removed Iterator usage.
[jalview.git] / src / jalview / jbgui / GDesktop.java
index fea3c5c..722a408 100755 (executable)
-/*
-* Jalview - A Sequence Alignment Editor and Viewer
-* Copyright (C) 2006 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle
-*
-* This program 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 2
-* of the License, or (at your option) any later version.
-*
-* This program 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 this program; if not, write to the Free Software
-* Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA  02110-1301, USA
-*/
-package jalview.jbgui;
-
-import java.awt.*;
-import java.awt.event.*;
-
-import javax.swing.*;
-
-
-/**
- * DOCUMENT ME!
- *
- * @author $author$
- * @version $Revision$
- */
-public class GDesktop extends JFrame
-{
-    protected static JMenu windowMenu = new JMenu();
-    JMenuBar DesktopMenubar = new JMenuBar();
-    JMenu FileMenu = new JMenu();
-    JMenu HelpMenu = new JMenu();
-    protected JMenu VamsasMenu = new JMenu();
-    JMenuItem inputLocalFileMenuItem = new JMenuItem();
-    JMenuItem inputURLMenuItem = new JMenuItem();
-    JMenuItem inputTextboxMenuItem = new JMenuItem();
-    JMenuItem quit = new JMenuItem();
-    JMenuItem aboutMenuItem = new JMenuItem();
-    JMenuItem documentationMenuItem = new JMenuItem();
-    FlowLayout flowLayout1 = new FlowLayout();
-    JMenu toolsMenu = new JMenu();
-    JMenuItem preferences = new JMenuItem();
-    JMenuItem saveState = new JMenuItem();
-    JMenuItem loadState = new JMenuItem();
-    JMenu jMenu1 = new JMenu();
-  protected JMenuItem vamsasLoad = new JMenuItem();
-  JMenuItem inputSequence = new JMenuItem();
-  protected JMenuItem vamsasStop = new JMenuItem();
-
-  /**
-     * Creates a new GDesktop object.
-     */
-    public GDesktop()
-    {
-        try
-        {
-            jbInit();
-            this.setJMenuBar(DesktopMenubar);
-        }
-        catch (Exception e)
-        {
-            e.printStackTrace();
-        }
-    }
-
-    /**
-     * DOCUMENT ME!
-     *
-     * @throws Exception DOCUMENT ME!
-     */
-    private void jbInit() throws Exception
-    {
-        FileMenu.setMnemonic('F');
-        FileMenu.setText("File");
-        HelpMenu.setText("Help");
-        VamsasMenu.setText("Vamsas");
-        VamsasMenu.setMnemonic('V');
-        VamsasMenu.setToolTipText("Share data with other vamsas applications.");
-        inputLocalFileMenuItem.setMnemonic('L');
-        inputLocalFileMenuItem.setText("from File");
-        inputLocalFileMenuItem.addActionListener(new java.awt.event.ActionListener()
-            {
-                public void actionPerformed(ActionEvent e)
-                {
-                    inputLocalFileMenuItem_actionPerformed(null);
-                }
-            });
-        inputURLMenuItem.setMnemonic('U');
-        inputURLMenuItem.setText("from URL");
-        inputURLMenuItem.addActionListener(new java.awt.event.ActionListener()
-            {
-                public void actionPerformed(ActionEvent e)
-                {
-                    inputURLMenuItem_actionPerformed(null);
-                }
-            });
-        inputTextboxMenuItem.setMnemonic('C');
-        inputTextboxMenuItem.setText("from Textbox");
-        inputTextboxMenuItem.addActionListener(new java.awt.event.ActionListener()
-            {
-                public void actionPerformed(ActionEvent e)
-                {
-                    inputTextboxMenuItem_actionPerformed(null);
-                }
-            });
-        quit.setMnemonic('Q');
-        quit.setText("Quit");
-        quit.addActionListener(new java.awt.event.ActionListener()
-            {
-                public void actionPerformed(ActionEvent e)
-                {
-                    quit();
-                }
