src/jalview/jbgui/GPreferences.java

   1 /*\r
   2 * Jalview - A Sequence Alignment Editor and Viewer\r
   3 * Copyright (C) 2006 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle\r
   4 *\r
   5 * This program is free software; you can redistribute it and/or\r
   6 * modify it under the terms of the GNU General Public License\r
   7 * as published by the Free Software Foundation; either version 2\r
   8 * of the License, or (at your option) any later version.\r
   9 *\r
  10 * This program is distributed in the hope that it will be useful,\r
  11 * but WITHOUT ANY WARRANTY; without even the implied warranty of\r
  12 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the\r
  13 * GNU General Public License for more details.\r
  14 *\r
  15 * You should have received a copy of the GNU General Public License\r
  16 * along with this program; if not, write to the Free Software\r
  17 * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA  02110-1301, USA\r
  18 */\r
  19 package jalview.jbgui;\r
  20 \r
  21 import java.awt.*;\r
  22 \r
  23 import javax.swing.*;\r
  24 import javax.swing.border.TitledBorder;\r
  25 import java.awt.event.*;\r
  26 import javax.swing.event.*;\r
  27 import java.awt.Font;\r
  28 import java.awt.Rectangle;\r
  29 import java.awt.Insets;\r
  30 \r
  31 /**\r
  32  * DOCUMENT ME!\r
  33  *\r
  34  * @author $author$\r
  35  * @version $Revision$\r
  36  */\r
  37 public class GPreferences extends JPanel\r
  38 {\r
  39     JTabbedPane tabbedPane = new JTabbedPane();\r
  40 \r
  41     JButton ok = new JButton();\r
  42     JButton cancel = new JButton();\r
  43     JPanel okCancelPanel = new JPanel();\r
  44     BorderLayout borderLayout1 = new BorderLayout();\r
  45     protected JCheckBox quality = new JCheckBox();\r
  46     JPanel visualTab = new JPanel();\r
  47   protected JCheckBox fullScreen = new JCheckBox();\r
  48     protected JCheckBox conservation = new JCheckBox();\r
  49     protected JCheckBox identity = new JCheckBox();\r
  50     protected JCheckBox annotations = new JCheckBox();\r
  51     JLabel gapLabel = new JLabel();\r
  52     protected JComboBox colour = new JComboBox();\r
  53     JLabel colourLabel = new JLabel();\r
  54     JLabel fontLabel = new JLabel();\r
  55     protected JComboBox fontSizeCB = new JComboBox();\r
  56     protected JComboBox fontStyleCB = new JComboBox();\r
  57     protected JComboBox fontNameCB = new JComboBox();\r
  58     protected JComboBox gapSymbolCB = new JComboBox();\r
  59     protected JCheckBox startupCheckbox = new JCheckBox();\r
  60     protected JTextField startupFileTextfield = new JTextField();\r
  61   JPanel connectTab = new JPanel();\r
  62   JLabel serverLabel = new JLabel();\r
  63   protected JList linkURLList = new JList();\r
  64   protected JTextField proxyServerTB = new JTextField();\r
  65   protected JTextField proxyPortTB = new JTextField();\r
  66   JLabel portLabel = new JLabel();\r
  67   JLabel browserLabel = new JLabel();\r
  68   protected JTextField defaultBrowser = new JTextField();\r
  69   JButton newLink = new JButton();\r
  70   JButton editLink = new JButton();\r
  71   JButton deleteLink = new JButton();\r
  72   JScrollPane linkScrollPane = new JScrollPane();\r
  73   JPanel linkPanel = new JPanel();\r
  74   BorderLayout borderLayout2 = new BorderLayout();\r
  75   JPanel editLinkButtons = new JPanel();\r
  76   GridLayout gridLayout1 = new GridLayout();\r
  77   protected JList linkNameList = new JList();\r
  78   JPanel linkPanel2 = new JPanel();\r
  79   BorderLayout borderLayout3 = new BorderLayout();\r
  80   protected JCheckBox useProxy = new JCheckBox();\r
  81   JPanel jPanel1 = new JPanel();\r
  82   TitledBorder titledBorder1 = new TitledBorder("Proxy Server");\r
  83   TitledBorder titledBorder2 = new TitledBorder("File Output");\r
  84   GridBagLayout gridBagLayout2 = new GridBagLayout();\r
  85   GridBagLayout gridBagLayout1 = new GridBagLayout();\r
  86   GridBagLayout gridBagLayout3 = new GridBagLayout();\r
  87   protected JComboBox sortby = new JComboBox();\r
  88   JLabel sortLabel = new JLabel();\r
  89   JPanel jPanel2 = new JPanel();\r
  90   GridLayout gridLayout2 = new GridLayout();\r
  91   JPanel jPanel3 = new JPanel();\r
  92   JPanel exportTab = new JPanel();\r
  93   JLabel epsLabel = new JLabel();\r
  94   protected JComboBox epsRendering = new JComboBox();\r
