2 // FORESTER -- software libraries and applications
3 // for evolutionary biology research and applications.
5 // Copyright (C) 2008-2009 Christian M. Zmasek
6 // Copyright (C) 2008-2009 Burnham Institute for Medical Research
9 // This library is free software; you can redistribute it and/or
10 // modify it under the terms of the GNU Lesser General Public
11 // License as published by the Free Software Foundation; either
12 // version 2.1 of the License, or (at your option) any later version.
14 // This library is distributed in the hope that it will be useful,
15 // but WITHOUT ANY WARRANTY; without even the implied warranty of
16 // MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
17 // Lesser General Public License for more details.
19 // You should have received a copy of the GNU Lesser General Public
20 // License along with this library; if not, write to the Free Software
21 // Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA
23 // Contact: phylosoft @ gmail . com
24 // WWW: www.phylosoft.org/
26 package org.forester.io.parsers.phyloxml.data;
28 import org.forester.io.parsers.phyloxml.PhyloXmlMapping;
29 import org.forester.io.parsers.phyloxml.XmlElement;
30 import org.forester.io.parsers.util.PhylogenyParserException;
31 import org.forester.phylogeny.data.Identifier;
32 import org.forester.phylogeny.data.PhylogenyData;
34 public class IdentifierParser implements PhylogenyDataPhyloXmlParser {
36 final private static String TYPE = "type"; //TODO deprecated, remove, to ensure comp. with phyloxml 1.00
37 private static final PhylogenyDataPhyloXmlParser _instance;
40 _instance = new IdentifierParser();
42 catch ( final Throwable e ) {
43 throw new RuntimeException( e.getMessage() );
47 private IdentifierParser() {
51 public PhylogenyData parse( final XmlElement element ) throws PhylogenyParserException {
52 if ( element.isHasAttribute( PhyloXmlMapping.IDENTIFIER_PROVIDER_ATTR ) ) {
53 return new Identifier( element.getValueAsString(), element
54 .getAttribute( PhyloXmlMapping.IDENTIFIER_PROVIDER_ATTR ) );
56 else if ( element.isHasAttribute( TYPE ) ) {
57 return new Identifier( element.getValueAsString(), element.getAttribute( TYPE ) );
60 return new Identifier( element.getValueAsString() );
64 public static PhylogenyDataPhyloXmlParser getInstance() {