// 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.SortedMap;
import java.util.TreeMap;
+import org.forester.protein.DomainId;
import org.forester.util.DescriptiveStatistics;
class PrintableSpeciesSpecificDomainSimilariyData implements SpeciesSpecificDomainSimilariyData {
_combinable_domain_id_to_count_map = new TreeMap<DomainId, Integer>();
}
+ @Override
public void addProteinsExhibitingCombinationCount( final DomainId domain_id, final int count ) {
if ( getCombinableDomainIdToCountsMap().containsKey( domain_id ) ) {
throw new IllegalArgumentException( "Domain with id " + domain_id + " already exists" );
getCombinableDomainIdToCountsMap().put( domain_id, count );
}
+ @Override
public SortedMap<DomainId, Integer> getCombinableDomainIdToCountsMap() {
return _combinable_domain_id_to_count_map;
}
return _key_domain_proteins_count;
}
+ @Override
public int getNumberOfProteinsExhibitingCombinationWith( final DomainId domain_id ) {
if ( !getCombinableDomainIdToCountsMap().containsKey( domain_id ) ) {
throw new IllegalArgumentException( "Domain with id " + domain_id + " not found" );
.toString();
}
+ @Override
public StringBuffer toStringBuffer( final DomainSimilarityCalculator.Detailedness detailedness, final boolean html ) {
final StringBuffer sb = new StringBuffer();
if ( detailedness == DomainSimilarityCalculator.Detailedness.PUNCTILIOUS ) {
sb.append( ":" );
sb.append( getCombinableDomainIdToCountsMap().get( domain_id ) );
}
- if ( i < ids.size() - 1 ) {
+ if ( i < ( ids.size() - 1 ) ) {
sb.append( "," );
}
}