  95   JLabel jLabel1 = new JLabel();\r
  96   protected  JCheckBox blcjv = new JCheckBox();\r
  97   protected  JCheckBox pileupjv = new JCheckBox();\r
  98   protected  JCheckBox clustaljv = new JCheckBox();\r
  99   protected  JCheckBox msfjv = new JCheckBox();\r
 100   protected  JCheckBox fastajv = new JCheckBox();\r
 101   protected  JCheckBox pfamjv = new JCheckBox();\r
 102   FlowLayout flowLayout1 = new FlowLayout();\r
 103   protected  JCheckBox pirjv = new JCheckBox();\r
 104   JPanel jPanel11 = new JPanel();\r
 105   Font verdana11 = new java.awt.Font("Verdana", Font.PLAIN, 11);\r
 106   protected JCheckBox seqLimit = new JCheckBox();\r
 107   GridLayout gridLayout3 = new GridLayout();\r
 108   protected JCheckBox smoothFont = new JCheckBox();\r
 109   JPanel calcTab = new JPanel();\r
 110   protected JCheckBox autoCalculateConsCheck = new JCheckBox();\r
 111   protected JCheckBox padGaps = new JCheckBox();\r
 112   protected JCheckBox modellerOutput = new JCheckBox();\r
 113   protected JPanel dasPanel = new JPanel();\r
 114   BorderLayout borderLayout4 = new BorderLayout();\r
 115   protected JCheckBox wrap = new JCheckBox();\r
 116   protected JCheckBox rightAlign = new JCheckBox();\r
 117   /**\r
 118      * Creates a new GPreferences object.\r
 119      */\r
 120     public GPreferences()\r
 121     {\r
 122         try\r
 123         {\r
 124             jbInit();\r
 125         }\r
 126         catch (Exception ex)\r
 127         {\r
 128             ex.printStackTrace();\r
 129         }\r
 130     }\r
 131 \r
 132     /**\r
 133      * DOCUMENT ME!\r
 134      *\r
 135      * @throws Exception DOCUMENT ME!\r
 136      */\r
 137     private void jbInit() throws Exception\r
 138     {\r
 139         this.setLayout(borderLayout1);\r
 140         ok.setText("OK");\r
 141         ok.addActionListener(new ActionListener()\r
 142             {\r
 143                 public void actionPerformed(ActionEvent e)\r
 144                 {\r
 145                     ok_actionPerformed(e);\r
 146                 }\r
 147             });\r
 148         cancel.setText("Cancel");\r
 149         cancel.addActionListener(new ActionListener()\r
 150             {\r
 151                 public void actionPerformed(ActionEvent e)\r
 152                 {\r
 153                     cancel_actionPerformed(e);\r
 154                 }\r
 155             });\r
 156         quality.setEnabled(false);\r
 157         quality.setFont(verdana11);\r
 158         quality.setHorizontalAlignment(SwingConstants.RIGHT);\r
 159         quality.setHorizontalTextPosition(SwingConstants.LEFT);\r
 160         quality.setSelected(true);\r
 161         quality.setText("Quality");\r
 162     visualTab.setBorder(new TitledBorder("Open new alignment"));\r
 163     visualTab.setLayout(null);\r
 164     fullScreen.setFont(verdana11);\r
 165         fullScreen.setHorizontalAlignment(SwingConstants.RIGHT);\r
 166         fullScreen.setHorizontalTextPosition(SwingConstants.LEFT);\r
 167     fullScreen.setText("Maximise Window");\r
 168     conservation.setEnabled(false);\r
 169         conservation.setFont(verdana11);\r
 170         conservation.setHorizontalAlignment(SwingConstants.RIGHT);\r
 171         conservation.setHorizontalTextPosition(SwingConstants.LEFT);\r
 172         conservation.setSelected(true);\r
 173         conservation.setText("Conservation");\r
 174     identity.setEnabled(false);\r
 175         identity.setFont(verdana11);\r
 176         identity.setHorizontalAlignment(SwingConstants.RIGHT);\r
 177         identity.setHorizontalTextPosition(SwingConstants.LEFT);\r
 178         identity.setSelected(true);\r
 179         identity.setText("Consensus");\r
 180     annotations.setFont(verdana11);\r
 181         annotations.setHorizontalAlignment(SwingConstants.RIGHT);\r
 182         annotations.setHorizontalTextPosition(SwingConstants.LEFT);\r
 183     annotations.setSelected(true);\r
 184         annotations.setText("Show Annotations");\r
 185     annotations.addActionListener(new ActionListener()\r
 186             {\r
 187                 public void actionPerformed(ActionEvent e)\r
 188                 {\r
 189                     annotations_actionPerformed(e);\r
 190                 }\r
 191             });\r
 192         gapLabel.setFont(verdana11);\r
 193         gapLabel.setHorizontalAlignment(SwingConstants.RIGHT);\r
 194         gapLabel.setText("Gap Symbol ");\r
