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 */
021package org.biojavax.bio.phylo.io.nexus;
022
023import org.biojava.bio.seq.io.ParseException;
024
025/**
026 * Builds Nexus distances blocks.
027 * 
028 * @author Richard Holland
029 * @author Tobias Thierer
030 * @author Jim Balhoff
031 * @since 1.6
032 */
033public class DistancesBlockBuilder extends NexusBlockBuilder.Abstract implements
034                DistancesBlockListener {
035
036        private DistancesBlock block;
037
038        protected void addComment(final NexusComment comment) {
039                this.block.addComment(comment);
040        }
041
042        protected NexusBlock startBlockObject() {
043                this.block = new DistancesBlock();
044                this.resetStatus();
045                return this.block;
046        }
047
048        private void resetStatus() {
049                // Nothing to do.
050        }
051
052        public void endBlock() {
053                // Don't care.
054        }
055
056        public void endTokenGroup() {
057                // Nothing to do.
058        }
059
060        public void addMatrixEntry(String taxa) {
061                this.block.addMatrixEntry(taxa);
062        }
063
064        public void addTaxLabel(String taxLabel) throws ParseException {
065                this.block.addTaxLabel(taxLabel);
066        }
067
068        public void appendMatrixData(String taxa, Object data) {
069                this.block.appendMatrixData(taxa, data);
070        }
071
072        public void setDimensionsNChar(int dimensionsNChar) {
073                this.block.setDimensionsNChar(dimensionsNChar);
074        }
075
076        public void setDimensionsNTax(int dimensionsNTax) {
077                this.block.setDimensionsNTax(dimensionsNTax);
078        }
079
080        public void setInterleaved(boolean interleaved) {
081                this.block.setInterleaved(interleaved);
082        }
083
084        public void setLabels(boolean labels) {
085                this.block.setLabels(labels);
086        }
087
088        public void setMissing(String missing) {
089                this.block.setMissing(missing);
090        }
091
092        public void setDiagonal(boolean diagonal) {
093                this.block.setDiagonal(diagonal);
094        }
095
096        public void setTriangle(String triangle) {
097                this.block.setTriangle(triangle);
098        }
099
100}