src/jalview/gui/FeatureSettings.java

   1 package jalview.gui;\r
   2 \r
   3 import jalview.datamodel.*;\r
   4 import javax.swing.*;\r
   5 import javax.swing.event.*;\r
   6 import java.awt.*;\r
   7 import java.util.*;\r
   8 import javax.swing.BorderFactory;\r
   9 import java.awt.event.*;\r
  10 import javax.swing.table.*;\r
  11 import java.io.*;\r
  12 import jalview.io.JalviewFileChooser;\r
  13 \r
  14 public class FeatureSettings extends JPanel\r
  15 {\r
  16 \r
  17   final FeatureRenderer fr;\r
  18   final AlignmentPanel ap;\r
  19   final AlignViewport av;\r
  20   Object [][] originalData;\r
  21   final JInternalFrame frame;\r
  22   JScrollPane scrollPane = new JScrollPane();\r
  23   JTable table;\r
  24 \r
  25   public FeatureSettings(AlignViewport av, final AlignmentPanel ap)\r
  26   {\r
  27     this.ap = ap;\r
  28     this.av = av;\r
  29     fr = ap.seqPanel.seqCanvas.getFeatureRenderer();\r
  30     av.alignment.getSequences();\r
  31     frame = new JInternalFrame();\r
  32     frame.setContentPane(this);\r
  33     Desktop.addInternalFrame(frame, "Sequence Feature Settings", 400, 300);\r
  34 \r
  35     setTableData();\r
  36 \r
  37     final JSlider transparency = new JSlider(0, 70, 0);\r
  38     transparency.addChangeListener(new ChangeListener()\r
  39     {\r
  40       public void stateChanged(ChangeEvent evt)\r
  41       {\r
  42         fr.setTransparency( (float) (100 - transparency.getValue()) / 100f);\r
  43         ap.repaint();\r
  44       }\r
  45     });\r
  46 \r
  47     JPanel transPanel = new JPanel(new FlowLayout());\r
  48     transPanel.add(new JLabel("Transparency"));\r
  49     transPanel.add(transparency);\r
  50 \r
  51     //////////////////////////////////////////////\r
  52     //We're going to need those OK cancel buttons\r
  53     JPanel buttonPanel = new JPanel(new FlowLayout());\r
  54     JButton button = new JButton("OK");\r
  55     button.addActionListener(new ActionListener()\r
  56     {\r
  57       public void actionPerformed(ActionEvent evt)\r
  58       {\r
  59         try\r
  60         {\r
  61           frame.setClosed(true);\r
  62         }\r
  63         catch (Exception exe)\r
  64         {}\r
  65       }\r
  66     });\r
  67     buttonPanel.add(button);\r
  68     button = new JButton("Cancel");\r
  69     button.addActionListener(new ActionListener()\r
  70     {\r
  71       public void actionPerformed(ActionEvent evt)\r
  72       {\r
  73         try\r
  74         {\r
  75           updateFeatureRenderer(originalData);\r
  76           frame.setClosed(true);\r
  77         }\r
  78         catch (Exception exe)\r
  79         {}\r
  80       }\r
  81     });\r
  82     buttonPanel.add(button);\r
  83 \r
  84     button = new JButton("Load Colours");\r
  85     button.addActionListener(new ActionListener()\r
  86     {\r
  87       public void actionPerformed(ActionEvent evt)\r
  88       {\r
  89         load();\r
  90       }\r
  91     });\r
  92     buttonPanel.add(button);\r
  93     button = new JButton("Save Colours");\r
  94     button.addActionListener(new ActionListener()\r
  95     {\r
  96       public void actionPerformed(ActionEvent evt)\r
  97       {\r
  98         save();\r
  99       }\r
 100     });\r
 101     buttonPanel.add(button);\r
 102 \r
 103     this.setLayout(new BorderLayout());\r
 104     JPanel bigPanel = new JPanel(new BorderLayout());\r
 105     bigPanel.add(transPanel, BorderLayout.SOUTH);\r
 106     bigPanel.add(scrollPane, BorderLayout.CENTER);\r
 107 \r
 108     add(bigPanel, BorderLayout.CENTER);\r
 109     add(buttonPanel, BorderLayout.SOUTH);\r
 110 \r
 111 \r
 112   }\r
 113 \r
 114   void setTableData()\r
 115   {\r
 116     Vector allFeatures = new Vector();\r
 117     Vector features;\r
 118     Enumeration e;\r
 119     SequenceFeature sf;\r
 120 \r
 121     for(int i=0; i< av.alignment.getHeight(); i++)\r
 122     {\r
 123        features = av.alignment.getSequenceAt(i).getDatasetSequence().getSequenceFeatures();\r
 124        if(features==null)\r
 125          continue;\r
 126 \r
 127        e = features.elements();\r
 128        while(e.hasMoreElements())\r
 129        {\r
 130          sf = (SequenceFeature)e.nextElement();\r
 131          if(!allFeatures.contains(sf.getType()))\r
 132          {\r
 133            allFeatures.addElement(sf.getType());\r
 134          }\r
 135        }\r
 136     }\r
 137     if(allFeatures.size()<1)\r
