From: jprocter <Jim Procter>
Date: Wed, 2 May 2007 12:23:17 +0000 (+0000)
Subject: copy only the sequence associated alignment annotation displayed in the current view
X-Git-Tag: Release_2_3~82
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=98db6c30a9d5539276236a7885bf22a161aa9df9;p=jalview.git

copy only the sequence associated alignment annotation displayed in the current view
---

diff --git a/src/jalview/gui/AlignViewport.java b/src/jalview/gui/AlignViewport.java
index 88a6e37..b68008a 100755
--- a/src/jalview/gui/AlignViewport.java
+++ b/src/jalview/gui/AlignViewport.java
@@ -1479,9 +1479,10 @@ public class AlignViewport
       if (selectionGroup == null)
     {
         sequences = alignment.getSequencesArray();
+        AlignmentAnnotation[] annots = alignment.getAlignmentAnnotation(); 
         for (int i=0; i<sequences.length; i++)
         {
-          sequences[i] = new Sequence(sequences[i]); // construct new sequence
+          sequences[i] = new Sequence(sequences[i], annots); // construct new sequence with subset of visible annotation
         }
     }
       else