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<h3>
Andreas Tille pushed to branch upstream
at <a href="https://salsa.debian.org/med-team/libjloda-java">Debian Med / libjloda-java</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/libjloda-java/commit/62d90dfc8165655c0fcd7d6996c36d9328a634a4">62d90dfc</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-05-25T23:08:08+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">New upstream version 0.0+git20180523.cbaf6d1</pre>
</li>
</ul>
<h4>8 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#664003676fc632e5c34b25f555f885c11f659a8a">
src/jloda/fx/IHasJavaFXStageAndRoot.java
</a>
</li>
<li class="file-stats">
<a href="#eace1c565548714a3f128cdf5aa5c5e701fdbdbb">
src/jloda/fx/JPanelWithFXStageAndRoot.java
</a>
</li>
<li class="file-stats">
<a href="#1c8765882412621fe0bf813ccf02531085c619d4">
src/jloda/fx/JavaFX2PDF.java
</a>
</li>
<li class="file-stats">
<a href="#ed955df284d6cfdaff4ccd8d0da21f89e020c42e">
src/jloda/graph/FruchtermanReingoldLayout.java
</a>
</li>
<li class="file-stats">
<a href="#dde14845be6710ecc7780de165952458f7e845d6">
src/jloda/util/GFF3FileFilter.java
</a>
</li>
<li class="file-stats">
<a href="#ee94000e3275c3e020773f20f7e3f64fa660343e">
src/jloda/util/Pair.java
</a>
</li>
<li class="file-stats">
<a href="#3c5aebc1786ea94531774a604a191a67f70d7750">
src/jloda/util/RecursiveFileLister.java
</a>
</li>
<li class="file-stats">
<a href="#d219f53910470939c66721bb67430e1c87084fb2">
src/jloda/util/Statistics.java
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</li>
</ul>
<h4>Changes:</h4>
<li id="664003676fc632e5c34b25f555f885c11f659a8a">
<a href="https://salsa.debian.org/med-team/libjloda-java/commit/62d90dfc8165655c0fcd7d6996c36d9328a634a4#664003676fc632e5c34b25f555f885c11f659a8a"><strong>src/jloda/fx/IHasJavaFXStageAndRoot.java</strong></a>
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<pre style="margin: 0;"> <span id="LC1" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;">/*</span></span>
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<pre style="margin: 0;">-<span id="LC2" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;"> * Copyright (C) 201<span class="idiff left right">5</span> Daniel H. Huson</span></span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;"> * Copyright (C) 201<span class="idiff left right">8</span> Daniel H. Huson</span></span>
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;"> *</span></span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;"> * (Some files contain contributions from other authors, who are then mentioned separately.)</span></span>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;"> *</span></span>
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<li id="eace1c565548714a3f128cdf5aa5c5e701fdbdbb">
<a href="https://salsa.debian.org/med-team/libjloda-java/commit/62d90dfc8165655c0fcd7d6996c36d9328a634a4#eace1c565548714a3f128cdf5aa5c5e701fdbdbb"><strong>src/jloda/fx/JPanelWithFXStageAndRoot.java</strong></a>
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<pre style="margin: 0;"> <span id="LC1" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;">/*</span></span>
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<pre style="margin: 0;">-<span id="LC2" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;"> * Copyright (C) 201<span class="idiff left right">5</span> Daniel H. Huson</span></span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;"> * Copyright (C) 201<span class="idiff left right">8</span> Daniel H. Huson</span></span>
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;"> *</span></span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;"> * (Some files contain contributions from other authors, who are then mentioned separately.)</span></span>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;"> *</span></span>
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<li id="1c8765882412621fe0bf813ccf02531085c619d4">
<a href="https://salsa.debian.org/med-team/libjloda-java/commit/62d90dfc8165655c0fcd7d6996c36d9328a634a4#1c8765882412621fe0bf813ccf02531085c619d4"><strong>src/jloda/fx/JavaFX2PDF.java</strong></a>
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<pre style="margin: 0;"> <span id="LC1" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;">/*</span></span>
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<pre style="margin: 0;">-<span id="LC2" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;"> * Copyright (C) 201<span class="idiff left right">5</span> Daniel H. Huson</span></span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;"> * Copyright (C) 201<span class="idiff left right">8</span> Daniel H. Huson</span></span>
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;"> *</span></span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;"> * (Some files contain contributions from other authors, who are then mentioned separately.)</span></span>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;"> *</span></span>
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<li id="ed955df284d6cfdaff4ccd8d0da21f89e020c42e">
<a href="https://salsa.debian.org/med-team/libjloda-java/commit/62d90dfc8165655c0fcd7d6996c36d9328a634a4#ed955df284d6cfdaff4ccd8d0da21f89e020c42e"><strong>src/jloda/graph/FruchtermanReingoldLayout.java</strong></a>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="43" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -43,9 +43,9 @@ public class FruchtermanReingoldLayout {</td>
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<pre style="margin: 0;"> <span id="LC43" class="line" lang="java"> <span class="kd" style="font-weight: 600;">public</span> <span class="nf" style="color: #900; font-weight: 600;">FruchtermanReingoldLayout</span><span class="o" style="font-weight: 600;">(</span><span class="n" style="color: #333;">Graph</span> <span class="n" style="color: #333;">graph</span><span class="o" style="font-weight: 600;">,</span> <span class="n" style="color: #333;">NodeSet</span> <span class="n" style="color: #333;">fixedNodes</span><span class="o" style="font-weight: 600;">)</span> <span class="o" style="font-weight: 600;">{</span></span>
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<pre style="margin: 0;"> <span id="LC44" class="line" lang="java"> <span class="k" style="font-weight: 600;">this</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">graph</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">graph</span><span class="o" style="font-weight: 600;">;</span></span>
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<pre style="margin: 0;"> <span id="LC45" class="line" lang="java"> <span class="n" style="color: #333;">nodes</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">graph</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">getNodes</span><span class="o" style="font-weight: 600;">().</span><span class="na" style="color: teal;">toArray</span><span class="o" style="font-weight: 600;">();</span></span>
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<pre style="margin: 0;">-<span id="LC46" class="line" lang="java"> <span class="n" style="color: #333;">edges</span> <span class="o" style="font-weight: 600;">=</span> <span class="k" style="font-weight: 600;">new</span> <span class="kt" style="color: #458; font-weight: 600;">int</span><span class="o" style="font-weight: 600;">[</span><span class="n" style="color: #333;"><span class="idiff left">graph</span></span><span class="o" style="font-weight: 600;"><span class="idiff">.</span></span><span class="na" style="color: teal;"><span class="idiff">getNumberOfEdges</span></span><span class="o" style="font-weight: 600;"><span class="idiff">()][</span></span><span class="mi" style="color: #099;"><span class="idiff right">2</span></span><span class="o" style="font-weight: 600;">];</span></span>
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<pre style="margin: 0;">-<span id="LC47" class="line" lang="java"> <span class="n" style="color: #333;">coordinates</span> <span class="o" style="font-weight: 600;">=</span> <span class="k" style="font-weight: 600;">new</span> <span class="kt" style="color: #458; font-weight: 600;">float</span><span class="o" style="font-weight: 600;">[</span><span class="n" style="color: #333;"><span class="idiff left">nodes</span></span><span class="o" style="font-weight: 600;"><span class="idiff">.</span></span><span class="na" style="color: teal;"><span class="idiff">length</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="mi" style="color: #099;"><span class="idiff right">2</span></span><span class="o" style="font-weight: 600;">];</span></span>
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<pre style="margin: 0;">-<span id="LC48" class="line" lang="java"> <span class="n" style="color: #333;">forceDelta</span> <span class="o" style="font-weight: 600;">=</span> <span class="k" style="font-weight: 600;">new</span> <span class="kt" style="color: #458; font-weight: 600;">float</span><span class="o" style="font-weight: 600;">[</span><span class="n" style="color: #333;"><span class="idiff left">nodes</span></span><span class="o" style="font-weight: 600;"><span class="idiff">.</span></span><span class="na" style="color: teal;"><span class="idiff">length</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="mi" style="color: #099;"><span class="idiff right">2</span></span><span class="o" style="font-weight: 600;">];</span></span>
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<pre style="margin: 0;">+<span id="LC46" class="line" lang="java"> <span class="n" style="color: #333;">edges</span> <span class="o" style="font-weight: 600;">=</span> <span class="k" style="font-weight: 600;">new</span> <span class="kt" style="color: #458; font-weight: 600;">int</span><span class="o" style="font-weight: 600;">[</span><span class="mi" style="color: #099;"><span class="idiff left">2</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="n" style="color: #333;"><span class="idiff">graph</span></span><span class="o" style="font-weight: 600;"><span class="idiff">.</span></span><span class="na" style="color: teal;"><span class="idiff">getNumberOfEdges</span></span><span class="o" style="font-weight: 600;"><span class="idiff right">()</span>];</span></span>
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<pre style="margin: 0;">+<span id="LC47" class="line" lang="java"> <span class="n" style="color: #333;">coordinates</span> <span class="o" style="font-weight: 600;">=</span> <span class="k" style="font-weight: 600;">new</span> <span class="kt" style="color: #458; font-weight: 600;">float</span><span class="o" style="font-weight: 600;">[</span><span class="mi" style="color: #099;"><span class="idiff left">2</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="n" style="color: #333;"><span class="idiff">nodes</span></span><span class="o" style="font-weight: 600;"><span class="idiff">.</span></span><span class="na" style="color: teal;"><span class="idiff right">length</span></span><span class="o" style="font-weight: 600;">];</span></span>
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<pre style="margin: 0;">+<span id="LC48" class="line" lang="java"> <span class="n" style="color: #333;">forceDelta</span> <span class="o" style="font-weight: 600;">=</span> <span class="k" style="font-weight: 600;">new</span> <span class="kt" style="color: #458; font-weight: 600;">float</span><span class="o" style="font-weight: 600;">[</span><span class="mi" style="color: #099;"><span class="idiff left">2</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="n" style="color: #333;"><span class="idiff">nodes</span></span><span class="o" style="font-weight: 600;"><span class="idiff">.</span></span><span class="na" style="color: teal;"><span class="idiff right">length</span></span><span class="o" style="font-weight: 600;">];</span></span>
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<pre style="margin: 0;"> <span id="LC49" class="line" lang="java"> <span class="n" style="color: #333;">fixed</span> <span class="o" style="font-weight: 600;">=</span> <span class="k" style="font-weight: 600;">new</span> <span class="n" style="color: #333;">BitSet</span><span class="o" style="font-weight: 600;">();</span></span>
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<pre style="margin: 0;"> <span id="LC50" class="line" lang="java"></span>
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<pre style="margin: 0;"> <span id="LC51" class="line" lang="java"> <span class="n" style="color: #333;">initialize</span><span class="o" style="font-weight: 600;">(</span><span class="n" style="color: #333;">fixedNodes</span><span class="o" style="font-weight: 600;">);</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -63,8 +63,8 @@ public class FruchtermanReingoldLayout {</td>
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<pre style="margin: 0;"> <span id="LC63" class="line" lang="java"> <span class="o" style="font-weight: 600;">}</span></span>
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<pre style="margin: 0;"> <span id="LC64" class="line" lang="java"> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">eId</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="o" style="font-weight: 600;">;</span></span>
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<pre style="margin: 0;"> <span id="LC65" class="line" lang="java"> <span class="k" style="font-weight: 600;">for</span> <span class="o" style="font-weight: 600;">(</span><span class="n" style="color: #333;">Edge</span> <span class="n" style="color: #333;">e</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">graph</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">getFirstEdge</span><span class="o" style="font-weight: 600;">();</span> <span class="n" style="color: #333;">e</span> <span class="o" style="font-weight: 600;">!=</span> <span class="kc" style="font-weight: 600;">null</span><span class="o" style="font-weight: 600;">;</span> <span class="n" style="color: #333;">e</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">e</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">getNext</span><span class="o" style="font-weight: 600;">())</span> <span class="o" style="font-weight: 600;">{</span></span>
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<pre style="margin: 0;">-<span id="LC66" class="line" lang="java"> <span class="n" style="color: #333;">edges</span><span class="o" style="font-weight: 600;">[</span><span class="n" style="color: #333;"><span class="idiff left">eId</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="mi" style="color: #099;"><span class="idiff right">0</span></span><span class="o" style="font-weight: 600;">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">node2id</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">get</span><span class="o" style="font-weight: 600;">(</span><span class="n" style="color: #333;">e</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">getSource</span><span class="o" style="font-weight: 600;">());</span></span>
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<pre style="margin: 0;">-<span id="LC67" class="line" lang="java"> <span class="n" style="color: #333;">edges</span><span class="o" style="font-weight: 600;">[</span><span class="n" style="color: #333;"><span class="idiff left">eId</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="mi" style="color: #099;"><span class="idiff right">1</span></span><span class="o" style="font-weight: 600;">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">node2id</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">get</span><span class="o" style="font-weight: 600;">(</span><span class="n" style="color: #333;">e</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">getTarget</span><span class="o" style="font-weight: 600;">());</span></span>
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<pre style="margin: 0;">+<span id="LC66" class="line" lang="java"> <span class="n" style="color: #333;">edges</span><span class="o" style="font-weight: 600;">[</span><span class="mi" style="color: #099;"><span class="idiff left">0</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="n" style="color: #333;"><span class="idiff right">eId</span></span><span class="o" style="font-weight: 600;">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">node2id</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">get</span><span class="o" style="font-weight: 600;">(</span><span class="n" style="color: #333;">e</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">getSource</span><span class="o" style="font-weight: 600;">());</span></span>
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<pre style="margin: 0;">+<span id="LC67" class="line" lang="java"> <span class="n" style="color: #333;">edges</span><span class="o" style="font-weight: 600;">[</span><span class="mi" style="color: #099;"><span class="idiff left">1</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="n" style="color: #333;"><span class="idiff right">eId</span></span><span class="o" style="font-weight: 600;">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">node2id</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">get</span><span class="o" style="font-weight: 600;">(</span><span class="n" style="color: #333;">e</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">getTarget</span><span class="o" style="font-weight: 600;">());</span></span>
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<pre style="margin: 0;"> <span id="LC68" class="line" lang="java"> <span class="n" style="color: #333;">eId</span><span class="o" style="font-weight: 600;">++;</span></span>
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<pre style="margin: 0;"> <span id="LC69" class="line" lang="java"> <span class="o" style="font-weight: 600;">}</span></span>
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<pre style="margin: 0;"> <span id="LC70" class="line" lang="java"></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -79,8 +79,8 @@ public class FruchtermanReingoldLayout {</td>