-            });
-        aboutMenuItem.setText("About");
-        aboutMenuItem.addActionListener(new java.awt.event.ActionListener()
-            {
-                public void actionPerformed(ActionEvent e)
-                {
-                    aboutMenuItem_actionPerformed(e);
-                }
-            });
-        documentationMenuItem.setText("Documentation");
-        documentationMenuItem.addActionListener(new java.awt.event.ActionListener()
-            {
-                public void actionPerformed(ActionEvent e)
-                {
-                    documentationMenuItem_actionPerformed(e);
-                }
-            });
-        this.getContentPane().setLayout(flowLayout1);
-        windowMenu.setText("Window");
-        preferences.setText("Preferences...");
-        preferences.addActionListener(new ActionListener()
-            {
-                public void actionPerformed(ActionEvent e)
-                {
-                    preferences_actionPerformed(e);
-                }
-            });
-        toolsMenu.setText("Tools");
-        saveState.setMnemonic('S');
-        saveState.setText("Save Project");
-        saveState.addActionListener(new ActionListener()
-            {
-                public void actionPerformed(ActionEvent e)
-                {
-                    saveState_actionPerformed(e);
-                }
-            });
-        loadState.setMnemonic('L');
-        loadState.setText("Load Project");
-        loadState.addActionListener(new ActionListener()
-            {
-                public void actionPerformed(ActionEvent e)
-                {
-                    loadState_actionPerformed(e);
-                }
-            });
-        jMenu1.setMnemonic('I');
-        jMenu1.setText("Input Alignment");
-    vamsasLoad.setText("Start Vamsas Session...");
-    vamsasLoad.setVisible(false);
-    vamsasLoad.addActionListener(new ActionListener()
-    {
-      public void actionPerformed(ActionEvent e)
-      {
-        vamsasLoad_actionPerformed(e);
-      }
-    });
-    inputSequence.setText("Fetch Sequence(s)...");
-    inputSequence.addActionListener(new ActionListener()
-    {
-      public void actionPerformed(ActionEvent e)
-      {
-        inputSequence_actionPerformed(e);
-      }
-    });
-    vamsasStop.setText("Stop Vamsas Session");
-    vamsasStop.setVisible(false);
-    vamsasStop.addActionListener(new ActionListener()
-    {
-      public void actionPerformed(ActionEvent e)
-      {
-        vamsasStop_actionPerformed(e);
-      }
-    });    DesktopMenubar.add(FileMenu);
-        DesktopMenubar.add(toolsMenu);
-        VamsasMenu.setVisible(false);
-        DesktopMenubar.add(VamsasMenu);
-        DesktopMenubar.add(HelpMenu);
-        DesktopMenubar.add(windowMenu);
-    FileMenu.add(jMenu1);
-    FileMenu.add(inputSequence);
-    FileMenu.addSeparator();
-        FileMenu.add(saveState);
-        FileMenu.add(loadState);
-        FileMenu.addSeparator();
-        FileMenu.add(quit);
-        HelpMenu.add(aboutMenuItem);
-        HelpMenu.add(documentationMenuItem);
-        VamsasMenu.add(vamsasLoad);
-        VamsasMenu.add(vamsasStop);
-        toolsMenu.add(preferences);
-        jMenu1.add(inputLocalFileMenuItem);
-        jMenu1.add(inputURLMenuItem);
-        jMenu1.add(inputTextboxMenuItem);
-       //    jMenu1.add(vamsasLoad);
-  }
-
-    /**
-     * DOCUMENT ME!
-     *
-     * @param e DOCUMENT ME!
-     */
-    protected void inputLocalFileMenuItem_actionPerformed(jalview.gui.AlignViewport av)
-    {
-    }
-
-    /**
-     * DOCUMENT ME!
-     *
-     * @param e DOCUMENT ME!
-     */
-    protected void inputURLMenuItem_actionPerformed(jalview.gui.AlignViewport av)
-    {
-    }
-
-    /**
-     * DOCUMENT ME!
-     *
-     * @param e DOCUMENT ME!
