X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fext%2Fensembl%2FEnsemblCds.java;fp=src%2Fjalview%2Fext%2Fensembl%2FEnsemblCds.java;h=ec5780fb05c92867cff5819c938a0ab8e1e58ab9;hb=3cccac4697c371b1964236e17b532fd3d180e1c4;hp=22c0a067013615c027a6c6faf6194c76a52ad3cc;hpb=949fed115506ff00c221669e096546f9c39a6ace;p=jalview.git

diff --git a/src/jalview/ext/ensembl/EnsemblCds.java b/src/jalview/ext/ensembl/EnsemblCds.java
index 22c0a06..ec5780f 100644
--- a/src/jalview/ext/ensembl/EnsemblCds.java
+++ b/src/jalview/ext/ensembl/EnsemblCds.java
@@ -2,7 +2,8 @@ package jalview.ext.ensembl;
 
 import jalview.datamodel.SequenceFeature;
 import jalview.datamodel.SequenceI;
-import jalview.io.gff.SequenceOntology;
+import jalview.io.gff.SequenceOntologyFactory;
+import jalview.io.gff.SequenceOntologyI;
 
 import java.util.List;
 
@@ -51,8 +52,8 @@ public class EnsemblCds extends EnsemblSeqProxy
   @Override
   protected boolean retainFeature(SequenceFeature sf, String accessionId)
   {
-    if (SequenceOntology.getInstance().isA(sf.getType(),
-            SequenceOntology.CDS))
+    if (SequenceOntologyFactory.getInstance().isA(sf.getType(),
+            SequenceOntologyI.CDS))
     {
       return false;
     }
@@ -67,8 +68,8 @@ public class EnsemblCds extends EnsemblSeqProxy
   @Override
   protected boolean identifiesSequence(SequenceFeature sf, String accId)
   {
-    if (SequenceOntology.getInstance().isA(sf.getType(),
-            SequenceOntology.CDS))
+    if (SequenceOntologyFactory.getInstance().isA(sf.getType(),
+            SequenceOntologyI.CDS))
     {
       String parentFeature = (String) sf.getValue(PARENT);
       if (("transcript:" + accId).equals(parentFeature))