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‎_config.yml

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# Release settings
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release:
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version: 5.2.0
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version: 5.3.0
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legacy: 1.9.1
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collections:

‎docs/api

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api5.2.0
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api5.3.0

‎docs/api5.3.0/allclasses-frame.html

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‎docs/api5.3.0/demo/AFPFromFasta.html

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<!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.01 Transitional//EN" "http://www.w3.org/TR/html4/loose.dtd">
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<!-- NewPage -->
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<!-- Generated by javadoc (1.8.0_222) on Fri Sep 06 15:20:34 PDT 2019 -->
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<meta http-equiv="Content-Type" content="text/html; charset=UTF-8">
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<title>AFPFromFasta (biojava 5.3.0 API)</title>
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<meta name="date" content="2019-09-06">
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parent.document.title="AFPFromFasta (biojava 5.3.0 API)";
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}
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}
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catch(err) {
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}
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//-->
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var methods = {"i0":9};
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var tabs = {65535:["t0","All Methods"],1:["t1","Static Methods"],8:["t4","Concrete Methods"]};
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<!-- ======== START OF CLASS DATA ======== -->
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<div class="header">
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<div class="subTitle">demo</div>
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<h2 title="Class AFPFromFasta" class="title">Class AFPFromFasta</h2>
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<li><a href="https://docs.oracle.com/javase/8/docs/api/java/lang/Object.html?is-external=true" title="class or interface in java.lang">java.lang.Object</a></li>
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<pre>public class <a href="../src-html/demo/AFPFromFasta.html#line.49">AFPFromFasta</a>
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extends <a href="https://docs.oracle.com/javase/8/docs/api/java/lang/Object.html?is-external=true" title="class or interface in java.lang">Object</a></pre>
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<div class="block">Demo displaying a structural alignment from a FASTA file using <a href="../org/biojava/nbio/structure/io/FastaAFPChainConverter.html" title="class in org.biojava.nbio.structure.io"><code>FastaAFPChainConverter</code></a>.</div>
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<dl>
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<dt><span class="simpleTagLabel">Author:</span></dt>
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<dd>dmyerstu</dd>
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<dt><span class="seeLabel">See Also:</span></dt>
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<dd><code>DemoAlignmentFromFasta} Also demonstrates the display of {@link StructureAlignment StructureAlignments} from FASTA sequences, but does so using the more general
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{@link FastaStructureParser}</code></dd>
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<tr>
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<th class="colOne" scope="col">Constructor and Description</th>
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</tr>
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<td class="colOne"><code><span class="memberNameLink"><a href="../demo/AFPFromFasta.html#AFPFromFasta--">AFPFromFasta</a></span>()</code>&nbsp;</td>
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<caption><span id="t0" class="activeTableTab"><span>All Methods</span><span class="tabEnd">&nbsp;</span></span><span id="t1" class="tableTab"><span><a href="javascript:show(1);">Static Methods</a></span><span class="tabEnd">&nbsp;</span></span><span id="t4" class="tableTab"><span><a href="javascript:show(8);">Concrete Methods</a></span><span class="tabEnd">&nbsp;</span></span></caption>
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<td class="colFirst"><code>static void</code></td>
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<td class="colLast"><code><span class="memberNameLink"><a href="../demo/AFPFromFasta.html#main-java.lang.String:A-">main</a></span>(<a href="https://docs.oracle.com/javase/8/docs/api/java/lang/String.html?is-external=true" title="class or interface in java.lang">String</a>[]&nbsp;args)</code>&nbsp;</td>
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<h3>Methods inherited from class&nbsp;java.lang.<a href="https://docs.oracle.com/javase/8/docs/api/java/lang/Object.html?is-external=true" title="class or interface in java.lang">Object</a></h3>
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<code><a href="https://docs.oracle.com/javase/8/docs/api/java/lang/Object.html?is-external=true#clone--" title="class or interface in java.lang">clone</a>, <a href="https://docs.oracle.com/javase/8/docs/api/java/lang/Object.html?is-external=true#equals-java.lang.Object-" title="class or interface in java.lang">equals</a>, <a href="https://docs.oracle.com/javase/8/docs/api/java/lang/Object.html?is-external=true#finalize--" title="class or interface in java.lang">finalize</a>, <a href="https://docs.oracle.com/javase/8/docs/api/java/lang/Object.html?is-external=true#getClass--" title="class or interface in java.lang">getClass</a>, <a href="https://docs.oracle.com/javase/8/docs/api/java/lang/Object.html?is-external=true#hashCode--" title="class or interface in java.lang">hashCode</a>, <a href="https://docs.oracle.com/javase/8/docs/api/java/lang/Object.html?is-external=true#notify--" title="class or interface in java.lang">notify</a>, <a href="https://docs.oracle.com/javase/8/docs/api/java/lang/Object.html?is-external=true#notifyAll--" title="class or interface in java.lang">notifyAll</a>, <a href="https://docs.oracle.com/javase/8/docs/api/java/lang/Object.html?is-external=true#toString--" title="class or interface in java.lang">toString</a>, <a href="https://docs.oracle.com/javase/8/docs/api/java/lang/Object.html?is-external=true#wait--" title="class or interface in java.lang">wait</a>, <a href="https://docs.oracle.com/javase/8/docs/api/java/lang/Object.html?is-external=true#wait-long-" title="class or interface in java.lang">wait</a>, <a href="https://docs.oracle.com/javase/8/docs/api/java/lang/Object.html?is-external=true#wait-long-int-" title="class or interface in java.lang">wait</a></code></li>
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<h3>Constructor Detail</h3>
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<a name="AFPFromFasta--">
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<h4>AFPFromFasta</h4>
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<pre>public&nbsp;<a href="../src-html/demo/AFPFromFasta.html#line.49">AFPFromFasta</a>()</pre>
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<pre>public static&nbsp;void&nbsp;<a href="../src-html/demo/AFPFromFasta.html#line.51">main</a>(<a href="https://docs.oracle.com/javase/8/docs/api/java/lang/String.html?is-external=true" title="class or interface in java.lang">String</a>[]&nbsp;args)
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throws <a href="https://docs.oracle.com/javase/8/docs/api/java/io/IOException.html?is-external=true" title="class or interface in java.io">IOException</a>,
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<a href="../org/biojava/nbio/structure/StructureException.html" title="class in org.biojava.nbio.structure">StructureException</a>,
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<a href="https://docs.oracle.com/javase/8/docs/api/java/lang/Exception.html?is-external=true" title="class or interface in java.lang">Exception</a></pre>
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