From: jprocter <jprocter@compbio.dundee.ac.uk>
Date: Fri, 22 Jul 2011 16:33:57 +0000 (+0100)
Subject: fix NPE when annotation colourgradient is applied
X-Git-Tag: Release_2_7~126
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=4789b0c6467eee2928113c97fe03e887ea4032d4;p=jalview.git

fix NPE when annotation colourgradient is applied
---

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,
diff --git a/src/jalview/gui/TreeCanvas.java b/src/jalview/gui/TreeCanvas.java
index ea78d0f..17830fe 100755
--- a/src/jalview/gui/TreeCanvas.java
+++ b/src/jalview/gui/TreeCanvas.java
@@ -905,9 +905,12 @@ public class TreeCanvas extends JPanel implements MouseListener, Runnable,
                   .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, null, cs, true, true,