3 // FORESTER -- software libraries and applications
4 // for evolutionary biology research and applications.
6 // Copyright (C) 2008-2009 Christian M. Zmasek
7 // Copyright (C) 2008-2009 Burnham Institute for Medical Research
10 // This library is free software; you can redistribute it and/or
11 // modify it under the terms of the GNU Lesser General Public
12 // License as published by the Free Software Foundation; either
13 // version 2.1 of the License, or (at your option) any later version.
15 // This library is distributed in the hope that it will be useful,
16 // but WITHOUT ANY WARRANTY; without even the implied warranty of
17 // MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
18 // Lesser General Public License for more details.
20 // You should have received a copy of the GNU Lesser General Public
21 // License along with this library; if not, write to the Free Software
22 // Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA
24 // Contact: phylosoft @ gmail . com
25 // WWW: www.phylosoft.org/forester
27 package org.forester.surfacing;
29 import org.forester.protein.BinaryDomainCombination;
30 import org.forester.protein.DomainId;
31 import org.forester.util.ForesterUtil;
33 public class BasicBinaryDomainCombination implements BinaryDomainCombination {
40 BasicBinaryDomainCombination() {
45 public BasicBinaryDomainCombination( final String id_0, final String id_1 ) {
46 if ( ( id_0 == null ) || ( id_1 == null ) ) {
47 throw new IllegalArgumentException( "attempt to create binary domain combination using null" );
49 final String my_id_0 = id_0.trim();
50 final String my_id_1 = id_1.trim();
51 if ( my_id_0.toLowerCase().compareTo( my_id_1.toLowerCase() ) < 0 ) {
61 public BasicBinaryDomainCombination( final DomainId id_0, final DomainId id_1 ) {
62 this( id_0.getId(), id_1.getId() );
66 public int compareTo( final BinaryDomainCombination binary_domain_combination ) {
67 if ( binary_domain_combination.getClass() != this.getClass() ) {
68 throw new IllegalArgumentException( "attempt to compare [" + binary_domain_combination.getClass() + "] to "
69 + "[" + this.getClass() + "]" );
71 if ( equals( binary_domain_combination ) ) {
74 final int x = getId0().compareTo( binary_domain_combination.getId0() );
79 return getId1().compareTo( binary_domain_combination.getId1() );
84 public boolean equals( final Object o ) {
88 else if ( o == null ) {
89 throw new IllegalArgumentException( "attempt to check [" + this.getClass() + "] equality to null" );
91 else if ( o.getClass() != this.getClass() ) {
92 throw new IllegalArgumentException( "attempt to check [" + this.getClass() + "] equality to ["
93 + o.getClass() + "]" );
96 return ( getId0().equals( ( ( BinaryDomainCombination ) o ).getId0() ) )
97 && ( getId1().equals( ( ( BinaryDomainCombination ) o ).getId1() ) );
102 public DomainId getId0() {
103 return new DomainId( _id_0 );
107 public DomainId getId1() {
108 return new DomainId( _id_1 );
112 public int hashCode() {
113 // return getId0().hashCode() + ( 19 * getId1().hashCode() );
114 return ( _id_0 + _id_1 ).hashCode();
118 public StringBuffer toGraphDescribingLanguage( final OutputFormat format,
119 final String node_attribute,
120 final String edge_attribute ) {
121 final StringBuffer sb = new StringBuffer();
124 if ( ForesterUtil.isEmpty( node_attribute ) ) {
125 sb.append( getId0() );
127 sb.append( getId1() );
128 if ( !ForesterUtil.isEmpty( edge_attribute ) ) {
130 sb.append( edge_attribute );
135 sb.append( getId0() );
137 sb.append( node_attribute );
139 sb.append( ForesterUtil.LINE_SEPARATOR );
140 sb.append( getId1() );
142 sb.append( node_attribute );
144 sb.append( ForesterUtil.LINE_SEPARATOR );
145 sb.append( getId0() );
147 sb.append( getId1() );
148 if ( !ForesterUtil.isEmpty( edge_attribute ) ) {
150 sb.append( edge_attribute );
156 throw new AssertionError( "unknown format:" + format );
162 public String toString() {
163 final StringBuffer sb = new StringBuffer();
165 sb.append( BinaryDomainCombination.SEPARATOR );
167 return sb.toString();
170 public static BinaryDomainCombination createInstance( final String ids ) {
171 if ( ids.indexOf( BinaryDomainCombination.SEPARATOR ) < 1 ) {
172 throw new IllegalArgumentException( "Unexpected format for binary domain combination [" + ids + "]" );
174 final String[] ids_ary = ids.split( BinaryDomainCombination.SEPARATOR );
175 if ( ids_ary.length != 2 ) {
176 throw new IllegalArgumentException( "Unexpected format for binary domain combination [" + ids + "]" );
178 return new BasicBinaryDomainCombination( ids_ary[ 0 ], ids_ary[ 1 ] );