->
+</a>
+<ul class="blockListLast">
+<li class="blockList">
+<h4>getOutputs</h4>
+<pre>public&nbsp;<a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.TestCase.html" title="type parameter in TestCaseProblem.TestCase">U</a>[]&nbsp;getOutputs()</pre>
+<dl>
+<dt><span class="returnLabel">Returns:</span></dt>
+<dd>the complete array of outputs.</dd>
+</dl>
+</li>
+</ul>
+</li>
+</ul>
+</li>
+</ul>
+</div>
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diff --git a/doc/jcgp/backend/modules/problem/TestCaseProblem.html b/doc/jcgp/backend/modules/problem/TestCaseProblem.html
new file mode 100644
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+<div class="header">
+<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">
+<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.TestCaseProblem&lt;T&gt;</li>
+</ul>
+</li>
+</ul>
+</li>
+</ul>
+</li>
+</ul>
+<div class="description">
+<ul class="blockList">
+<li class="blockList">
+<dl>
+<dt><span class="paramLabel">Type Parameters:</span></dt>
+<dd><code>T</code> - the data type to be used by the TestCaseProblem.</dd>
+</dl>
+<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>
+</dl>
+<hr>
+<br>
+<pre>public abstract class <span class="typeNameLabel">TestCaseProblem&lt;T&gt;</span>
+extends <a href="../../../../jcgp/backend/modules/problem/Problem.html" title="class in jcgp.backend.modules.problem">Problem</a></pre>
+<div class="block">Abstract model for a problem that uses test cases. A test case
+ problem is any problem that compares the chromosome output to
+ 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>
+</dl>
+</li>
+</ul>
+</div>
+<div class="summary">
+<ul class="blockList">
+<li class="blockList">
+<!-- ======== NESTED CLASS SUMMARY ======== -->
+<ul class="blockList">
+<li class="blockList"><a name="nested.class.summary">
+<!-- -->
+</a>
+<h3>Nested Class Summary</h3>
+<table class="memberSummary" border="0" cellpadding="3" cellspacing="0" summary="Nested Class Summary table, listing nested classes, and an explanation">
+<caption><span>Nested Classes</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>
+<tr class="altColor">
+<td class="colFirst"><code>static class&nbsp;</code></td>
+<td class="colLast"><code><span class="memberNameLink"><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;</span></code>
+<div class="block">Basic data type for encapsulating test cases, it simply
+ contains arrays of inputs and outputs and associated getters.</div>
+</td>
+</tr>
+</table>
+</li>
+</ul>
+<!-- ======== CONSTRUCTOR SUMMARY ======== -->
+<ul class="blockList">
+<li class="blockList"><a name="constructor.summary">
+<!-- -->
+</a>
+<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/TestCaseProblem.html#TestCaseProblem-jcgp.backend.resources.Resources-">TestCaseProblem</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 TestCaseProblem object.</div>
+</td>
+</tr>
+</table>
+</li>
+</ul>
+<!-- ========== METHOD SUMMARY =========== -->
+<ul class="blockList">
+<li class="blockList"><a name="method.summary">
+<!-- -->
+</a>
+<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/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>
+<tr id="i1" class="rowColor">
+<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>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
+ set up the problem type instance appropriately.</div>
+</td>
+</tr>
+</table>
+<ul class="blockList">
+<li class="blockList"><a name="methods.inherited.from.class.jcgp.backend.modules.problem.Problem">
+<!-- -->
+</a>
+<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#evaluate-jcgp.backend.population.Population-jcgp.backend.resources.Resources-">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#hasImprovement-jcgp.backend.population.Population-">hasImprovement</a>, <a href="../../../../jcgp/backend/modules/problem/Problem.html#perfectSolutionFound-jcgp.backend.population.Population-">perfectSolutionFound</a>, <a href="../../../../jcgp/backend/modules/problem/Problem.html#reset--">reset</a></code></li>
+</ul>
+<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>
+</ul>
+<ul class="blockList">
+<li class="blockList"><a name="methods.inherited.from.class.java.lang.Object">
+<!-- -->
+</a>
+<h3>Methods inherited from class&nbsp;java.lang.Object</h3>
+<code>equals, getClass, hashCode, notify, notifyAll, wait, wait, wait</code></li>
+</ul>
+</li>
+</ul>
+</li>
+</ul>
+</div>
+<div class="details">
+<ul class="blockList">
+<li class="blockList">
+<!-- ========= CONSTRUCTOR DETAIL ======== -->
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+<a name="TestCaseProblem-jcgp.backend.resources.Resources-">
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+<ul class="blockListLast">
+<li class="blockList">
+<h4>TestCaseProblem</h4>
+<pre>public&nbsp;TestCaseProblem(<a href="../../../../jcgp/backend/resources/Resources.html" title="class in jcgp.backend.resources">Resources</a>&nbsp;resources)</pre>
+<div class="block">Creates a new TestCaseProblem object.</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>
+</ul>
+<!-- ============ METHOD DETAIL ========== -->
+<ul class="blockList">
+<li class="blockList"><a name="method.detail">
+<!-- -->
+</a>
+<h3>Method Detail</h3>
+<a name="getTestCases--">
+<!-- -->
+</a>
+<ul class="blockList">
+<li class="blockList">
+<h4>getTestCases</h4>
+<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>
+</dl>
+</li>
+</ul>
+<a name="addTestCase-java.lang.String:A-java.lang.String:A-">
+<!-- -->
+</a>
+<ul class="blockList">
+<li class="blockList">
+<h4>addTestCase</h4>
+<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>
+</ul>
+<a name="clearTestCases--">
+<!-- -->
+</a>
+<ul class="blockList">
+<li class="blockList">
