X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fappletgui%2FAppletJmol.java;fp=src%2Fjalview%2Fappletgui%2FAppletJmol.java;h=3d1442d5ac1952ca7a536f8bd23f0f49a9d620a7;hb=0efc6021e63ff62bb2e275501586c1900561b303;hp=49219b936922964fd97d951f743b273fe12f43e4;hpb=771d1758a42abc6e3e330dd6c5117734acf0067f;p=jalview.git

diff --git a/src/jalview/appletgui/AppletJmol.java b/src/jalview/appletgui/AppletJmol.java
index 49219b9..3d1442d 100644
--- a/src/jalview/appletgui/AppletJmol.java
+++ b/src/jalview/appletgui/AppletJmol.java
@@ -134,7 +134,7 @@ public class AppletJmol extends EmbmenuFrame implements
 
   AlignmentPanel ap;
 
-  List<AlignmentPanel> _aps = new ArrayList<AlignmentPanel>(); // remove? never
+  List<AlignmentPanel> _aps = new ArrayList<>(); // remove? never
                                                                // added to
 
   String fileLoadingError;
@@ -213,7 +213,7 @@ public class AppletJmol extends EmbmenuFrame implements
     {
       reader = StructureSelectionManager
               .getStructureSelectionManager(ap.av.applet)
-              .setMapping(seq, chains, pdbentry.getFile(), protocol);
+              .setMapping(seq, chains, pdbentry.getFile(), protocol, null);
       // PROMPT USER HERE TO ADD TO NEW OR EXISTING VIEW?
       // FOR NOW, LETS JUST OPEN A NEW WINDOW
     }
@@ -394,7 +394,7 @@ public class AppletJmol extends EmbmenuFrame implements
 
   void centerViewer()
   {
-    Vector<String> toshow = new Vector<String>();
+    Vector<String> toshow = new Vector<>();
     for (int i = 0; i < chainMenu.getItemCount(); i++)
     {
       if (chainMenu.getItem(i) instanceof CheckboxMenuItem)