X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fappletgui%2FTreeCanvas.java;h=af1d752897a78d10b230306775b536db3ce67e06;hb=d8c6e303402455460fb1d987b4c18a2d75e6a3c9;hp=d4202c356536a75e10086a125cbe8cf34c20606a;hpb=f24dacb1da56fccf05d684e2f4899facec2aecf7;p=jalview.git

diff --git a/src/jalview/appletgui/TreeCanvas.java b/src/jalview/appletgui/TreeCanvas.java
index d4202c3..af1d752 100755
--- a/src/jalview/appletgui/TreeCanvas.java
+++ b/src/jalview/appletgui/TreeCanvas.java
@@ -188,7 +188,7 @@ public class TreeCanvas
       // Colour selected leaves differently
       SequenceGroup selected = av.getSelectionGroup();
       if (selected != null &&
-          selected.sequences.contains( (SequenceI) node.element()))
+          selected.getSequences(false).contains( (SequenceI) node.element()))
       {
         g.setColor(Color.gray);
 
@@ -356,6 +356,7 @@ public class TreeCanvas
 
     g.setFont(font);
 
+
     FontMetrics fm = g.getFontMetrics(font);
 
     if (nameHash.size() == 0)
@@ -522,7 +523,8 @@ public class TreeCanvas
             {
             Conservation c = new Conservation("Group",
                                               ResidueProperties.propHash, 3,
-                                              sg.sequences, sg.getStartRes(),
+                                              sg.getSequences(false),
+                                              sg.getStartRes(),
                                               sg.getEndRes());
 
             c.calculate();