-     */
-    protected void inputTextboxMenuItem_actionPerformed(jalview.gui.AlignViewport av)
-    {
-    }
-
-    /**
-     * DOCUMENT ME!
-     */
-    protected void quit()
-    {
-    }
-
-    /**
-     * DOCUMENT ME!
-     *
-     * @param e DOCUMENT ME!
-     */
-    protected void aboutMenuItem_actionPerformed(ActionEvent e)
-    {
-    }
-
-    /**
-     * DOCUMENT ME!
-     *
-     * @param e DOCUMENT ME!
-     */
-    protected void documentationMenuItem_actionPerformed(ActionEvent e)
-    {
-    }
-
-    /**
-     * DOCUMENT ME!
-     *
-     * @param e DOCUMENT ME!
-     */
-    public void SaveState_actionPerformed(ActionEvent e)
-    {
-    }
-
-    /**
-     * DOCUMENT ME!
-     *
-     * @param e DOCUMENT ME!
-     */
-    protected void preferences_actionPerformed(ActionEvent e)
-    {
-    }
-
-    /**
-     * DOCUMENT ME!
-     *
-     * @param e DOCUMENT ME!
-     */
-    public void saveState_actionPerformed(ActionEvent e)
-    {
-    }
-
-    /**
-     * DOCUMENT ME!
-     *
-     * @param e DOCUMENT ME!
-     */
-    public void loadState_actionPerformed(ActionEvent e)
-    {
-    }
-
-    /**
-     * DOCUMENT ME!
-     *
-     * @param e DOCUMENT ME!
-     */
-    public void loadJalviewAlign_actionPerformed(ActionEvent e)
-    {
-    }
-
-  public void vamsasLoad_actionPerformed(ActionEvent e)
-  {
-
-  }
-
-  public void inputSequence_actionPerformed(ActionEvent e)
-  {
-
-  }
-  public void vamsasStop_actionPerformed(ActionEvent e)
-  {
-
-       }
-}
+/*\r
+ * Jalview - A Sequence Alignment Editor and Viewer\r
+ * Copyright (C) 2007 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle\r
+ *\r
+ * This program is free software; you can redistribute it and/or\r
+ * modify it under the terms of the GNU General Public License\r
+ * as published by the Free Software Foundation; either version 2\r
+ * of the License, or (at your option) any later version.\r
+ *\r
+ * This program is distributed in the hope that it will be useful,\r
+ * but WITHOUT ANY WARRANTY; without even the implied warranty of\r
+ * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the\r
+ * GNU General Public License for more details.\r
+ *\r
+ * You should have received a copy of the GNU General Public License\r
+ * along with this program; if not, write to the Free Software\r
+ * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA  02110-1301, USA\r
+ */\r
+package jalview.jbgui;\r
+\r
+import java.awt.*;\r
+import java.awt.event.*;\r
+import javax.swing.*;\r
+\r
+/**\r
+ * DOCUMENT ME!\r
+ *\r
+ * @author $author$\r
+ * @version $Revision$\r
+ */\r
+public class GDesktop\r
+    extends JFrame\r
+{\r
+  protected static JMenu windowMenu = new JMenu();\r
+  JMenuBar desktopMenubar = new JMenuBar();\r
+  JMenu FileMenu = new JMenu();\r
+  JMenu HelpMenu = new JMenu();\r
+  protected JMenu VamsasMenu = new JMenu();\r
+  JMenuItem inputLocalFileMenuItem = new JMenuItem();\r
+  JMenuItem inputURLMenuItem = new JMenuItem();\r
+  JMenuItem inputTextboxMenuItem = new JMenuItem();\r
+  JMenuItem quit = new JMenuItem();\r
