X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fdatamodel%2FAlignmentI.java;h=7fe4627294d84d8674dadf08c25a4f4cb7b5bc86;hb=9175e97621ea51c3e98145545b3957842126c09e;hp=ebd95d93a5da79a2990e721d1f8f48d187f13005;hpb=e0a4b92352ee3e31a8dea075a51ec080ae3945f2;p=jalview.git

diff --git a/src/jalview/datamodel/AlignmentI.java b/src/jalview/datamodel/AlignmentI.java
index ebd95d9..7fe4627 100755
--- a/src/jalview/datamodel/AlignmentI.java
+++ b/src/jalview/datamodel/AlignmentI.java
@@ -219,28 +219,6 @@ public interface AlignmentI
      */
     public void deleteAllGroups();
 
-    /**
-     * Adds a super group. A SuperGroup is a group of groups.
-     *
-     * @param sg Adds a new SuperGroup to alignment
-     */
-    public void addSuperGroup(SuperGroup sg);
-
-    /**
-     * Removes SuperGroup from alignment.
-     *
-     * @param sg This SuperGroup will be deleted from alignment.
-     */
-    public void removeSuperGroup(SuperGroup sg);
-
-    /**
-     * Finds any SuperGroup that a given SequenceGroup may be part of.
-     *
-     * @param sg SequenceGroup to search for.
-     *
-     * @return SuperGroup that contains the given SequenceGroup.
-     */
-    public SuperGroup getSuperGroup(SequenceGroup sg);
 
     /**
      * Adds a new AlignmentAnnotation to this alignment
@@ -314,7 +292,8 @@ public interface AlignmentI
      */
     public boolean padGaps();
 
-     public void adjustSequenceAnnotations();
+    public void adjustSequenceAnnotations();
 
+    public HiddenSequences getHiddenSequences();
 
 }