JAL-4290 new CommandsTest.headlessOrGuiImageOutputTest - uses CommandLineOperations...

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

diff --git a/src/jalview/gui/PopupMenu.java b/src/jalview/gui/PopupMenu.java
index 57a2fa0..8875288 100644 (file)
--- a/src/jalview/gui/PopupMenu.java
+++ b/src/jalview/gui/PopupMenu.java
@@ -1735,10 +1735,8 @@ public class PopupMenu extends JPopupMenu implements ColourChangeListener
   protected void addReferenceAnnotations_actionPerformed(
           Map<SequenceI, List<AlignmentAnnotation>> candidates)
   {
-    final SequenceGroup selectionGroup = this.ap.av.getSelectionGroup();
     final AlignmentI alignment = this.ap.getAlignment();
-    AlignmentUtils.addReferenceAnnotations(candidates, alignment,
-            selectionGroup);
+    AlignmentUtils.addReferenceAnnotations(candidates, alignment, null);
     refresh();
   }
 
@@ -2192,7 +2190,8 @@ public class PopupMenu extends JPopupMenu implements ColourChangeListener
 
     String[] omitHidden = null;
 
-    System.out.println("PROMPT USER HERE"); // TODO: decide if a prompt happens
+    jalview.bin.Console.outPrintln("PROMPT USER HERE"); // TODO: decide if a
+                                                        // prompt happens
     // or we simply trust the user wants
     // wysiwig behaviour