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 */
021
022package org.biojava.bio.program.homologene;
023
024import org.biojava.utils.AbstractChangeable;
025import org.biojava.utils.ChangeVetoException;
026
027public abstract class AbstractOrthologueSet 
028    extends AbstractChangeable
029    implements OrthologueSet
030{
031
032    public OrthologueSet filter(OrthologueFilter filter)
033    {
034        OrthologueSet results = new SimpleOrthologueSet();
035
036        for (Iterator orthoI = iterator();
037               orthoI.hasNext(); )
038        {
039            Orthologue ortho = orthoI.nextOrthologue();
040
041            if (filter.accept(ortho)) {
042                try {
043                    results.addOrthologue(ortho);
044                }
045                catch (ChangeVetoException cve) {
046                    // should be impossible as this group was created by me
047                }
048            }
049        }
050        return results;
051    }
052}
053