X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=forester%2Fjava%2Fsrc%2Forg%2Fforester%2Fsurfacing%2FGenomeWideCombinableDomains.java;h=4dbe7188c6c8bec9479152d96d14db0e549fd497;hb=1c57d9dd98190445f28ff5b2d447614fb14dd1aa;hp=245f5650235d82937f1ddc459a8fb3bc27c0e520;hpb=73c5b11c1a00e539afb246e345ebf3f042dded78;p=jalview.git

diff --git a/forester/java/src/org/forester/surfacing/GenomeWideCombinableDomains.java b/forester/java/src/org/forester/surfacing/GenomeWideCombinableDomains.java
index 245f565..4dbe718 100644
--- a/forester/java/src/org/forester/surfacing/GenomeWideCombinableDomains.java
+++ b/forester/java/src/org/forester/surfacing/GenomeWideCombinableDomains.java
@@ -23,7 +23,7 @@
 // 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;
 
@@ -32,28 +32,27 @@ import java.util.SortedSet;
 
 import org.forester.protein.BinaryDomainCombination;
 import org.forester.protein.BinaryDomainCombination.DomainCombinationType;
-import org.forester.protein.DomainId;
 import org.forester.species.Species;
 import org.forester.util.DescriptiveStatistics;
 
 public interface GenomeWideCombinableDomains {
 
-    public boolean contains( DomainId key_id );
+    public boolean contains( String key_id );
 
-    public CombinableDomains get( DomainId key_id );
+    public CombinableDomains get( String key_id );
 
-    public SortedMap<DomainId, CombinableDomains> getAllCombinableDomainsIds();
+    public SortedMap<String, CombinableDomains> getAllCombinableDomainsIds();
 
     /**
      * This should return all domains ids present in the genome.
      * 
      * @return a sorted set of domains ids
      */
-    public SortedSet<DomainId> getAllDomainIds();
+    public SortedSet<String> getAllDomainIds();
 
     public DomainCombinationType getDomainCombinationType();
 
-    SortedSet<DomainId> getMostPromiscuosDomain();
+    SortedSet<String> getMostPromiscuosDomain();
 
     /**
      * This should return a statistic for per domain