X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;ds=sidebyside;f=src%2Fjalview%2Fgui%2FSequenceRenderer.java;h=0a1e8ef37536604b3c7660b5490ca21c6b14b0c2;hb=fab471e8ebef16e3cb7328f46b83c3c9c0b8abac;hp=5be7f55c0e2ce1752552a647413d21659d0736cc;hpb=b2f9f869650be0ea7c8cb2586744064b007866dc;p=jalview.git

diff --git a/src/jalview/gui/SequenceRenderer.java b/src/jalview/gui/SequenceRenderer.java
index 5be7f55..0a1e8ef 100755
--- a/src/jalview/gui/SequenceRenderer.java
+++ b/src/jalview/gui/SequenceRenderer.java
@@ -95,6 +95,7 @@ public class SequenceRenderer implements jalview.api.SequenceRenderer
   public Color getResidueColour(final SequenceI seq, int position,
           FeatureColourFinder finder)
   {
+    allGroups = av.getAlignment().findAllGroups(seq);
     return resColourFinder.getResidueColour(av.getShowBoxes(),
             av.getResidueShading(),
             allGroups, seq, position,