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 }