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: https://sites.google.com/site/cmzmasek/home/software/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 {
37 BasicBinaryDomainCombination() {
41 public BasicBinaryDomainCombination( final String id_0, final String id_1 ) {
42 if ( ( id_0 == null ) || ( id_1 == null ) ) {
43 throw new IllegalArgumentException( "attempt to create binary domain combination using null" );
45 if ( id_0.toLowerCase().compareTo( id_1.toLowerCase() ) < 0 ) {
46 _data = id_0 + BinaryDomainCombination.SEPARATOR + id_1;
49 _data = id_1 + BinaryDomainCombination.SEPARATOR + id_0;
53 public BasicBinaryDomainCombination( final DomainId id_0, final DomainId id_1 ) {
54 this( id_0.getId(), id_1.getId() );
58 public int compareTo( final BinaryDomainCombination binary_domain_combination ) {
59 if ( binary_domain_combination.getClass() != this.getClass() ) {
60 throw new IllegalArgumentException( "attempt to compare [" + binary_domain_combination.getClass() + "] to "
61 + "[" + this.getClass() + "]" );
63 if ( equals( binary_domain_combination ) ) {
66 final int x = getId0().compareTo( binary_domain_combination.getId0() );
71 return getId1().compareTo( binary_domain_combination.getId1() );
76 public boolean equals( final Object o ) {
80 else if ( o == null ) {
81 throw new IllegalArgumentException( "attempt to check [" + this.getClass() + "] equality to null" );
83 else if ( o.getClass() != this.getClass() ) {
84 throw new IllegalArgumentException( "attempt to check [" + this.getClass() + "] equality to ["
85 + o.getClass() + "]" );
88 return ( getId0().equals( ( ( BinaryDomainCombination ) o ).getId0() ) )
89 && ( getId1().equals( ( ( BinaryDomainCombination ) o ).getId1() ) );
94 public DomainId getId0() {
95 return new DomainId( _data.split( BinaryDomainCombination.SEPARATOR )[ 0 ] );
99 public DomainId getId1() {
100 return new DomainId( _data.split( BinaryDomainCombination.SEPARATOR )[ 1 ] );
104 public int hashCode() {
105 return _data.hashCode();
109 public StringBuffer toGraphDescribingLanguage( final OutputFormat format,
110 final String node_attribute,
111 final String edge_attribute ) {
112 final StringBuffer sb = new StringBuffer();
115 if ( ForesterUtil.isEmpty( node_attribute ) ) {
116 sb.append( getId0() );
118 sb.append( getId1() );
119 if ( !ForesterUtil.isEmpty( edge_attribute ) ) {
121 sb.append( edge_attribute );
126 sb.append( getId0() );
128 sb.append( node_attribute );
130 sb.append( ForesterUtil.LINE_SEPARATOR );
131 sb.append( getId1() );
133 sb.append( node_attribute );
135 sb.append( ForesterUtil.LINE_SEPARATOR );
136 sb.append( getId0() );
138 sb.append( getId1() );
139 if ( !ForesterUtil.isEmpty( edge_attribute ) ) {
141 sb.append( edge_attribute );
147 throw new AssertionError( "unknown format:" + format );
153 public String toString() {
157 public static BinaryDomainCombination createInstance( final String ids ) {
158 if ( ids.indexOf( BinaryDomainCombination.SEPARATOR ) < 1 ) {
159 throw new IllegalArgumentException( "Unexpected format for binary domain combination [" + ids + "]" );
161 final String[] ids_ary = ids.split( BinaryDomainCombination.SEPARATOR );
162 if ( ids_ary.length != 2 ) {
163 throw new IllegalArgumentException( "Unexpected format for binary domain combination [" + ids + "]" );
165 return new BasicBinaryDomainCombination( ids_ary[ 0 ], ids_ary[ 1 ] );