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<pre style="margin: 0;"> <span id="LC79" class="line" lang="java"> <span class="k" style="font-weight: 600;">while</span> <span class="o" style="font-weight: 600;">(</span><span class="n" style="color: #333;">stack</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">size</span><span class="o" style="font-weight: 600;">()</span> <span class="o" style="font-weight: 600;">></span> <span class="mi" style="color: #099;">0</span><span class="o" style="font-weight: 600;">)</span> <span class="o" style="font-weight: 600;">{</span></span>
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<pre style="margin: 0;"> <span id="LC80" class="line" lang="java"> <span class="n" style="color: #333;">Node</span> <span class="n" style="color: #333;">w</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">stack</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">pop</span><span class="o" style="font-weight: 600;">();</span></span>
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<pre style="margin: 0;"> <span id="LC81" class="line" lang="java"> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">id</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">node2id</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">get</span><span class="o" style="font-weight: 600;">(</span><span class="n" style="color: #333;">w</span><span class="o" style="font-weight: 600;">);</span></span>
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<pre style="margin: 0;">-<span id="LC82" class="line" lang="java"> <span class="n" style="color: #333;">coordinates</span><span class="o" style="font-weight: 600;">[</span><span class="n" style="color: #333;"><span class="idiff left">id</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="mi" style="color: #099;"><span class="idiff right">0</span></span><span class="o" style="font-weight: 600;">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="o" style="font-weight: 600;">(</span><span class="kt" style="color: #458; font-weight: 600;">float</span><span class="o" style="font-weight: 600;">)</span> <span class="o" style="font-weight: 600;">(</span><span class="mi" style="color: #099;">100</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">Math</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">sin</span><span class="o" style="font-weight: 600;">(</span><span class="mi" style="color: #099;">2</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">Math</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">PI</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">count</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">nodes</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">length</span><span class="o" style="font-weight: 600;">));</span></span>
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<pre style="margin: 0;">-<span id="LC83" class="line" lang="java"> <span class="n" style="color: #333;">coordinates</span><span class="o" style="font-weight: 600;">[</span><span class="n" style="color: #333;"><span class="idiff left">id</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="mi" style="color: #099;"><span class="idiff right">1</span></span><span class="o" style="font-weight: 600;">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="o" style="font-weight: 600;">(</span><span class="kt" style="color: #458; font-weight: 600;">float</span><span class="o" style="font-weight: 600;">)</span> <span class="o" style="font-weight: 600;">(</span><span class="mi" style="color: #099;">100</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">Math</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">cos</span><span class="o" style="font-weight: 600;">(</span><span class="mi" style="color: #099;">2</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">Math</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">PI</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">count</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">nodes</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">length</span><span class="o" style="font-weight: 600;">));</span></span>
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<pre style="margin: 0;">+<span id="LC82" class="line" lang="java"> <span class="n" style="color: #333;">coordinates</span><span class="o" style="font-weight: 600;">[</span><span class="mi" style="color: #099;"><span class="idiff left">0</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="n" style="color: #333;"><span class="idiff right">id</span></span><span class="o" style="font-weight: 600;">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="o" style="font-weight: 600;">(</span><span class="kt" style="color: #458; font-weight: 600;">float</span><span class="o" style="font-weight: 600;">)</span> <span class="o" style="font-weight: 600;">(</span><span class="mi" style="color: #099;">100</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">Math</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">sin</span><span class="o" style="font-weight: 600;">(</span><span class="mi" style="color: #099;">2</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">Math</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">PI</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">count</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">nodes</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">length</span><span class="o" style="font-weight: 600;">));</span></span>
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<pre style="margin: 0;">+<span id="LC83" class="line" lang="java"> <span class="n" style="color: #333;">coordinates</span><span class="o" style="font-weight: 600;">[</span><span class="mi" style="color: #099;"><span class="idiff left">1</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="n" style="color: #333;"><span class="idiff right">id</span></span><span class="o" style="font-weight: 600;">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="o" style="font-weight: 600;">(</span><span class="kt" style="color: #458; font-weight: 600;">float</span><span class="o" style="font-weight: 600;">)</span> <span class="o" style="font-weight: 600;">(</span><span class="mi" style="color: #099;">100</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">Math</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">cos</span><span class="o" style="font-weight: 600;">(</span><span class="mi" style="color: #099;">2</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">Math</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">PI</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">count</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">nodes</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">length</span><span class="o" style="font-weight: 600;">));</span></span>
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<pre style="margin: 0;"> <span id="LC84" class="line" lang="java"> <span class="n" style="color: #333;">count</span><span class="o" style="font-weight: 600;">++;</span></span>
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<pre style="margin: 0;"> <span id="LC85" class="line" lang="java"> <span class="k" style="font-weight: 600;">for</span> <span class="o" style="font-weight: 600;">(</span><span class="n" style="color: #333;">Edge</span> <span class="n" style="color: #333;">e</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">w</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">getFirstAdjacentEdge</span><span class="o" style="font-weight: 600;">();</span> <span class="n" style="color: #333;">e</span> <span class="o" style="font-weight: 600;">!=</span> <span class="kc" style="font-weight: 600;">null</span><span class="o" style="font-weight: 600;">;</span> <span class="n" style="color: #333;">e</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">w</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">getNextAdjacentEdge</span><span class="o" style="font-weight: 600;">(</span><span class="n" style="color: #333;">e</span><span class="o" style="font-weight: 600;">))</span> <span class="o" style="font-weight: 600;">{</span></span>
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86
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86
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<pre style="margin: 0;"> <span id="LC86" class="line" lang="java"> <span class="n" style="color: #333;">Node</span> <span class="n" style="color: #333;">u</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">e</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">getOpposite</span><span class="o" style="font-weight: 600;">(</span><span class="n" style="color: #333;">w</span><span class="o" style="font-weight: 600;">);</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="114" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="114" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -114,7 +114,7 @@ public class FruchtermanReingoldLayout {</td>
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114
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<pre style="margin: 0;"> <span id="LC114" class="line" lang="java"> <span class="o" style="font-weight: 600;">}</span></span>
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115
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<pre style="margin: 0;"> <span id="LC115" class="line" lang="java"></span>
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116
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<pre style="margin: 0;"> <span id="LC116" class="line" lang="java"> <span class="k" style="font-weight: 600;">for</span> <span class="o" style="font-weight: 600;">(</span><span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">v</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="o" style="font-weight: 600;">;</span> <span class="n" style="color: #333;">v</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">nodes</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">length</span><span class="o" style="font-weight: 600;">;</span> <span class="n" style="color: #333;">v</span><span class="o" style="font-weight: 600;">++)</span> <span class="o" style="font-weight: 600;">{</span></span>
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117
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<pre style="margin: 0;">-<span id="LC117" class="line" lang="java"> <span class="n" style="color: #333;">result</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">set</span><span class="o" style="font-weight: 600;">(</span><span class="n" style="color: #333;">nodes</span><span class="o" style="font-weight: 600;">[</span><span class="n" style="color: #333;">v</span><span class="o" style="font-weight: 600;">],</span> <span class="k" style="font-weight: 600;">new</span> <span class="n" style="color: #333;">Point2D</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">Float</span><span class="o" style="font-weight: 600;">(</span><span class="n" style="color: #333;">coordinates</span><span class="o" style="font-weight: 600;">[</span><span class="n" style="color: #333;"><span class="idiff left">v</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="mi" style="color: #099;"><span class="idiff">0</span></span><span class="o" style="font-weight: 600;"><span class="idiff">],</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">coordinates</span></span><span class="o" style="font-weight: 600;"><span class="idiff">[</span></span><span class="n" style="color: #333;"><span class="idiff">v</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="mi" style="color: #099;"><span class="idiff right">1</span></span><span class="o" style="font-weight: 600;">]));</span></span>
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<pre style="margin: 0;">+<span id="LC117" class="line" lang="java"> <span class="n" style="color: #333;">result</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">set</span><span class="o" style="font-weight: 600;">(</span><span class="n" style="color: #333;">nodes</span><span class="o" style="font-weight: 600;">[</span><span class="n" style="color: #333;">v</span><span class="o" style="font-weight: 600;">],</span> <span class="k" style="font-weight: 600;">new</span> <span class="n" style="color: #333;">Point2D</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">Float</span><span class="o" style="font-weight: 600;">(</span><span class="n" style="color: #333;">coordinates</span><span class="o" style="font-weight: 600;">[</span><span class="mi" style="color: #099;"><span class="idiff left">0</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="n" style="color: #333;"><span class="idiff">v</span></span><span class="o" style="font-weight: 600;"><span class="idiff">],</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">coordinates</span></span><span class="o" style="font-weight: 600;"><span class="idiff">[</span></span><span class="mi" style="color: #099;"><span class="idiff">1</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="n" style="color: #333;"><span class="idiff right">v</span></span><span class="o" style="font-weight: 600;">]));</span></span>
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<pre style="margin: 0;"> <span id="LC118" class="line" lang="java"></span>
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<pre style="margin: 0;"> <span id="LC119" class="line" lang="java"> <span class="o" style="font-weight: 600;">}</span></span>
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120
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<pre style="margin: 0;"> <span id="LC120" class="line" lang="java"> <span class="o" style="font-weight: 600;">}</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="131" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="131" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -131,57 +131,57 @@ public class FruchtermanReingoldLayout {</td>
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131
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131
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<pre style="margin: 0;"> <span id="LC131" class="line" lang="java"> <span class="k" style="font-weight: 600;">for</span> <span class="o" style="font-weight: 600;">(</span><span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">v1</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="o" style="font-weight: 600;">;</span> <span class="n" style="color: #333;">v1</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">nodes</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">length</span><span class="o" style="font-weight: 600;">;</span> <span class="n" style="color: #333;">v1</span><span class="o" style="font-weight: 600;">++)</span> <span class="o" style="font-weight: 600;">{</span></span>
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132
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132
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<pre style="margin: 0;"> <span id="LC132" class="line" lang="java"> <span class="k" style="font-weight: 600;">for</span> <span class="o" style="font-weight: 600;">(</span><span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">v2</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="o" style="font-weight: 600;">;</span> <span class="n" style="color: #333;">v2</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">nodes</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">length</span><span class="o" style="font-weight: 600;">;</span> <span class="n" style="color: #333;">v2</span><span class="o" style="font-weight: 600;">++)</span> <span class="o" style="font-weight: 600;">{</span></span>
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133
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133
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<pre style="margin: 0;"> <span id="LC133" class="line" lang="java"> <span class="k" style="font-weight: 600;">if</span> <span class="o" style="font-weight: 600;">(</span><span class="n" style="color: #333;">v1</span> <span class="o" style="font-weight: 600;">!=</span> <span class="n" style="color: #333;">v2</span><span class="o" style="font-weight: 600;">)</span> <span class="o" style="font-weight: 600;">{</span></span>
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<pre style="margin: 0;">-<span id="LC134" class="line" lang="java"> <span class="kt" style="color: #458; font-weight: 600;">float</span> <span class="n" style="color: #333;">xDist</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">coordinates</span><span class="o" style="font-weight: 600;">[</span><span class="n" style="color: #333;"><span class="idiff left">v1</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="mi" style="color: #099;"><span class="idiff">0</span></span><span class="o" style="font-weight: 600;"><span class="idiff">]</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">-</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">coordinates</span></span><span class="o" style="font-weight: 600;"><span class="idiff">[</span></span><span class="n" style="color: #333;"><span class="idiff">v2</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="mi" style="color: #099;"><span class="idiff right">0</span></span><span class="o" style="font-weight: 600;">];</span></span>
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<pre style="margin: 0;">-<span id="LC135" class="line" lang="java"> <span class="kt" style="color: #458; font-weight: 600;">float</span> <span class="n" style="color: #333;">yDist</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">coordinates</span><span class="o" style="font-weight: 600;">[</span><span class="n" style="color: #333;"><span class="idiff left">v1</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="mi" style="color: #099;"><span class="idiff">1</span></span><span class="o" style="font-weight: 600;"><span class="idiff">]</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">-</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">coordinates</span></span><span class="o" style="font-weight: 600;"><span class="idiff">[</span></span><span class="n" style="color: #333;"><span class="idiff">v2</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="mi" style="color: #099;"><span class="idiff right">1</span></span><span class="o" style="font-weight: 600;">];</span></span>