+<h4>clearTestCases</h4>
+<pre>public&nbsp;void&nbsp;clearTestCases()</pre>
+<div class="block">Remove all test cases.</div>
+</li>
+</ul>
+<a name="parseProblemData-java.io.File-jcgp.backend.resources.ModifiableResources-">
+<!-- -->
+</a>
+<ul class="blockListLast">
+<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>
+</li>
+</ul>
+</li>
+</ul>
+</div>
+</div>
+<!-- ========= END OF CLASS DATA ========= -->
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diff --git a/doc/jcgp/backend/modules/problem/TravellingSalesmanProblem.html b/doc/jcgp/backend/modules/problem/TravellingSalesmanProblem.html
new file mode 100644
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--- /dev/null
+++ b/doc/jcgp/backend/modules/problem/TravellingSalesmanProblem.html
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+<!-- NewPage -->
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+var methods = {"i0":10,"i1":10,"i2":10,"i3":10};
+var tabs = {65535:["t0","All Methods"],2:["t2","Instance Methods"],8:["t4","Concrete Methods"]};
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+<div class="header">
+<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>
+</ul>
+</li>
+</ul>
+</li>
+</ul>
+<div class="description">
+<ul class="blockList">
+<li class="blockList">
+<hr>
+<br>
+<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">
+<li class="blockList">
+<!-- ======== CONSTRUCTOR SUMMARY ======== -->
+<ul class="blockList">
+<li class="blockList"><a name="constructor.summary">
+<!-- -->
+</a>
+<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>
+</ul>
+<!-- ========== METHOD SUMMARY =========== -->
+<ul class="blockList">
+<li class="blockList"><a name="method.summary">
+<!-- -->
+</a>
+<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
+ set up the problem type instance appropriately.</div>
+</td>
+</tr>
+</table>
+<ul class="blockList">
+<li class="blockList"><a name="methods.inherited.from.class.jcgp.backend.modules.problem.Problem">
+<!-- -->
+</a>
+<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#getFunctionSet--">getFunctionSet</a>, <a href="../../../../jcgp/backend/modules/problem/Problem.html#reset--">reset</a></code></li>
+</ul>
+<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>
+</ul>
+<ul class="blockList">
+<li class="blockList"><a name="methods.inherited.from.class.java.lang.Object">
+<!-- -->
+</a>
+<h3>Methods inherited from class&nbsp;java.lang.Object</h3>
+<code>equals, getClass, hashCode, notify, notifyAll, wait, wait, wait</code></li>
+</ul>
+</li>
+</ul>
+</li>
+</ul>
+</div>
+<div class="details">
+<ul class="blockList">
+<li class="blockList">
+<!-- ========= CONSTRUCTOR DETAIL ======== -->
+<ul class="blockList">
+<li class="blockList"><a name="constructor.detail">
+<!-- -->
+</a>
+<h3>Constructor Detail</h3>
+<a name="TravellingSalesmanProblem-jcgp.backend.resources.Resources-">
+<!-- -->
+</a>
+<ul class="blockListLast">
+<li class="blockList">
+<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>
+</ul>
+<!-- ============ METHOD DETAIL ========== -->
+<ul class="blockList">
+<li class="blockList"><a name="method.detail">
+<!-- -->
+</a>
+<h3>Method Detail</h3>
+<a name="evaluate-jcgp.backend.population.Population-jcgp.backend.resources.Resources-">
+<!-- -->
+</a>
+<ul class="blockList">
+<li class="blockList">
+<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-">
+<!-- -->
+</a>
+<ul class="blockList">
+<li class="blockList">
+<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 ========= -->
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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
new file mode 100644
index 0000000..3e1aec5
--- /dev/null
+++ b/doc/jcgp/backend/modules/problem/class-use/BestFitness.html
@@ -0,0 +1,212 @@
+<!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 Tue May 06 14:28:07 BST 2014 -->
+<title>Uses of Class jcgp.backend.modules.problem.BestFitness</title>
+<meta name="date" content="2014-05-06">
+<link rel="stylesheet" type="text/css" href="../../../../../stylesheet.css" title="Style">
+<script type="text/javascript" src="../../../../../script.js"></script>
+</head>
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+<script type="text/javascript"><!--
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+ if (location.href.indexOf('is-external=true') == -1) {
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+<li><a href="../package-summary.html">Package</a></li>
+<li><a href="../../../../../jcgp/backend/modules/problem/BestFitness.html" title="enum in jcgp.backend.modules.problem">Class</a></li>
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+<div class="header">
+<h2 title="Uses of Class jcgp.backend.modules.problem.BestFitness" class="title">Uses of Class<br>jcgp.backend.modules.problem.BestFitness</h2>
+</div>
+<div class="classUseContainer">
+<ul class="blockList">
+<li class="blockList">
+<table class="useSummary" border="0" cellpadding="3" cellspacing="0" summary="Use table, listing packages, and an explanation">
+<caption><span>Packages that use <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">Package</th>
+<th class="colLast" scope="col">Description</th>
+</tr>
+<tbody>
+<tr class="altColor">
+<td class="colFirst"><a href="#jcgp.backend.modules.problem">jcgp.backend.modules.problem</a></td>
+<td class="colLast">&nbsp;</td>
+</tr>
+<tr class="rowColor">
+<td class="colFirst"><a href="#jcgp.backend.resources">jcgp.backend.resources</a></td>
+<td class="colLast">&nbsp;</td>
+</tr>
+</tbody>
+</table>
+</li>
+<li class="blockList">
+<ul class="blockList">
+<li class="blockList"><a name="jcgp.backend.modules.problem">
+<!-- -->
+</a>
