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.util.ForesterUtil;
32 public class BasicBinaryDomainCombination implements BinaryDomainCombination {
38 public BasicBinaryDomainCombination( final String id0, final String id1 ) {
39 if ( ( id0 == null ) || ( id1 == null ) ) {
40 throw new IllegalArgumentException( "attempt to create binary domain combination using null" );
42 if ( id0.toLowerCase().compareTo( id1.toLowerCase() ) < 0 ) {
45 _data = id0 + SEPARATOR + id1;
50 _data = id1 + SEPARATOR + id0;
54 BasicBinaryDomainCombination() {
61 public int compareTo( final BinaryDomainCombination binary_domain_combination ) {
62 if ( binary_domain_combination.getClass() != this.getClass() ) {
63 throw new IllegalArgumentException( "attempt to compare [" + binary_domain_combination.getClass() + "] to "
64 + "[" + this.getClass() + "]" );
66 if ( equals( binary_domain_combination ) ) {
69 final int x = getId0().compareTo( binary_domain_combination.getId0() );
74 return getId1().compareTo( binary_domain_combination.getId1() );
79 public boolean equals( final Object o ) {
83 else if ( o == null ) {
84 throw new IllegalArgumentException( "attempt to check [" + this.getClass() + "] equality to null" );
86 else if ( o.getClass() != this.getClass() ) {
87 throw new IllegalArgumentException( "attempt to check [" + this.getClass() + "] equality to ["
88 + o.getClass() + "]" );
91 return ( getId0().equals( ( ( BinaryDomainCombination ) o ).getId0() ) )
92 && ( getId1().equals( ( ( BinaryDomainCombination ) o ).getId1() ) );
97 public String getId0() {
98 return _data.substring( 0, _data.indexOf( SEPARATOR ) );
103 public String getId1() {
104 return _data.substring( _data.indexOf( SEPARATOR ) + 1 );
109 public int hashCode() {
110 return getAsStr().hashCode();
114 public StringBuffer toGraphDescribingLanguage( final OutputFormat format,
115 final String node_attribute,
116 final String edge_attribute ) {
117 final StringBuffer sb = new StringBuffer();
120 if ( ForesterUtil.isEmpty( node_attribute ) ) {
121 sb.append( getId0() );
123 sb.append( getId1() );
124 if ( !ForesterUtil.isEmpty( edge_attribute ) ) {
126 sb.append( edge_attribute );
131 sb.append( getId0() );
133 sb.append( node_attribute );
135 sb.append( ForesterUtil.LINE_SEPARATOR );
136 sb.append( getId1() );
138 sb.append( node_attribute );
140 sb.append( ForesterUtil.LINE_SEPARATOR );
141 sb.append( getId0() );
143 sb.append( getId1() );
144 if ( !ForesterUtil.isEmpty( edge_attribute ) ) {
146 sb.append( edge_attribute );
152 throw new AssertionError( "unknown format:" + format );
158 public String toString() {
162 private String getAsStr() {
163 // return _id0 + SEPARATOR + _id1;
167 public static BinaryDomainCombination createInstance( final String ids ) {
168 if ( ids.indexOf( BinaryDomainCombination.SEPARATOR ) < 1 ) {
169 throw new IllegalArgumentException( "Unexpected format for binary domain combination [" + ids + "]" );
171 final String[] ids_ary = ids.split( BinaryDomainCombination.SEPARATOR );
172 if ( ids_ary.length != 2 ) {
173 throw new IllegalArgumentException( "Unexpected format for binary domain combination [" + ids + "]" );
175 return new BasicBinaryDomainCombination( ids_ary[ 0 ], ids_ary[ 1 ] );