+  JMenuItem aboutMenuItem = new JMenuItem();\r
+  JMenuItem documentationMenuItem = new JMenuItem();\r
+  FlowLayout flowLayout1 = new FlowLayout();\r
+  JMenu toolsMenu = new JMenu();\r
+  JMenuItem preferences = new JMenuItem();\r
+  JMenuItem saveState = new JMenuItem();\r
+  JMenuItem loadState = new JMenuItem();\r
+  JMenu inputMenu = new JMenu();\r
+  protected JMenuItem vamsasLoad = new JMenuItem();\r
+  JMenuItem inputSequence = new JMenuItem();\r
+  protected JMenuItem vamsasStop = new JMenuItem();\r
+  JMenuItem closeAll = new JMenuItem();\r
+  JMenuItem raiseRelated = new JMenuItem();\r
+  JMenuItem minimizeAssociated = new JMenuItem();\r
+\r
+  /**\r
+   * Creates a new GDesktop object.\r
+   */\r
+  public GDesktop()\r
+  {\r
+    try\r
+    {\r
+      jbInit();\r
+      this.setJMenuBar(desktopMenubar);\r
+    }\r
+    catch (Exception e)\r
+    {\r
+      e.printStackTrace();\r
+    }\r
+\r
+    if (!System.getProperty("os.name").startsWith("Mac"))\r
+    {\r
+      FileMenu.setMnemonic('F');\r
+      inputLocalFileMenuItem.setMnemonic('L');\r
+      VamsasMenu.setMnemonic('V');\r
+      inputURLMenuItem.setMnemonic('U');\r
+      inputTextboxMenuItem.setMnemonic('C');\r
+      quit.setMnemonic('Q');\r
+      saveState.setMnemonic('S');\r
+      loadState.setMnemonic('L');\r
+      inputMenu.setMnemonic('I');\r
+    }\r
+  }\r
+\r
+  /**\r
+   * DOCUMENT ME!\r
+   *\r
+   * @throws Exception DOCUMENT ME!\r
+   */\r
+  private void jbInit()\r
+      throws Exception\r
+  {\r
+    FileMenu.setText("File");\r
+    HelpMenu.setText("Help");\r
+    VamsasMenu.setText("Vamsas");\r
+    VamsasMenu.setToolTipText("Share data with other vamsas applications.");\r
+    inputLocalFileMenuItem.setText("from File");\r
+    inputLocalFileMenuItem.setAccelerator(javax.swing.KeyStroke.getKeyStroke(\r
+        java.awt.event.KeyEvent.VK_O,\r
+        Toolkit.getDefaultToolkit().getMenuShortcutKeyMask(), false));\r
+    inputLocalFileMenuItem.addActionListener(new java.awt.event.ActionListener()\r
+    {\r
+      public void actionPerformed(ActionEvent e)\r
+      {\r
+        inputLocalFileMenuItem_actionPerformed(null);\r
+      }\r
+    });\r
+    inputURLMenuItem.setText("from URL");\r
+    inputURLMenuItem.addActionListener(new java.awt.event.ActionListener()\r
+    {\r
+      public void actionPerformed(ActionEvent e)\r
+      {\r
+        inputURLMenuItem_actionPerformed(null);\r
+      }\r
+    });\r
+    inputTextboxMenuItem.setText("from Textbox");\r
+    inputTextboxMenuItem.addActionListener(new java.awt.event.ActionListener()\r
+    {\r
+      public void actionPerformed(ActionEvent e)\r
+      {\r
+        inputTextboxMenuItem_actionPerformed(null);\r
+      }\r
+    });\r
+    quit.setText("Quit");\r
+    quit.addActionListener(new java.awt.event.ActionListener()\r
+    {\r
+      public void actionPerformed(ActionEvent e)\r
+      {\r
+        quit();\r
+      }\r
+    });\r
+    aboutMenuItem.setText("About");\r
+    aboutMenuItem.addActionListener(new java.awt.event.ActionListener()\r
+    {\r
+      public void actionPerformed(ActionEvent e)\r