+<h3>Uses of <a href="../../../../../jcgp/backend/modules/problem/BestFitness.html" title="enum in jcgp.backend.modules.problem">BestFitness</a> in <a href="../../../../../jcgp/backend/modules/problem/package-summary.html">jcgp.backend.modules.problem</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/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>
+</tr>
+<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>
+</tr>
+<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>
+<td class="colLast"><span class="typeNameLabel">BestFitness.</span><code><span class="memberNameLink"><a href="../../../../../jcgp/backend/modules/problem/BestFitness.html#valueOf-java.lang.String-">valueOf</a></span>(java.lang.String&nbsp;name)</code>
+<div class="block">Returns the enum constant of this type with the specified name.</div>
+</td>
+</tr>
+<tr class="altColor">
+<td class="colFirst"><code>static <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">BestFitness.</span><code><span class="memberNameLink"><a href="../../../../../jcgp/backend/modules/problem/BestFitness.html#values--">values</a></span>()</code>
+<div class="block">Returns an array containing the constants of this enum type, in
+the order they are declared.</div>
+</td>
+</tr>
+</tbody>
+</table>
+</li>
+<li class="blockList"><a name="jcgp.backend.resources">
+<!-- -->
+</a>
+<h3>Uses of <a href="../../../../../jcgp/backend/modules/problem/BestFitness.html" title="enum in jcgp.backend.modules.problem">BestFitness</a> in <a href="../../../../../jcgp/backend/resources/package-summary.html">jcgp.backend.resources</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/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>
+<tr>
+<th class="colFirst" scope="col">Modifier and Type</th>
+<th class="colLast" scope="col">Method and Description</th>
+</tr>
+<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>
+</tr>
+</tbody>
+</table>
+<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/resources/package-summary.html">jcgp.backend.resources</a> with parameters of type <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>
+</tr>
+<tbody>
+<tr class="altColor">
+<td class="colFirst"><code>void</code></td>
+<td class="colLast"><span class="typeNameLabel">ModifiableResources.</span><code><span class="memberNameLink"><a href="../../../../../jcgp/backend/resources/ModifiableResources.html#setFitnessOrientation-jcgp.backend.modules.problem.BestFitness-">setFitnessOrientation</a></span>(<a href="../../../../../jcgp/backend/modules/problem/BestFitness.html" title="enum in jcgp.backend.modules.problem">BestFitness</a>&nbsp;newOrientation)</code>&nbsp;</td>
+</tr>
+</tbody>
+</table>
+</li>
+</ul>
+</li>
+</ul>
+</div>
+<!-- ======= START OF BOTTOM NAVBAR ====== -->
+<div class="bottomNav"><a name="navbar.bottom">
+<!-- -->
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diff --git a/doc/jcgp/backend/modules/problem/class-use/DigitalCircuitProblem.html b/doc/jcgp/backend/modules/problem/class-use/DigitalCircuitProblem.html
new file mode 100644
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@@ -0,0 +1,124 @@
+<!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 Tue May 06 14:28:07 BST 2014 -->
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+<div class="header">
+<h2 title="Uses of Class jcgp.backend.modules.problem.Problem" class="title">Uses of Class<br>jcgp.backend.modules.problem.Problem</h2>
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+<div class="classUseContainer">
+<ul class="blockList">
+<li class="blockList">
+<table class="useSummary" border="0" cellpadding="3" cellspacing="0" summary="Use table, listing packages, and an explanation">
+<caption><span>Packages that use <a href="../../../../../jcgp/backend/modules/problem/Problem.html" title="class in jcgp.backend.modules.problem">Problem</a></span><span class="tabEnd">&nbsp;</span></caption>
+<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>
+<td class="colLast">&nbsp;</td>
+</tr>
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+</table>
+</li>
+<li class="blockList">
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+<!-- -->
+</a>
+<h3>Uses of <a href="../../../../../jcgp/backend/modules/problem/Problem.html" title="class in jcgp.backend.modules.problem">Problem</a> in <a href="../../../../../jcgp/package-summary.html">jcgp</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/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>
+<tr>
+<th class="colFirst" scope="col">Modifier and Type</th>
+<th class="colLast" scope="col">Method and Description</th>
+</tr>
+<tbody>
+<tr class="altColor">
+<td class="colFirst"><code><a href="../../../../../jcgp/backend/modules/problem/Problem.html" title="class in jcgp.backend.modules.problem">Problem</a></code></td>
+<td class="colLast"><span class="typeNameLabel">JCGP.</span><code><span class="memberNameLink"><a href="../../../../../jcgp/JCGP.html#getProblem--">getProblem</a></span>()</code>&nbsp;</td>
+</tr>
+</tbody>
+</table>
+<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 types with arguments of type <a href="../../../../../jcgp/backend/modules/problem/Problem.html" title="class in jcgp.backend.modules.problem">Problem</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>
+</tr>
+<tbody>
+<tr class="altColor">
+<td class="colFirst"><code>java.util.ArrayList&lt;<a href="../../../../../jcgp/backend/modules/problem/Problem.html" title="class in jcgp.backend.modules.problem">Problem</a>&gt;</code></td>
+<td class="colLast"><span class="typeNameLabel">JCGP.</span><code><span class="memberNameLink"><a href="../../../../../jcgp/JCGP.html#getProblems--">getProblems</a></span>()</code>&nbsp;</td>
+</tr>
+</tbody>
+</table>
+</li>
+<li class="blockList"><a name="jcgp.backend.modules.problem">
