// 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
// 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: www.phylosoft.org/forester
+// WWW: https://sites.google.com/site/cmzmasek/home/software/forester
package org.forester.surfacing;
+import java.util.HashMap;
+import java.util.Map;
+
+import org.forester.protein.BasicDomain;
+import org.forester.protein.BinaryDomainCombination;
+
public class DirectedBinaryDomainCombination extends BasicBinaryDomainCombination {
- public DirectedBinaryDomainCombination( final DomainId n_terminal, final DomainId c_terminal ) {
+ final private static Map<Integer, DirectedBinaryDomainCombination> DDC_POOL = new HashMap<Integer, DirectedBinaryDomainCombination>();
+
+ private DirectedBinaryDomainCombination( final String n_terminal, final String c_terminal ) {
super();
if ( ( n_terminal == null ) || ( c_terminal == null ) ) {
throw new IllegalArgumentException( "attempt to create binary domain combination using null" );
}
- _id_0 = n_terminal;
- _id_1 = c_terminal;
+ _id0 = BasicDomain.obtainIdAsShort( n_terminal );
+ _id1 = BasicDomain.obtainIdAsShort( c_terminal );
}
- public DirectedBinaryDomainCombination( final String n_terminal, final String c_terminal ) {
- this( new DomainId( n_terminal ), new DomainId( c_terminal ) );
- }
-
- public static BinaryDomainCombination createInstance( final String ids ) {
+ public final static BinaryDomainCombination obtainInstance( final String ids ) {
if ( ids.indexOf( BinaryDomainCombination.SEPARATOR ) < 1 ) {
throw new IllegalArgumentException( "Unexpected format for binary domain combination [" + ids + "]" );
}
if ( ids_ary.length != 2 ) {
throw new IllegalArgumentException( "Unexpected format for binary domain combination [" + ids + "]" );
}
- return new DirectedBinaryDomainCombination( ids_ary[ 0 ], ids_ary[ 1 ] );
+ return DirectedBinaryDomainCombination.obtainInstance( ids_ary[ 0 ], ids_ary[ 1 ] );
+ }
+
+ public final static DirectedBinaryDomainCombination obtainInstance( final String n_terminal, final String c_terminal ) {
+ final int code = calcCode( BasicDomain.obtainIdAsShort( n_terminal ), BasicDomain.obtainIdAsShort( c_terminal ) );
+ if ( DDC_POOL.containsKey( code ) ) {
+ return DDC_POOL.get( code );
+ }
+ else {
+ final DirectedBinaryDomainCombination dc = new DirectedBinaryDomainCombination( n_terminal, c_terminal );
+ DDC_POOL.put( code, dc );
+ if ( VERBOSE && ( DDC_POOL.size() % 100 == 0 ) ) {
+ System.out.println( " ddc pool size: " + DDC_POOL.size() );
+ }
+ return dc;
+ }
}
}