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<pre style="margin: 0;">+<span id="LC134" class="line" lang="java"> <span class="kt" style="color: #458; font-weight: 600;">float</span> <span class="n" style="color: #333;">xDist</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">coordinates</span><span class="o" style="font-weight: 600;">[</span><span class="mi" style="color: #099;"><span class="idiff left">0</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="n" style="color: #333;"><span class="idiff">v1</span></span><span class="o" style="font-weight: 600;"><span class="idiff">]</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">-</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">coordinates</span></span><span class="o" style="font-weight: 600;"><span class="idiff">[</span></span><span class="mi" style="color: #099;"><span class="idiff">0</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="n" style="color: #333;"><span class="idiff right">v2</span></span><span class="o" style="font-weight: 600;">];</span></span>
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<pre style="margin: 0;">+<span id="LC135" class="line" lang="java"> <span class="kt" style="color: #458; font-weight: 600;">float</span> <span class="n" style="color: #333;">yDist</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">coordinates</span><span class="o" style="font-weight: 600;">[</span><span class="mi" style="color: #099;"><span class="idiff left">1</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="n" style="color: #333;"><span class="idiff">v1</span></span><span class="o" style="font-weight: 600;"><span class="idiff">]</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">-</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">coordinates</span></span><span class="o" style="font-weight: 600;"><span class="idiff">[</span></span><span class="mi" style="color: #099;"><span class="idiff">1</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="n" style="color: #333;"><span class="idiff right">v2</span></span><span class="o" style="font-weight: 600;">];</span></span>
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136
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136
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<pre style="margin: 0;"> <span id="LC136" class="line" lang="java"> <span class="kt" style="color: #458; font-weight: 600;">float</span> <span class="n" style="color: #333;">dist</span> <span class="o" style="font-weight: 600;">=</span> <span class="o" style="font-weight: 600;">(</span><span class="kt" style="color: #458; font-weight: 600;">float</span><span class="o" style="font-weight: 600;">)</span> <span class="n" style="color: #333;">Math</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">sqrt</span><span class="o" style="font-weight: 600;">(</span><span class="n" style="color: #333;">xDist</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">xDist</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">yDist</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">yDist</span><span class="o" style="font-weight: 600;">);</span></span>
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137
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137
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<pre style="margin: 0;"> <span id="LC137" class="line" lang="java"> <span class="k" style="font-weight: 600;">if</span> <span class="o" style="font-weight: 600;">(</span><span class="n" style="color: #333;">dist</span> <span class="o" style="font-weight: 600;">></span> <span class="mi" style="color: #099;">0</span><span class="o" style="font-weight: 600;">)</span> <span class="o" style="font-weight: 600;">{</span></span>
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138
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138
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<pre style="margin: 0;"> <span id="LC138" class="line" lang="java"> <span class="kt" style="color: #458; font-weight: 600;">float</span> <span class="n" style="color: #333;">repulsiveF</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">k</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">k</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">dist</span><span class="o" style="font-weight: 600;">;</span></span>
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139
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<pre style="margin: 0;">-<span id="LC139" class="line" lang="java"> <span class="n" style="color: #333;">forceDelta</span><span class="o" style="font-weight: 600;">[</span><span class="n" style="color: #333;"><span class="idiff left">v1</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="mi" style="color: #099;"><span class="idiff right">0</span></span><span class="o" style="font-weight: 600;">]</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">xDist</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">dist</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">repulsiveF</span><span class="o" style="font-weight: 600;">;</span></span>
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140
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<pre style="margin: 0;">-<span id="LC140" class="line" lang="java"> <span class="n" style="color: #333;">forceDelta</span><span class="o" style="font-weight: 600;">[</span><span class="n" style="color: #333;"><span class="idiff left">v1</span></span><span class="o" style="font-weight: 600;"><span class="idiff right">][</span></span><span class="mi" style="color: #099;">1</span><span class="o" style="font-weight: 600;">]</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">yDist</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">dist</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">repulsiveF</span><span class="o" style="font-weight: 600;">;</span></span>
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139
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<pre style="margin: 0;">+<span id="LC139" class="line" lang="java"> <span class="n" style="color: #333;">forceDelta</span><span class="o" style="font-weight: 600;">[</span><span class="mi" style="color: #099;"><span class="idiff left">0</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="n" style="color: #333;"><span class="idiff right">v1</span></span><span class="o" style="font-weight: 600;">]</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">xDist</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">dist</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">repulsiveF</span><span class="o" style="font-weight: 600;">;</span></span>
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140
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<pre style="margin: 0;">+<span id="LC140" class="line" lang="java"> <span class="n" style="color: #333;">forceDelta</span><span class="o" style="font-weight: 600;">[</span><span class="mi" style="color: #099;"><span class="idiff left">1</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="n" style="color: #333;"><span class="idiff right">v</span>1</span><span class="o" style="font-weight: 600;">]</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">yDist</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">dist</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">repulsiveF</span><span class="o" style="font-weight: 600;">;</span></span>
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141
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<pre style="margin: 0;"> <span id="LC141" class="line" lang="java"> <span class="o" style="font-weight: 600;">}</span></span>
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142
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142
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<pre style="margin: 0;"> <span id="LC142" class="line" lang="java"> <span class="o" style="font-weight: 600;">}</span></span>
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143
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143
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<pre style="margin: 0;"> <span id="LC143" class="line" lang="java"> <span class="o" style="font-weight: 600;">}</span></span>
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144
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144
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<pre style="margin: 0;"> <span id="LC144" class="line" lang="java"> <span class="o" style="font-weight: 600;">}</span></span>
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145
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145
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<pre style="margin: 0;"> <span id="LC145" class="line" lang="java"> <span class="c1" style="color: #998; font-style: italic;">// attraction</span></span>
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146
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<pre style="margin: 0;">-<span id="LC146" class="line" lang="java"> <span class="k" style="font-weight: 600;">for</span> <span class="o" style="font-weight: 600;">(</span><span class="kt" style="color: #458; font-weight: 600;">int</span><span class="o" style="font-weight: 600;"><span class="idiff left">[]</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">edge</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">:</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff right">edges</span></span><span class="o" style="font-weight: 600;">)</span> <span class="o" style="font-weight: 600;">{</span></span>
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147
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<pre style="margin: 0;">-<span id="LC147" class="line" lang="java"> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">v1</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">edge</span><span class="o" style="font-weight: 600;"><span class="idiff left">[</span></span><span class="mi" style="color: #099;"><span class="idiff right">0</span></span><span class="o" style="font-weight: 600;">];</span></span>
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148
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<pre style="margin: 0;">-<span id="LC148" class="line" lang="java"> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">v2</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">edge</span><span class="o" style="font-weight: 600;"><span class="idiff left">[</span></span><span class="mi" style="color: #099;"><span class="idiff right">1</span></span><span class="o" style="font-weight: 600;">];</span></span>
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149
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<pre style="margin: 0;">-<span id="LC149" class="line" lang="java"> <span class="kt" style="color: #458; font-weight: 600;">float</span> <span class="n" style="color: #333;">xDist</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">coordinates</span><span class="o" style="font-weight: 600;">[</span><span class="n" style="color: #333;"><span class="idiff left">v1</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="mi" style="color: #099;"><span class="idiff">0</span></span><span class="o" style="font-weight: 600;"><span class="idiff">]</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">-</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">coordinates</span></span><span class="o" style="font-weight: 600;"><span class="idiff">[</span></span><span class="n" style="color: #333;"><span class="idiff">v2</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="mi" style="color: #099;"><span class="idiff right">0</span></span><span class="o" style="font-weight: 600;">];</span></span>
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150
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<pre style="margin: 0;">-<span id="LC150" class="line" lang="java"> <span class="kt" style="color: #458; font-weight: 600;">float</span> <span class="n" style="color: #333;">yDist</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">coordinates</span><span class="o" style="font-weight: 600;">[</span><span class="n" style="color: #333;"><span class="idiff left">v1</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="mi" style="color: #099;"><span class="idiff">1</span></span><span class="o" style="font-weight: 600;"><span class="idiff">]</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">-</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">coordinates</span></span><span class="o" style="font-weight: 600;"><span class="idiff">[</span></span><span class="n" style="color: #333;"><span class="idiff">v2</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="mi" style="color: #099;"><span class="idiff right">1</span></span><span class="o" style="font-weight: 600;">];</span></span>
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146
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<pre style="margin: 0;">+<span id="LC146" class="line" lang="java"> <span class="k" style="font-weight: 600;">for</span> <span class="o" style="font-weight: 600;">(</span><span class="kt" style="color: #458; font-weight: 600;">int</span><span class="idiff left"> </span><span class="n" style="color: #333;"><span class="idiff">i</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="idiff"> </span><span class="mi" style="color: #099;"><span class="idiff">0</span></span><span class="o" style="font-weight: 600;"><span class="idiff">;</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">i</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff"><</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">edges</span></span><span class="o" style="font-weight: 600;"><span class="idiff">[</span></span><span class="mi" style="color: #099;"><span class="idiff">0</span></span><span class="o" style="font-weight: 600;"><span class="idiff">].</span></span><span class="na" style="color: teal;"><span class="idiff">length</span></span><span class="o" style="font-weight: 600;"><span class="idiff">;</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">i</span></span><span class="o" style="font-weight: 600;"><span class="idiff right">++</span>)</span> <span class="o" style="font-weight: 600;">{</span></span>
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<td class="diff-line-num new new_line" data-linenumber="147" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
147
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<pre style="margin: 0;">+<span id="LC147" class="line" lang="java"> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">v1</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">edge<span class="idiff left">s</span></span><span class="o" style="font-weight: 600;"><span class="idiff">[</span></span><span class="mi" style="color: #099;"><span class="idiff">0</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="n" style="color: #333;"><span class="idiff right">i</span></span><span class="o" style="font-weight: 600;">];</span></span>
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<td class="diff-line-num new new_line" data-linenumber="148" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
148
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<pre style="margin: 0;">+<span id="LC148" class="line" lang="java"> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">v2</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">edge<span class="idiff left">s</span></span><span class="o" style="font-weight: 600;"><span class="idiff">[</span></span><span class="mi" style="color: #099;"><span class="idiff">1</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="n" style="color: #333;"><span class="idiff right">i</span></span><span class="o" style="font-weight: 600;">];</span></span>
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149
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<pre style="margin: 0;">+<span id="LC149" class="line" lang="java"> <span class="kt" style="color: #458; font-weight: 600;">float</span> <span class="n" style="color: #333;">xDist</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">coordinates</span><span class="o" style="font-weight: 600;">[</span><span class="mi" style="color: #099;"><span class="idiff left">0</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="n" style="color: #333;"><span class="idiff">v1</span></span><span class="o" style="font-weight: 600;"><span class="idiff">]</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">-</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">coordinates</span></span><span class="o" style="font-weight: 600;"><span class="idiff">[</span></span><span class="mi" style="color: #099;"><span class="idiff">0</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="n" style="color: #333;"><span class="idiff right">v2</span></span><span class="o" style="font-weight: 600;">];</span></span>
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150
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<pre style="margin: 0;">+<span id="LC150" class="line" lang="java"> <span class="kt" style="color: #458; font-weight: 600;">float</span> <span class="n" style="color: #333;">yDist</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">coordinates</span><span class="o" style="font-weight: 600;">[</span><span class="mi" style="color: #099;"><span class="idiff left">1</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="n" style="color: #333;"><span class="idiff">v1</span></span><span class="o" style="font-weight: 600;"><span class="idiff">]</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">-</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">coordinates</span></span><span class="o" style="font-weight: 600;"><span class="idiff">[</span></span><span class="mi" style="color: #099;"><span class="idiff">1</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="n" style="color: #333;"><span class="idiff right">v2</span></span><span class="o" style="font-weight: 600;">];</span></span>
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151
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151
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<pre style="margin: 0;"> <span id="LC151" class="line" lang="java"> <span class="kt" style="color: #458; font-weight: 600;">float</span> <span class="n" style="color: #333;">dist</span> <span class="o" style="font-weight: 600;">=</span> <span class="o" style="font-weight: 600;">(</span><span class="kt" style="color: #458; font-weight: 600;">float</span><span class="o" style="font-weight: 600;">)</span> <span class="n" style="color: #333;">Math</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">sqrt</span><span class="o" style="font-weight: 600;">(</span><span class="n" style="color: #333;">xDist</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">xDist</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">yDist</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">yDist</span><span class="o" style="font-weight: 600;">);</span></span>