+<!-- -->
+</a>
+<h3>Uses of <a href="../../../../../jcgp/backend/modules/problem/Problem.html" title="class in jcgp.backend.modules.problem">Problem</a> in <a href="../../../../../jcgp/backend/modules/problem/package-summary.html">jcgp.backend.modules.problem</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/problem/Problem.html" title="class in jcgp.backend.modules.problem">Problem</a> in <a href="../../../../../jcgp/backend/modules/problem/package-summary.html">jcgp.backend.modules.problem</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/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/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="altColor">
+<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>
+</li>
+</ul>
+</div>
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diff --git a/doc/jcgp/backend/modules/problem/class-use/SymbolicRegressionProblem.html b/doc/jcgp/backend/modules/problem/class-use/SymbolicRegressionProblem.html
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+<!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.01 Transitional//EN" "http://www.w3.org/TR/html4/loose.dtd">
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+<head>
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+<meta name="date" content="2014-05-06">
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+<ul class="blockList">
+<li class="blockList">
+<table class="useSummary" border="0" cellpadding="3" cellspacing="0" summary="Use table, listing packages, and an explanation">
+<caption><span>Packages that use <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>
+<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.problem">jcgp.backend.modules.problem</a></td>
+<td class="colLast">&nbsp;</td>
+</tr>
+<tr class="rowColor">
+<td class="colFirst"><a href="#jcgp.gui">jcgp.gui</a></td>
+<td class="colLast">&nbsp;</td>
+</tr>
+<tr class="altColor">
+<td class="colFirst"><a href="#jcgp.gui.population">jcgp.gui.population</a></td>
+<td class="colLast">&nbsp;</td>
+</tr>
+<tr class="rowColor">
+<td class="colFirst"><a href="#jcgp.gui.settings.testcase">jcgp.gui.settings.testcase</a></td>
+<td class="colLast">&nbsp;</td>
+</tr>
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+</li>
+<li class="blockList">
+<ul class="blockList">
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+<!-- -->
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+<h3>Uses of <a href="../../../../../jcgp/backend/modules/problem/TestCaseProblem.TestCase.html" title="class in jcgp.backend.modules.problem">TestCaseProblem.TestCase</a> in <a href="../../../../../jcgp/backend/modules/problem/package-summary.html">jcgp.backend.modules.problem</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/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>
+<tr>
+<th class="colFirst" scope="col">Modifier and Type</th>
+<th class="colLast" scope="col">Method and Description</th>
+</tr>
+<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>
+<td class="colLast"><span class="typeNameLabel">SymbolicRegressionProblem.</span><code><span class="memberNameLink"><a href="../../../../../jcgp/backend/modules/problem/SymbolicRegressionProblem.html#parseTestCase-java.lang.String:A-java.lang.String:A-">parseTestCase</a></span>(java.lang.String[]&nbsp;inputs,
+ java.lang.String[]&nbsp;outputs)</code>&nbsp;</td>
+</tr>
+<tr class="rowColor">
+<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"><span class="typeNameLabel">DigitalCircuitProblem.</span><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>&nbsp;</td>
+</tr>
+</tbody>
+</table>
+<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/problem/package-summary.html">jcgp.backend.modules.problem</a> that return types with arguments of type <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>
+<tr>
+<th class="colFirst" scope="col">Modifier and Type</th>
+<th class="colLast" scope="col">Method and Description</th>
+</tr>
+<tbody>
+<tr 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"><span class="typeNameLabel">TestCaseProblem.</span><code><span class="memberNameLink"><a href="../../../../../jcgp/backend/modules/problem/TestCaseProblem.html#getTestCases--">getTestCases</a></span>()</code>&nbsp;</td>
+</tr>
+</tbody>
+</table>
+</li>
+<li class="blockList"><a name="jcgp.gui">
+<!-- -->
+</a>
+<h3>Uses of <a href="../../../../../jcgp/backend/modules/problem/TestCaseProblem.TestCase.html" title="class in jcgp.backend.modules.problem">TestCaseProblem.TestCase</a> in <a href="../../../../../jcgp/gui/package-summary.html">jcgp.gui</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/gui/package-summary.html">jcgp.gui</a> with parameters of type <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>
+<tr>
+<th class="colFirst" scope="col">Modifier and Type</th>
+<th class="colLast" scope="col">Method and Description</th>
+</tr>
+<tbody>
+<tr class="altColor">
+<td class="colFirst"><code>void</code></td>
+<td class="colLast"><span class="typeNameLabel">GUI.</span><code><span class="memberNameLink"><a href="../../../../../jcgp/gui/GUI.html#evaluateTestCase-jcgp.backend.modules.problem.TestCaseProblem.TestCase-">evaluateTestCase</a></span>(<a href="../../../../../jcgp/backend/modules/problem/TestCaseProblem.TestCase.html" title="class in jcgp.backend.modules.problem">TestCaseProblem.TestCase</a>&lt;java.lang.Object&gt;&nbsp;testCase)</code>&nbsp;</td>
+</tr>
+</tbody>
+</table>
+</li>
+<li class="blockList"><a name="jcgp.gui.population">
+<!-- -->
+</a>
