2 * Jalview - A Sequence Alignment Editor and Viewer
3 * Copyright (C) 2005 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle
5 * This program is free software; you can redistribute it and/or
6 * modify it under the terms of the GNU General Public License
7 * as published by the Free Software Foundation; either version 2
8 * of the License, or (at your option) any later version.
10 * This program is distributed in the hope that it will be useful,
11 * but WITHOUT ANY WARRANTY; without even the implied warranty of
12 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
13 * GNU General Public License for more details.
15 * You should have received a copy of the GNU General Public License
16 * along with this program; if not, write to the Free Software
17 * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA
24 import java.awt.datatransfer.*;
25 import java.awt.dnd.*;
26 import java.awt.event.*;
37 public class Desktop extends jalview.jbgui.GDesktop
38 implements DropTargetListener
41 public static JDesktopPane desktop;
42 static int openFrameCount = 0;
43 static final int xOffset = 30;
44 static final int yOffset = 30;
45 public static jalview.ws.Discoverer discoverer;
47 * Creates a new Desktop object.
55 java.net.URL url = getClass().getResource("/images/logo.gif");
59 image = java.awt.Toolkit.getDefaultToolkit().createImage(url);
61 MediaTracker mt = new MediaTracker(this);
62 mt.addImage(image, 0);
71 setTitle("Jalview 2005");
72 setDefaultCloseOperation(JFrame.EXIT_ON_CLOSE);
73 desktop = new JDesktopPane();
74 desktop.setBackground(Color.white);
75 setContentPane(desktop);
76 desktop.setDragMode(JDesktopPane.OUTLINE_DRAG_MODE);
78 // This line prevents Windows Look&Feel resizing all new windows to maximum
79 // if previous window was maximised
80 desktop.setDesktopManager(new DefaultDesktopManager());
82 Dimension screenSize = Toolkit.getDefaultToolkit().getScreenSize();
83 String x = jalview.bin.Cache.getProperty("SCREEN_X");
84 String y = jalview.bin.Cache.getProperty("SCREEN_Y");
85 String width = jalview.bin.Cache.getProperty("SCREEN_WIDTH");
86 String height = jalview.bin.Cache.getProperty("SCREEN_HEIGHT");
88 if ((x != null) && (y != null) && (width != null) && (height != null))
90 setBounds(Integer.parseInt(x), Integer.parseInt(y),
91 Integer.parseInt(width), Integer.parseInt(height));
95 setBounds((int) (screenSize.width - 900) / 2,
96 (int) (screenSize.height - 650) / 2, 900, 650);
99 this.addWindowListener(new WindowAdapter()
101 public void windowClosing(WindowEvent evt)
107 this.setDropTarget(new java.awt.dnd.DropTarget(desktop, this));
109 /////////Add a splashscreen on startup
110 /////////Add a splashscreen on startup
111 JInternalFrame frame = new JInternalFrame();
113 SplashScreen splash = new SplashScreen(frame, image);
114 frame.setContentPane(splash);
115 frame.setLayer(JLayeredPane.PALETTE_LAYER);
116 frame.setLocation((int) ((getWidth() - 750) / 2),
117 (int) ((getHeight() - 160) / 2));
119 addInternalFrame(frame, "", 750, 160, false);
121 discoverer=new jalview.ws.Discoverer(); // Only gets started if gui is displayed.
128 * @param frame DOCUMENT ME!
129 * @param title DOCUMENT ME!
130 * @param w DOCUMENT ME!
131 * @param h DOCUMENT ME!
133 public static synchronized void addInternalFrame(final JInternalFrame frame,
134 String title, int w, int h)
136 addInternalFrame(frame, title, w, h, true);
142 * @param frame DOCUMENT ME!
143 * @param title DOCUMENT ME!
144 * @param w DOCUMENT ME!
145 * @param h DOCUMENT ME!
146 * @param resizable DOCUMENT ME!