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152
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152
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<pre style="margin: 0;"> <span id="LC152" class="line" lang="java"> <span class="k" style="font-weight: 600;">if</span> <span class="o" style="font-weight: 600;">(</span><span class="n" style="color: #333;">dist</span> <span class="o" style="font-weight: 600;">></span> <span class="mi" style="color: #099;">0</span><span class="o" style="font-weight: 600;">)</span> <span class="o" style="font-weight: 600;">{</span></span>
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153
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153
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<pre style="margin: 0;"> <span id="LC153" class="line" lang="java"> <span class="kt" style="color: #458; font-weight: 600;">float</span> <span class="n" style="color: #333;">attractiveF</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">dist</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">dist</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">k</span><span class="o" style="font-weight: 600;">;</span></span>
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154
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<td class="diff-line-num new_line old" data-linenumber="154" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC154" class="line" lang="java"> <span class="n" style="color: #333;">forceDelta</span><span class="o" style="font-weight: 600;">[</span><span class="n" style="color: #333;"><span class="idiff left">v1</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="mi" style="color: #099;"><span class="idiff right">0</span></span><span class="o" style="font-weight: 600;">]</span> <span class="o" style="font-weight: 600;">-=</span> <span class="n" style="color: #333;">xDist</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">dist</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">attractiveF</span><span class="o" style="font-weight: 600;">;</span></span>
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155
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<pre style="margin: 0;">-<span id="LC155" class="line" lang="java"> <span class="n" style="color: #333;">forceDelta</span><span class="o" style="font-weight: 600;">[</span><span class="n" style="color: #333;"><span class="idiff left">v1</span></span><span class="o" style="font-weight: 600;"><span class="idiff right">][</span></span><span class="mi" style="color: #099;">1</span><span class="o" style="font-weight: 600;">]</span> <span class="o" style="font-weight: 600;">-=</span> <span class="n" style="color: #333;">yDist</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">dist</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">attractiveF</span><span class="o" style="font-weight: 600;">;</span></span>
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156
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<pre style="margin: 0;">-<span id="LC156" class="line" lang="java"> <span class="n" style="color: #333;">forceDelta</span><span class="o" style="font-weight: 600;">[</span><span class="n" style="color: #333;"><span class="idiff left">v2</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="mi" style="color: #099;"><span class="idiff right">0</span></span><span class="o" style="font-weight: 600;">]</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">xDist</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">dist</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">attractiveF</span><span class="o" style="font-weight: 600;">;</span></span>
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157
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<pre style="margin: 0;">-<span id="LC157" class="line" lang="java"> <span class="n" style="color: #333;">forceDelta</span><span class="o" style="font-weight: 600;">[</span><span class="n" style="color: #333;"><span class="idiff left">v2</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="mi" style="color: #099;"><span class="idiff right">1</span></span><span class="o" style="font-weight: 600;">]</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">yDist</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">dist</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">attractiveF</span><span class="o" style="font-weight: 600;">;</span></span>
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<pre style="margin: 0;">+<span id="LC154" class="line" lang="java"> <span class="n" style="color: #333;">forceDelta</span><span class="o" style="font-weight: 600;">[</span><span class="mi" style="color: #099;"><span class="idiff left">0</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="n" style="color: #333;"><span class="idiff right">v1</span></span><span class="o" style="font-weight: 600;">]</span> <span class="o" style="font-weight: 600;">-=</span> <span class="n" style="color: #333;">xDist</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">dist</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">attractiveF</span><span class="o" style="font-weight: 600;">;</span></span>
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<pre style="margin: 0;">+<span id="LC155" class="line" lang="java"> <span class="n" style="color: #333;">forceDelta</span><span class="o" style="font-weight: 600;">[</span><span class="mi" style="color: #099;"><span class="idiff left">1</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="n" style="color: #333;"><span class="idiff right">v</span>1</span><span class="o" style="font-weight: 600;">]</span> <span class="o" style="font-weight: 600;">-=</span> <span class="n" style="color: #333;">yDist</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">dist</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">attractiveF</span><span class="o" style="font-weight: 600;">;</span></span>
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156
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<pre style="margin: 0;">+<span id="LC156" class="line" lang="java"> <span class="n" style="color: #333;">forceDelta</span><span class="o" style="font-weight: 600;">[</span><span class="mi" style="color: #099;"><span class="idiff left">0</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="n" style="color: #333;"><span class="idiff right">v2</span></span><span class="o" style="font-weight: 600;">]</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">xDist</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">dist</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">attractiveF</span><span class="o" style="font-weight: 600;">;</span></span>
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157
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<pre style="margin: 0;">+<span id="LC157" class="line" lang="java"> <span class="n" style="color: #333;">forceDelta</span><span class="o" style="font-weight: 600;">[</span><span class="mi" style="color: #099;"><span class="idiff left">1</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="n" style="color: #333;"><span class="idiff right">v2</span></span><span class="o" style="font-weight: 600;">]</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">yDist</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">dist</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">attractiveF</span><span class="o" style="font-weight: 600;">;</span></span>
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158
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158
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<pre style="margin: 0;"> <span id="LC158" class="line" lang="java"> <span class="o" style="font-weight: 600;">}</span></span>
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159
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159
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<pre style="margin: 0;"> <span id="LC159" class="line" lang="java"> <span class="o" style="font-weight: 600;">}</span></span>
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160
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160
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<pre style="margin: 0;"> <span id="LC160" class="line" lang="java"></span>
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161
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161
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<pre style="margin: 0;"> <span id="LC161" class="line" lang="java"> <span class="c1" style="color: #998; font-style: italic;">// gravity</span></span>
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162
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162
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<pre style="margin: 0;"> <span id="LC162" class="line" lang="java"> <span class="k" style="font-weight: 600;">for</span> <span class="o" style="font-weight: 600;">(</span><span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">v</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="o" style="font-weight: 600;">;</span> <span class="n" style="color: #333;">v</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">nodes</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">length</span><span class="o" style="font-weight: 600;">;</span> <span class="n" style="color: #333;">v</span><span class="o" style="font-weight: 600;">++)</span> <span class="o" style="font-weight: 600;">{</span></span>
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163
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<pre style="margin: 0;">-<span id="LC163" class="line" lang="java"> <span class="kt" style="color: #458; font-weight: 600;">float</span> <span class="n" style="color: #333;">distSquared</span> <span class="o" style="font-weight: 600;">=</span> <span class="o" style="font-weight: 600;">(</span><span class="kt" style="color: #458; font-weight: 600;">float</span><span class="o" style="font-weight: 600;">)</span> <span class="n" style="color: #333;">Math</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">sqrt</span><span class="o" style="font-weight: 600;">(</span><span class="n" style="color: #333;">coordinates</span><span class="o" style="font-weight: 600;">[</span><span class="n" style="color: #333;"><span class="idiff left">v</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="mi" style="color: #099;"><span class="idiff">0</span></span><span class="o" style="font-weight: 600;"><span class="idiff">]</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">*</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">coordinates</span></span><span class="o" style="font-weight: 600;"><span class="idiff">[</span></span><span class="n" style="color: #333;"><span class="idiff">v</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="mi" style="color: #099;"><span class="idiff">0</span></span><span class="o" style="font-weight: 600;"><span class="idiff">]</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">+</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">coordinates</span></span><span class="o" style="font-weight: 600;"><span class="idiff">[</span></span><span class="n" style="color: #333;"><span class="idiff">v</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="mi" style="color: #099;"><span class="idiff">1</span></span><span class="o" style="font-weight: 600;"><span class="idiff">]</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">*</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">coordinates</span></span><span class="o" style="font-weight: 600;"><span class="idiff">[</span></span><span class="n" style="color: #333;"><span class="idiff">v</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="mi" style="color: #099;"><span class="idiff right">1</span></span><span class="o" style="font-weight: 600;">]);</span></span>
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<pre style="margin: 0;">+<span id="LC163" class="line" lang="java"> <span class="kt" style="color: #458; font-weight: 600;">float</span> <span class="n" style="color: #333;">distSquared</span> <span class="o" style="font-weight: 600;">=</span> <span class="o" style="font-weight: 600;">(</span><span class="kt" style="color: #458; font-weight: 600;">float</span><span class="o" style="font-weight: 600;">)</span> <span class="n" style="color: #333;">Math</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">sqrt</span><span class="o" style="font-weight: 600;">(</span><span class="n" style="color: #333;">coordinates</span><span class="o" style="font-weight: 600;">[</span><span class="mi" style="color: #099;"><span class="idiff left">0</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="n" style="color: #333;"><span class="idiff">v</span></span><span class="o" style="font-weight: 600;"><span class="idiff">]</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">*</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">coordinates</span></span><span class="o" style="font-weight: 600;"><span class="idiff">[</span></span><span class="mi" style="color: #099;"><span class="idiff">0</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="n" style="color: #333;"><span class="idiff">v</span></span><span class="o" style="font-weight: 600;"><span class="idiff">]</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">+</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">coordinates</span></span><span class="o" style="font-weight: 600;"><span class="idiff">[</span></span><span class="mi" style="color: #099;"><span class="idiff">1</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="n" style="color: #333;"><span class="idiff">v</span></span><span class="o" style="font-weight: 600;"><span class="idiff">]</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">*</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">coordinates</span></span><span class="o" style="font-weight: 600;"><span class="idiff">[</span></span><span class="mi" style="color: #099;"><span class="idiff">1</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="n" style="color: #333;"><span class="idiff right">v</span></span><span class="o" style="font-weight: 600;">]);</span></span>
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<pre style="margin: 0;"> <span id="LC164" class="line" lang="java"> <span class="kt" style="color: #458; font-weight: 600;">float</span> <span class="n" style="color: #333;">gravityF</span> <span class="o" style="font-weight: 600;">=</span> <span class="mf" style="color: #099;">0.01f</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">k</span> <span class="o" style="font-weight: 600;">*</span> <span class="o" style="font-weight: 600;">(</span><span class="kt" style="color: #458; font-weight: 600;">float</span><span class="o" style="font-weight: 600;">)</span> <span class="n" style="color: #333;">gravity</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">distSquared</span><span class="o" style="font-weight: 600;">;</span></span>
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165
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<pre style="margin: 0;">-<span id="LC165" class="line" lang="java"> <span class="n" style="color: #333;">forceDelta</span><span class="o" style="font-weight: 600;">[</span><span class="n" style="color: #333;"><span class="idiff left">v</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="mi" style="color: #099;"><span class="idiff">0</span></span><span class="o" style="font-weight: 600;"><span class="idiff">]</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">-=</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">gravityF</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">*</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">coordinates</span></span><span class="o" style="font-weight: 600;"><span class="idiff">[</span></span><span class="n" style="color: #333;"><span class="idiff">v</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="mi" style="color: #099;"><span class="idiff right">0</span></span><span class="o" style="font-weight: 600;">]</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">distSquared</span><span class="o" style="font-weight: 600;">;</span></span>
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<pre style="margin: 0;">-<span id="LC166" class="line" lang="java"> <span class="n" style="color: #333;">forceDelta</span><span class="o" style="font-weight: 600;">[</span><span class="n" style="color: #333;"><span class="idiff left">v</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="mi" style="color: #099;"><span class="idiff">1</span></span><span class="o" style="font-weight: 600;"><span class="idiff">]</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">-=</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">gravityF</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">*</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">coordinates</span></span><span class="o" style="font-weight: 600;"><span class="idiff">[</span></span><span class="n" style="color: #333;"><span class="idiff">v</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="mi" style="color: #099;"><span class="idiff right">1</span></span><span class="o" style="font-weight: 600;">]</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">distSquared</span><span class="o" style="font-weight: 600;">;</span></span>
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<pre style="margin: 0;">+<span id="LC165" class="line" lang="java"> <span class="n" style="color: #333;">forceDelta</span><span class="o" style="font-weight: 600;">[</span><span class="mi" style="color: #099;"><span class="idiff left">0</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="n" style="color: #333;"><span class="idiff">v</span></span><span class="o" style="font-weight: 600;"><span class="idiff">]</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">-=</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">gravityF</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">*</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">coordinates</span></span><span class="o" style="font-weight: 600;"><span class="idiff">[</span></span><span class="mi" style="color: #099;"><span class="idiff">0</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="n" style="color: #333;"><span class="idiff right">v</span></span><span class="o" style="font-weight: 600;">]</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">distSquared</span><span class="o" style="font-weight: 600;">;</span></span>
