JAL-1645 licencing for new files in src

[jalview.git] / src / jalview / gui / SplitFrame.java

diff --git a/src/jalview/gui/SplitFrame.java b/src/jalview/gui/SplitFrame.java
index bfb3719..b790d62 100644 (file)
--- a/src/jalview/gui/SplitFrame.java
+++ b/src/jalview/gui/SplitFrame.java
@@ -1,5 +1,33 @@
+/*
+ * 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.
+ *  
+ * 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/>.
+ * The Jalview Authors are detailed in the 'AUTHORS' file.
+ */
 package jalview.gui;
 
+import jalview.api.SplitContainerI;
+import jalview.api.ViewStyleI;
+import jalview.datamodel.AlignmentI;
+import jalview.jbgui.GAlignFrame;
+import jalview.jbgui.GSplitFrame;
+import jalview.structure.StructureSelectionManager;
+import jalview.viewmodel.AlignmentViewport;
+
 import java.awt.Component;
 import java.awt.Toolkit;
 import java.awt.event.ActionEvent;
@@ -18,14 +46,6 @@ import javax.swing.KeyStroke;
 import javax.swing.event.InternalFrameAdapter;
 import javax.swing.event.InternalFrameEvent;
 
-import jalview.api.SplitContainerI;
-import jalview.api.ViewStyleI;
-import jalview.datamodel.AlignmentI;
-import jalview.jbgui.GAlignFrame;
-import jalview.jbgui.GSplitFrame;
-import jalview.structure.StructureSelectionManager;
-import jalview.viewmodel.AlignmentViewport;
-
 /**
  * An internal frame on the desktop that hosts a horizontally split view of
  * linked DNA and Protein alignments. Additional views can be created in linked
@@ -65,14 +85,14 @@ public class SplitFrame extends GSplitFrame implements SplitContainerI
     // about 50 pixels for the SplitFrame's title bar etc
     int height = ((AlignFrame) getTopFrame()).getHeight()
             + ((AlignFrame) getBottomFrame()).getHeight() + 50;
-    height = Math.min(height, Desktop.instance.getHeight() - 20);
-    // setSize(AlignFrame.DEFAULT_WIDTH, Desktop.instance.getHeight() - 20);
+    // about 65 pixels for Desktop decorators on Windows
+    height = Math.min(height, Desktop.instance.getHeight() - 65);
     setSize(width, height);
 
     adjustLayout();
 
     addCloseFrameListener();
-    
+
     addKeyListener();
 
     addKeyBindings();
@@ -144,16 +164,7 @@ public class SplitFrame extends GSplitFrame implements SplitContainerI
       @Override
       public void internalFrameClosed(InternalFrameEvent evt)
       {
-        if (getTopFrame() instanceof AlignFrame)
-        {
-          ((AlignFrame) getTopFrame())
-                  .closeMenuItem_actionPerformed(true);
-        }
-        if (getBottomFrame() instanceof AlignFrame)
-        {
-          ((AlignFrame) getBottomFrame())
-                  .closeMenuItem_actionPerformed(true);
-        }
+        close();
       };
     });
   }
@@ -164,7 +175,8 @@ public class SplitFrame extends GSplitFrame implements SplitContainerI
    */
   protected void addKeyListener()
   {
-    addKeyListener(new KeyAdapter() {
+    addKeyListener(new KeyAdapter()
+    {
 
       @Override
       public void keyPressed(KeyEvent e)
@@ -198,7 +210,7 @@ public class SplitFrame extends GSplitFrame implements SplitContainerI
           }
         }
       }
-      
+
     });
   }
 
@@ -392,6 +404,8 @@ public class SplitFrame extends GSplitFrame implements SplitContainerI
   {
     AlignFrame topFrame = (AlignFrame) getTopFrame();
     AlignFrame bottomFrame = (AlignFrame) getBottomFrame();
+    final boolean scaleProteinAsCdna = topFrame.viewport
+            .isScaleProteinAsCdna();
 
     AlignmentPanel newTopPanel = topFrame.newView(null, true);
     AlignmentPanel newBottomPanel = bottomFrame.newView(null, true);
@@ -410,6 +424,19 @@ public class SplitFrame extends GSplitFrame implements SplitContainerI
     newBottomPanel.av.viewName = newTopPanel.av.viewName;
     newTopPanel.av.setCodingComplement(newBottomPanel.av);
 
+    /*
+     * These lines can be removed once scaleProteinAsCdna is added to element
+     * Viewport in jalview.xsd, as Jalview2XML.copyAlignPanel will then take
+     * care of it
+     */
+    newTopPanel.av.setScaleProteinAsCdna(scaleProteinAsCdna);
+    newBottomPanel.av.setScaleProteinAsCdna(scaleProteinAsCdna);
+
+    /*
+     * Line up id labels etc
+     */
+    adjustLayout();
+
     final StructureSelectionManager ssm = StructureSelectionManager
             .getStructureSelectionManager(Desktop.instance);
     ssm.addCommandListener(newTopPanel.av);
@@ -632,4 +659,3 @@ public class SplitFrame extends GSplitFrame implements SplitContainerI
     overrideKeyBinding(key_cmdF, action);
   }
 }
-