X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fappletgui%2FTreeCanvas.java;h=1cab8d89d66ee3bd7709134bc1c604a1a674a055;hb=4789b0c6467eee2928113c97fe03e887ea4032d4;hp=a9a4bfee954e82bac6e54a0f343a2c190e3725e1;hpb=e549be446ec3ed7f7b1bc8b348c409bcffca901b;p=jalview.git

diff --git a/src/jalview/appletgui/TreeCanvas.java b/src/jalview/appletgui/TreeCanvas.java
index a9a4bfe..1cab8d8 100755
--- a/src/jalview/appletgui/TreeCanvas.java
+++ b/src/jalview/appletgui/TreeCanvas.java
@@ -623,9 +623,12 @@ public class TreeCanvas extends Panel implements MouseListener,
                   .getWidth(), ColourSchemeProperty.getColourName(av
                   .getGlobalColourScheme()));
         }
-
-        cs.setThreshold(av.getGlobalColourScheme().getThreshold(),
-                av.getIgnoreGapsConsensus());
+        // cs is null if shading is an annotationColourGradient
+        if (cs!=null)
+        {
+          cs.setThreshold(av.getGlobalColourScheme().getThreshold(),
+                  av.getIgnoreGapsConsensus());
+        }
       }
 
       SequenceGroup sg = new SequenceGroup(sequences, "", cs, true, true,