From e1588f58919f3c8779c64737cef793a8e3e5f658 Mon Sep 17 00:00:00 2001
From: amwaterhouse <Andrew Waterhouse>
Date: Mon, 23 Apr 2007 11:47:10 +0000
Subject: [PATCH] Check displayChar is not null

---
 src/jalview/io/AnnotationFile.java |    4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/src/jalview/io/AnnotationFile.java b/src/jalview/io/AnnotationFile.java
index 2ce076a..12c128a 100755
--- a/src/jalview/io/AnnotationFile.java
+++ b/src/jalview/io/AnnotationFile.java
@@ -140,7 +140,8 @@ public class AnnotationFile
               text.append(comma + row.annotations[j].secondaryStructure);
               comma = ",";
             }
-            if (row.annotations[j].displayCharacter.length() > 0
+            if (row.annotations[j].displayCharacter!=null
+                && row.annotations[j].displayCharacter.length() > 0
                 && !row.annotations[j].displayCharacter.equals(" "))
             {
               text.append(comma + row.annotations[j].displayCharacter);
@@ -432,7 +433,6 @@ public class AnnotationFile
 
         if (refSeq != null)
         {
-          System.out.println(refSeq.getName()+" "+refSeqIndex);
           annotation.createSequenceMapping(refSeq, refSeqIndex, false);
           annotation.adjustForAlignment();
           refSeq.addAlignmentAnnotation(annotation);
-- 
1.7.10.2