X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fdatamodel%2FAnnotation.java;h=f6919cd36058cbfdacf9503e3aee84ac2bf516de;hb=4b7d3640209c4434d569c746672cf9eed4250ace;hp=8de8eb25847d05284b17e8e442e83e070a8848bc;hpb=136c0793b90b72b928c4d77dc109dd5c644e00d3;p=jalview.git

diff --git a/src/jalview/datamodel/Annotation.java b/src/jalview/datamodel/Annotation.java
index 8de8eb2..f6919cd 100755
--- a/src/jalview/datamodel/Annotation.java
+++ b/src/jalview/datamodel/Annotation.java
@@ -51,7 +51,9 @@ public class Annotation
    */
   public char secondaryStructure = ' ';
 
-  /** Score for the position - used in histograms, line graphs and for shading */
+  /**
+   * Score for the position - used in histograms, line graphs and for shading
+   */
   public float value;
 
   /** Colour for position */
@@ -206,10 +208,13 @@ public class Annotation
   public boolean isWhitespace()
   {
     return ((value == 0f)
-            && ((description == null) || (description.trim()
-                    .length() == 0))
-            && ((displayCharacter == null) || (displayCharacter
-                    .trim().length() == 0))
-            && (secondaryStructure == '\0' || (secondaryStructure == ' ')) && colour == null);
+            && ((description == null) || (description.trim().length() == 0))
+            && ((displayCharacter == null)
+                    || (displayCharacter.trim().length() == 0)
+                    || (displayCharacter.equals(" ."))) // RNA Stockholm blank
+                                                        // displayCharacter can
+                                                        // end up like this
+            && (secondaryStructure == '\0' || (secondaryStructure == ' '))
+            && colour == null);
   }
 }