148 public static synchronized void addInternalFrame(final JInternalFrame frame,
149 String title, int w, int h, boolean resizable)
152 frame.setTitle(title);
153 if(frame.getWidth()<1 || frame.getHeight()<1)
157 // THIS IS A PUBLIC STATIC METHOD, SO IT MAY BE CALLED EVEN IN
158 // A HEADLESS STATE WHEN NO DESKTOP EXISTS. MUST RETURN
159 // IF JALVIEW IS RUNNING HEADLESS
160 /////////////////////////////////////////////////
161 if (System.getProperty("java.awt.headless") != null
162 && System.getProperty("java.awt.headless").equals("true"))
170 frame.setVisible(true);
171 frame.setClosable(true);
172 frame.setResizable(resizable);
173 frame.setMaximizable(resizable);
174 frame.setIconifiable(resizable);
175 frame.setFrameIcon(null);
177 if (frame.getX()<1 && frame.getY()<1)
179 frame.setLocation(xOffset * openFrameCount, yOffset * ((openFrameCount-1)%10)+yOffset);
182 final JMenuItem menuItem = new JMenuItem(title);
183 frame.addInternalFrameListener(new javax.swing.event.InternalFrameAdapter()
185 public void internalFrameClosed(
186 javax.swing.event.InternalFrameEvent evt)
189 windowMenu.remove(menuItem);
194 menuItem.addActionListener(new ActionListener()
196 public void actionPerformed(ActionEvent e)
200 frame.setSelected(true);
201 frame.setIcon(false);
203 catch (java.beans.PropertyVetoException ex)
210 windowMenu.add(menuItem);
215 frame.setSelected(true);
216 }catch(java.beans.PropertyVetoException ve)
223 * @param evt DOCUMENT ME!
225 public void dragEnter(DropTargetDragEvent evt)
232 * @param evt DOCUMENT ME!
234 public void dragExit(DropTargetEvent evt)
241 * @param evt DOCUMENT ME!
243 public void dragOver(DropTargetDragEvent evt)
250 * @param evt DOCUMENT ME!
252 public void dropActionChanged(DropTargetDragEvent evt)
259 * @param evt DOCUMENT ME!
261 public void drop(DropTargetDropEvent evt)
263 Transferable t = evt.getTransferable();
265 if (!t.isDataFlavorSupported(DataFlavor.javaFileListFlavor))
270 evt.acceptDrop(DnDConstants.ACTION_COPY_OR_MOVE);
274 java.util.List files = (java.util.List) t.getTransferData(DataFlavor.javaFileListFlavor);
276 for (int i = 0; i < files.size(); i++)
278 String file = files.get(i).toString();
279 String protocol = "File";
280 String format = null;
282 if (file.endsWith(".jar"))
289 format = jalview.io.IdentifyFile.Identify(file,
292 LoadFile(file, protocol, format);
297 ex.printStackTrace();
304 * @param e DOCUMENT ME!
306 public void inputLocalFileMenuItem_actionPerformed(ActionEvent e)
308 JalviewFileChooser chooser = new JalviewFileChooser(jalview.bin.Cache.getProperty(
312 "fa, fasta, fastq", "aln", "pfam", "msf", "pir", "blc",
317 "Fasta", "Clustal", "PFAM", "MSF", "PIR", "BLC", "Jalview"
318 }, jalview.bin.Cache.getProperty("DEFAULT_FILE_FORMAT"));
320 chooser.setFileView(new JalviewFileView());
321 chooser.setDialogTitle("Open local file");
322 chooser.setToolTipText("Open");
324 int value = chooser.showOpenDialog(this);
326 if (value == JalviewFileChooser.APPROVE_OPTION)
328 String choice = chooser.getSelectedFile().getPath();
329 jalview.bin.Cache.setProperty("LAST_DIRECTORY",
330 chooser.getSelectedFile().getParent());
332 String format = null;
333 if (chooser.getSelectedFormat().equals("Jalview"))
339 format = IdentifyFile.Identify(choice, "File");
342 jalview.bin.Cache.setProperty("DEFAULT_FILE_FORMAT", format);
343 LoadFile(choice, "File", format);
350 * @param file DOCUMENT ME!
351 * @param protocol DOCUMENT ME!
352 * @param format DOCUMENT ME!
354 public void LoadFile(String file, String protocol, String format)
356 FileLoader fileLoader = new FileLoader();
357 fileLoader.LoadFile(file, protocol, format);
363 * @param e DOCUMENT ME!
365 public void inputURLMenuItem_actionPerformed(ActionEvent e)
367 String url = JOptionPane.showInternalInputDialog(Desktop.desktop,
368 "Enter url of input file", "Input alignment from URL",
369 JOptionPane.QUESTION_MESSAGE, null, null, "http://www.")
377 if (url.trim().toLowerCase().endsWith(".jar"))
379 jalview.bin.Cache.setProperty("DEFAULT_FILE_FORMAT", "Jalview");
380 Jalview2XML.LoadJalviewAlign(url);
385 String format = IdentifyFile.Identify(url, "URL");
387 if (format.equals("URL NOT FOUND"))
389 JOptionPane.showInternalMessageDialog(Desktop.desktop,
390 "Couldn't locate " + url,
392 JOptionPane.WARNING_MESSAGE);
397 LoadFile(url, "URL", format);
404 * @param e DOCUMENT ME!