+      {\r
+        aboutMenuItem_actionPerformed(e);\r
+      }\r
+    });\r
+    documentationMenuItem.setText("Documentation");\r
+    documentationMenuItem.setAccelerator(javax.swing.KeyStroke.getKeyStroke(\r
+        java.awt.event.KeyEvent.VK_F1, 0, false));\r
+    documentationMenuItem.addActionListener(new java.awt.event.ActionListener()\r
+    {\r
+      public void actionPerformed(ActionEvent e)\r
+      {\r
+        documentationMenuItem_actionPerformed(e);\r
+      }\r
+    });\r
+    this.getContentPane().setLayout(flowLayout1);\r
+    windowMenu.setText("Window");\r
+    preferences.setText("Preferences...");\r
+    preferences.addActionListener(new ActionListener()\r
+    {\r
+      public void actionPerformed(ActionEvent e)\r
+      {\r
+        preferences_actionPerformed(e);\r
+      }\r
+    });\r
+    toolsMenu.setText("Tools");\r
+    saveState.setText("Save Project");\r
+    saveState.addActionListener(new ActionListener()\r
+    {\r
+      public void actionPerformed(ActionEvent e)\r
+      {\r
+        saveState_actionPerformed(e);\r
+      }\r
+    });\r
+    loadState.setText("Load Project");\r
+    loadState.addActionListener(new ActionListener()\r
+    {\r
+      public void actionPerformed(ActionEvent e)\r
+      {\r
+        loadState_actionPerformed(e);\r
+      }\r
+    });\r
+    inputMenu.setText("Input Alignment");\r
+    vamsasLoad.setText("Start Vamsas Session...");\r
+    vamsasLoad.setVisible(false);\r
+    vamsasLoad.addActionListener(new ActionListener()\r
+    {\r
+      public void actionPerformed(ActionEvent e)\r
+      {\r
+        vamsasLoad_actionPerformed(e);\r
+      }\r
+    });\r
+    inputSequence.setText("Fetch Sequence(s)...");\r
+    inputSequence.addActionListener(new ActionListener()\r
+    {\r
+      public void actionPerformed(ActionEvent e)\r
+      {\r
+        inputSequence_actionPerformed(e);\r
+      }\r
+    });\r
+    vamsasStop.setText("Stop Vamsas Session");\r
+    vamsasStop.setVisible(false);\r
+    vamsasStop.addActionListener(new ActionListener()\r
+    {\r
+      public void actionPerformed(ActionEvent e)\r
+      {\r
+        vamsasStop_actionPerformed(e);\r
+      }\r
+    });\r
+    closeAll.setText("Close All");\r
+    closeAll.addActionListener(new ActionListener()\r
+    {\r
+      public void actionPerformed(ActionEvent e)\r
+      {\r
+        closeAll_actionPerformed(e);\r
+      }\r
+    });\r
+    raiseRelated.setText("Raise Associated Windows");\r
+    raiseRelated.addActionListener(new ActionListener()\r
+    {\r
+      public void actionPerformed(ActionEvent e)\r
+      {\r
+        raiseRelated_actionPerformed(e);\r
+      }\r
+    });\r
+    minimizeAssociated.setText("Minimize Associated Windows");\r
+    minimizeAssociated.addActionListener(new ActionListener()\r
+    {\r
+      public void actionPerformed(ActionEvent e)\r
+      {\r
+        minimizeAssociated_actionPerformed(e);\r
+      }\r
+    });\r
+    desktopMenubar.add(FileMenu);\r
+    desktopMenubar.add(toolsMenu);\r
+    VamsasMenu.setVisible(false);\r
