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[jalview.git] / src / jalview / appletgui / TreePanel.java

diff --git a/src/jalview/appletgui/TreePanel.java b/src/jalview/appletgui/TreePanel.java
index 3e26a4b..6d17918 100755 (executable)
--- a/src/jalview/appletgui/TreePanel.java
+++ b/src/jalview/appletgui/TreePanel.java
@@ -22,23 +22,22 @@ package jalview.appletgui;
 import java.util.*;\r
 \r
 import java.awt.event.*;\r
+import java.awt.*;\r
 \r
 import jalview.analysis.*;\r
 import jalview.datamodel.*;\r
 import jalview.io.*;\r
-import jalview.jbappletgui.*;\r
 \r
-public class TreePanel\r
-    extends GTreePanel\r
+public class TreePanel extends Frame implements ActionListener, ItemListener\r
 {\r
   SequenceI[] seq;\r
   String type;\r
   String pwtype;\r
-  AlignmentPanel ap;\r
   int start;\r
   int end;\r
   TreeCanvas treeCanvas;\r
   NJTree tree;\r
+  AlignViewport av;\r
 \r
   public NJTree getTree()\r
   {\r
@@ -58,7 +57,16 @@ public class TreePanel
   public TreePanel(AlignViewport av, Vector seqVector, String type,\r
                    String pwtype, int s, int e)\r
   {\r
-    super();\r
+    try\r
+    {\r
+      jbInit();\r
+      this.setMenuBar(jMenuBar1);\r
+    }\r
+    catch (Exception ex)\r
+    {\r
+      ex.printStackTrace();\r
+    }\r
+\r
     initTreePanel(av, seqVector, type, pwtype, s, e, null);\r
   }\r
 \r
@@ -74,7 +82,16 @@ public class TreePanel
   public TreePanel(AlignViewport av, Vector seqVector, NewickFile newtree,\r
                    String type, String pwtype)\r
   {\r
-    super();\r
+    try\r
+    {\r
+      jbInit();\r
+      this.setMenuBar(jMenuBar1);\r
+    }\r
+    catch (Exception e)\r
+    {\r
+      e.printStackTrace();\r
+    }\r
+\r
     initTreePanel(av, seqVector, type, pwtype, 0, seqVector.size(), newtree);\r
   }\r
 \r
@@ -83,6 +100,7 @@ public class TreePanel
                      String pwtype, int s, int e, NewickFile newTree)\r
   {\r
 \r
+    this.av = av;\r
     this.type = type;\r
     this.pwtype = pwtype;\r
 \r
@@ -133,25 +151,42 @@ public class TreePanel
 \r
       treeCanvas.repaint();\r
 \r
+      av.setCurrentTree(tree);\r
+\r
     }\r
   }\r
 \r
-  public String getText(String format)\r
+  public void actionPerformed(ActionEvent evt)\r
   {\r
-    return null;\r
+    if(evt.getSource()==newickOutput)\r
+      newickOutput_actionPerformed();\r
+    else if(evt.getSource()==fontSize)\r
+      fontSize_actionPerformed();\r
   }\r
 \r
-  protected void fitToWindow_actionPerformed(ActionEvent e)\r
+  public void itemStateChanged(ItemEvent evt)\r
   {\r
-    treeCanvas.fitToWindow = fitToWindow.getState();\r
+    if(evt.getSource()==fitToWindow)\r
+      treeCanvas.fitToWindow = fitToWindow.getState();\r
+\r
+    else if(evt.getSource()==distanceMenu)\r
+      treeCanvas.setShowDistances(distanceMenu.getState());\r
+\r
+    else if(evt.getSource()==bootstrapMenu)\r
+      treeCanvas.setShowBootstrap(bootstrapMenu.getState());\r
+\r
+    else if(evt.getSource()==placeholdersMenu)\r
+      treeCanvas.setMarkPlaceholders(placeholdersMenu.getState());\r
+\r
     treeCanvas.repaint();\r
