2 // FORESTER -- software libraries and applications
3 // for evolutionary biology research and applications.
5 // Copyright (C) 2000-2009 Christian M. Zmasek
6 // Copyright (C) 2007-2009 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/forester
26 package org.forester.util;
28 public final class ForesterConstants {
30 public final static String FORESTER_VERSION = "1.005+";
31 public final static String FORESTER_DATE = "120808";
32 public final static String PHYLO_XML_VERSION = "1.10";
33 public final static String PHYLO_XML_LOCATION = "http://www.phyloxml.org";
34 public final static String PHYLO_XML_XSD = "phyloxml.xsd";
35 public final static String XML_SCHEMA_INSTANCE = "http://www.w3.org/2001/XMLSchema-instance";
36 public final static String LOCAL_PHYLOXML_XSD_RESOURCE = "resources/phyloxml.xsd";
37 public final static String PHYLO_XML_SUFFIX = ".xml";
38 public final static String UTF8 = "UTF-8";
39 public final static String PHYLO_XML_REFERENCE = "Han MV and Zmasek CM (2009): \"phyloXML: XML for evolutionary biology and comparative genomics\", BMC Bioinformatics 10:356";
40 public final static boolean RELEASE = false;
42 public enum PhylogeneticTreeFormats {
43 NH, NHX, NEXUS, PHYLOXML