X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2FMCview%2FAppletPDBViewer.java;h=76ee4b021b81bf0779f071a21f06e979f2519e67;hb=ee198b3ca3687f18a2ee186f4e7c7330f4ea30f0;hp=d550326c02787bdfa16a4ba5a99917eacb67d3de;hpb=2f4f1d8fb6878271b64f327bc58c895f458137af;p=jalview.git

diff --git a/src/MCview/AppletPDBViewer.java b/src/MCview/AppletPDBViewer.java
index d550326c..76ee4b0 100644
--- a/src/MCview/AppletPDBViewer.java
+++ b/src/MCview/AppletPDBViewer.java
@@ -1,38 +1,58 @@
 /*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1)
- * Copyright (C) 2014 The Jalview Authors
+ * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
+ * Copyright (C) $$Year-Rel$$ The Jalview Authors
  * 
  * This file is part of Jalview.
  * 
  * Jalview is free software: you can redistribute it and/or
  * modify it under the terms of the GNU General Public License 
- * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ * as published by the Free Software Foundation, either version 3
+ * of the License, or (at your option) any later version.
  *  
  * Jalview is distributed in the hope that it will be useful, but 
  * WITHOUT ANY WARRANTY; without even the implied warranty 
  * of MERCHANTABILITY or FITNESS FOR A PARTICULAR 
  * PURPOSE.  See the GNU General Public License for more details.
  * 
- * You should have received a copy of the GNU General Public License along with Jalview.  If not, see <http://www.gnu.org/licenses/>.
+ * You should have received a copy of the GNU General Public License
+ * along with Jalview.  If not, see <http://www.gnu.org/licenses/>.
  * The Jalview Authors are detailed in the 'AUTHORS' file.
  */
 package MCview;
 
-import java.awt.*;
-import java.awt.event.*;
-
-import jalview.appletgui.*;
-import jalview.datamodel.*;
-import jalview.schemes.*;
+import jalview.appletgui.AlignmentPanel;
+import jalview.appletgui.EmbmenuFrame;
+import jalview.datamodel.PDBEntry;
+import jalview.datamodel.SequenceI;
+import jalview.io.DataSourceType;
+import jalview.schemes.BuriedColourScheme;
+import jalview.schemes.HelixColourScheme;
+import jalview.schemes.HydrophobicColourScheme;
+import jalview.schemes.StrandColourScheme;
+import jalview.schemes.TaylorColourScheme;
+import jalview.schemes.TurnColourScheme;
+import jalview.schemes.ZappoColourScheme;
 import jalview.util.MessageManager;
 
+import java.awt.BorderLayout;
+import java.awt.CheckboxGroup;
+import java.awt.CheckboxMenuItem;
+import java.awt.Frame;
+import java.awt.Menu;
+import java.awt.MenuBar;
+import java.awt.MenuItem;
+import java.awt.event.ActionEvent;
+import java.awt.event.ActionListener;
+import java.awt.event.ItemEvent;
+import java.awt.event.ItemListener;
+
 public class AppletPDBViewer extends EmbmenuFrame implements
         ActionListener, ItemListener
 {
   AppletPDBCanvas pdbcanvas;
 
   public AppletPDBViewer(PDBEntry pdbentry, SequenceI[] seq,
-          String[] chains, AlignmentPanel ap, String protocol)
+          String[] chains, AlignmentPanel ap, DataSourceType protocol)
   {
     try
     {
@@ -54,6 +74,7 @@ public class AppletPDBViewer extends EmbmenuFrame implements
 
   }
 
+  @Override
   public void actionPerformed(ActionEvent evt)
   {
     if (evt.getSource() == mapping)
@@ -62,8 +83,9 @@ public class AppletPDBViewer extends EmbmenuFrame implements
               false, null);
       Frame frame = new Frame();
       frame.add(cap);
-      jalview.bin.JalviewLite.addFrame(frame, MessageManager.getString("label.pdb_sequence_mapping"),
-              500, 600);
+      jalview.bin.JalviewLite.addFrame(frame,
+              MessageManager.getString("label.pdb_sequence_mapping"), 500,
+              600);
       cap.setText(pdbcanvas.mappingDetails.toString());
 
     }
@@ -123,6 +145,7 @@ public class AppletPDBViewer extends EmbmenuFrame implements
 
   }
 
+  @Override
   public void itemStateChanged(ItemEvent evt)
   {
     if (evt.getSource() == allchains)
@@ -168,7 +191,8 @@ public class AppletPDBViewer extends EmbmenuFrame implements
     chain.addActionListener(this);
     seqButton.setLabel(MessageManager.getString("action.by_sequence"));
     seqButton.addActionListener(this);
-    allchains.setLabel(MessageManager.getString("label.all_chains_visible"));
+    allchains
+            .setLabel(MessageManager.getString("label.all_chains_visible"));
     allchains.addItemListener(this);
     viewMenu.setLabel(MessageManager.getString("action.view"));
     zappo.setLabel(MessageManager.getString("label.zappo"));