src/jalview/gui/Desktop.java

   1 /********************\r
   2  * 2004 Jalview Reengineered\r
   3  * Barton Group\r
   4  * Dundee University\r
   5  *\r
   6  * AM Waterhouse\r
   7  *******************/\r
   8 \r
   9 \r
  10 package jalview.gui;\r
  11 \r
  12 import jalview.gui.*;\r
  13 import jalview.io.*;\r
  14 import jalview.datamodel.*;\r
  15 import javax.swing.*;\r
  16 import java.awt.*;\r
  17 import java.awt.event.*;\r
  18 \r
  19 \r
  20 public class Desktop extends jalview.jbgui.GDesktop\r
  21 {\r
  22   public static JDesktopPane desktop;\r
  23   static int openFrameCount = 0;\r
  24   static final int xOffset = 30, yOffset = 30;\r
  25 \r
  26   public Desktop()\r
  27   {\r
  28     try{\r
  29       java.net.URL url = getClass().getResource("/BartonGroupBanner.gif");\r
  30       if(url!=null)\r
  31       {\r
  32         Image image = java.awt.Toolkit.getDefaultToolkit().createImage(url);\r
  33         MediaTracker mt = new MediaTracker(this);\r
  34         mt.addImage(image, 0);\r
  35         mt.waitForID(0);\r
  36         setIconImage(image);\r
  37       }\r
  38 \r
  39     }catch(Exception ex){}\r
  40 \r
  41     setTitle("Jalview 2005");\r
  42     setDefaultCloseOperation(JFrame.EXIT_ON_CLOSE);\r
  43     setVisible(true);\r
  44     desktop = new JDesktopPane();\r
  45     setContentPane(desktop);\r
  46     desktop.setDragMode(JDesktopPane.OUTLINE_DRAG_MODE);\r
  47     int inset = 150;\r
  48     Dimension screenSize = Toolkit.getDefaultToolkit().getScreenSize();\r
  49     setBounds(inset, inset,\r
  50               screenSize.width  - inset*2,\r
  51               screenSize.height - inset*2);\r
  52   }\r
  53 \r
  54   public static void addInternalFrame(final JInternalFrame frame, String title, int w, int h)\r
  55   {\r
  56    frame.setVisible(true); //necessary as of 1.3\r
  57    desktop.add(frame);\r
  58    openFrameCount++;\r
  59    try {\r
  60        frame.setSelected(true);\r
  61    } catch (java.beans.PropertyVetoException e) {}\r
  62    frame.setTitle(title);\r
  63    frame.setResizable(true);\r
  64    frame.setSize(w,h);\r
  65    frame.setClosable(true);\r
  66    frame.setMaximizable(true);\r
  67    frame.setIconifiable(true);\r
  68    frame.setLocation(xOffset*openFrameCount, yOffset*openFrameCount);\r
  69    frame.toFront();\r
  70    final JMenuItem menuItem = new JMenuItem(title);\r
  71    frame.addInternalFrameListener(new javax.swing.event.InternalFrameAdapter()\r
  72                                    { public void internalFrameClosed(javax.swing.event.InternalFrameEvent evt)\r
  73                                      {\r
  74                                        openFrameCount--;\r
  75                                        windowMenu.remove(menuItem);\r
  76                                      };\r
  77                                    });\r
  78 \r
  79    menuItem.addActionListener(new ActionListener()\r
  80     {\r
  81       public void actionPerformed(ActionEvent e)\r
  82       {\r
  83         try{  frame.setSelected(true);   frame.setIcon(false); }\r
  84         catch(java.beans.PropertyVetoException ex){};\r
  85       }\r
  86     });\r
  87 \r
  88    windowMenu.add(menuItem);\r
  89  }\r
  90 \r
  91 \r
  92 \r
  93  public void inputLocalFileMenuItem_actionPerformed(ActionEvent e)\r
  94  {\r
  95    JFileChooser chooser = new JFileChooser(jalview.bin.Cache.LAST_DIRECTORY);\r
  96    chooser.setDialogTitle("Open local file");\r
  97    chooser.setToolTipText("Open");\r
  98    int value = chooser.showOpenDialog(this);\r
  99    if(value == JFileChooser.APPROVE_OPTION)\r
 100    {\r
 101      String choice =  chooser.getSelectedFile().getPath();\r
 102      jalview.bin.Cache.LAST_DIRECTORY = choice;\r
 103      String format = IdentifyFile.Identify(choice, "File");\r
 104      LoadFile(choice, "File", format);\r
 105    }\r
 106  }\r
 107 \r
 108  public void LoadFile(String file, String protocol,  String format)\r
 109  {\r
 110    SequenceI [] sequences = null;\r
 111 \r
 112 \r
 113    if (FormatProperties.contains(format))\r
 114        sequences = FormatAdapter.read(file, protocol, format);\r
 115 \r
 116    if (sequences != null)\r
 117    {\r
 118      AlignFrame af = new AlignFrame(new Alignment(sequences));\r
 119      addInternalFrame(af, file, 700, 500);\r
 120      af.statusBar.setText("Successfully loaded file " + file);\r
