From: jprocter <jprocter@compbio.dundee.ac.uk>
Date: Mon, 2 Jul 2012 06:36:24 +0000 (+0100)
Subject: JAL-974 - use refactored methods on AlignmentPanel
X-Git-Tag: Jalview_2_9~438
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=7ef02aa7c7559f3a37f2f0524243c52b00335294;p=jalview.git

JAL-974 - use refactored methods on AlignmentPanel
---

diff --git a/src/jalview/gui/AppJmolBinding.java b/src/jalview/gui/AppJmolBinding.java
index 63813a9..df62eab 100644
--- a/src/jalview/gui/AppJmolBinding.java
+++ b/src/jalview/gui/AppJmolBinding.java
@@ -61,13 +61,12 @@ public class AppJmolBinding extends jalview.ext.jmol.JalviewJmolBinding
     AlignmentPanel ap = (alignment==null) ? appJmolWindow.ap : (AlignmentPanel) alignment;
     if (ap.av.showSequenceFeatures)
     {
-      if (fr == null)
+      if (fr==null)
       {
-        fr = new FeatureRenderer(ap);
+        fr=ap.cloneFeatureRenderer();
+      } else {
+        ap.updateFeatureRenderer(fr);
       }
-
-      fr.transferSettings(ap.
-              seqPanel.seqCanvas.getFeatureRenderer());
     }
 
     return fr;