 138      {\r
 139        try{\r
 140          frame.setClosed(true);\r
 141        }catch(Exception ex){}\r
 142        return;\r
 143      }\r
 144 \r
 145     int fSize = allFeatures.size();\r
 146 \r
 147     String type;\r
 148     Object [][] data = new Object[fSize][3];\r
 149     originalData = new Object[fSize][3];\r
 150     for(int i=0; i<fSize; i++)\r
 151     {\r
 152       type = allFeatures.elementAt(i).toString();\r
 153       Color col = fr.getColour(type);\r
 154       data[i][0]=type;\r
 155       data[i][1]=col;\r
 156       if(fr.featuresDisplayed!=null)\r
 157          data[i][2] = new Boolean(fr.featuresDisplayed.contains(type));\r
 158       else\r
 159         data[i][2] = new Boolean(true);\r
 160 \r
 161       originalData[i][0]=type;\r
 162       originalData[i][1]=col;\r
 163       if(fr.featuresDisplayed!=null)\r
 164          originalData[i][2] = new Boolean(fr.featuresDisplayed.contains(type));\r
 165       else\r
 166         originalData[i][2] = new Boolean(true);\r
 167     }\r
 168     ////////////////////////////////////\r
 169         //Now build the table\r
 170         table = new JTable(new FeatureTableModel(data));\r
 171         scrollPane.setViewportView(table);\r
 172         table.getTableHeader().setFont(new Font("Verdana", Font.PLAIN, 12));\r
 173         table.setFont(new Font("Verdana", Font.PLAIN, 12));\r
 174         table.setDefaultRenderer(Color.class,\r
 175                              new ColorRenderer());\r
 176 \r
 177         table.setDefaultEditor(Color.class,\r
 178                           new ColorEditor());\r
 179 \r
 180         table.getColumnModel().getColumn(0).setPreferredWidth(200);\r
 181 \r
 182         table.setSelectionMode(ListSelectionModel.SINGLE_SELECTION);\r
 183 \r
 184         table.addMouseListener(new MouseAdapter()\r
 185             {\r
 186               public void mousePressed(MouseEvent evt)\r
 187               {\r
 188                 selectedRow = table.rowAtPoint(evt.getPoint());\r
 189               }\r
 190             });\r
 191 \r
 192         table.addMouseMotionListener(new MouseMotionAdapter()\r
 193             {\r
 194               public void mouseDragged(MouseEvent evt)\r
 195               {\r
 196                 int newRow = table.rowAtPoint(evt.getPoint());\r
 197                 if(newRow!=selectedRow\r
 198                    && selectedRow!=-1\r
 199                    && newRow!=-1)\r
 200                 {\r
 201                   Object[] temp = new Object[3];\r
 202                   temp[0] = table.getValueAt(selectedRow, 0);\r
 203                   temp[1] = table.getValueAt(selectedRow, 1);\r
 204                   temp[2] = table.getValueAt(selectedRow, 2);\r
 205 \r
 206                   table.setValueAt(table.getValueAt(newRow, 0), selectedRow, 0);\r
 207                   table.setValueAt(table.getValueAt(newRow, 1), selectedRow, 1);\r
 208                   table.setValueAt(table.getValueAt(newRow, 2), selectedRow, 2);\r
 209 \r
 210                   table.setValueAt(temp[0], newRow, 0);\r
 211                   table.setValueAt(temp[1], newRow, 1);\r
 212                   table.setValueAt(temp[2], newRow, 2);\r
 213 \r
 214                   selectedRow = newRow;\r
 215                 }\r
 216               }\r
 217         });\r
 218 \r
 219   }\r
 220 \r
 221   void load()\r
 222   {\r
 223     JalviewFileChooser chooser = new JalviewFileChooser(jalview.bin.Cache.getProperty(\r
 224                  "LAST_DIRECTORY"), new String[] { "fc" },\r
 225              new String[] { "Sequence Feature Colours" }, "Sequence Feature Colours");\r
 226      chooser.setFileView(new jalview.io.JalviewFileView());\r
 227      chooser.setDialogTitle("Load Feature Colours");\r
 228      chooser.setToolTipText("Load");\r
 229 \r
 230      int value = chooser.showOpenDialog(this);\r
 231 \r
 232      if (value == JalviewFileChooser.APPROVE_OPTION)\r
 233      {\r
 234        File file = chooser.getSelectedFile();\r
 235 \r
 236        try\r
 237        {\r
 238          InputStreamReader in = new InputStreamReader(new FileInputStream(\r
 239              file), "UTF-8");\r
 240 \r
 241          jalview.binding.JalviewUserColours jucs = new jalview.binding.\r
 242              JalviewUserColours();\r
 243          jucs = (jalview.binding.JalviewUserColours) jucs.unmarshal(in);\r
 244 \r
 245 \r
 246          for (int i = 0; i < jucs.getColourCount(); i++)\r