+<h3>Uses of <a href="../../../../../jcgp/backend/modules/problem/TestCaseProblem.TestCase.html" title="class in jcgp.backend.modules.problem">TestCaseProblem.TestCase</a> in <a href="../../../../../jcgp/gui/population/package-summary.html">jcgp.gui.population</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/gui/population/package-summary.html">jcgp.gui.population</a> with parameters of type <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>
+<tr>
+<th class="colFirst" scope="col">Modifier and Type</th>
+<th class="colLast" scope="col">Method and Description</th>
+</tr>
+<tbody>
+<tr class="altColor">
+<td class="colFirst"><code>void</code></td>
+<td class="colLast"><span class="typeNameLabel">PopulationPane.</span><code><span class="memberNameLink"><a href="../../../../../jcgp/gui/population/PopulationPane.html#evaluateTestCase-jcgp.backend.modules.problem.TestCaseProblem.TestCase-">evaluateTestCase</a></span>(<a href="../../../../../jcgp/backend/modules/problem/TestCaseProblem.TestCase.html" title="class in jcgp.backend.modules.problem">TestCaseProblem.TestCase</a>&lt;java.lang.Object&gt;&nbsp;testCase)</code>&nbsp;</td>
+</tr>
+</tbody>
+</table>
+</li>
+<li class="blockList"><a name="jcgp.gui.settings.testcase">
+<!-- -->
+</a>
+<h3>Uses of <a href="../../../../../jcgp/backend/modules/problem/TestCaseProblem.TestCase.html" title="class in jcgp.backend.modules.problem">TestCaseProblem.TestCase</a> in <a href="../../../../../jcgp/gui/settings/testcase/package-summary.html">jcgp.gui.settings.testcase</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/gui/settings/testcase/package-summary.html">jcgp.gui.settings.testcase</a> that return types with arguments of type <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>
+<tr>
+<th class="colFirst" scope="col">Modifier and Type</th>
+<th class="colLast" scope="col">Method and Description</th>
+</tr>
+<tbody>
+<tr class="altColor">
+<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>
+<td class="colLast"><span class="typeNameLabel">TestCaseTable.</span><code><span class="memberNameLink"><a href="../../../../../jcgp/gui/settings/testcase/TestCaseTable.html#getTable--">getTable</a></span>()</code>&nbsp;</td>
+</tr>
+</tbody>
+</table>
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@@ -0,0 +1,227 @@
+<!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.01 Transitional//EN" "http://www.w3.org/TR/html4/loose.dtd">
+<!-- NewPage -->
+<html lang="en">
+<head>
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+<div class="classUseContainer">
+<ul class="blockList">
+<li class="blockList">
+<table class="useSummary" border="0" cellpadding="3" cellspacing="0" summary="Use table, listing packages, and an explanation">
+<caption><span>Packages that use <a href="../../../../../jcgp/backend/modules/problem/TestCaseProblem.html" title="class in jcgp.backend.modules.problem">TestCaseProblem</a></span><span class="tabEnd">&nbsp;</span></caption>
+<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.problem">jcgp.backend.modules.problem</a></td>
+<td class="colLast">&nbsp;</td>
+</tr>
+<tr class="rowColor">
+<td class="colFirst"><a href="#jcgp.backend.parsers">jcgp.backend.parsers</a></td>
+<td class="colLast">&nbsp;</td>
+</tr>
+<tr class="altColor">
+<td class="colFirst"><a href="#jcgp.gui.settings.testcase">jcgp.gui.settings.testcase</a></td>
+<td class="colLast">&nbsp;</td>
+</tr>
+</tbody>
+</table>
+</li>
+<li class="blockList">
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+<li class="blockList"><a name="jcgp.backend.modules.problem">
+<!-- -->
+</a>
+<h3>Uses of <a href="../../../../../jcgp/backend/modules/problem/TestCaseProblem.html" title="class in jcgp.backend.modules.problem">TestCaseProblem</a> in <a href="../../../../../jcgp/backend/modules/problem/package-summary.html">jcgp.backend.modules.problem</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/problem/TestCaseProblem.html" title="class in jcgp.backend.modules.problem">TestCaseProblem</a> in <a href="../../../../../jcgp/backend/modules/problem/package-summary.html">jcgp.backend.modules.problem</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/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/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>
+</tbody>
+</table>
+</li>
+<li class="blockList"><a name="jcgp.backend.parsers">
+<!-- -->
+</a>
+<h3>Uses of <a href="../../../../../jcgp/backend/modules/problem/TestCaseProblem.html" title="class in jcgp.backend.modules.problem">TestCaseProblem</a> in <a href="../../../../../jcgp/backend/parsers/package-summary.html">jcgp.backend.parsers</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/parsers/package-summary.html">jcgp.backend.parsers</a> with parameters of type <a href="../../../../../jcgp/backend/modules/problem/TestCaseProblem.html" title="class in jcgp.backend.modules.problem">TestCaseProblem</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>
+</tr>
+<tbody>
+<tr class="altColor">
+<td class="colFirst"><code>static void</code></td>
+<td class="colLast"><span class="typeNameLabel">TestCaseParser.</span><code><span class="memberNameLink"><a href="../../../../../jcgp/backend/parsers/TestCaseParser.html#parse-java.io.File-jcgp.backend.modules.problem.TestCaseProblem-jcgp.backend.resources.ModifiableResources-">parse</a></span>(java.io.File&nbsp;file,
+ <a href="../../../../../jcgp/backend/modules/problem/TestCaseProblem.html" title="class in jcgp.backend.modules.problem">TestCaseProblem</a>&lt;?&gt;&nbsp;problem,
+ <a href="../../../../../jcgp/backend/resources/ModifiableResources.html" title="class in jcgp.backend.resources">ModifiableResources</a>&nbsp;resources)</code>
+<div class="block">Sets the number of inputs and outputs in the resources
+ to match the given file, and parses each test case
+ from the file into the specified problem.</div>
+</td>
+</tr>
+</tbody>
+</table>
+</li>
+<li class="blockList"><a name="jcgp.gui.settings.testcase">
