X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fio%2Fvamsas%2FSequencemapping.java;h=160f5e27c5b3947fd58f75f7f64997a20a97a70d;hb=00918171094ad58563bd0b82e18ecf19537ba132;hp=d23b264130345dc0f889f7dea45f1c9c3d1cb088;hpb=bd817b546aad8c7456fd5682a890eb79faeb5deb;p=jalview.git

diff --git a/src/jalview/io/vamsas/Sequencemapping.java b/src/jalview/io/vamsas/Sequencemapping.java
index d23b264..160f5e2 100644
--- a/src/jalview/io/vamsas/Sequencemapping.java
+++ b/src/jalview/io/vamsas/Sequencemapping.java
@@ -364,7 +364,8 @@ public class Sequencemapping extends Rangetype
     }
     bindjvvobj(mapping, sequenceMapping);
     jalview.structure.StructureSelectionManager
-            .getStructureSelectionManager(Desktop.instance).registerMapping(acf);
+            .getStructureSelectionManager(Desktop.instance)
+            .registerMapping(acf);
     // Try to link up any conjugate database references in the two sequences
     // matchConjugateDBRefs(from, to, mapping);
     // Try to propagate any dbrefs across this mapping.
@@ -385,7 +386,7 @@ public class Sequencemapping extends Rangetype
   private void matchConjugateDBRefs(SequenceI from, SequenceI to,
           jalview.util.MapList smap)
   {
-    if (from.getDBRef() == null && to.getDBRef() == null)
+    if (from.getDBRefs() == null && to.getDBRefs() == null)
     {
       if (jalview.bin.Cache.log.isDebugEnabled())
       {
@@ -399,11 +400,11 @@ public class Sequencemapping extends Rangetype
       jalview.bin.Cache.log.debug("Matching conjugate refs for "
               + from.getName() + " and " + to.getName());
     }
-    jalview.datamodel.DBRefEntry[] fdb = from.getDBRef();
+    jalview.datamodel.DBRefEntry[] fdb = from.getDBRefs();
     jalview.datamodel.DBRefEntry[] tdb = new jalview.datamodel.DBRefEntry[to
-            .getDBRef().length];
-    int tdblen = to.getDBRef().length;
-    System.arraycopy(to.getDBRef(), 0, tdb, 0, tdblen);
+            .getDBRefs().length];
+    int tdblen = to.getDBRefs().length;
+    System.arraycopy(to.getDBRefs(), 0, tdb, 0, tdblen);
     Vector matched = new Vector();
     jalview.util.MapList smapI = smap.getInverse();
     for (int f = 0; f < fdb.length; f++)