X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;ds=sidebyside;f=src%2Fjalview%2Fgui%2FSeqPanel.java;h=162f978ab4adec11a87e246a6f35f6a8a2df3687;hb=e542a2b9968ee6a7def19e79e84c27684ee686e3;hp=fc93fbcb402ca145aa53fe89ae05409eadc8c610;hpb=5a94d9b984758398146faef8b78ff5954b5ddd91;p=jalview.git

diff --git a/src/jalview/gui/SeqPanel.java b/src/jalview/gui/SeqPanel.java
index fc93fbc..162f978 100755
--- a/src/jalview/gui/SeqPanel.java
+++ b/src/jalview/gui/SeqPanel.java
@@ -347,23 +347,29 @@ public class SeqPanel extends JPanel
   {
 
     if ( jalview.util.Comparison.isGap( av.alignment.getSequenceAt(seq).getSequence().charAt(j)))
-        av.alignment.getSequenceAt(seq).deleteCharAt(j);
+      av.alignment.getSequenceAt(seq).deleteCharAt(j);
 
     av.alignment.getWidth();
     repaint();
     seqEditOccurred=seq;
+
   }
 
 
   void updateConservation(int i)
   {
-    if(av.getGlobalColourScheme() instanceof jalview.schemes.ClustalxColourScheme)
-    {
-      av.setGlobalColourScheme(
-          new jalview.schemes.ClustalxColourScheme(av.alignment.getSequences(),av.alignment.getWidth() ));
-    }
     av.updateConservation();
     av.updateConsensus();
+
+    ColourSchemeI cs = av.getGlobalColourScheme();
+    if(cs instanceof ConservationColourScheme)
+      cs = ( (ConservationColourScheme) cs).cs;
+
+    if(cs instanceof ClustalxColourScheme)
+      cs = new ClustalxColourScheme(av.alignment.getSequences(), av.alignment.getWidth());
+
+    ap.alignFrame.changeColour(cs);
+
   }
 
 //////////////////////////////////////////