Annotations must createSequenceMapping if seqRef not null

[jalview.git] / src / jalview / ws / JPredClient.java

diff --git a/src/jalview/ws/JPredClient.java b/src/jalview/ws/JPredClient.java
index 8a4368c..2d49ac6 100755 (executable)
--- a/src/jalview/ws/JPredClient.java
+++ b/src/jalview/ws/JPredClient.java
@@ -515,7 +515,14 @@ public class JPredClient
                                               "JNet Output", annotations);\r
             }\r
 \r
-            al.addAnnotation(annot, seqRef);\r
+            if (seqRef != null)\r
+            {\r
+              annot.createSequenceMapping(seqRef, 0);\r
+              seqRef.addAlignmentAnnotation(annot);\r
+            }\r
+\r
+            al.addAnnotation(annot);\r
+\r
 \r
             if (noMsa)\r
             {\r