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<pre style="margin: 0;">+<span id="LC166" class="line" lang="java"> <span class="n" style="color: #333;">forceDelta</span><span class="o" style="font-weight: 600;">[</span><span class="mi" style="color: #099;"><span class="idiff left">1</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="n" style="color: #333;"><span class="idiff">v</span></span><span class="o" style="font-weight: 600;"><span class="idiff">]</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">-=</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">gravityF</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">*</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">coordinates</span></span><span class="o" style="font-weight: 600;"><span class="idiff">[</span></span><span class="mi" style="color: #099;"><span class="idiff">1</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="n" style="color: #333;"><span class="idiff right">v</span></span><span class="o" style="font-weight: 600;">]</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">distSquared</span><span class="o" style="font-weight: 600;">;</span></span>
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<pre style="margin: 0;"> <span id="LC167" class="line" lang="java"> <span class="o" style="font-weight: 600;">}</span></span>
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<pre style="margin: 0;"> <span id="LC168" class="line" lang="java"></span>
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169
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<pre style="margin: 0;"> <span id="LC169" class="line" lang="java"> <span class="c1" style="color: #998; font-style: italic;">// speed</span></span>
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<pre style="margin: 0;"> <span id="LC170" class="line" lang="java"> <span class="k" style="font-weight: 600;">for</span> <span class="o" style="font-weight: 600;">(</span><span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">v</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="o" style="font-weight: 600;">;</span> <span class="n" style="color: #333;">v</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">nodes</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">length</span><span class="o" style="font-weight: 600;">;</span> <span class="n" style="color: #333;">v</span><span class="o" style="font-weight: 600;">++)</span> <span class="o" style="font-weight: 600;">{</span></span>
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<pre style="margin: 0;">-<span id="LC171" class="line" lang="java"> <span class="n" style="color: #333;">forceDelta</span><span class="o" style="font-weight: 600;">[</span><span class="n" style="color: #333;"><span class="idiff left">v</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="mi" style="color: #099;"><span class="idiff right">0</span></span><span class="o" style="font-weight: 600;">]</span> <span class="o" style="font-weight: 600;">*=</span> <span class="n" style="color: #333;">speed</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">SPEED_DIVISOR</span><span class="o" style="font-weight: 600;">;</span></span>
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<pre style="margin: 0;">-<span id="LC172" class="line" lang="java"> <span class="n" style="color: #333;">forceDelta</span><span class="o" style="font-weight: 600;">[</span><span class="n" style="color: #333;"><span class="idiff left">v</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="mi" style="color: #099;"><span class="idiff right">1</span></span><span class="o" style="font-weight: 600;">]</span> <span class="o" style="font-weight: 600;">*=</span> <span class="n" style="color: #333;">speed</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">SPEED_DIVISOR</span><span class="o" style="font-weight: 600;">;</span></span>
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<pre style="margin: 0;">+<span id="LC171" class="line" lang="java"> <span class="n" style="color: #333;">forceDelta</span><span class="o" style="font-weight: 600;">[</span><span class="mi" style="color: #099;"><span class="idiff left">0</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="n" style="color: #333;"><span class="idiff right">v</span></span><span class="o" style="font-weight: 600;">]</span> <span class="o" style="font-weight: 600;">*=</span> <span class="n" style="color: #333;">speed</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">SPEED_DIVISOR</span><span class="o" style="font-weight: 600;">;</span></span>
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<pre style="margin: 0;">+<span id="LC172" class="line" lang="java"> <span class="n" style="color: #333;">forceDelta</span><span class="o" style="font-weight: 600;">[</span><span class="mi" style="color: #099;"><span class="idiff left">1</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="n" style="color: #333;"><span class="idiff right">v</span></span><span class="o" style="font-weight: 600;">]</span> <span class="o" style="font-weight: 600;">*=</span> <span class="n" style="color: #333;">speed</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">SPEED_DIVISOR</span><span class="o" style="font-weight: 600;">;</span></span>
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<pre style="margin: 0;"> <span id="LC173" class="line" lang="java"></span>
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<pre style="margin: 0;"> <span id="LC174" class="line" lang="java"> <span class="o" style="font-weight: 600;">}</span></span>
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<pre style="margin: 0;"> <span id="LC175" class="line" lang="java"></span>
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<pre style="margin: 0;"> <span id="LC176" class="line" lang="java"> <span class="c1" style="color: #998; font-style: italic;">// apply the forces:</span></span>
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<pre style="margin: 0;"> <span id="LC177" class="line" lang="java"> <span class="k" style="font-weight: 600;">for</span> <span class="o" style="font-weight: 600;">(</span><span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">v</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="o" style="font-weight: 600;">;</span> <span class="n" style="color: #333;">v</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">nodes</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">length</span><span class="o" style="font-weight: 600;">;</span> <span class="n" style="color: #333;">v</span><span class="o" style="font-weight: 600;">++)</span> <span class="o" style="font-weight: 600;">{</span></span>
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<pre style="margin: 0;">-<span id="LC178" class="line" lang="java"> <span class="kt" style="color: #458; font-weight: 600;">float</span> <span class="n" style="color: #333;">xDist</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">forceDelta</span><span class="o" style="font-weight: 600;">[</span><span class="n" style="color: #333;"><span class="idiff left">v</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="mi" style="color: #099;"><span class="idiff right">0</span></span><span class="o" style="font-weight: 600;">];</span></span>
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<pre style="margin: 0;">-<span id="LC179" class="line" lang="java"> <span class="kt" style="color: #458; font-weight: 600;">float</span> <span class="n" style="color: #333;">yDist</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">forceDelta</span><span class="o" style="font-weight: 600;">[</span><span class="n" style="color: #333;"><span class="idiff left">v</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="mi" style="color: #099;"><span class="idiff right">1</span></span><span class="o" style="font-weight: 600;">];</span></span>
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178
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<pre style="margin: 0;">+<span id="LC178" class="line" lang="java"> <span class="kt" style="color: #458; font-weight: 600;">float</span> <span class="n" style="color: #333;">xDist</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">forceDelta</span><span class="o" style="font-weight: 600;">[</span><span class="mi" style="color: #099;"><span class="idiff left">0</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="n" style="color: #333;"><span class="idiff right">v</span></span><span class="o" style="font-weight: 600;">];</span></span>
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179
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<pre style="margin: 0;">+<span id="LC179" class="line" lang="java"> <span class="kt" style="color: #458; font-weight: 600;">float</span> <span class="n" style="color: #333;">yDist</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">forceDelta</span><span class="o" style="font-weight: 600;">[</span><span class="mi" style="color: #099;"><span class="idiff left">1</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="n" style="color: #333;"><span class="idiff right">v</span></span><span class="o" style="font-weight: 600;">];</span></span>
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180
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180
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<pre style="margin: 0;"> <span id="LC180" class="line" lang="java"> <span class="kt" style="color: #458; font-weight: 600;">float</span> <span class="n" style="color: #333;">dist</span> <span class="o" style="font-weight: 600;">=</span> <span class="o" style="font-weight: 600;">(</span><span class="kt" style="color: #458; font-weight: 600;">float</span><span class="o" style="font-weight: 600;">)</span> <span class="n" style="color: #333;">Math</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">sqrt</span><span class="o" style="font-weight: 600;">(</span><span class="n" style="color: #333;">xDist</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">xDist</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">yDist</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">yDist</span><span class="o" style="font-weight: 600;">);</span></span>
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181
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181
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<pre style="margin: 0;"> <span id="LC181" class="line" lang="java"> <span class="k" style="font-weight: 600;">if</span> <span class="o" style="font-weight: 600;">(</span><span class="n" style="color: #333;">dist</span> <span class="o" style="font-weight: 600;">></span> <span class="mi" style="color: #099;">0</span> <span class="o" style="font-weight: 600;">&&</span> <span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">fixed</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">get</span><span class="o" style="font-weight: 600;">(</span><span class="n" style="color: #333;">v</span><span class="o" style="font-weight: 600;">))</span> <span class="o" style="font-weight: 600;">{</span></span>
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182
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182
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<pre style="margin: 0;"> <span id="LC182" class="line" lang="java"> <span class="kt" style="color: #458; font-weight: 600;">float</span> <span class="n" style="color: #333;">limitedDist</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">Math</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">min</span><span class="o" style="font-weight: 600;">(</span><span class="n" style="color: #333;">maxDisplace</span> <span class="o" style="font-weight: 600;">*</span> <span class="o" style="font-weight: 600;">((</span><span class="kt" style="color: #458; font-weight: 600;">float</span><span class="o" style="font-weight: 600;">)</span> <span class="n" style="color: #333;">speed</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">SPEED_DIVISOR</span><span class="o" style="font-weight: 600;">),</span> <span class="n" style="color: #333;">dist</span><span class="o" style="font-weight: 600;">);</span></span>
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183
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<pre style="margin: 0;">-<span id="LC183" class="line" lang="java"> <span class="n" style="color: #333;">coordinates</span><span class="o" style="font-weight: 600;">[</span><span class="n" style="color: #333;"><span class="idiff left">v</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="mi" style="color: #099;"><span class="idiff right">0</span></span><span class="o" style="font-weight: 600;">]</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">xDist</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">dist</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">limitedDist</span><span class="o" style="font-weight: 600;">;</span></span>
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184
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<pre style="margin: 0;">-<span id="LC184" class="line" lang="java"> <span class="n" style="color: #333;">coordinates</span><span class="o" style="font-weight: 600;">[</span><span class="n" style="color: #333;"><span class="idiff left">v</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="mi" style="color: #099;"><span class="idiff right">1</span></span><span class="o" style="font-weight: 600;">]</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">yDist</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">dist</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">limitedDist</span><span class="o" style="font-weight: 600;">;</span></span>
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183
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<pre style="margin: 0;">+<span id="LC183" class="line" lang="java"> <span class="n" style="color: #333;">coordinates</span><span class="o" style="font-weight: 600;">[</span><span class="mi" style="color: #099;"><span class="idiff left">0</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="n" style="color: #333;"><span class="idiff right">v</span></span><span class="o" style="font-weight: 600;">]</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">xDist</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">dist</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">limitedDist</span><span class="o" style="font-weight: 600;">;</span></span>
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184
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<pre style="margin: 0;">+<span id="LC184" class="line" lang="java"> <span class="n" style="color: #333;">coordinates</span><span class="o" style="font-weight: 600;">[</span><span class="mi" style="color: #099;"><span class="idiff left">1</span></span><span class="o" style="font-weight: 600;"><span class="idiff">][</span></span><span class="n" style="color: #333;"><span class="idiff right">v</span></span><span class="o" style="font-weight: 600;">]</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">yDist</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">dist</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">limitedDist</span><span class="o" style="font-weight: 600;">;</span></span>
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185
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<pre style="margin: 0;"> <span id="LC185" class="line" lang="java"> <span class="o" style="font-weight: 600;">}</span></span>
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186
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186
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<pre style="margin: 0;"> <span id="LC186" class="line" lang="java"> <span class="o" style="font-weight: 600;">}</span></span>
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187
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<pre style="margin: 0;"> <span id="LC187" class="line" lang="java"> <span class="o" style="font-weight: 600;">}</span></span>
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<pre style="margin: 0;"> <span id="LC1" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;">/*</span></span>
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<pre style="margin: 0;">-<span id="LC2" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;"> * Copyright (C) 201<span class="idiff left right">5</span> Daniel H. Huson</span></span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;"> * Copyright (C) 201<span class="idiff left right">8</span> Daniel H. Huson</span></span>
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;"> *</span></span>
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4
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;"> * (Some files contain contributions from other authors, who are then mentioned separately.)</span></span>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;"> *</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -26,8 +26,11 @@ import java.io.FilenameFilter;</td>
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<pre style="margin: 0;"> <span id="LC26" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;"> * Daniel Huson, 12.2017</span></span>
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<pre style="margin: 0;"> <span id="LC27" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;"> */</span></span>
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<pre style="margin: 0;"> <span id="LC28" class="line" lang="java"><span class="kd" style="font-weight: 600;">public</span> <span class="kd" style="font-weight: 600;">class</span> <span class="nc" style="color: #458; font-weight: 600;">GFF3FileFilter</span> <span class="kd" style="font-weight: 600;">extends</span> <span class="n" style="color: #333;">FileFilterBase</span> <span class="kd" style="font-weight: 600;">implements</span> <span class="n" style="color: #333;">FilenameFilter</span> <span class="o" style="font-weight: 600;">{</span></span>