406 public void inputTextboxMenuItem_actionPerformed(ActionEvent e)
408 CutAndPasteTransfer cap = new CutAndPasteTransfer();
410 Desktop.addInternalFrame(cap, "Cut & Paste Alignment File", 600, 500);
418 jalview.bin.Cache.setProperty("SCREEN_X", getBounds().x + "");
419 jalview.bin.Cache.setProperty("SCREEN_Y", getBounds().y + "");
420 jalview.bin.Cache.setProperty("SCREEN_WIDTH", getWidth() + "");
421 jalview.bin.Cache.setProperty("SCREEN_HEIGHT", getHeight() + "");
428 * @param e DOCUMENT ME!
430 public void aboutMenuItem_actionPerformed(ActionEvent e)
432 StringBuffer message = new StringBuffer("JalView 2005 version " +
433 jalview.bin.Cache.getProperty(
437 Cache.getDefault("BUILD_DATE", "unknown"));
439 if (!jalview.bin.Cache.getProperty("LATEST_VERSION").equals(
440 jalview.bin.Cache.getProperty("VERSION")))
442 message.append("\n\n!! Jalview version "
443 + jalview.bin.Cache.getProperty("LATEST_VERSION")
444 + " is available for download from http://www.jalview.org !!\n");
448 message.append( "\nAuthors: Michele Clamp, James Cuff, Steve Searle, Andrew Waterhouse, Jim Procter & Geoff Barton." +
449 "\nCurrent development managed by Andrew Waterhouse; Barton Group, University of Dundee." +
450 "\nFor all issues relating to Jalview, email help@jalview.org" +
451 "\n\nIf you use JalView, please cite:" +
452 "\n\"Clamp, M., Cuff, J., Searle, S. M. and Barton, G. J. (2004), The Jalview Java Alignment Editor\"" +
453 "\nBioinformatics, 2004 12;426-7.");
455 JOptionPane.showInternalMessageDialog(Desktop.desktop,
457 message.toString(), "About Jalview",
458 JOptionPane.INFORMATION_MESSAGE);
464 * @param e DOCUMENT ME!
466 public void documentationMenuItem_actionPerformed(ActionEvent e)
470 ClassLoader cl = jalview.gui.Desktop.class.getClassLoader();
471 java.net.URL url = javax.help.HelpSet.findHelpSet(cl, "help/help");
472 javax.help.HelpSet hs = new javax.help.HelpSet(cl, url);
474 javax.help.HelpBroker hb = hs.createHelpBroker();
475 hb.setLocation(new Point(200, 50));
476 hb.setSize(new Dimension(800, 700));
477 hb.setCurrentID("home");
478 hb.setDisplayed(true);
482 ex.printStackTrace();
489 * @param e DOCUMENT ME!
491 protected void preferences_actionPerformed(ActionEvent e)
499 * @param e DOCUMENT ME!
501 public void saveState_actionPerformed(ActionEvent e)
503 JalviewFileChooser chooser = new JalviewFileChooser(jalview.bin.Cache.getProperty(
504 "LAST_DIRECTORY"), new String[] { "jar" },
505 new String[] { "Jalview Project" }, "Jalview Project");
507 chooser.setFileView(new JalviewFileView());
508 chooser.setDialogTitle("Save State");
510 int value = chooser.showSaveDialog(this);
512 if (value == JalviewFileChooser.APPROVE_OPTION)
514 java.io.File choice = chooser.getSelectedFile();
515 jalview.bin.Cache.setProperty("LAST_DIRECTORY", choice.getParent());
516 Jalview2XML.SaveState(choice);
523 * @param e DOCUMENT ME!
525 public void loadState_actionPerformed(ActionEvent e)
527 JalviewFileChooser chooser = new JalviewFileChooser(jalview.bin.Cache.getProperty(
528 "LAST_DIRECTORY"), new String[] { "jar" },
529 new String[] { "Jalview Project" }, "Jalview Project");
530 chooser.setFileView(new JalviewFileView());
531 chooser.setDialogTitle("Restore state");
533 int value = chooser.showOpenDialog(this);
535 if (value == JalviewFileChooser.APPROVE_OPTION)
537 String choice = chooser.getSelectedFile().getAbsolutePath();
538 jalview.bin.Cache.setProperty("LAST_DIRECTORY",
539 chooser.getSelectedFile().getParent());
540 Jalview2XML.LoadJalviewAlign(choice);