+    desktopMenubar.add(VamsasMenu);\r
+    desktopMenubar.add(HelpMenu);\r
+    desktopMenubar.add(windowMenu);\r
+    FileMenu.add(inputMenu);\r
+    FileMenu.add(inputSequence);\r
+    FileMenu.addSeparator();\r
+    FileMenu.add(saveState);\r
+    FileMenu.add(loadState);\r
+    FileMenu.addSeparator();\r
+    FileMenu.add(quit);\r
+    HelpMenu.add(aboutMenuItem);\r
+    HelpMenu.add(documentationMenuItem);\r
+    VamsasMenu.add(vamsasLoad);\r
+    VamsasMenu.add(vamsasStop);\r
+    toolsMenu.add(preferences);\r
+    inputMenu.add(inputLocalFileMenuItem);\r
+    inputMenu.add(inputURLMenuItem);\r
+    inputMenu.add(inputTextboxMenuItem);\r
+    windowMenu.add(closeAll);\r
+    windowMenu.add(raiseRelated);\r
+    windowMenu.add(minimizeAssociated);\r
+    windowMenu.addSeparator();\r
+    //    inputMenu.add(vamsasLoad);\r
+  }\r
+\r
+  /**\r
+   * DOCUMENT ME!\r
+   *\r
+   * @param e DOCUMENT ME!\r
+   */\r
+  protected void inputLocalFileMenuItem_actionPerformed(jalview.gui.\r
+      AlignViewport av)\r
+  {\r
+  }\r
+\r
+  /**\r
+   * DOCUMENT ME!\r
+   *\r
+   * @param e DOCUMENT ME!\r
+   */\r
+  protected void inputURLMenuItem_actionPerformed(jalview.gui.AlignViewport av)\r
+  {\r
+  }\r
+\r
+  /**\r
+   * DOCUMENT ME!\r
+   *\r
+   * @param e DOCUMENT ME!\r
+   */\r
+  protected void inputTextboxMenuItem_actionPerformed(jalview.gui.AlignViewport\r
+      av)\r
+  {\r
+  }\r
+\r
+  /**\r
+   * DOCUMENT ME!\r
+   */\r
+  protected void quit()\r
+  {\r
+  }\r
+\r
+  /**\r
+   * DOCUMENT ME!\r
+   *\r
+   * @param e DOCUMENT ME!\r
+   */\r
+  protected void aboutMenuItem_actionPerformed(ActionEvent e)\r
+  {\r
+  }\r
+\r
+  /**\r
+   * DOCUMENT ME!\r
+   *\r
+   * @param e DOCUMENT ME!\r
+   */\r
+  protected void documentationMenuItem_actionPerformed(ActionEvent e)\r
+  {\r
+  }\r
+\r
+  /**\r
+   * DOCUMENT ME!\r
+   *\r
+   * @param e DOCUMENT ME!\r
+   */\r
+  public void SaveState_actionPerformed(ActionEvent e)\r
+  {\r
+  }\r
+\r
+  /**\r
+   * DOCUMENT ME!\r
+   *\r
+   * @param e DOCUMENT ME!\r
+   */\r
+  protected void preferences_actionPerformed(ActionEvent e)\r
+  {\r
+  }\r
+\r
+  /**\r
+   * DOCUMENT ME!\r
+   *\r
+   * @param e DOCUMENT ME!\r
+   */\r
+  public void saveState_actionPerformed(ActionEvent e)\r
+  {\r
+  }\r
+\r
+  /**\r
+   * DOCUMENT ME!\r
+   *\r
+   * @param e DOCUMENT ME!\r
+   */\r
+  public void loadState_actionPerformed(ActionEvent e)\r
+  {\r
+  }\r
+\r
+  /**\r
+   * DOCUMENT ME!\r
+   *\r
+   * @param e DOCUMENT ME!\r
+   */\r
+  public void loadJalviewAlign_actionPerformed(ActionEvent e)\r
+  {\r
+  }\r
+\r
+  public void vamsasLoad_actionPerformed(ActionEvent e)\r
+  {\r
+\r
+  }\r
+\r
+  public void inputSequence_actionPerformed(ActionEvent e)\r
+  {\r
+\r
+  }\r
+\r
+  public void vamsasStop_actionPerformed(ActionEvent e)\r
+  {\r
+\r
+  }\r
+\r
+  public void closeAll_actionPerformed(ActionEvent e)\r
+  {\r
+\r
+  }\r
+\r
+  public void raiseRelated_actionPerformed(ActionEvent e)\r
+  {\r
+\r
+  }\r
+\r
+  public void minimizeAssociated_actionPerformed(ActionEvent e)\r
+  {\r
+\r
+  }\r
+}\r