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<pre style="margin: 0;">-<span id="LC29" class="line" lang="java"> <span class="kd" style="font-weight: 600;">public</span> <span class="nf" style="color: #900; font-weight: 600;">GFF3FileFilter</span><span class="o" style="font-weight: 600;">()</span> <span class="o" style="font-weight: 600;">{</span></span>
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<pre style="margin: 0;">-<span id="LC30" class="line" lang="java"> <span class="k" style="font-weight: 600;">this</span><span class="o" style="font-weight: 600;">(</span><span class="kc" style="font-weight: 600;">true</span><span class="o" style="font-weight: 600;">);</span></span>
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<pre style="margin: 0;">+<span id="LC29" class="line" lang="java"> <span class="kd" style="font-weight: 600;">private</span> <span class="kt" style="color: #458; font-weight: 600;">boolean</span> <span class="n" style="color: #333;">lookInside</span> <span class="o" style="font-weight: 600;">=</span> <span class="kc" style="font-weight: 600;">true</span><span class="o" style="font-weight: 600;">;</span></span>
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<pre style="margin: 0;">+<span id="LC30" class="line" lang="java"></span>
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<pre style="margin: 0;">+<span id="LC31" class="line" lang="java"> <span class="kd" style="font-weight: 600;">public</span> <span class="nf" style="color: #900; font-weight: 600;">GFF3FileFilter</span><span class="o" style="font-weight: 600;">(</span><span class="kt" style="color: #458; font-weight: 600;">boolean</span> <span class="n" style="color: #333;">allowGZip</span><span class="o" style="font-weight: 600;">,</span> <span class="kt" style="color: #458; font-weight: 600;">boolean</span> <span class="n" style="color: #333;">lookInside</span><span class="o" style="font-weight: 600;">,</span> <span class="n" style="color: #333;">String</span><span class="o" style="font-weight: 600;">...</span> <span class="n" style="color: #333;">additionalSuffixes</span><span class="o" style="font-weight: 600;">)</span> <span class="o" style="font-weight: 600;">{</span></span>
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<pre style="margin: 0;">+<span id="LC32" class="line" lang="java"> <span class="k" style="font-weight: 600;">this</span><span class="o" style="font-weight: 600;">(</span><span class="n" style="color: #333;">allowGZip</span><span class="o" style="font-weight: 600;">,</span> <span class="n" style="color: #333;">additionalSuffixes</span><span class="o" style="font-weight: 600;">);</span></span>
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<pre style="margin: 0;">+<span id="LC33" class="line" lang="java"> <span class="k" style="font-weight: 600;">this</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">lookInside</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">lookInside</span><span class="o" style="font-weight: 600;">;</span></span>
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<pre style="margin: 0;"> <span id="LC34" class="line" lang="java"> <span class="o" style="font-weight: 600;">}</span></span>
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<pre style="margin: 0;"> <span id="LC35" class="line" lang="java"></span>
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<pre style="margin: 0;"> <span id="LC36" class="line" lang="java"> <span class="kd" style="font-weight: 600;">public</span> <span class="nf" style="color: #900; font-weight: 600;">GFF3FileFilter</span><span class="o" style="font-weight: 600;">(</span><span class="n" style="color: #333;">String</span><span class="o" style="font-weight: 600;">...</span> <span class="n" style="color: #333;">additionalSuffixes</span><span class="o" style="font-weight: 600;">)</span> <span class="o" style="font-weight: 600;">{</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -46,8 +49,11 @@ public class GFF3FileFilter extends FileFilterBase implements FilenameFilter {</td>
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<pre style="margin: 0;"> <span id="LC49" class="line" lang="java"> <span class="kd" style="font-weight: 600;">public</span> <span class="kt" style="color: #458; font-weight: 600;">boolean</span> <span class="nf" style="color: #900; font-weight: 600;">accept</span><span class="o" style="font-weight: 600;">(</span><span class="n" style="color: #333;">String</span> <span class="n" style="color: #333;">fileName</span><span class="o" style="font-weight: 600;">)</span> <span class="o" style="font-weight: 600;">{</span></span>
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<pre style="margin: 0;"> <span id="LC50" class="line" lang="java"> <span class="kt" style="color: #458; font-weight: 600;">boolean</span> <span class="n" style="color: #333;">suffixOk</span> <span class="o" style="font-weight: 600;">=</span> <span class="kd" style="font-weight: 600;">super</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">accept</span><span class="o" style="font-weight: 600;">(</span><span class="n" style="color: #333;">Basic</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">getFileNameWithoutZipOrGZipSuffix</span><span class="o" style="font-weight: 600;">(</span><span class="n" style="color: #333;">fileName</span><span class="o" style="font-weight: 600;">));</span></span>
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<pre style="margin: 0;"> <span id="LC51" class="line" lang="java"> <span class="k" style="font-weight: 600;">if</span> <span class="o" style="font-weight: 600;">(</span><span class="n" style="color: #333;">suffixOk</span><span class="o" style="font-weight: 600;">)</span> <span class="o" style="font-weight: 600;">{</span> <span class="c1" style="color: #998; font-style: italic;">// look inside the file</span></span>
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<pre style="margin: 0;">-<span id="LC49" class="line" lang="java"> <span class="kd" style="font-weight: 600;">final</span> <span class="n" style="color: #333;">String</span><span class="o" style="font-weight: 600;">[]</span> <span class="n" style="color: #333;">lines</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">Basic</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">getFirstLinesFromFile</span><span class="o" style="font-weight: 600;">(</span><span class="k" style="font-weight: 600;">new</span> <span class="n" style="color: #333;">File</span><span class="o" style="font-weight: 600;">(</span><span class="n" style="color: #333;">fileName</span><span class="o" style="font-weight: 600;">),</span> <span class="mi" style="color: #099;">1</span><span class="o" style="font-weight: 600;">);</span></span>
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<pre style="margin: 0;">-<span id="LC50" class="line" lang="java"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">lines</span> <span class="o" style="font-weight: 600;">!=</span> <span class="kc" style="font-weight: 600;">null</span> <span class="o" style="font-weight: 600;">&&</span> <span class="n" style="color: #333;">lines</span><span class="o" style="font-weight: 600;">[</span><span class="mi" style="color: #099;">0</span><span class="o" style="font-weight: 600;">]</span> <span class="o" style="font-weight: 600;">!=</span> <span class="kc" style="font-weight: 600;">null</span> <span class="o" style="font-weight: 600;">&&</span> <span class="n" style="color: #333;">lines</span><span class="o" style="font-weight: 600;">[</span><span class="mi" style="color: #099;">0</span><span class="o" style="font-weight: 600;">].</span><span class="na" style="color: teal;">startsWith</span><span class="o" style="font-weight: 600;">(</span><span class="s" style="color: #d14;">"##gff-version 3"</span><span class="o" style="font-weight: 600;">);</span></span>
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<pre style="margin: 0;">+<span id="LC52" class="line" lang="java"> <span class="k" style="font-weight: 600;">if</span> <span class="o" style="font-weight: 600;">(</span><span class="n" style="color: #333;">lookInside</span><span class="o" style="font-weight: 600;">)</span> <span class="o" style="font-weight: 600;">{</span></span>
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<pre style="margin: 0;">+<span id="LC53" class="line" lang="java"> <span class="kd" style="font-weight: 600;">final</span> <span class="n" style="color: #333;">String</span><span class="o" style="font-weight: 600;">[]</span> <span class="n" style="color: #333;">lines</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">Basic</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">getFirstLinesFromFile</span><span class="o" style="font-weight: 600;">(</span><span class="k" style="font-weight: 600;">new</span> <span class="n" style="color: #333;">File</span><span class="o" style="font-weight: 600;">(</span><span class="n" style="color: #333;">fileName</span><span class="o" style="font-weight: 600;">),</span> <span class="mi" style="color: #099;">1</span><span class="o" style="font-weight: 600;">);</span></span>
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54
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<pre style="margin: 0;">+<span id="LC54" class="line" lang="java"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">lines</span> <span class="o" style="font-weight: 600;">!=</span> <span class="kc" style="font-weight: 600;">null</span> <span class="o" style="font-weight: 600;">&&</span> <span class="n" style="color: #333;">lines</span><span class="o" style="font-weight: 600;">[</span><span class="mi" style="color: #099;">0</span><span class="o" style="font-weight: 600;">]</span> <span class="o" style="font-weight: 600;">!=</span> <span class="kc" style="font-weight: 600;">null</span> <span class="o" style="font-weight: 600;">&&</span> <span class="n" style="color: #333;">lines</span><span class="o" style="font-weight: 600;">[</span><span class="mi" style="color: #099;">0</span><span class="o" style="font-weight: 600;">].</span><span class="na" style="color: teal;">startsWith</span><span class="o" style="font-weight: 600;">(</span><span class="s" style="color: #d14;">"##gff-version 3"</span><span class="o" style="font-weight: 600;">);</span></span>
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55
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<pre style="margin: 0;">+<span id="LC55" class="line" lang="java"> <span class="o" style="font-weight: 600;">}</span> <span class="k" style="font-weight: 600;">else</span></span>
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<pre style="margin: 0;">+<span id="LC56" class="line" lang="java"> <span class="k" style="font-weight: 600;">return</span> <span class="kc" style="font-weight: 600;">true</span><span class="o" style="font-weight: 600;">;</span></span>
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<pre style="margin: 0;"> <span id="LC57" class="line" lang="java"> <span class="o" style="font-weight: 600;">}</span> <span class="k" style="font-weight: 600;">else</span></span>
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58
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<pre style="margin: 0;"> <span id="LC58" class="line" lang="java"> <span class="k" style="font-weight: 600;">return</span> <span class="kc" style="font-weight: 600;">false</span><span class="o" style="font-weight: 600;">;</span></span>
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59
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<pre style="margin: 0;"> <span id="LC59" class="line" lang="java"> <span class="o" style="font-weight: 600;">}</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="56" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -56,6 +62,14 @@ public class GFF3FileFilter extends FileFilterBase implements FilenameFilter {</td>
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62
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<pre style="margin: 0;"> <span id="LC62" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;"> * @return description of file matching the filter</span></span>
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63
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<pre style="margin: 0;"> <span id="LC63" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;"> */</span></span>
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64
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<pre style="margin: 0;"> <span id="LC64" class="line" lang="java"> <span class="kd" style="font-weight: 600;">public</span> <span class="n" style="color: #333;">String</span> <span class="nf" style="color: #900; font-weight: 600;">getBriefDescription</span><span class="o" style="font-weight: 600;">()</span> <span class="o" style="font-weight: 600;">{</span></span>
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<pre style="margin: 0;">-<span id="LC59" class="line" lang="java"> <span class="k" style="font-weight: 600;">return</span> <span class="s" style="color: #d14;">"GFF Files"</span><span class="o" style="font-weight: 600;">;</span></span>
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<pre style="margin: 0;">+<span id="LC65" class="line" lang="java"> <span class="k" style="font-weight: 600;">return</span> <span class="s" style="color: #d14;">"GFF3 Files"</span><span class="o" style="font-weight: 600;">;</span></span>
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<pre style="margin: 0;">+<span id="LC66" class="line" lang="java"> <span class="o" style="font-weight: 600;">}</span></span>
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<pre style="margin: 0;">+<span id="LC67" class="line" lang="java"></span>
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<pre style="margin: 0;">+<span id="LC68" class="line" lang="java"> <span class="kd" style="font-weight: 600;">public</span> <span class="kt" style="color: #458; font-weight: 600;">boolean</span> <span class="nf" style="color: #900; font-weight: 600;">isLookInside</span><span class="o" style="font-weight: 600;">()</span> <span class="o" style="font-weight: 600;">{</span></span>
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<pre style="margin: 0;">+<span id="LC69" class="line" lang="java"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">lookInside</span><span class="o" style="font-weight: 600;">;</span></span>
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<pre style="margin: 0;">+<span id="LC70" class="line" lang="java"> <span class="o" style="font-weight: 600;">}</span></span>
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<pre style="margin: 0;">+<span id="LC71" class="line" lang="java"></span>
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<pre style="margin: 0;">+<span id="LC72" class="line" lang="java"> <span class="kd" style="font-weight: 600;">public</span> <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="nf" style="color: #900; font-weight: 600;">setLookInside</span><span class="o" style="font-weight: 600;">(</span><span class="kt" style="color: #458; font-weight: 600;">boolean</span> <span class="n" style="color: #333;">lookInside</span><span class="o" style="font-weight: 600;">)</span> <span class="o" style="font-weight: 600;">{</span></span>
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<pre style="margin: 0;">+<span id="LC73" class="line" lang="java"> <span class="k" style="font-weight: 600;">this</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">lookInside</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">lookInside</span><span class="o" style="font-weight: 600;">;</span></span>
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<pre style="margin: 0;"> <span id="LC74" class="line" lang="java"> <span class="o" style="font-weight: 600;">}</span></span>
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<pre style="margin: 0;"> <span id="LC75" class="line" lang="java"><span class="o" style="font-weight: 600;">}</span></span></pre>
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<a href="https://salsa.debian.org/med-team/libjloda-java/commit/62d90dfc8165655c0fcd7d6996c36d9328a634a4#ee94000e3275c3e020773f20f7e3f64fa660343e"><strong>src/jloda/util/Pair.java</strong></a>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -20,6 +20,7 @@</td>
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<pre style="margin: 0;"> <span id="LC20" class="line" lang="java"><span class="kn" style="font-weight: 600;">package</span> <span class="n" style="color: #333;">jloda</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">util</span><span class="o" style="font-weight: 600;">;</span></span>
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<pre style="margin: 0;"> <span id="LC21" class="line" lang="java"></span>
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<pre style="margin: 0;"> <span id="LC22" class="line" lang="java"><span class="kn" style="font-weight: 600;">import</span> <span class="nn" style="color: #555;">java.util.Comparator</span><span class="o" style="font-weight: 600;">;</span></span>
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<pre style="margin: 0;">+<span id="LC23" class="line" lang="java"><span class="kn" style="font-weight: 600;">import</span> <span class="nn" style="color: #555;">java.util.Iterator</span><span class="o" style="font-weight: 600;">;</span></span>
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<pre style="margin: 0;"> <span id="LC24" class="line" lang="java"></span>
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<pre style="margin: 0;"> <span id="LC25" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;">/**</span></span>
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<pre style="margin: 0;"> <span id="LC26" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;"> * a generic pair of objects</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -196,4 +197,72 @@ public class Pair<S, T> implements Comparable<Pair<S, T>>, Comparator<Pair<S, T></td>
