From 12e8a8c0dd1af827d42b281adf598db6fcdda76e Mon Sep 17 00:00:00 2001
From: amwaterhouse <Andrew Waterhouse>
Date: Thu, 16 Feb 2006 17:30:04 +0000
Subject: [PATCH] translate cDNA adjusted

---
 src/jalview/gui/AlignFrame.java |    9 +++------
 1 file changed, 3 insertions(+), 6 deletions(-)

diff --git a/src/jalview/gui/AlignFrame.java b/src/jalview/gui/AlignFrame.java
index a70adfc..35ac570 100755
--- a/src/jalview/gui/AlignFrame.java
+++ b/src/jalview/gui/AlignFrame.java
@@ -179,13 +179,8 @@ public class AlignFrame
     conservationMenuItem.setVisible( !nucleotide );
     modifyConservation.setVisible(   !nucleotide );
 
-    //Deal with separators
     //Remember AlignFrame always starts as protein
-    if(nucleotide)
-    {
-      viewMenu.remove(viewMenu.getItemCount()-2);
-    }
-    else
+    if(!nucleotide)
     {
       calculateMenu.remove(calculateMenu.getItemCount()-2);
     }
@@ -2448,6 +2443,8 @@ public void showTranslation_actionPerformed(ActionEvent e)
     protein = new StringBuffer();
     seq = AlignSeq.extractGaps("-. ", viewport.alignment.getSequenceAt(s).getSequence());
     resSize = seq.length();
+    resSize -= resSize%3;
+
     for(res = 0; res < resSize; res+=3)
     {
       String codon = seq.substring(res, res+3);
-- 
1.7.10.2