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
022
023package org.biojava.bio.dp;
024
025import org.biojava.bio.BioException;
026import org.biojava.bio.seq.db.SequenceDB;
027import org.biojava.bio.symbol.IllegalSymbolException;
028
029/**
030 * @author Matthew Pocock
031 * @author Thomas Down
032 */
033public interface TrainingAlgorithm {
034  DP getDP();
035  double getLastScore();
036  double getCurrentScore();
037  int getCycle();
038
039  /**
040   * Trains the sequences in db untill stopper says to finnish.
041   */
042  void train(SequenceDB db,
043             double nullWeight, StoppingCriteria stopper)
044  throws IllegalSymbolException, BioException;
045}