Merge branch 'Tcoffee_JAL-1065' of https://source.jalview.org/git/jalview into test_p...

[jalview.git] / src / jalview / datamodel / SequenceI.java

diff --git a/src/jalview/datamodel/SequenceI.java b/src/jalview/datamodel/SequenceI.java
index d1e3853..87c964f 100755 (executable)
--- a/src/jalview/datamodel/SequenceI.java
+++ b/src/jalview/datamodel/SequenceI.java
@@ -17,7 +17,7 @@
  */
 package jalview.datamodel;
 
-import java.util.*;
+import java.util.Vector;
 
 /**
  * DOCUMENT ME!
@@ -348,5 +348,15 @@ public interface SequenceI
    *          null or mapping from entry's numbering to local start/end
    */
   public void transferAnnotation(SequenceI entry, Mapping mp);
+  
+  /**
+   * @param index The sequence index in the MSA 
+   */
+  public void setIndex(int index);
+  
+  /**
+   * @return The index of the sequence in the alignment
+   */
+  public int getIndex();
 
 }