JAL-674 patch to ensure existing annotation is properly wired up when

[jalview.git] / src / jalview / analysis / AlignSeq.java

diff --git a/src/jalview/analysis/AlignSeq.java b/src/jalview/analysis/AlignSeq.java
index dd29d73..e7fed8d 100755 (executable)
--- a/src/jalview/analysis/AlignSeq.java
+++ b/src/jalview/analysis/AlignSeq.java
@@ -1116,6 +1116,7 @@ public class AlignSeq
                 AlignmentAnnotation alan = annotations.get(ap);
                 alan.liftOver(sq, sp2sq);
                 alan.setSequenceRef(sq);
+                sq.addAlignmentAnnotation(alan);
               }
             }
             else