Implemented CIGAR representation of an Alignment view for passing to

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

diff --git a/src/jalview/datamodel/AlignmentI.java b/src/jalview/datamodel/AlignmentI.java
index e62c8c2..06e93d7 100755 (executable)
--- a/src/jalview/datamodel/AlignmentI.java
+++ b/src/jalview/datamodel/AlignmentI.java
@@ -270,5 +270,9 @@ public interface AlignmentI
     public void adjustSequenceAnnotations();\r
 \r
     public HiddenSequences getHiddenSequences();\r
-\r
+    /**\r
+     * Compact representation of alignment\r
+     * @return CigarArray\r
+     */\r
+    public CigarArray getCompactAlignment();\r
 }\r