 247          {\r
 248            fr.setColour( jucs.getColour(i).getName(),\r
 249                           new Color(Integer.parseInt( jucs.getColour(i).getRGB(), 16)));\r
 250          }\r
 251 \r
 252          setTableData();\r
 253          ap.repaint();\r
 254        }\r
 255        catch (Exception ex)\r
 256        {\r
 257          System.out.println("Error loading User ColourFile\n" + ex);\r
 258        }\r
 259      }\r
 260   }\r
 261 \r
 262   void save()\r
 263   {\r
 264     JalviewFileChooser chooser = new JalviewFileChooser(jalview.bin.Cache.getProperty(\r
 265                 "LAST_DIRECTORY"), new String[] { "fc" },\r
 266             new String[] { "Sequence Feature Colours" }, "Sequence Feature Colours");\r
 267     chooser.setFileView(new jalview.io.JalviewFileView());\r
 268     chooser.setDialogTitle("Save Feature Colour Scheme");\r
 269     chooser.setToolTipText("Save");\r
 270 \r
 271     int value = chooser.showSaveDialog(this);\r
 272 \r
 273     if (value == JalviewFileChooser.APPROVE_OPTION)\r
 274     {\r
 275         String choice = chooser.getSelectedFile().getPath();\r
 276         jalview.binding.JalviewUserColours ucs = new jalview.binding.JalviewUserColours();\r
 277         ucs.setSchemeName("Sequence Features");\r
 278         try\r
 279         {\r
 280             PrintWriter out = new PrintWriter(new OutputStreamWriter(\r
 281                         new FileOutputStream(choice), "UTF-8"));\r
 282 \r
 283             Enumeration e = fr.featureColours.keys();\r
 284            while(e.hasMoreElements())\r
 285            {\r
 286 \r
 287 \r
 288                 jalview.binding.Colour col = new jalview.binding.Colour();\r
 289                 col.setName(e.nextElement().toString());\r
 290                 col.setRGB(jalview.util.Format.getHexString(\r
 291                         fr.getColour(col.getName())));\r
 292                 ucs.addColour(col);\r
 293             }\r
 294 \r
 295             ucs.marshal(out);\r
 296             out.close();\r
 297         }\r
 298         catch (Exception ex)\r
 299         {\r
 300             ex.printStackTrace();\r
 301         }\r
 302     }\r
 303 \r
 304   }\r
 305 \r
 306   public void updateFeatureRenderer(Object [][] data)\r
 307   {\r
 308     fr.setFeaturePriority( data );\r
 309     ap.repaint();\r
 310   }\r
 311 \r
 312   int selectedRow =-1;\r
 313 \r
 314 \r
 315   /////////////////////////////////////////////////////////////////////////\r
 316   // http://java.sun.com/docs/books/tutorial/uiswing/components/table.html\r
 317   /////////////////////////////////////////////////////////////////////////\r
 318   class FeatureTableModel\r
 319       extends AbstractTableModel\r
 320   {\r
 321     FeatureTableModel(Object[][] data)\r
 322     {\r
 323       this.data = data;\r
 324     }\r
 325 \r
 326     private String[] columnNames = {"Feature Type", "Colour","Display"};\r
 327           private Object[][] data;\r
 328 \r
 329           public Object[][] getData()\r
 330           {\r
 331             return data;\r
 332           }\r
 333 \r
 334           public int getColumnCount() {\r
 335               return columnNames.length;\r
 336           }\r
 337 \r
 338           public Object[] getRow(int row)\r
 339           {\r
 340             return data[row];\r
 341           }\r
 342 \r
 343           public int getRowCount() {\r
 344               return data.length;\r
 345           }\r
 346 \r
 347           public String getColumnName(int col) {\r
 348               return columnNames[col];\r
 349           }\r
 350 \r
 351           public Object getValueAt(int row, int col) {\r
 352               return data[row][col];\r
 353           }\r
 354 \r
 355           public Class getColumnClass(int c) {\r
 356               return getValueAt(0, c).getClass();\r
 357           }\r
 358 \r
 359           public boolean isCellEditable(int row, int col) {\r
 360               return col==0 ? false:true;\r
 361           }\r
 362 \r
 363           public void setValueAt(Object value, int row, int col) {\r
 364               data[row][col] = value;\r
 365               fireTableCellUpdated(row, col);\r
 366               updateFeatureRenderer(data);\r
 367           }\r
 368 \r
 369     }\r
 370     class ColorRenderer extends JLabel\r
 371                               implements TableCellRenderer {\r
 372        javax.swing.border.Border unselectedBorder = null;\r