+<!-- -->
+</a>
+<h3>Uses of <a href="../../../../../jcgp/backend/modules/problem/TestCaseProblem.html" title="class in jcgp.backend.modules.problem">TestCaseProblem</a> in <a href="../../../../../jcgp/gui/settings/testcase/package-summary.html">jcgp.gui.settings.testcase</a></h3>
+<table class="useSummary" border="0" cellpadding="3" cellspacing="0" summary="Use table, listing constructors, and an explanation">
+<caption><span>Constructors in <a href="../../../../../jcgp/gui/settings/testcase/package-summary.html">jcgp.gui.settings.testcase</a> with parameters of type <a href="../../../../../jcgp/backend/modules/problem/TestCaseProblem.html" title="class in jcgp.backend.modules.problem">TestCaseProblem</a></span><span class="tabEnd">&nbsp;</span></caption>
+<tr>
+<th class="colOne" scope="col">Constructor and Description</th>
+</tr>
+<tbody>
+<tr class="altColor">
+<td class="colLast"><code><span class="memberNameLink"><a href="../../../../../jcgp/gui/settings/testcase/TestCaseTable.html#TestCaseTable-jcgp.backend.modules.problem.TestCaseProblem-jcgp.gui.GUI-">TestCaseTable</a></span>(<a href="../../../../../jcgp/backend/modules/problem/TestCaseProblem.html" title="class in jcgp.backend.modules.problem">TestCaseProblem</a>&lt;java.lang.Object&gt;&nbsp;testCaseProblem,
+ <a href="../../../../../jcgp/gui/GUI.html" title="class in jcgp.gui">GUI</a>&nbsp;gui)</code>
+<div class="block">Make a new instance of <code>TestCaseTable</code>.</div>
+</td>
+</tr>
+</tbody>
+</table>
+</li>
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+</li>
+</ul>
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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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@@ -0,0 +1,124 @@
+<!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 Sat May 03 18:23:23 BST 2014 -->
+<title>Uses of Class jcgp.backend.modules.problem.TravellingSalesmanProblem</title>
+<meta name="date" content="2014-05-03">
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+<h2 title="Uses of Class jcgp.backend.modules.problem.TravellingSalesmanProblem" class="title">Uses of Class<br>jcgp.backend.modules.problem.TravellingSalesmanProblem</h2>
+</div>
+<div class="classUseContainer">No usage of jcgp.backend.modules.problem.TravellingSalesmanProblem</div>
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diff --git a/doc/jcgp/backend/modules/problem/package-frame.html b/doc/jcgp/backend/modules/problem/package-frame.html
new file mode 100644
index 0000000..7089f7c
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+++ b/doc/jcgp/backend/modules/problem/package-frame.html
@@ -0,0 +1,28 @@
+<!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 Tue May 06 14:28:07 BST 2014 -->
+<title>jcgp.backend.modules.problem</title>
+<meta name="date" content="2014-05-06">
+<link rel="stylesheet" type="text/css" href="../../../../stylesheet.css" title="Style">
+<script type="text/javascript" src="../../../../script.js"></script>
+</head>
+<body>
+<h1 class="bar"><a href="../../../../jcgp/backend/modules/problem/package-summary.html" target="classFrame">jcgp.backend.modules.problem</a></h1>
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+<h2 title="Classes">Classes</h2>
+<ul title="Classes">
+<li><a href="DigitalCircuitProblem.html" title="class in jcgp.backend.modules.problem" target="classFrame">DigitalCircuitProblem</a></li>
+<li><a href="Problem.html" title="class in jcgp.backend.modules.problem" target="classFrame">Problem</a></li>
+<li><a href="SymbolicRegressionProblem.html" title="class in jcgp.backend.modules.problem" target="classFrame">SymbolicRegressionProblem</a></li>
+<li><a href="TestCaseProblem.html" title="class in jcgp.backend.modules.problem" target="classFrame">TestCaseProblem</a></li>
+<li><a href="TestCaseProblem.TestCase.html" title="class in jcgp.backend.modules.problem" target="classFrame">TestCaseProblem.TestCase</a></li>
+</ul>
+<h2 title="Enums">Enums</h2>
+<ul title="Enums">
+<li><a href="BestFitness.html" title="enum in jcgp.backend.modules.problem" target="classFrame">BestFitness</a></li>
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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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@@ -0,0 +1,188 @@
+<!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 Tue May 06 14:28:07 BST 2014 -->
+<title>jcgp.backend.modules.problem</title>
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+</div>
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+<ul class="blockList">
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+<table class="typeSummary" border="0" cellpadding="3" cellspacing="0" summary="Class Summary table, listing classes, and an explanation">
+<caption><span>Class Summary</span><span class="tabEnd">&nbsp;</span></caption>
+<tr>
+<th class="colFirst" scope="col">Class</th>
+<th class="colLast" scope="col">Description</th>
+</tr>
+<tbody>
+<tr class="altColor">
+<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
+ <br><br>
+ 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>
+<td class="colLast">
+<div class="block">Defines the general behaviour of a CGP problem.</div>
+</td>
+</tr>
+<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
+ <br><br>
+ 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>
+<td class="colLast">
+<div class="block">Abstract model for a problem that uses test cases.</div>
+</td>
+</tr>
+<tr class="altColor">
+<td class="colFirst"><a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.TestCase.html" title="class in jcgp.backend.modules.problem">TestCaseProblem.TestCase</a>&lt;U&gt;</td>
+<td class="colLast">
+<div class="block">Basic data type for encapsulating test cases, it simply