   }\r
 \r
-  public void newickOutput_actionPerformed(ActionEvent actionEvent)\r
+\r
+  public void newickOutput_actionPerformed()\r
   {\r
     jalview.io.NewickFile fout = new jalview.io.NewickFile(tree.getTopNode());\r
     String output = fout.print(false, true);\r
-    CutAndPasteTransfer cap = new CutAndPasteTransfer(false, ap.alignFrame.applet);\r
+    CutAndPasteTransfer cap = new CutAndPasteTransfer(false, null);\r
     cap.setText(output);\r
     java.awt.Frame frame = new java.awt.Frame();\r
     frame.add(cap);\r
@@ -169,7 +204,7 @@ public class TreePanel
     treeCanvas.repaint();\r
   }\r
 \r
-  protected void fontSize_actionPerformed(ActionEvent e)\r
+  protected void fontSize_actionPerformed()\r
   {\r
      if( treeCanvas==null )\r
         return;\r
@@ -177,19 +212,48 @@ public class TreePanel
     new FontChooser(this);\r
   }\r
 \r
-  protected void distanceMenu_actionPerformed(ActionEvent e)\r
-  {\r
-    treeCanvas.setShowDistances(distanceMenu.getState());\r
-  }\r
 \r
-  protected void bootstrapMenu_actionPerformed(ActionEvent e)\r
-  {\r
-    treeCanvas.setShowBootstrap(bootstrapMenu.getState());\r
-  }\r
-\r
-  protected void placeholdersMenu_actionPerformed(ActionEvent e)\r
-  {\r
-    treeCanvas.setMarkPlaceholders(placeholdersMenu.getState());\r
+  BorderLayout borderLayout1 = new BorderLayout();\r
+  protected ScrollPane scrollPane = new ScrollPane();\r
+  MenuBar jMenuBar1 = new MenuBar();\r
+  Menu jMenu2 = new Menu();\r
+  protected MenuItem fontSize = new MenuItem();\r
+  protected CheckboxMenuItem bootstrapMenu = new CheckboxMenuItem();\r
+  protected CheckboxMenuItem distanceMenu = new CheckboxMenuItem();\r
+  protected CheckboxMenuItem placeholdersMenu = new CheckboxMenuItem();\r
+  protected CheckboxMenuItem fitToWindow = new CheckboxMenuItem();\r
+  Menu fileMenu = new Menu();\r
+  MenuItem newickOutput = new MenuItem();\r
+\r
+  private void jbInit() throws Exception {\r
+      setLayout(borderLayout1);\r
+      this.setBackground(Color.white);\r
+      this.setFont(new java.awt.Font("Verdana", 0, 12));\r
+      jMenu2.setLabel("View");\r
+      fontSize.setLabel("Font...");\r
+      fontSize.addActionListener(this);\r
+      bootstrapMenu.setLabel("Show Bootstrap Values");\r
+      bootstrapMenu.addItemListener(this);\r
+      distanceMenu.setLabel("Show Distances");\r
+      distanceMenu.addItemListener(this);\r
+      placeholdersMenu.setLabel("Mark Unassociated Leaves");\r
+      placeholdersMenu.addItemListener(this);\r
+      fitToWindow.setState(true);\r
+      fitToWindow.setLabel("Fit To Window");\r
+      fitToWindow.addItemListener(this);\r
+      fileMenu.setLabel("File");\r
+      newickOutput.setLabel("Newick Format");\r
+      newickOutput.addActionListener(this);\r
+\r
+    add(scrollPane, BorderLayout.CENTER);\r
+      jMenuBar1.add(fileMenu);\r
+      jMenuBar1.add(jMenu2);\r
+      jMenu2.add(fitToWindow);\r
+      jMenu2.add(fontSize);\r
+      jMenu2.add(distanceMenu);\r
+      jMenu2.add(bootstrapMenu);\r
+      jMenu2.add(placeholdersMenu);\r
+    fileMenu.add(newickOutput);\r
   }\r
 \r
 }\r