001/*
002 *                    BioJava development code
003 *
004 * This code may be freely distributed and modified under the
005 * terms of the GNU Lesser General Public Licence.  This should
006 * be distributed with the code.  If you do not have a copy,
007 * see:
008 *
009 *      http://www.gnu.org/copyleft/lesser.html
010 *
011 * Copyright for this code is held jointly by the individual
012 * authors.  These should be listed in @author doc comments.
013 *
014 * For more information on the BioJava project and its aims,
015 * or to join the biojava-l mailing list, visit the home page
016 * at:
017 *
018 *      http://www.biojava.org/
019 *
020 * Created on 3/1/2010
021 * @author Scooter Willis <willishf at gmail dot com>
022 */
023
024package org.biojava.nbio.core.sequence;
025
026import java.io.Serializable;
027import java.util.Comparator;
028
029
030
031        public class CDSComparator implements Comparator<CDSSequence>, Serializable{
032        private static final long serialVersionUID = 1;
033
034/**
035 * Used to sort two CDSSequences where Negative Strand makes it tough
036 * @param o1
037 * @param o2
038 * @return val
039 */
040                @Override
041                public int compare(CDSSequence o1, CDSSequence o2) {
042                        if(o1.getStrand() != o2.getStrand()){
043                                return o1.getBioBegin() - o2.getBioBegin();
044                        }
045                        if(o1.getStrand() == Strand.NEGATIVE){
046                                return -1 * (o1.getBioBegin() - o2.getBioBegin());
047                        }
048
049                        return o1.getBioBegin() - o2.getBioBegin();
050                }
051
052        }