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<pre style="margin: 0;"> <span id="LC197" class="line" lang="java"> <span class="kd" style="font-weight: 600;">public</span> <span class="kt" style="color: #458; font-weight: 600;">boolean</span> <span class="nf" style="color: #900; font-weight: 600;">contains</span><span class="o" style="font-weight: 600;">(</span><span class="n" style="color: #333;">Object</span> <span class="n" style="color: #333;">x</span><span class="o" style="font-weight: 600;">)</span> <span class="o" style="font-weight: 600;">{</span></span>
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<pre style="margin: 0;"> <span id="LC198" class="line" lang="java"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">x</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">equals</span><span class="o" style="font-weight: 600;">(</span><span class="n" style="color: #333;">first</span><span class="o" style="font-weight: 600;">)</span> <span class="o" style="font-weight: 600;">||</span> <span class="n" style="color: #333;">x</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">equals</span><span class="o" style="font-weight: 600;">(</span><span class="n" style="color: #333;">second</span><span class="o" style="font-weight: 600;">);</span></span>
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<pre style="margin: 0;"> <span id="LC199" class="line" lang="java"> <span class="o" style="font-weight: 600;">}</span></span>
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<pre style="margin: 0;">+<span id="LC200" class="line" lang="java"></span>
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<pre style="margin: 0;">+<span id="LC201" class="line" lang="java"> <span class="cm" style="color: #998; font-style: italic;">/**</span></span>
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<pre style="margin: 0;">+<span id="LC202" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;"> * iterable over first elements</span></span>
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<pre style="margin: 0;">+<span id="LC203" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;"> *</span></span>
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<pre style="margin: 0;">+<span id="LC204" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;"> * @param src</span></span>
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<pre style="margin: 0;">+<span id="LC205" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;"> * @param <P></span></span>
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<pre style="margin: 0;">+<span id="LC206" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;"> * @param <Q></span></span>
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207
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<pre style="margin: 0;">+<span id="LC207" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;"> * @return iterable over all first elements</span></span>
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208
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<pre style="margin: 0;">+<span id="LC208" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;"> */</span></span>
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209
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<pre style="margin: 0;">+<span id="LC209" class="line" lang="java"> <span class="kd" style="font-weight: 600;">public</span> <span class="kd" style="font-weight: 600;">static</span> <span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">P</span><span class="o" style="font-weight: 600;">,</span> <span class="n" style="color: #333;">Q</span><span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">Iterable</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">P</span><span class="o" style="font-weight: 600;">></span> <span class="nf" style="color: #900; font-weight: 600;">firstValues</span><span class="o" style="font-weight: 600;">(</span><span class="kd" style="font-weight: 600;">final</span> <span class="n" style="color: #333;">Iterable</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">Pair</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">P</span><span class="o" style="font-weight: 600;">,</span> <span class="n" style="color: #333;">Q</span><span class="o" style="font-weight: 600;">>></span> <span class="n" style="color: #333;">src</span><span class="o" style="font-weight: 600;">)</span> <span class="o" style="font-weight: 600;">{</span></span>
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210
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<pre style="margin: 0;">+<span id="LC210" class="line" lang="java"> <span class="k" style="font-weight: 600;">return</span> <span class="k" style="font-weight: 600;">new</span> <span class="n" style="color: #333;">Iterable</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">P</span><span class="o" style="font-weight: 600;">>()</span> <span class="o" style="font-weight: 600;">{</span></span>
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211
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<pre style="margin: 0;">+<span id="LC211" class="line" lang="java"> <span class="nd">@Override</span></span>
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212
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<pre style="margin: 0;">+<span id="LC212" class="line" lang="java"> <span class="kd" style="font-weight: 600;">public</span> <span class="n" style="color: #333;">Iterator</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">P</span><span class="o" style="font-weight: 600;">></span> <span class="nf" style="color: #900; font-weight: 600;">iterator</span><span class="o" style="font-weight: 600;">()</span> <span class="o" style="font-weight: 600;">{</span></span>
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213
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<pre style="margin: 0;">+<span id="LC213" class="line" lang="java"> <span class="k" style="font-weight: 600;">return</span> <span class="k" style="font-weight: 600;">new</span> <span class="n" style="color: #333;">Iterator</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">P</span><span class="o" style="font-weight: 600;">>()</span> <span class="o" style="font-weight: 600;">{</span></span>
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214
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<pre style="margin: 0;">+<span id="LC214" class="line" lang="java"> <span class="kd" style="font-weight: 600;">private</span> <span class="kd" style="font-weight: 600;">final</span> <span class="n" style="color: #333;">Iterator</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">Pair</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">P</span><span class="o" style="font-weight: 600;">,</span> <span class="n" style="color: #333;">Q</span><span class="o" style="font-weight: 600;">>></span> <span class="n" style="color: #333;">it</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">src</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">iterator</span><span class="o" style="font-weight: 600;">();</span></span>
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215
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<pre style="margin: 0;">+<span id="LC215" class="line" lang="java"></span>
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216
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<pre style="margin: 0;">+<span id="LC216" class="line" lang="java"> <span class="nd">@Override</span></span>
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217
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<pre style="margin: 0;">+<span id="LC217" class="line" lang="java"> <span class="kd" style="font-weight: 600;">public</span> <span class="kt" style="color: #458; font-weight: 600;">boolean</span> <span class="nf" style="color: #900; font-weight: 600;">hasNext</span><span class="o" style="font-weight: 600;">()</span> <span class="o" style="font-weight: 600;">{</span></span>
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218
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<pre style="margin: 0;">+<span id="LC218" class="line" lang="java"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">it</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">hasNext</span><span class="o" style="font-weight: 600;">();</span></span>
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219
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<pre style="margin: 0;">+<span id="LC219" class="line" lang="java"> <span class="o" style="font-weight: 600;">}</span></span>
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220
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<pre style="margin: 0;">+<span id="LC220" class="line" lang="java"></span>
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221
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<pre style="margin: 0;">+<span id="LC221" class="line" lang="java"> <span class="nd">@Override</span></span>
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222
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<pre style="margin: 0;">+<span id="LC222" class="line" lang="java"> <span class="kd" style="font-weight: 600;">public</span> <span class="n" style="color: #333;">P</span> <span class="nf" style="color: #900; font-weight: 600;">next</span><span class="o" style="font-weight: 600;">()</span> <span class="o" style="font-weight: 600;">{</span></span>
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223
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<pre style="margin: 0;">+<span id="LC223" class="line" lang="java"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">it</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">next</span><span class="o" style="font-weight: 600;">().</span><span class="na" style="color: teal;">getFirst</span><span class="o" style="font-weight: 600;">();</span></span>
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224
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<pre style="margin: 0;">+<span id="LC224" class="line" lang="java"> <span class="o" style="font-weight: 600;">}</span></span>
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225
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<pre style="margin: 0;">+<span id="LC225" class="line" lang="java"></span>
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226
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<pre style="margin: 0;">+<span id="LC226" class="line" lang="java"> <span class="nd">@Override</span></span>
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227
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<pre style="margin: 0;">+<span id="LC227" class="line" lang="java"> <span class="kd" style="font-weight: 600;">public</span> <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="nf" style="color: #900; font-weight: 600;">remove</span><span class="o" style="font-weight: 600;">()</span> <span class="o" style="font-weight: 600;">{</span></span>
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<pre style="margin: 0;">+<span id="LC228" class="line" lang="java"> <span class="n" style="color: #333;">it</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">remove</span><span class="o" style="font-weight: 600;">();</span></span>
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<pre style="margin: 0;">+<span id="LC229" class="line" lang="java"> <span class="o" style="font-weight: 600;">}</span></span>
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<pre style="margin: 0;">+<span id="LC230" class="line" lang="java"> <span class="o" style="font-weight: 600;">};</span></span>
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<pre style="margin: 0;">+<span id="LC231" class="line" lang="java"> <span class="o" style="font-weight: 600;">}</span></span>
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<pre style="margin: 0;">+<span id="LC232" class="line" lang="java"> <span class="o" style="font-weight: 600;">};</span></span>
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<pre style="margin: 0;">+<span id="LC233" class="line" lang="java"> <span class="o" style="font-weight: 600;">}</span></span>
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<pre style="margin: 0;">+<span id="LC234" class="line" lang="java"></span>
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<pre style="margin: 0;">+<span id="LC235" class="line" lang="java"> <span class="cm" style="color: #998; font-style: italic;">/**</span></span>
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<pre style="margin: 0;">+<span id="LC236" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;"> * iterable over second elements</span></span>
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<pre style="margin: 0;">+<span id="LC237" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;"> *</span></span>
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<pre style="margin: 0;">+<span id="LC238" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;"> * @param src</span></span>
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<pre style="margin: 0;">+<span id="LC239" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;"> * @param <P></span></span>
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<pre style="margin: 0;">+<span id="LC240" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;"> * @param <Q></span></span>
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<pre style="margin: 0;">+<span id="LC241" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;"> * @return iterable over all second elements</span></span>
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<pre style="margin: 0;">+<span id="LC242" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;"> */</span></span>
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<pre style="margin: 0;">+<span id="LC243" class="line" lang="java"> <span class="kd" style="font-weight: 600;">public</span> <span class="kd" style="font-weight: 600;">static</span> <span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">P</span><span class="o" style="font-weight: 600;">,</span> <span class="n" style="color: #333;">Q</span><span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">Iterable</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">Q</span><span class="o" style="font-weight: 600;">></span> <span class="nf" style="color: #900; font-weight: 600;">secondValues</span><span class="o" style="font-weight: 600;">(</span><span class="kd" style="font-weight: 600;">final</span> <span class="n" style="color: #333;">Iterable</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">Pair</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">P</span><span class="o" style="font-weight: 600;">,</span> <span class="n" style="color: #333;">Q</span><span class="o" style="font-weight: 600;">>></span> <span class="n" style="color: #333;">src</span><span class="o" style="font-weight: 600;">)</span> <span class="o" style="font-weight: 600;">{</span></span>
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<pre style="margin: 0;">+<span id="LC244" class="line" lang="java"> <span class="k" style="font-weight: 600;">return</span> <span class="k" style="font-weight: 600;">new</span> <span class="n" style="color: #333;">Iterable</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">Q</span><span class="o" style="font-weight: 600;">>()</span> <span class="o" style="font-weight: 600;">{</span></span>
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<pre style="margin: 0;">+<span id="LC245" class="line" lang="java"> <span class="nd">@Override</span></span>
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<pre style="margin: 0;">+<span id="LC246" class="line" lang="java"> <span class="kd" style="font-weight: 600;">public</span> <span class="n" style="color: #333;">Iterator</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">Q</span><span class="o" style="font-weight: 600;">></span> <span class="nf" style="color: #900; font-weight: 600;">iterator</span><span class="o" style="font-weight: 600;">()</span> <span class="o" style="font-weight: 600;">{</span></span>
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247
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<pre style="margin: 0;">+<span id="LC247" class="line" lang="java"> <span class="k" style="font-weight: 600;">return</span> <span class="k" style="font-weight: 600;">new</span> <span class="n" style="color: #333;">Iterator</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">Q</span><span class="o" style="font-weight: 600;">>()</span> <span class="o" style="font-weight: 600;">{</span></span>
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248
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<pre style="margin: 0;">+<span id="LC248" class="line" lang="java"> <span class="kd" style="font-weight: 600;">private</span> <span class="kd" style="font-weight: 600;">final</span> <span class="n" style="color: #333;">Iterator</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">Pair</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">P</span><span class="o" style="font-weight: 600;">,</span> <span class="n" style="color: #333;">Q</span><span class="o" style="font-weight: 600;">>></span> <span class="n" style="color: #333;">it</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">src</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">iterator</span><span class="o" style="font-weight: 600;">();</span></span>
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<pre style="margin: 0;">+<span id="LC249" class="line" lang="java"></span>
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250
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<pre style="margin: 0;">+<span id="LC250" class="line" lang="java"> <span class="nd">@Override</span></span>
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251
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<pre style="margin: 0;">+<span id="LC251" class="line" lang="java"> <span class="kd" style="font-weight: 600;">public</span> <span class="kt" style="color: #458; font-weight: 600;">boolean</span> <span class="nf" style="color: #900; font-weight: 600;">hasNext</span><span class="o" style="font-weight: 600;">()</span> <span class="o" style="font-weight: 600;">{</span></span>
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252
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<pre style="margin: 0;">+<span id="LC252" class="line" lang="java"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">it</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">hasNext</span><span class="o" style="font-weight: 600;">();</span></span>
