From 692329a18017d315e6b21f8049d846fc0bbacffe Mon Sep 17 00:00:00 2001
From: amwaterhouse <Andrew Waterhouse>
Date: Tue, 14 Dec 2004 17:35:27 +0000
Subject: [PATCH] Enable PID menuitem

---
 src/jalview/jbgui/GAlignFrame.java |   24 ++++++------------------
 1 file changed, 6 insertions(+), 18 deletions(-)

diff --git a/src/jalview/jbgui/GAlignFrame.java b/src/jalview/jbgui/GAlignFrame.java
index a4ec5cc..be879ee 100755
--- a/src/jalview/jbgui/GAlignFrame.java
+++ b/src/jalview/jbgui/GAlignFrame.java
@@ -61,7 +61,6 @@ public class GAlignFrame extends JInternalFrame
   protected JRadioButtonMenuItem strandColour = new JRadioButtonMenuItem();
   protected JRadioButtonMenuItem turnColour = new JRadioButtonMenuItem();
   protected JRadioButtonMenuItem buriedColour = new JRadioButtonMenuItem();
-  protected JRadioButtonMenuItem abovePIDColour = new JRadioButtonMenuItem();
   protected JRadioButtonMenuItem userDefinedColour = new JRadioButtonMenuItem();
   protected JRadioButtonMenuItem PIDColour = new JRadioButtonMenuItem();
   protected JRadioButtonMenuItem BLOSUM62Colour = new JRadioButtonMenuItem();
@@ -84,6 +83,7 @@ public class GAlignFrame extends JInternalFrame
   JMenuItem findMenuItem = new JMenuItem();
   JMenu searchMenu = new JMenu();
   protected JCheckBoxMenuItem modifyAlignmentMenuItem = new JCheckBoxMenuItem();
+  JCheckBoxMenuItem abovePIDThreshold = new JCheckBoxMenuItem();
   public GAlignFrame()
   {
     try
@@ -132,7 +132,6 @@ public class GAlignFrame extends JInternalFrame
     colours.add(strandColour);
     colours.add(turnColour);
     colours.add(buriedColour);
-    colours.add(abovePIDColour);
     colours.add(userDefinedColour);
     colours.add(PIDColour);
     colours.add(BLOSUM62Colour);
@@ -441,15 +440,6 @@ public class GAlignFrame extends JInternalFrame
         buriedColour_actionPerformed(e);
       }
     });
-    abovePIDColour.setEnabled(false);
-    abovePIDColour.setText("Above PID threshold only");
-    abovePIDColour.addActionListener(new java.awt.event.ActionListener()
-    {
-      public void actionPerformed(ActionEvent e)
-      {
-        abovePIDColour_actionPerformed(e);
-      }
-    });
     userDefinedColour.setText("User defined colours");
     userDefinedColour.addActionListener(new java.awt.event.ActionListener()
     {
@@ -458,7 +448,6 @@ public class GAlignFrame extends JInternalFrame
         userDefinedColour_actionPerformed(e);
       }
     });
-    PIDColour.setEnabled(false);
     PIDColour.setText("By PID");
     PIDColour.addActionListener(new java.awt.event.ActionListener()
     {
@@ -630,6 +619,8 @@ public class GAlignFrame extends JInternalFrame
         modifyAlignmentMenuItem_actionPerformed(e);
       }
     });
+    abovePIDThreshold.setEnabled(false);
+    abovePIDThreshold.setText("Above PID threshold");
     alignFrameMenuBar.add(fileMenu);
     alignFrameMenuBar.add(editMenu);
     alignFrameMenuBar.add(searchMenu);
@@ -683,11 +674,12 @@ public class GAlignFrame extends JInternalFrame
     colourMenu.add(turnColour);
     colourMenu.add(buriedColour);
     colourMenu.add(userDefinedColour);
-    colourMenu.addSeparator();
+     colourMenu.add(abovePIDThreshold);
+     colourMenu.addSeparator();
     colourMenu.add(conservationMenuItem);
     colourMenu.add(conservationColourIncMenuItem);
     colourMenu.addSeparator();
-    colourMenu.add(abovePIDColour);
+
     colourMenu.add(PIDColour);
     colourMenu.add(BLOSUM62Colour);
     colourMenu.addSeparator();
@@ -965,10 +957,6 @@ public class GAlignFrame extends JInternalFrame
  }
 
 
-  protected void abovePIDColour_actionPerformed(ActionEvent e)
-  {
-
-  }
 
 
   protected void userDefinedColour_actionPerformed(ActionEvent e)
-- 
1.7.10.2