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.util.Comparator; 027 028 029 030 public class CDSComparator implements Comparator<CDSSequence>{ 031 032/** 033 * Used to sort two CDSSequences where Negative Strand makes it tough 034 * @param o1 035 * @param o2 036 * @return val 037 */ 038 @Override 039 public int compare(CDSSequence o1, CDSSequence o2) { 040 if(o1.getStrand() != o2.getStrand()){ 041 return o1.getBioBegin() - o2.getBioBegin(); 042 } 043 if(o1.getStrand() == Strand.NEGATIVE){ 044 return -1 * (o1.getBioBegin() - o2.getBioBegin()); 045 } 046 047 return o1.getBioBegin() - o2.getBioBegin(); 048 } 049 050 }