X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fws%2FAWSThread.java;h=7f05e9065a29420f1899458b7971e6394b880a73;hb=759d83a940b86333a264437462a2b0c8bc662d97;hp=edb56a94327a25d887d3db1a932fe1022d18818d;hpb=aced09c4feeaf3406269442c14e54abeeb4cad81;p=jalview.git

diff --git a/src/jalview/ws/AWSThread.java b/src/jalview/ws/AWSThread.java
index edb56a9..7f05e90 100644
--- a/src/jalview/ws/AWSThread.java
+++ b/src/jalview/ws/AWSThread.java
@@ -27,8 +27,8 @@ import jalview.datamodel.AlignmentI;
 import jalview.datamodel.AlignmentView;
 import jalview.datamodel.SequenceI;
 import jalview.gui.AlignFrame;
-import jalview.gui.WebserviceInfo;
 import jalview.gui.FeatureRenderer.FeatureRendererSettings;
+import jalview.gui.WebserviceInfo;
 import jalview.util.MessageManager;
 
 public abstract class AWSThread extends Thread
@@ -297,10 +297,11 @@ public abstract class AWSThread extends Thread
       {
         for (int i = 0; i < codonframe.length; i++)
         {
-          if (codonframe[i] != null
-                  && codonframe[i].involvesSequence(alignment[sq]))
+          AlignedCodonFrame acf = codonframe[i];
+          final SequenceI seq = alignment[sq];
+          if (acf != null && acf.involvesSequence(seq))
           {
-            al.addCodonFrame(codonframe[i]);
+            al.addCodonFrame(new AlignedCodonFrame(acf, alignment));
             codonframe[i] = null;
             break;
           }