X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fgui%2FAssociatePdbFileWithSeq.java;h=e2637a95cf603d9eccf2e0377beb1bc6d36fa31e;hb=0eb7bbd7c1c29eae73f872693ae033003be1031c;hp=d53ddc8802471a3614e15190c136ebef333a970c;hpb=ad15cff29620f960119f80176f1fd443da9f6763;p=jalview.git

diff --git a/src/jalview/gui/AssociatePdbFileWithSeq.java b/src/jalview/gui/AssociatePdbFileWithSeq.java
index d53ddc8..e2637a9 100644
--- a/src/jalview/gui/AssociatePdbFileWithSeq.java
+++ b/src/jalview/gui/AssociatePdbFileWithSeq.java
@@ -23,6 +23,7 @@ package jalview.gui;
 import jalview.api.StructureSelectionManagerProvider;
 import jalview.datamodel.PDBEntry;
 import jalview.datamodel.SequenceI;
+import jalview.io.StructureFile;
 import jalview.structure.StructureSelectionManager;
 import jalview.util.MessageManager;
 
@@ -48,16 +49,16 @@ public class AssociatePdbFileWithSeq
           StructureSelectionManagerProvider ssmp)
   {
     PDBEntry entry = new PDBEntry();
-    MCview.PDBfile pdbfile = null;
+    StructureFile pdbfile = null;
     pdbfile = StructureSelectionManager.getStructureSelectionManager(ssmp)
-            .setMapping(false, new SequenceI[]
-            { sequence }, null, choice, protocol);
+            .setMapping(false, new SequenceI[] { sequence }, null, choice,
+                    protocol);
     if (pdbfile == null)
     {
       // stacktrace already thrown so just return
       return null;
     }
-    if (pdbfile.id == null)
+    if (pdbfile.getId() == null)
     {
       String reply = null;
 
@@ -78,8 +79,9 @@ public class AssociatePdbFileWithSeq
     }
     else
     {
-      entry.setId(pdbfile.id);
+      entry.setId(pdbfile.getId());
     }
+    entry.setType(PDBEntry.Type.FILE);
 
     if (pdbfile != null)
     {