fix for JAL-1478

diff --git a/src/jalview/io/AnnotationFile.java b/src/jalview/io/AnnotationFile.java
index 6f24361..5979a27 100755 (executable)
--- a/src/jalview/io/AnnotationFile.java
+++ b/src/jalview/io/AnnotationFile.java
@@ -791,6 +791,7 @@ public class AnnotationFile
         else if (token.equalsIgnoreCase("SEQUENCE_GROUP"))
         {
           addGroup(al, st);
+          modified=true;
           continue;
         }