From: Jim Procter <jprocter@issues.jalview.org>
Date: Mon, 3 Oct 2016 08:21:48 +0000 (+0100)
Subject: JAL-2210 use addDBRef to ensure normalisation (just in case the uniprot record is... 
X-Git-Tag: Release_2_10_0~20^2~6
X-Git-Url: http://source.jalview.org/gitweb/?p=jalview.git;a=commitdiff_plain;h=ef267f8a326a60585a6c36e864d68a1a19617d2e

JAL-2210 use addDBRef to ensure normalisation (just in case the uniprot record is not normalised!)
---

diff --git a/src/jalview/ws/dbsources/Uniprot.java b/src/jalview/ws/dbsources/Uniprot.java
index 4c53ef9..0c2af3b 100644
--- a/src/jalview/ws/dbsources/Uniprot.java
+++ b/src/jalview/ws/dbsources/Uniprot.java
@@ -267,12 +267,10 @@ public class Uniprot extends DbSourceProxyImpl
         sequence.addSequenceFeature(sf);
       }
     }
-    // we use setDBRefs to assign refs quickly.
-    sequence.setDBRefs(dbRefs.toArray(new DBRefEntry[0]));
-    // need to use ensurePrimaries to reify any refs that should become primary
-    // refs
-    DBRefUtils.ensurePrimaries(sequence); // promote any direct refs to primary
-                                          // source dbs
+    for (DBRefEntry dbr : dbRefs)
+    {
+      sequence.addDBRef(dbr);
+    }
     return sequence;
   }