+ contains arrays of inputs and outputs and associated getters.</div>
+</td>
+</tr>
+</tbody>
+</table>
+</li>
+<li class="blockList">
+<table class="typeSummary" border="0" cellpadding="3" cellspacing="0" summary="Enum Summary table, listing enums, and an explanation">
+<caption><span>Enum Summary</span><span class="tabEnd">&nbsp;</span></caption>
+<tr>
+<th class="colFirst" scope="col">Enum</th>
+<th class="colLast" scope="col">Description</th>
+</tr>
+<tbody>
+<tr class="altColor">
+<td class="colFirst"><a href="../../../../jcgp/backend/modules/problem/BestFitness.html" title="enum in jcgp.backend.modules.problem">BestFitness</a></td>
+<td class="colLast">&nbsp;</td>
+</tr>
+</tbody>
+</table>
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+</ul>
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+<!-- ======= START OF BOTTOM NAVBAR ====== -->
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diff --git a/doc/jcgp/backend/modules/problem/package-tree.html b/doc/jcgp/backend/modules/problem/package-tree.html
new file mode 100644
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--- /dev/null
+++ b/doc/jcgp/backend/modules/problem/package-tree.html
@@ -0,0 +1,163 @@
+<!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 Tue May 06 14:28:07 BST 2014 -->
+<title>jcgp.backend.modules.problem Class Hierarchy</title>
+<meta name="date" content="2014-05-06">
+<link rel="stylesheet" type="text/css" href="../../../../stylesheet.css" title="Style">
+<script type="text/javascript" src="../../../../script.js"></script>
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+<script type="text/javascript"><!--
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+ if (location.href.indexOf('is-external=true') == -1) {
+ parent.document.title="jcgp.backend.modules.problem Class Hierarchy";
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+ }
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+ }
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+<noscript>
+<div>JavaScript is disabled on your browser.</div>
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+<!-- ========= START OF TOP NAVBAR ======= -->
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+<div class="skipNav"><a href="#skip.navbar.top" title="Skip navigation links">Skip navigation links</a></div>
+<a name="navbar.top.firstrow">
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+<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</li>
+<li>Use</li>
+<li class="navBarCell1Rev">Tree</li>
+<li><a href="../../../../deprecated-list.html">Deprecated</a></li>
+<li><a href="../../../../index-files/index-1.html">Index</a></li>
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+</ul>
+</div>
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+<div class="header">
+<h1 class="title">Hierarchy For Package jcgp.backend.modules.problem</h1>
+<span class="packageHierarchyLabel">Package Hierarchies:</span>
+<ul class="horizontal">
+<li><a href="../../../../overview-tree.html">All Packages</a></li>
+</ul>
+</div>
+<div class="contentContainer">
+<h2 title="Class Hierarchy">Class Hierarchy</h2>
+<ul>
+<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.problem.<a href="../../../../jcgp/backend/modules/problem/Problem.html" title="class in jcgp.backend.modules.problem"><span class="typeNameLink">Problem</span></a>
+<ul>
+<li type="circle">jcgp.backend.modules.problem.<a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.html" title="class in jcgp.backend.modules.problem"><span class="typeNameLink">TestCaseProblem</span></a>&lt;T&gt;
+<ul>
+<li type="circle">jcgp.backend.modules.problem.<a href="../../../../jcgp/backend/modules/problem/DigitalCircuitProblem.html" title="class in jcgp.backend.modules.problem"><span class="typeNameLink">DigitalCircuitProblem</span></a></li>
+<li type="circle">jcgp.backend.modules.problem.<a href="../../../../jcgp/backend/modules/problem/SymbolicRegressionProblem.html" title="class in jcgp.backend.modules.problem"><span class="typeNameLink">SymbolicRegressionProblem</span></a></li>
+</ul>
+</li>
+</ul>
+</li>
+</ul>
+</li>
+<li type="circle">jcgp.backend.modules.problem.<a href="../../../../jcgp/backend/modules/problem/TestCaseProblem.TestCase.html" title="class in jcgp.backend.modules.problem"><span class="typeNameLink">TestCaseProblem.TestCase</span></a>&lt;U&gt;</li>
+</ul>
+</li>
+</ul>
+<h2 title="Enum Hierarchy">Enum Hierarchy</h2>
+<ul>
+<li type="circle">java.lang.Object
+<ul>
+<li type="circle">java.lang.Enum&lt;E&gt; (implements java.lang.Comparable&lt;T&gt;, java.io.Serializable)
+<ul>
+<li type="circle">jcgp.backend.modules.problem.<a href="../../../../jcgp/backend/modules/problem/BestFitness.html" title="enum in jcgp.backend.modules.problem"><span class="typeNameLink">BestFitness</span></a></li>
+</ul>
+</li>
+</ul>
+</li>
+</ul>
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+<!-- ======= START OF BOTTOM NAVBAR ====== -->
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diff --git a/doc/jcgp/backend/modules/problem/package-use.html b/doc/jcgp/backend/modules/problem/package-use.html
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+<!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 Tue May 06 14:28:07 BST 2014 -->
+<title>Uses of Package jcgp.backend.modules.problem</title>
+<meta name="date" content="2014-05-06">
+<link rel="stylesheet" type="text/css" href="../../../../stylesheet.css" title="Style">
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+<div class="skipNav"><a href="#skip.navbar.top" title="Skip navigation links">Skip navigation links</a></div>
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+<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</li>
