// 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.BinaryDomainCombination;
-import org.forester.protein.DomainId;
import org.forester.species.Species;
public class DirectedCombinableDomains extends BasicCombinableDomains {
- public DirectedCombinableDomains( final DomainId n_terminal_key_domain, final Species species ) {
+ public DirectedCombinableDomains( final String n_terminal_key_domain, final Species species ) {
super( n_terminal_key_domain, species );
}
@Override
public List<BinaryDomainCombination> toBinaryDomainCombinations() {
final List<BinaryDomainCombination> binary_combinations = new ArrayList<BinaryDomainCombination>( getNumberOfCombinableDomains() );
- for( final DomainId domain : getCombiningDomains().keySet() ) {
+ for( final String domain : getCombiningDomains().keySet() ) {
// Precondition (!): key domain is most upstream domain.
//TODO ensure this is true.
binary_combinations.add( new DirectedBinaryDomainCombination( getKeyDomain(), domain ) );