JAL-4366 new mapping type for 3di/protein sequence relationships

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

diff --git a/src/jalview/datamodel/SequenceI.java b/src/jalview/datamodel/SequenceI.java
index 34dbab7..d5114e0 100755 (executable)
--- a/src/jalview/datamodel/SequenceI.java
+++ b/src/jalview/datamodel/SequenceI.java
@@ -415,7 +415,8 @@ public interface SequenceI extends ASequenceI, ContactMapHolderI
   /**
    * Derive a sequence (using this one's dataset or as the dataset)
    * 
-   * @return duplicate sequence with valid dataset sequence
+   * @return duplicate sequence and any annotation present with valid dataset
+   *         sequence
    */
   public SequenceI deriveSequence();
 
@@ -596,4 +597,7 @@ public interface SequenceI extends ASequenceI, ContactMapHolderI
    */
   public int firstResidueOutsideIterator(Iterator<int[]> it);
 
+  public void addContactListFor(AlignmentAnnotation annotation,
+          ContactMatrixI cm);
+
 }