Added clustalW 'realignment' (primitive)

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

diff --git a/src/jalview/jbgui/GTreePanel.java b/src/jalview/jbgui/GTreePanel.java
index 27b5c5c..7fd33f0 100755 (executable)
--- a/src/jalview/jbgui/GTreePanel.java
+++ b/src/jalview/jbgui/GTreePanel.java
@@ -17,9 +17,11 @@ public class GTreePanel extends JInternalFrame
   protected JCheckBoxMenuItem bootstrapMenu = new JCheckBoxMenuItem();\r
   protected JCheckBoxMenuItem distanceMenu = new JCheckBoxMenuItem();\r
   protected JCheckBoxMenuItem fitToWindow = new JCheckBoxMenuItem();\r
+  protected JCheckBoxMenuItem placeholdersMenu = new JCheckBoxMenuItem();\r
   JMenuItem pngTree = new JMenuItem();\r
   JMenuItem epsTree = new JMenuItem();\r
   JMenu saveAsMenu = new JMenu();\r
+  JMenuItem textbox = new JMenuItem();\r
 \r
   public GTreePanel()\r
   {\r
@@ -66,7 +68,7 @@ public class GTreePanel extends JInternalFrame
         fontSize_actionPerformed(e);\r
       }\r
     });\r
-    bootstrapMenu.setText("Show Bootstrap values");\r
+    bootstrapMenu.setText("Show Bootstrap Values");\r
     bootstrapMenu.addActionListener(new java.awt.event.ActionListener()\r
     {\r
       public void actionPerformed(ActionEvent e)\r
@@ -83,7 +85,7 @@ public class GTreePanel extends JInternalFrame
       }\r
     });\r
     fitToWindow.setSelected(true);\r
-    fitToWindow.setText("Fit to window");\r
+    fitToWindow.setText("Fit To Window");\r
     fitToWindow.addActionListener(new java.awt.event.ActionListener()\r
     {\r
       public void actionPerformed(ActionEvent e)\r
@@ -108,15 +110,35 @@ public class GTreePanel extends JInternalFrame
       }\r
     });\r
     saveAsMenu.setText("Save as");\r
+    placeholdersMenu.setToolTipText(\r
+        "Marks leaves of tree not associated with a sequence");\r
+    placeholdersMenu.setText("Mark Unlinked Leaves");\r
+    placeholdersMenu.addActionListener(new ActionListener()\r
+    {\r
+      public void actionPerformed(ActionEvent e)\r
+      {\r
+        placeholdersMenu_actionPerformed(e);\r
+      }\r
+    });\r
+    textbox.setText("Output to Textbox...");\r
+    textbox.addActionListener(new ActionListener()\r
+    {\r
+      public void actionPerformed(ActionEvent e)\r
+      {\r
+        textbox_actionPerformed(e);\r
+      }\r
+    });\r
     this.getContentPane().add(scrollPane, BorderLayout.CENTER);\r
     jMenuBar1.add(jMenu1);\r
     jMenuBar1.add(jMenu2);\r
     jMenu1.add(saveAsMenu);\r
+    jMenu1.add(textbox);\r
     jMenu1.add(printMenu);\r
     jMenu2.add(fitToWindow);\r
     jMenu2.add(fontSize);\r
     jMenu2.add(distanceMenu);\r
     jMenu2.add(bootstrapMenu);\r
+    jMenu2.add(placeholdersMenu);\r
     saveAsMenu.add(saveAsNewick);\r
     saveAsMenu.add(epsTree);\r
     saveAsMenu.add(pngTree);\r
@@ -158,7 +180,17 @@ public class GTreePanel extends JInternalFrame
 \r
   }\r
 \r
-  public void saveAsNewick_actionPerformed(ActionEvent e)\r
+  protected void saveAsNewick_actionPerformed(ActionEvent e)\r
+  {\r
+\r
+  }\r
+\r
+  protected void placeholdersMenu_actionPerformed(ActionEvent e)\r
+  {\r
+\r
+  }\r
+\r
+  public void textbox_actionPerformed(ActionEvent e)\r
   {\r
 \r
   }\r