 373        javax.swing.border.Border selectedBorder = null;\r
 374 \r
 375        public ColorRenderer() {\r
 376            setOpaque(true); //MUST do this for background to show up.\r
 377        }\r
 378 \r
 379        public Component getTableCellRendererComponent(\r
 380                                JTable table, Object color,\r
 381                                boolean isSelected, boolean hasFocus,\r
 382                                int row, int column) {\r
 383            Color newColor = (Color)color;\r
 384            setBackground(newColor);\r
 385                if (isSelected) {\r
 386                    if (selectedBorder == null) {\r
 387                        selectedBorder = BorderFactory.createMatteBorder(2,5,2,5,\r
 388                                                  table.getSelectionBackground());\r
 389                    }\r
 390                    setBorder(selectedBorder);\r
 391                } else {\r
 392                    if (unselectedBorder == null) {\r
 393                        unselectedBorder = BorderFactory.createMatteBorder(2,5,2,5,\r
 394                                                  table.getBackground());\r
 395                    }\r
 396                    setBorder(unselectedBorder);\r
 397                }\r
 398 \r
 399            setToolTipText("RGB value: " + newColor.getRed() + ", "\r
 400                                         + newColor.getGreen() + ", "\r
 401                                         + newColor.getBlue());\r
 402            return this;\r
 403        }\r
 404    }\r
 405 }\r
 406 \r
 407  class ColorEditor extends AbstractCellEditor\r
 408                           implements TableCellEditor,\r
 409                                      ActionListener {\r
 410      Color currentColor;\r
 411      JButton button;\r
 412      JColorChooser colorChooser;\r
 413      JDialog dialog;\r
 414      protected static final String EDIT = "edit";\r
 415 \r
 416      public ColorEditor() {\r
 417          //Set up the editor (from the table's point of view),\r
 418          //which is a button.\r
 419          //This button brings up the color chooser dialog,\r
 420          //which is the editor from the user's point of view.\r
 421          button = new JButton();\r
 422          button.setActionCommand(EDIT);\r
 423          button.addActionListener(this);\r
 424          button.setBorderPainted(false);\r
 425          //Set up the dialog that the button brings up.\r
 426          colorChooser = new JColorChooser();\r
 427          dialog = JColorChooser.createDialog(button,\r
 428                                          "Select new Colour",\r
 429                                          true,  //modal\r
 430                                          colorChooser,\r
 431                                          this,  //OK button handler\r
 432                                          null); //no CANCEL button handler\r
 433      }\r
 434 \r
 435      /**\r
 436       * Handles events from the editor button and from\r
 437       * the dialog's OK button.\r
 438       */\r
 439      public void actionPerformed(ActionEvent e) {\r
 440 \r
 441           if (EDIT.equals(e.getActionCommand())) {\r
 442              //The user has clicked the cell, so\r
 443              //bring up the dialog.\r
 444              button.setBackground(currentColor);\r
 445              colorChooser.setColor(currentColor);\r
 446              dialog.setVisible(true);\r
 447 \r
 448              //Make the renderer reappear.\r
 449              fireEditingStopped();\r
 450 \r
 451          } else { //User pressed dialog's "OK" button.\r
 452              currentColor = colorChooser.getColor();\r
 453          }\r
 454      }\r
 455 \r
 456      //Implement the one CellEditor method that AbstractCellEditor doesn't.\r
 457      public Object getCellEditorValue() {\r
 458          return currentColor;\r
 459      }\r
 460 \r
 461      //Implement the one method defined by TableCellEditor.\r
 462      public Component getTableCellEditorComponent(JTable table,\r
 463                                                   Object value,\r
 464                                                   boolean isSelected,\r
 465                                                   int row,\r
 466                                                   int column) {\r
 467          currentColor = (Color)value;\r
 468          return button;\r
 469      }\r
 470 }\r