X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fgui%2FPopupMenu.java;h=82ce8359874e9964066a88f7d468c3544eaf4c2c;hb=a0a45f042ee77368a0ff6c82caccb1b93d9e0f72;hp=2ac304bc96e1faa364418bddf198c291d04a628a;hpb=f2469e3ede414575d5e8cd510ed5c916095b55bf;p=jalview.git

diff --git a/src/jalview/gui/PopupMenu.java b/src/jalview/gui/PopupMenu.java
index 2ac304b..82ce835 100644
--- a/src/jalview/gui/PopupMenu.java
+++ b/src/jalview/gui/PopupMenu.java
@@ -269,6 +269,8 @@ public class PopupMenu extends JPopupMenu
     			  break;
     		  }
     	  }
+    	  
+    	  SequenceGroup a = aa[0].groupRef;
 
     	  //TODO: make rnastrucF a bit more nice
     	  final String rnastrucF=rnastruc;
@@ -280,7 +282,7 @@ public class PopupMenu extends JPopupMenu
     		  {
     			  System.out.println("Call Varna "+seq.getSequenceAsString()+" "+seq.getName());
     			  //TODO: VARNA does'nt print gaps in the sequence
-    			  new AppVarna(seq.getSequenceAsString(),rnastrucF,seq.getName());
+    			  new AppVarna(seq.getSequenceAsString(),rnastrucF,seq.getName(),ap);
     		  }
 		  	});	  
 		  	viewStructureMenu.add(menuItem);