// $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.phylogeny.data; import java.io.IOException; import java.io.Writer; import org.forester.io.parsers.phyloxml.PhyloXmlMapping; import org.forester.util.ForesterUtil; public final class Identifier implements PhylogenyData { final private String _value; final private String _provider; final private String _value_provider; public Identifier() { _value = ""; _provider = ""; _value_provider = ""; } public Identifier( final String value ) { _value = value; _provider = ""; _value_provider = value; } public Identifier( final String value, final String provider ) { _value = value; _provider = provider; if ( provider != null ) { _value_provider = value + provider; } else { _value_provider = value; } } @Override public StringBuffer asSimpleText() { return new StringBuffer( getValue() ); } @Override public StringBuffer asText() { final StringBuffer sb = new StringBuffer(); if ( !ForesterUtil.isEmpty( getProvider() ) ) { sb.append( "[" ); sb.append( getProvider() ); sb.append( "] " ); } sb.append( getValue() ); return sb; } public String getValuePlusProvider() { return _value_provider; } @Override public PhylogenyData copy() { return new Identifier( getValue(), getProvider() ); } @Override public boolean equals( final Object o ) { if ( this == o ) { return true; } else if ( o == null ) { return false; } else if ( o.getClass() != this.getClass() ) { throw new IllegalArgumentException( "attempt to check [" + this.getClass() + "] equality to " + o + " [" + o.getClass() + "]" ); } else { return isEqual( ( Identifier ) o ); } } public String getProvider() { return _provider; } public String getValue() { return _value; } @Override public int hashCode() { return _value_provider.hashCode(); } @Override public boolean isEqual( final PhylogenyData data ) { if ( this == data ) { return true; } if ( ( data == null ) || ( getValue() == null ) ) { return false; } final Identifier a = ( Identifier ) data; if ( ( getProvider() != null ) && ( a.getProvider() != null ) ) { return ( a.getValue().equals( getValue() ) && a.getProvider().equals( getProvider() ) ); } return ( a.getValue().equals( getValue() ) ); } @Override public StringBuffer toNHX() { throw new UnsupportedOperationException(); } @Override public void toPhyloXML( final Writer writer, final int level, final String indentation ) throws IOException { if ( !org.forester.util.ForesterUtil.isEmpty( getProvider() ) ) { PhylogenyDataUtil.appendElement( writer, PhyloXmlMapping.IDENTIFIER, getValue(), PhyloXmlMapping.IDENTIFIER_PROVIDER_ATTR, getProvider(), indentation ); } else { PhylogenyDataUtil.appendElement( writer, PhyloXmlMapping.IDENTIFIER, getValue(), indentation ); } } @Override public String toString() { return asText().toString(); } }