// 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.List;
-import org.forester.protein.DomainId;
-
public class CombinationsBasedPairwiseDomainSimilarityCalculator implements PairwiseDomainSimilarityCalculator {
@Override
if ( !domains_1.getKeyDomain().equals( domains_2.getKeyDomain() ) ) {
throw new IllegalArgumentException( "attempt to calculate similarity between domain collection with different keys" );
}
- final List<DomainId> d1 = domains_1.getCombinableDomains();
- final List<DomainId> d2 = domains_2.getCombinableDomains();
+ final List<String> d1 = domains_1.getCombinableDomains();
+ final List<String> d2 = domains_2.getCombinableDomains();
int same = 0;
int different = 0;
- for( final DomainId domain : d1 ) {
+ for( final String domain : d1 ) {
if ( d2.contains( domain ) ) {
same++;
}
different++;
}
}
- for( final DomainId domain : d2 ) {
+ for( final String domain : d2 ) {
if ( !( d1.contains( domain ) ) ) {
different++;
}