X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fio%2FVamsasAppDatastore.java;h=1964c2f8f62b760f283875970ae37c8e344ee4b1;hb=cd5b2de469fb4c09242955cb4b74279e2da348d6;hp=82e9fbabad07e34b57dc342c0a3d5e67cf1245be;hpb=8edb7ea4228bb1c112dbaa4743af9f55755557a4;p=jalview.git

diff --git a/src/jalview/io/VamsasAppDatastore.java b/src/jalview/io/VamsasAppDatastore.java
index 82e9fba..1964c2f 100644
--- a/src/jalview/io/VamsasAppDatastore.java
+++ b/src/jalview/io/VamsasAppDatastore.java
@@ -351,9 +351,9 @@ public class VamsasAppDatastore
             }
           }
         }
-
-        if (sq.getDBRef() != null)
+        if (sq.getDatasetSequence()==null && sq.getDBRef() != null)
         {
+          // only sync database references for dataset sequences
           DBRefEntry[] entries = sq.getDBRef();
           jalview.datamodel.DBRefEntry dbentry;
           for (int db = 0; db < entries.length; db++)
@@ -628,7 +628,10 @@ public class VamsasAppDatastore
                 // of
                 // utf8
                 // translation
-                ae.addValue(aa[i].annotations[a].value);
+                if (an.isGraph())
+                {
+                  ae.addValue(aa[i].annotations[a].value);
+                }
                 ae.setPosition(a + 1);
                 if (aa[i].annotations[a].secondaryStructure != ' ')
                 {