X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fappletgui%2FAlignFrame.java;h=6e2d32b3c8f11a57ca244213b51b0bb043374a6c;hb=d429962a1e4d2413e0c18fd88227cffee8bfa502;hp=4fc6208a753a374ae5d785396aefc6bd8fc843dd;hpb=c2fb0cbc97e0dc8f1c0d13f9bd6cba24df7e34d3;p=jalview.git

diff --git a/src/jalview/appletgui/AlignFrame.java b/src/jalview/appletgui/AlignFrame.java
index 4fc6208..6e2d32b 100755
--- a/src/jalview/appletgui/AlignFrame.java
+++ b/src/jalview/appletgui/AlignFrame.java
@@ -241,8 +241,9 @@ public class AlignFrame
                                      "Alignment output - " + e.getActionCommand(),
                                      600, 500);
     cap.setText(new AppletFormatAdapter().formatSequences(e.getActionCommand(),
-                                              viewport.getAlignment().
-                                              getSequences()));
+                                              viewport.getAlignment().getSequences(),
+                                                      viewport.showDBPrefix,
+                                                      viewport.showJVSuffix));
   }
 
   public void closeMenuItem_actionPerformed(ActionEvent e)
@@ -863,13 +864,21 @@ public class AlignFrame
     new FontChooser(alignPanel);
   }
 
-  protected void fullSeqId_actionPerformed(ActionEvent e)
+  public void dbref_actionPerformed(ItemEvent e)
   {
-    viewport.setShowJVSuffix(fullSeqId.getState());
+    viewport.showDBPrefix = dbref.getState();
     alignPanel.fontChanged();
     alignPanel.repaint();
   }
 
+  public void seqLimits_itemStateChanged(ItemEvent e)
+  {
+    viewport.setShowJVSuffix(seqLimits.getState());
+    alignPanel.fontChanged();
+    alignPanel.repaint();
+  }
+
+
   protected void colourTextMenuItem_actionPerformed(ActionEvent e)
   {
     viewport.setColourText(colourTextMenuItem.getState());