X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fdatamodel%2Fxdb%2Fembl%2FEmblEntry.java;h=3ba36cab331c0cb123c72ade174387f27d66ca26;hb=3f12f4932226512316ec113e600695150431fd0a;hp=8688720a05171acc634f3c6a93b82d072f7e3b46;hpb=af2dbf10bbcc54d9b9e4d398e9283b3c4a758e06;p=jalview.git

diff --git a/src/jalview/datamodel/xdb/embl/EmblEntry.java b/src/jalview/datamodel/xdb/embl/EmblEntry.java
index 8688720..3ba36ca 100644
--- a/src/jalview/datamodel/xdb/embl/EmblEntry.java
+++ b/src/jalview/datamodel/xdb/embl/EmblEntry.java
@@ -49,8 +49,7 @@ import java.util.regex.Pattern;
  * Castor binding file
  * 
  * For example:
- * http://www.ebi.ac.uk/Tools/dbfetch/dbfetch?db=ena_sequence&id=J03321
- * &format=emblxml
+ * http://www.ebi.ac.uk/ena/data/view/J03321&display=xml
  * 
  * @see embl_mapping.xml
  */
@@ -188,6 +187,10 @@ public class EmblEntry
   public SequenceI getSequence(String sourceDb, List<SequenceI> peptides)
   {
     SequenceI dna = makeSequence(sourceDb);
+    if (dna == null)
+    {
+      return null;
+    }
     dna.setDescription(description);
     DBRefEntry retrievedref = new DBRefEntry(sourceDb,
             getSequenceVersion(), accession);
@@ -239,6 +242,12 @@ public class EmblEntry
    */
   SequenceI makeSequence(String sourceDb)
   {
+    if (sequence == null)
+    {
+      System.err.println("No sequence was returned for ENA accession "
+              + accession);
+      return null;
+    }
     SequenceI dna = new Sequence(sourceDb + "|" + accession,
             sequence.getSequence());
     return dna;