(JAL-842) ensure deletions are accounted for when highlighting mouseover in alignment...

[jalview.git] / src / jalview / gui / PopupMenu.java

diff --git a/src/jalview/gui/PopupMenu.java b/src/jalview/gui/PopupMenu.java
index 23a5008..6139764 100644 (file)
--- a/src/jalview/gui/PopupMenu.java
+++ b/src/jalview/gui/PopupMenu.java
@@ -277,7 +277,7 @@ public class PopupMenu extends JPopupMenu
             {
               public void actionPerformed(ActionEvent e)
               {
-                new AppVarna(seq.getSequenceAsString(), rnastruc, seq
+                new AppVarna(seq, seq.getSequenceAsString(), rnastruc, seq
                         .getName(), ap);
               }
             });
@@ -304,7 +304,7 @@ public class PopupMenu extends JPopupMenu
                 public void actionPerformed(ActionEvent e)
                 {
                   // TODO: VARNA does'nt print gaps in the sequence
-                  new AppVarna(seq.getSequenceAsString(), rnastruc, seq
+                  new AppVarna(seq,seq.getSequenceAsString(), rnastruc, seq
                           .getName(), ap);
                 }
               });