JAL-1013 - toy menu to switch between nucleotide and blosum 62 modes of calculation...

[jalview.git] / src / jalview / jbgui / GPCAPanel.java

diff --git a/src/jalview/jbgui/GPCAPanel.java b/src/jalview/jbgui/GPCAPanel.java
index 0b0a246..10f22bd 100755 (executable)
--- a/src/jalview/jbgui/GPCAPanel.java
+++ b/src/jalview/jbgui/GPCAPanel.java
@@ -1,6 +1,6 @@
 /*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
  * 
  * This file is part of Jalview.
  * 
@@ -19,6 +19,7 @@ package jalview.jbgui;
 
 import java.awt.*;
 import java.awt.event.*;
+
 import javax.swing.*;
 import javax.swing.event.*;
 
@@ -56,6 +57,10 @@ public class GPCAPanel extends JInternalFrame
 
   JMenuItem outputValues = new JMenuItem();
 
+  JMenuItem outputPoints = new JMenuItem();
+
+  JMenuItem outputProjPoints = new JMenuItem();
+
   protected JMenu viewMenu = new JMenu();
 
   protected JCheckBoxMenuItem showLabels = new JCheckBoxMenuItem();
@@ -66,6 +71,9 @@ public class GPCAPanel extends JInternalFrame
 
   protected JMenu associateViewsMenu = new JMenu();
 
+  protected JMenu calcSettings=new JMenu();
+  JMenuItem nuclSetting=new JMenuItem();
+  JMenuItem protSetting=new JMenuItem();
   public GPCAPanel()
   {
     try
@@ -148,6 +156,22 @@ public class GPCAPanel extends JInternalFrame
         outputValues_actionPerformed(e);
       }
     });
+    outputPoints.setText("Output points...");
+    outputPoints.addActionListener(new ActionListener()
+    {
+      public void actionPerformed(ActionEvent e)
+      {
+        outputPoints_actionPerformed(e);
+      }
+    });
+    outputProjPoints.setText("Output transformed points...");
+    outputProjPoints.addActionListener(new ActionListener()
+    {
+      public void actionPerformed(ActionEvent e)
+      {
+        outputProjPoints_actionPerformed(e);
+      }
+    });
     print.addActionListener(new ActionListener()
     {
       public void actionPerformed(ActionEvent e)
@@ -197,6 +221,30 @@ public class GPCAPanel extends JInternalFrame
       }
     });
     associateViewsMenu.setText("Associate Nodes With");
+    calcSettings.setText("Change Parameters");
+    nuclSetting.setText("Nucleotide matrix");
+    protSetting.setText("Protein matrix");
+    nuclSetting.addActionListener(new ActionListener()
+    {
+      
+      @Override
+      public void actionPerformed(ActionEvent arg0)
+      {
+        nuclSetting_actionPerfomed(arg0);
+      }
+    });
+    protSetting.addActionListener(new ActionListener()
+    {
+      
+      @Override
+      public void actionPerformed(ActionEvent arg0)
+      {
+        protSetting_actionPerfomed(arg0);
+      }
+    });calcSettings.add(nuclSetting);
+    calcSettings.add(protSetting);
+    
+    
     this.getContentPane().add(jPanel2, BorderLayout.SOUTH);
     jPanel2.add(jLabel1, null);
     jPanel2.add(xCombobox, null);
@@ -206,10 +254,13 @@ public class GPCAPanel extends JInternalFrame
     jPanel2.add(zCombobox, null);
     jMenuBar1.add(fileMenu);
     jMenuBar1.add(viewMenu);
+    jMenuBar1.add(calcSettings);
     fileMenu.add(saveMenu);
     fileMenu.add(outputValues);
     fileMenu.add(print);
     fileMenu.add(originalSeqData);
+    fileMenu.add(outputPoints);
+    fileMenu.add(outputProjPoints);
     saveMenu.add(eps);
     saveMenu.add(png);
     viewMenu.add(showLabels);
@@ -217,6 +268,30 @@ public class GPCAPanel extends JInternalFrame
     viewMenu.add(associateViewsMenu);
   }
 
+  protected void protSetting_actionPerfomed(ActionEvent arg0)
+  {
+    // TODO Auto-generated method stub
+    
+  }
+
+  protected void nuclSetting_actionPerfomed(ActionEvent arg0)
+  {
+    // TODO Auto-generated method stub
+    
+  }
+
+  protected void outputPoints_actionPerformed(ActionEvent e)
+  {
+    // TODO Auto-generated method stub
+
+  }
+
+  protected void outputProjPoints_actionPerformed(ActionEvent e)
+  {
+    // TODO Auto-generated method stub
+
+  }
+
   protected void xCombobox_actionPerformed(ActionEvent e)
   {
   }