 121 \r
 122 \r
 123    }\r
 124    else\r
 125      JOptionPane.showMessageDialog(this,  "Couldn't open file.\n"\r
 126                           + "Formats currently supported are\n"\r
 127                           + "Fasta, MSF, Clustal, BLC, PIR, MSP or PFAM"\r
 128                           ,"Error loading file",\r
 129                                    JOptionPane.WARNING_MESSAGE);\r
 130 \r
 131  }\r
 132 \r
 133  public void inputURLMenuItem_actionPerformed(ActionEvent e)\r
 134  {\r
 135    String url = JOptionPane.showInputDialog(this,"Enter url of input file",\r
 136                                             "Input alignment from URL",\r
 137                                             JOptionPane.QUESTION_MESSAGE);\r
 138    if (url == null)\r
 139      return;\r
 140 \r
 141    String format = IdentifyFile.Identify(url, "URL");\r
 142 \r
 143    System.out.println(format +" format");\r
 144    if (format.equals("URL NOT FOUND"))\r
 145    {\r
 146      JOptionPane.showMessageDialog(this,"Couldn't locate " + url,\r
 147                                    "URL not found",\r
 148                                    JOptionPane.WARNING_MESSAGE);\r
 149      return;\r
 150    }\r
 151 \r
 152     LoadFile(url, "URL", format);\r
 153  }\r
 154 \r
 155  public void inputTextboxMenuItem_actionPerformed(ActionEvent e)\r
 156  {\r
 157    CutAndPasteTransfer cap = new CutAndPasteTransfer(true);\r
 158    int accept =  JOptionPane.showInternalOptionDialog(desktop, cap, "Cut & paste Alignment File",\r
 159                                        JOptionPane.YES_NO_CANCEL_OPTION,\r
 160                                        JOptionPane.PLAIN_MESSAGE,\r
 161                                        null,\r
 162                                        new Object[]{"Accept", "Cancel", }, null);\r
 163 \r
 164 \r
 165   if(accept == JOptionPane.YES_OPTION)\r
 166   {\r
 167     String format = IdentifyFile.Identify(cap.getText(), "Paste");\r
 168     SequenceI [] sequences = null;\r
 169 \r
 170     if (FormatProperties.contains( format ))\r
 171       sequences = FormatAdapter.read(cap.getText(), "Paste", format);\r
 172 \r
 173 \r
 174       if(sequences!=null)\r
 175       {\r
 176         AlignFrame af = new AlignFrame(new Alignment(sequences));\r
 177         addInternalFrame(af, "Cut & Paste input - "+format, 700, 500);\r
 178         af.statusBar.setText("Successfully pasted alignment file");\r
 179       }\r
 180       else\r
 181         JOptionPane.showMessageDialog(this, "Couldn't read the pasted text.\n"\r
 182                                       +"Formats currently supported are\n"\r
 183                                       +"Fasta, MSF, Clustal, BLC, PIR, MSP or PFAM",\r
 184                                       "Error parsing text", JOptionPane.WARNING_MESSAGE);\r
 185 \r
 186 \r
 187    }\r
 188  }\r
 189 \r
 190 /*\r
 191 * Exit the program\r
 192 */\r
 193  public void quit_actionPerformed(ActionEvent e)\r
 194  {\r
 195    this.setVisible(false);\r
 196    System.exit(0);\r
 197  }\r
 198 \r
 199 \r
 200  protected void colourIndexMenuItem_actionPerformed(ActionEvent e)\r
 201  {\r
 202    ColourKey colourKey = new ColourKey(null);\r
 203    addInternalFrame(colourKey, "Colour scheme key", 400, 320);\r
 204  }\r
 205 \r
 206 \r
 207  public void aboutMenuItem_actionPerformed(ActionEvent e)\r
 208  {\r
 209    JOptionPane.showInternalMessageDialog(desktop,\r
 210                                          "JalView 2005"\r
 211                                        +"\nAuthors:  Michele Clamp, James Cuff, Steve Searle, Andrew Waterhouse and Geoff Barton."\r
 212                                        +"\nCurrent development managed by Andrew Waterhouse; Barton Group, University of Dundee."\r
 213                                        +"\nIf  you use JalView, please cite:  \"Clamp, M., Cuff, J., Searle, S. M. and Barton, G. J. (2004), The Jalview Java Alignment Editor\"",\r
 214                                          "About Jalview",\r
 215                                          JOptionPane.INFORMATION_MESSAGE);\r
 216  }\r
 217 \r
 218  public void documentationMenuItem_actionPerformed(ActionEvent e)\r
 219  {\r
 220    try{\r
 221      jalview.util.BrowserLauncher.openURL("http://jalview.org/documentation.html");\r
 222    }catch(Exception ex){}\r
 223  }\r
 224 \r
 225 \r
 226 }\r