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<!DOCTYPE HTML>
<html lang="en">
<head>
<title>Source code</title>
<link rel="stylesheet" type="text/css" href="../../stylesheet.css" title="Style">
</head>
<body>
<main role="main">
<div class="sourceContainer">
<pre><span class="sourceLineNo">001</span><a id="line.1">/*</a>
<span class="sourceLineNo">002</span><a id="line.2"> * BioJava development code</a>
<span class="sourceLineNo">003</span><a id="line.3"> *</a>
<span class="sourceLineNo">004</span><a id="line.4"> * This code may be freely distributed and modified under the</a>
<span class="sourceLineNo">005</span><a id="line.5"> * terms of the GNU Lesser General Public Licence. This should</a>
<span class="sourceLineNo">006</span><a id="line.6"> * be distributed with the code. If you do not have a copy,</a>
<span class="sourceLineNo">007</span><a id="line.7"> * see:</a>
<span class="sourceLineNo">008</span><a id="line.8"> *</a>
<span class="sourceLineNo">009</span><a id="line.9"> * http://www.gnu.org/copyleft/lesser.html</a>
<span class="sourceLineNo">010</span><a id="line.10"> *</a>
<span class="sourceLineNo">011</span><a id="line.11"> * Copyright for this code is held jointly by the individual</a>
<span class="sourceLineNo">012</span><a id="line.12"> * authors. These should be listed in @author doc comments.</a>
<span class="sourceLineNo">013</span><a id="line.13"> *</a>
<span class="sourceLineNo">014</span><a id="line.14"> * For more information on the BioJava project and its aims,</a>
<span class="sourceLineNo">015</span><a id="line.15"> * or to join the biojava-l mailing list, visit the home page</a>
<span class="sourceLineNo">016</span><a id="line.16"> * at:</a>
<span class="sourceLineNo">017</span><a id="line.17"> *</a>
<span class="sourceLineNo">018</span><a id="line.18"> * http://www.biojava.org/</a>
<span class="sourceLineNo">019</span><a id="line.19"> *</a>
<span class="sourceLineNo">020</span><a id="line.20"> */</a>
<span class="sourceLineNo">021</span><a id="line.21">package demo;</a>
<span class="sourceLineNo">022</span><a id="line.22"></a>
<span class="sourceLineNo">023</span><a id="line.23"></a>
<span class="sourceLineNo">024</span><a id="line.24">import org.biojava.nbio.structure.Structure;</a>
<span class="sourceLineNo">025</span><a id="line.25">import org.biojava.nbio.structure.align.util.AtomCache;</a>
<span class="sourceLineNo">026</span><a id="line.26">import org.biojava.nbio.structure.cath.CathDatabase;</a>
<span class="sourceLineNo">027</span><a id="line.27">import org.biojava.nbio.structure.cath.CathDomain;</a>
<span class="sourceLineNo">028</span><a id="line.28">import org.biojava.nbio.structure.cath.CathInstallation;</a>
<span class="sourceLineNo">029</span><a id="line.29"></a>
<span class="sourceLineNo">030</span><a id="line.30">/** An example for how to access CATH data.</a>
<span class="sourceLineNo">031</span><a id="line.31"> *</a>
<span class="sourceLineNo">032</span><a id="line.32"> * run with -Xmx512M</a>
<span class="sourceLineNo">033</span><a id="line.33"> *</a>
<span class="sourceLineNo">034</span><a id="line.34"> * @author Andreas Prlic</a>
<span class="sourceLineNo">035</span><a id="line.35"> *</a>
<span class="sourceLineNo">036</span><a id="line.36"> */</a>
<span class="sourceLineNo">037</span><a id="line.37">public class DemoCATH {</a>
<span class="sourceLineNo">038</span><a id="line.38"> public static void main(String[] args){</a>
<span class="sourceLineNo">039</span><a id="line.39"></a>
<span class="sourceLineNo">040</span><a id="line.40"> AtomCache cache = new AtomCache();</a>
<span class="sourceLineNo">041</span><a id="line.41"></a>
<span class="sourceLineNo">042</span><a id="line.42"> CathDatabase database = new CathInstallation(cache.getPath());</a>
<span class="sourceLineNo">043</span><a id="line.43"></a>
<span class="sourceLineNo">044</span><a id="line.44"> String domainID = "1cdgA01";</a>
<span class="sourceLineNo">045</span><a id="line.45"></a>
<span class="sourceLineNo">046</span><a id="line.46"> CathDomain cathDomain = database.getDescriptionByCathId(domainID);</a>
<span class="sourceLineNo">047</span><a id="line.47"></a>
<span class="sourceLineNo">048</span><a id="line.48"> System.out.println(cathDomain);</a>
<span class="sourceLineNo">049</span><a id="line.49"></a>
<span class="sourceLineNo">050</span><a id="line.50"></a>
<span class="sourceLineNo">051</span><a id="line.51"> Structure cathDomainStructure;</a>
<span class="sourceLineNo">052</span><a id="line.52"> try {</a>
<span class="sourceLineNo">053</span><a id="line.53"> cathDomainStructure = cache.getStructure(domainID);</a>
<span class="sourceLineNo">054</span><a id="line.54"> System.out.println(cathDomainStructure);</a>
<span class="sourceLineNo">055</span><a id="line.55"> } catch (Exception e) {</a>
<span class="sourceLineNo">056</span><a id="line.56"> // TODO Auto-generated catch block</a>
<span class="sourceLineNo">057</span><a id="line.57"> e.printStackTrace();</a>
<span class="sourceLineNo">058</span><a id="line.58"> }</a>
<span class="sourceLineNo">059</span><a id="line.59"></a>
<span class="sourceLineNo">060</span><a id="line.60"></a>
<span class="sourceLineNo">061</span><a id="line.61"></a>
<span class="sourceLineNo">062</span><a id="line.62"></a>
<span class="sourceLineNo">063</span><a id="line.63"> }</a>
<span class="sourceLineNo">064</span><a id="line.64">}</a>
</pre>
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