X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fanalysis%2FAlignmentAnnotationUtils.java;fp=src%2Fjalview%2Fanalysis%2FAlignmentAnnotationUtils.java;h=e02aa9ea3254ac13f96953291869305dccf1e118;hb=c4609f79463d463d471b207a092f4d5af807391d;hp=9bdbf7352a57513df57587766dc930e0243d5ebc;hpb=8fe789715bfbea0db5869a55e37252a0dee06ea7;p=jalview.git

diff --git a/src/jalview/analysis/AlignmentAnnotationUtils.java b/src/jalview/analysis/AlignmentAnnotationUtils.java
index 9bdbf73..e02aa9e 100644
--- a/src/jalview/analysis/AlignmentAnnotationUtils.java
+++ b/src/jalview/analysis/AlignmentAnnotationUtils.java
@@ -1,9 +1,5 @@
 package jalview.analysis;
 
-import jalview.datamodel.AlignmentAnnotation;
-import jalview.datamodel.SequenceI;
-import jalview.renderer.AnnotationRenderer;
-
 import java.util.ArrayList;
 import java.util.Arrays;
 import java.util.BitSet;
@@ -12,6 +8,10 @@ import java.util.HashMap;
 import java.util.List;
 import java.util.Map;
 
+import jalview.datamodel.AlignmentAnnotation;
+import jalview.datamodel.SequenceI;
+import jalview.renderer.AnnotationRenderer;
+
 public class AlignmentAnnotationUtils
 {
 
@@ -63,6 +63,14 @@ public class AlignmentAnnotationUtils
 
     for (AlignmentAnnotation aa : annotations)
     {
+      /*
+       * Ignore non-positional annotations, can't render these against an
+       * alignment
+       */
+      if (aa.annotations == null)
+      {
+        continue;
+      }
       if (forSequences != null
               && (aa.sequenceRef != null && forSequences
                       .contains(aa.sequenceRef)))