Working on removing old legacy BJ dust... Sequence interface used instead of RichSequence

foisys · foisys · commit 36f4be96b45f · 2011-01-11T20:54:48.000Z
git-svn-id: http://code.open-bio.org/repos/biojava/biojava-live/trunk@8662 7c6358e6-4a41-0410-a743-a5b2a554c398
diff --git a/biojava3-ws/src/main/java/org/biojava3/ws/alignment/RemotePairwiseAlignmentService.java b/biojava3-ws/src/main/java/org/biojava3/ws/alignment/RemotePairwiseAlignmentService.java
@@ -22,8 +22,8 @@
 
 import java.io.InputStream;
 
-import org.biojavax.bio.seq.RichSequence;
-
+//import org.biojavax.bio.seq.RichSequence;
+import org.biojava3.core.sequence.template.Sequence;
 /**
  * This interface specifies minimal information needed to execute a pairwise alignment on a remote service.
  * 
@@ -41,7 +41,7 @@ public interface RemotePairwiseAlignmentService {
 	 * 
 	 * @throws Exception
 	 */
-	public String sendAlignmentRequest(RichSequence rs, RemotePairwiseAlignmentProperties rpa) throws Exception;
+	public String sendAlignmentRequest(Sequence seq, RemotePairwiseAlignmentProperties rpa) throws Exception;
 	
 	/**
 	 * Doing the actual analysis on the instantiated service using specified parameters on the string representation
