// $Id: // FORESTER -- software libraries and applications // for evolutionary biology research and applications. // // Copyright (C) 2008-2009 Christian M. Zmasek // Copyright (C) 2008-2009 Burnham Institute for Medical Research // All rights reserved // // This library is free software; you can redistribute it and/or // modify it under the terms of the GNU Lesser General Public // License as published by the Free Software Foundation; either // version 2.1 of the License, or (at your option) any later version. // // This library is distributed in the hope that it will be useful, // but WITHOUT ANY WARRANTY; without even the implied warranty of // MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU // Lesser General Public License for more details. // // You should have received a copy of the GNU Lesser General Public // License along with this library; if not, write to the Free Software // Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA // // Contact: phylosoft @ gmail . com // WWW: https://sites.google.com/site/cmzmasek/home/software/forester package org.forester.io.parsers.phyloxml.data; import java.math.BigDecimal; import org.forester.io.parsers.phyloxml.PhyloXmlDataFormatException; import org.forester.io.parsers.phyloxml.PhyloXmlMapping; import org.forester.io.parsers.phyloxml.XmlElement; import org.forester.phylogeny.data.PhylogenyData; import org.forester.phylogeny.data.Point; import org.forester.util.ForesterUtil; public class PointParser implements PhylogenyDataPhyloXmlParser { private static final PhylogenyDataPhyloXmlParser _instance; static { try { _instance = new PointParser(); } catch ( final Throwable e ) { throw new RuntimeException( e.getMessage() ); } } private PointParser() { } @Override public PhylogenyData parse( final XmlElement element ) throws PhyloXmlDataFormatException { String alt_unit = ""; String geo_datum = ""; if ( element.isHasAttribute( PhyloXmlMapping.POINT_ALTITUDE_UNIT_ATTR ) ) { alt_unit = element.getAttribute( PhyloXmlMapping.POINT_ALTITUDE_UNIT_ATTR ); } if ( element.isHasAttribute( PhyloXmlMapping.POINT_GEODETIC_DATUM ) ) { geo_datum = element.getAttribute( PhyloXmlMapping.POINT_GEODETIC_DATUM ); } String lat_str = null; String lon_str = null; String alt_str = null; for( int j = 0; j < element.getNumberOfChildElements(); ++j ) { final XmlElement e = element.getChildElement( j ); if ( e.getQualifiedName().equals( PhyloXmlMapping.POINT_LATITUDE ) ) { lat_str = e.getValueAsString(); } else if ( e.getQualifiedName().equals( PhyloXmlMapping.POINT_LONGITUDE ) ) { lon_str = e.getValueAsString(); } else if ( e.getQualifiedName().equals( PhyloXmlMapping.POINT_ALTITUDE ) ) { alt_str = e.getValueAsString(); } } BigDecimal lat = null; BigDecimal lon = null; BigDecimal alt = null; if ( !ForesterUtil.isEmpty( lat_str ) ) { lat = new BigDecimal( lat_str ); } if ( !ForesterUtil.isEmpty( lon_str ) ) { lon = new BigDecimal( lon_str ); } if ( !ForesterUtil.isEmpty( alt_str ) ) { alt = new BigDecimal( alt_str ); } return new Point( geo_datum, lat, lon, alt, alt_unit ); } public static PhylogenyDataPhyloXmlParser getInstance() { return _instance; } }