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253
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<pre style="margin: 0;">+<span id="LC253" class="line" lang="java"> <span class="o" style="font-weight: 600;">}</span></span>
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254
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<pre style="margin: 0;">+<span id="LC254" class="line" lang="java"></span>
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255
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<pre style="margin: 0;">+<span id="LC255" class="line" lang="java"> <span class="nd">@Override</span></span>
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256
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<pre style="margin: 0;">+<span id="LC256" class="line" lang="java"> <span class="kd" style="font-weight: 600;">public</span> <span class="n" style="color: #333;">Q</span> <span class="nf" style="color: #900; font-weight: 600;">next</span><span class="o" style="font-weight: 600;">()</span> <span class="o" style="font-weight: 600;">{</span></span>
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257
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<pre style="margin: 0;">+<span id="LC257" class="line" lang="java"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">it</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">next</span><span class="o" style="font-weight: 600;">().</span><span class="na" style="color: teal;">getSecond</span><span class="o" style="font-weight: 600;">();</span></span>
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258
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<pre style="margin: 0;">+<span id="LC258" class="line" lang="java"> <span class="o" style="font-weight: 600;">}</span></span>
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259
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<pre style="margin: 0;">+<span id="LC259" class="line" lang="java"></span>
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260
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<pre style="margin: 0;">+<span id="LC260" class="line" lang="java"> <span class="nd">@Override</span></span>
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261
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<pre style="margin: 0;">+<span id="LC261" class="line" lang="java"> <span class="kd" style="font-weight: 600;">public</span> <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="nf" style="color: #900; font-weight: 600;">remove</span><span class="o" style="font-weight: 600;">()</span> <span class="o" style="font-weight: 600;">{</span></span>
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262
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<pre style="margin: 0;">+<span id="LC262" class="line" lang="java"> <span class="n" style="color: #333;">it</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">remove</span><span class="o" style="font-weight: 600;">();</span></span>
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263
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<pre style="margin: 0;">+<span id="LC263" class="line" lang="java"> <span class="o" style="font-weight: 600;">}</span></span>
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264
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<pre style="margin: 0;">+<span id="LC264" class="line" lang="java"> <span class="o" style="font-weight: 600;">};</span></span>
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265
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<pre style="margin: 0;">+<span id="LC265" class="line" lang="java"> <span class="o" style="font-weight: 600;">}</span></span>
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266
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<pre style="margin: 0;">+<span id="LC266" class="line" lang="java"> <span class="o" style="font-weight: 600;">};</span></span>
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267
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<pre style="margin: 0;">+<span id="LC267" class="line" lang="java"> <span class="o" style="font-weight: 600;">}</span></span>
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199
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268
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<pre style="margin: 0;"> <span id="LC268" class="line" lang="java"><span class="o" style="font-weight: 600;">}</span></span></pre>
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<a href="https://salsa.debian.org/med-team/libjloda-java/commit/62d90dfc8165655c0fcd7d6996c36d9328a634a4#3c5aebc1786ea94531774a604a191a67f70d7750"><strong>src/jloda/util/RecursiveFileLister.java</strong></a>
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1
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<pre style="margin: 0;"> <span id="LC1" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;">/*</span></span>
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2
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<pre style="margin: 0;">-<span id="LC2" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;"> * Copyright (C) 201<span class="idiff left right">5</span> Daniel H. Huson</span></span>
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2
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;"> * Copyright (C) 201<span class="idiff left right">8</span> Daniel H. Huson</span></span>
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3
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3
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;"> *</span></span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;"> * (Some files contain contributions from other authors, who are then mentioned separately.)</span></span>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;"> *</span></span>
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<a href="https://salsa.debian.org/med-team/libjloda-java/commit/62d90dfc8165655c0fcd7d6996c36d9328a634a4#d219f53910470939c66721bb67430e1c87084fb2"><strong>src/jloda/util/Statistics.java</strong></a>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -19,8 +19,6 @@</td>
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<pre style="margin: 0;"> <span id="LC19" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;"> */</span></span>
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<pre style="margin: 0;"> <span id="LC20" class="line" lang="java"><span class="kn" style="font-weight: 600;">package</span> <span class="n" style="color: #333;">jloda</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">util</span><span class="o" style="font-weight: 600;">;</span></span>
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<pre style="margin: 0;"> <span id="LC21" class="line" lang="java"></span>
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<pre style="margin: 0;">-<span id="LC22" class="line" lang="java"><span class="kn" style="font-weight: 600;">import</span> <span class="nn" style="color: #555;">java.util.Collection</span><span class="o" style="font-weight: 600;">;</span></span>
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<pre style="margin: 0;">-<span id="LC23" class="line" lang="java"></span>
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<pre style="margin: 0;"> <span id="LC22" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;">/**</span></span>
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<pre style="margin: 0;"> <span id="LC23" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;"> * calculates basic statistics</span></span>
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<pre style="margin: 0;"> <span id="LC24" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;"> * Daniel Huson, 5.2006</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -38,17 +36,19 @@ public class Statistics {</td>
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<pre style="margin: 0;"> <span id="LC36" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;"> *</span></span>
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<pre style="margin: 0;"> <span id="LC37" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;"> * @param data</span></span>
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<pre style="margin: 0;"> <span id="LC38" class="line" lang="java"><span class="cm" style="color: #998; font-style: italic;"> */</span></span>
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<pre style="margin: 0;">-<span id="LC41" class="line" lang="java"> <span class="kd" style="font-weight: 600;">public</span> <span class="nf" style="color: #900; font-weight: 600;">Statistics</span><span class="o" style="font-weight: 600;">(</span><span class="n" style="color: #333;">Collection</span><span class="o" style="font-weight: 600;"><?</span> <span class="kd" style="font-weight: 600;">extends</span> <span class="n" style="color: #333;">Number</span><span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">data</span><span class="o" style="font-weight: 600;">)</span> <span class="o" style="font-weight: 600;">{</span></span>
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<pre style="margin: 0;">-<span id="LC42" class="line" lang="java"> <span class="n" style="color: #333;">count</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">data</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">size</span><span class="o" style="font-weight: 600;">();</span></span>
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<pre style="margin: 0;">+<span id="LC39" class="line" lang="java"> <span class="kd" style="font-weight: 600;">public</span> <span class="nf" style="color: #900; font-weight: 600;">Statistics</span><span class="o" style="font-weight: 600;">(</span><span class="n" style="color: #333;">Iterable</span><span class="o" style="font-weight: 600;"><?</span> <span class="kd" style="font-weight: 600;">extends</span> <span class="n" style="color: #333;">Number</span><span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">data</span><span class="o" style="font-weight: 600;">)</span> <span class="o" style="font-weight: 600;">{</span></span>
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<pre style="margin: 0;">+<span id="LC40" class="line" lang="java"> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">count</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="o" style="font-weight: 600;">;</span></span>
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<pre style="margin: 0;">+<span id="LC41" class="line" lang="java"> <span class="k" style="font-weight: 600;">for</span> <span class="o" style="font-weight: 600;">(</span><span class="n" style="color: #333;">Number</span> <span class="n" style="color: #333;">number</span> <span class="o" style="font-weight: 600;">:</span> <span class="n" style="color: #333;">data</span><span class="o" style="font-weight: 600;">)</span> <span class="o" style="font-weight: 600;">{</span></span>
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<pre style="margin: 0;">+<span id="LC42" class="line" lang="java"> <span class="kt" style="color: #458; font-weight: 600;">double</span> <span class="n" style="color: #333;">value</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">number</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">doubleValue</span><span class="o" style="font-weight: 600;">();</span></span>
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<pre style="margin: 0;">+<span id="LC43" class="line" lang="java"> <span class="n" style="color: #333;">sum</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">value</span><span class="o" style="font-weight: 600;">;</span></span>
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<pre style="margin: 0;">+<span id="LC44" class="line" lang="java"> <span class="k" style="font-weight: 600;">if</span> <span class="o" style="font-weight: 600;">(</span><span class="n" style="color: #333;">value</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">min</span><span class="o" style="font-weight: 600;">)</span></span>
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<pre style="margin: 0;">+<span id="LC45" class="line" lang="java"> <span class="n" style="color: #333;">min</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">value</span><span class="o" style="font-weight: 600;">;</span></span>
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<pre style="margin: 0;">+<span id="LC46" class="line" lang="java"> <span class="k" style="font-weight: 600;">if</span> <span class="o" style="font-weight: 600;">(</span><span class="n" style="color: #333;">value</span> <span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">max</span><span class="o" style="font-weight: 600;">)</span></span>
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<pre style="margin: 0;">+<span id="LC47" class="line" lang="java"> <span class="n" style="color: #333;">max</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">value</span><span class="o" style="font-weight: 600;">;</span></span>
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<pre style="margin: 0;">+<span id="LC48" class="line" lang="java"> <span class="n" style="color: #333;">count</span><span class="o" style="font-weight: 600;">++;</span></span>
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<pre style="margin: 0;">+<span id="LC49" class="line" lang="java"> <span class="o" style="font-weight: 600;">}</span></span>
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<pre style="margin: 0;">+<span id="LC50" class="line" lang="java"> <span class="k" style="font-weight: 600;">this</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">count</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">count</span><span class="o" style="font-weight: 600;">;</span></span>
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<pre style="margin: 0;"> <span id="LC51" class="line" lang="java"> <span class="k" style="font-weight: 600;">if</span> <span class="o" style="font-weight: 600;">(</span><span class="n" style="color: #333;">count</span> <span class="o" style="font-weight: 600;">></span> <span class="mi" style="color: #099;">0</span><span class="o" style="font-weight: 600;">)</span> <span class="o" style="font-weight: 600;">{</span></span>
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<pre style="margin: 0;">-<span id="LC44" class="line" lang="java"> <span class="k" style="font-weight: 600;">for</span> <span class="o" style="font-weight: 600;">(</span><span class="n" style="color: #333;">Number</span> <span class="n" style="color: #333;">number</span> <span class="o" style="font-weight: 600;">:</span> <span class="n" style="color: #333;">data</span><span class="o" style="font-weight: 600;">)</span> <span class="o" style="font-weight: 600;">{</span></span>
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<pre style="margin: 0;">-<span id="LC45" class="line" lang="java"> <span class="kt" style="color: #458; font-weight: 600;">double</span> <span class="n" style="color: #333;">value</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">number</span><span class="o" style="font-weight: 600;">.</span><span class="na" style="color: teal;">doubleValue</span><span class="o" style="font-weight: 600;">();</span></span>
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<pre style="margin: 0;">-<span id="LC46" class="line" lang="java"> <span class="n" style="color: #333;">sum</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">value</span><span class="o" style="font-weight: 600;">;</span></span>
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<pre style="margin: 0;">-<span id="LC47" class="line" lang="java"> <span class="k" style="font-weight: 600;">if</span> <span class="o" style="font-weight: 600;">(</span><span class="n" style="color: #333;">value</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">min</span><span class="o" style="font-weight: 600;">)</span></span>
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<pre style="margin: 0;">-<span id="LC48" class="line" lang="java"> <span class="n" style="color: #333;">min</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">value</span><span class="o" style="font-weight: 600;">;</span></span>
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<pre style="margin: 0;">-<span id="LC49" class="line" lang="java"> <span class="k" style="font-weight: 600;">if</span> <span class="o" style="font-weight: 600;">(</span><span class="n" style="color: #333;">value</span> <span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">max</span><span class="o" style="font-weight: 600;">)</span></span>
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<pre style="margin: 0;">-<span id="LC50" class="line" lang="java"> <span class="n" style="color: #333;">max</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">value</span><span class="o" style="font-weight: 600;">;</span></span>
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<pre style="margin: 0;">-<span id="LC51" class="line" lang="java"> <span class="o" style="font-weight: 600;">}</span></span>
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<pre style="margin: 0;"> <span id="LC52" class="line" lang="java"> <span class="n" style="color: #333;">mean</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">sum</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">count</span><span class="o" style="font-weight: 600;">;</span></span>
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<pre style="margin: 0;"> <span id="LC53" class="line" lang="java"> <span class="k" style="font-weight: 600;">if</span> <span class="o" style="font-weight: 600;">(</span><span class="n" style="color: #333;">count</span> <span class="o" style="font-weight: 600;">></span> <span class="mi" style="color: #099;">1</span><span class="o" style="font-weight: 600;">)</span> <span class="o" style="font-weight: 600;">{</span></span>
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<pre style="margin: 0;"> <span id="LC54" class="line" lang="java"> <span class="kt" style="color: #458; font-weight: 600;">double</span> <span class="n" style="color: #333;">sum2</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="o" style="font-weight: 600;">;</span></span>
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