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+<li><a href="package-tree.html">Tree</a></li>
+<li><a href="../../../../deprecated-list.html">Deprecated</a></li>
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+<div class="header">
+<h1 title="Uses of Package jcgp.backend.modules.problem" class="title">Uses of Package<br>jcgp.backend.modules.problem</h1>
+</div>
+<div class="contentContainer">
+<ul class="blockList">
+<li class="blockList">
+<table class="useSummary" border="0" cellpadding="3" cellspacing="0" summary="Use table, listing packages, and an explanation">
+<caption><span>Packages that use <a href="../../../../jcgp/backend/modules/problem/package-summary.html">jcgp.backend.modules.problem</a></span><span class="tabEnd">&nbsp;</span></caption>
+<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>
+<td class="colLast">&nbsp;</td>
+</tr>
+<tr class="altColor">
+<td class="colFirst"><a href="#jcgp.backend.parsers">jcgp.backend.parsers</a></td>
+<td class="colLast">&nbsp;</td>
+</tr>
+<tr class="rowColor">
+<td class="colFirst"><a href="#jcgp.backend.resources">jcgp.backend.resources</a></td>
+<td class="colLast">&nbsp;</td>
+</tr>
+<tr class="altColor">
+<td class="colFirst"><a href="#jcgp.gui">jcgp.gui</a></td>
+<td class="colLast">&nbsp;</td>
+</tr>
+<tr class="rowColor">
+<td class="colFirst"><a href="#jcgp.gui.population">jcgp.gui.population</a></td>
+<td class="colLast">&nbsp;</td>
+</tr>
+<tr class="altColor">
+<td class="colFirst"><a href="#jcgp.gui.settings.testcase">jcgp.gui.settings.testcase</a></td>
+<td class="colLast">&nbsp;</td>
+</tr>
+</tbody>
+</table>
+</li>
+<li class="blockList"><a name="jcgp">
+<!-- -->
+</a>
+<table class="useSummary" border="0" cellpadding="3" cellspacing="0" summary="Use table, listing classes, and an explanation">
+<caption><span>Classes in <a href="../../../../jcgp/backend/modules/problem/package-summary.html">jcgp.backend.modules.problem</a> used by <a href="../../../../jcgp/package-summary.html">jcgp</a></span><span class="tabEnd">&nbsp;</span></caption>
+<tr>
+<th class="colOne" scope="col">Class and Description</th>
+</tr>
+<tbody>
+<tr class="altColor">
+<td class="colOne"><a href="../../../../jcgp/backend/modules/problem/class-use/Problem.html#jcgp">Problem</a>
+<div class="block">Defines the general behaviour of a CGP problem.</div>
+</td>
+</tr>
+</tbody>
+</table>
+</li>
+<li class="blockList"><a name="jcgp.backend.modules.problem">
+<!-- -->
+</a>
+<table class="useSummary" border="0" cellpadding="3" cellspacing="0" summary="Use table, listing classes, and an explanation">
+<caption><span>Classes in <a href="../../../../jcgp/backend/modules/problem/package-summary.html">jcgp.backend.modules.problem</a> used by <a href="../../../../jcgp/backend/modules/problem/package-summary.html">jcgp.backend.modules.problem</a></span><span class="tabEnd">&nbsp;</span></caption>
+<tr>
+<th class="colOne" scope="col">Class and Description</th>
+</tr>
+<tbody>
+<tr class="altColor">
+<td class="colOne"><a href="../../../../jcgp/backend/modules/problem/class-use/BestFitness.html#jcgp.backend.modules.problem">BestFitness</a>&nbsp;</td>
+</tr>
+<tr class="rowColor">
+<td class="colOne"><a href="../../../../jcgp/backend/modules/problem/class-use/Problem.html#jcgp.backend.modules.problem">Problem</a>
+<div class="block">Defines the general behaviour of a CGP problem.</div>
+</td>
+</tr>
+<tr class="altColor">
+<td class="colOne"><a href="../../../../jcgp/backend/modules/problem/class-use/TestCaseProblem.html#jcgp.backend.modules.problem">TestCaseProblem</a>
+<div class="block">Abstract model for a problem that uses test cases.</div>
+</td>
+</tr>
+<tr class="rowColor">
+<td class="colOne"><a href="../../../../jcgp/backend/modules/problem/class-use/TestCaseProblem.TestCase.html#jcgp.backend.modules.problem">TestCaseProblem.TestCase</a>
+<div class="block">Basic data type for encapsulating test cases, it simply
+ contains arrays of inputs and outputs and associated getters.</div>
+</td>
+</tr>
+</tbody>
+</table>
+</li>
+<li class="blockList"><a name="jcgp.backend.parsers">
+<!-- -->
+</a>
+<table class="useSummary" border="0" cellpadding="3" cellspacing="0" summary="Use table, listing classes, and an explanation">
+<caption><span>Classes in <a href="../../../../jcgp/backend/modules/problem/package-summary.html">jcgp.backend.modules.problem</a> used by <a href="../../../../jcgp/backend/parsers/package-summary.html">jcgp.backend.parsers</a></span><span class="tabEnd">&nbsp;</span></caption>
+<tr>
+<th class="colOne" scope="col">Class and Description</th>
+</tr>
+<tbody>
+<tr class="altColor">
+<td class="colOne"><a href="../../../../jcgp/backend/modules/problem/class-use/TestCaseProblem.html#jcgp.backend.parsers">TestCaseProblem</a>
+<div class="block">Abstract model for a problem that uses test cases.</div>
+</td>
+</tr>
+</tbody>
+</table>
+</li>
+<li class="blockList"><a name="jcgp.backend.resources">
+<!-- -->
+</a>
+<table class="useSummary" border="0" cellpadding="3" cellspacing="0" summary="Use table, listing classes, and an explanation">
+<caption><span>Classes in <a href="../../../../jcgp/backend/modules/problem/package-summary.html">jcgp.backend.modules.problem</a> used by <a href="../../../../jcgp/backend/resources/package-summary.html">jcgp.backend.resources</a></span><span class="tabEnd">&nbsp;</span></caption>
+<tr>
+<th class="colOne" scope="col">Class and Description</th>
+</tr>
+<tbody>
+<tr class="altColor">
+<td class="colOne"><a href="../../../../jcgp/backend/modules/problem/class-use/BestFitness.html#jcgp.backend.resources">BestFitness</a>&nbsp;</td>
+</tr>
+</tbody>
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