 195     colour.setFont(verdana11);\r
 196         colour.setBounds(new Rectangle(172, 203, 155, 21));\r
 197         colourLabel.setFont(verdana11);\r
 198         colourLabel.setHorizontalAlignment(SwingConstants.RIGHT);\r
 199         colourLabel.setText("Colour ");\r
 200     fontLabel.setFont(verdana11);\r
 201         fontLabel.setHorizontalAlignment(SwingConstants.RIGHT);\r
 202         fontLabel.setText("Font ");\r
 203     fontSizeCB.setFont(verdana11);\r
 204         fontSizeCB.setBounds(new Rectangle(319, 111, 49, 21));\r
 205         fontStyleCB.setFont(verdana11);\r
 206         fontStyleCB.setBounds(new Rectangle(367, 111, 70, 21));\r
 207         fontNameCB.setFont(verdana11);\r
 208         fontNameCB.setBounds(new Rectangle(172, 111, 147, 21));\r
 209         gapSymbolCB.setFont(verdana11);\r
 210         gapSymbolCB.setBounds(new Rectangle(172, 179, 69, 21));\r
 211         startupCheckbox.setText("Open file");\r
 212     startupCheckbox.setFont(verdana11);\r
 213         startupCheckbox.setHorizontalAlignment(SwingConstants.RIGHT);\r
 214         startupCheckbox.setHorizontalTextPosition(SwingConstants.LEFT);\r
 215         startupCheckbox.setSelected(true);\r
 216         startupFileTextfield.setFont(verdana11);\r
 217         startupFileTextfield.setBounds(new Rectangle(172, 249, 270, 20));\r
 218         startupFileTextfield.addMouseListener(new MouseAdapter()\r
 219             {\r
 220                 public void mouseClicked(MouseEvent e)\r
 221                 {\r
 222                     if (e.getClickCount() > 1)\r
 223                     {\r
 224                         startupFileTextfield_mouseClicked();\r
 225                     }\r
 226                 }\r
 227             });\r
 228 \r
 229      connectTab.setLayout(gridBagLayout3);\r
 230     serverLabel.setText("Address");\r
 231     serverLabel.setHorizontalAlignment(SwingConstants.RIGHT);\r
 232     serverLabel.setFont(verdana11);\r
 233     proxyServerTB.setFont(verdana11);\r
 234     proxyPortTB.setFont(verdana11);\r
 235     portLabel.setFont(verdana11);\r
 236     portLabel.setHorizontalAlignment(SwingConstants.RIGHT);\r
 237     portLabel.setText("Port");\r
 238     browserLabel.setFont(new java.awt.Font("SansSerif", 0, 11));\r
 239     browserLabel.setHorizontalAlignment(SwingConstants.TRAILING);\r
 240     browserLabel.setText("Default Browser (Unix)");\r
 241     defaultBrowser.setFont(verdana11);\r
 242     defaultBrowser.setText("");\r
 243     newLink.setText("New");\r
 244     newLink.addActionListener(new java.awt.event.ActionListener() {\r
 245       public void actionPerformed(ActionEvent e) {\r
 246         newLink_actionPerformed(e);\r
 247       }\r
 248     });\r
 249     editLink.setText("Edit");\r
 250     editLink.addActionListener(new java.awt.event.ActionListener() {\r
 251       public void actionPerformed(ActionEvent e) {\r
 252         editLink_actionPerformed(e);\r
 253       }\r
 254     });\r
 255     deleteLink.setText("Delete");\r
 256     deleteLink.addActionListener(new java.awt.event.ActionListener() {\r
 257       public void actionPerformed(ActionEvent e) {\r
 258         deleteLink_actionPerformed(e);\r
 259       }\r
 260     });\r
 261 \r
 262     linkURLList.addListSelectionListener(new ListSelectionListener()\r
 263          {\r
 264             public void valueChanged(ListSelectionEvent e)\r
 265             {\r
 266                int index = linkURLList.getSelectedIndex();\r
 267                linkNameList.setSelectedIndex(index);\r
 268             }\r
 269          });\r
 270 \r
 271     linkNameList.addListSelectionListener(new ListSelectionListener()\r
 272         {\r
 273           public void valueChanged(ListSelectionEvent e)\r
 274           {\r
 275               int index = linkNameList.getSelectedIndex();\r
 276               linkURLList.setSelectedIndex(index);\r
 277           }\r
 278         });\r
 279 \r
 280     linkScrollPane.setBorder(null);\r
 281     linkPanel.setBorder(new TitledBorder("URL link from Sequence ID"));\r
 282     linkPanel.setLayout(borderLayout2);\r
 283     editLinkButtons.setLayout(gridLayout1);\r
 284     gridLayout1.setRows(3);\r
 285     linkNameList.setFont(verdana11);\r
 286     linkNameList.setSelectionMode(ListSelectionModel.SINGLE_SELECTION);\r
 287     linkPanel2.setLayout(borderLayout3);\r
 288     linkURLList.setFont(verdana11);\r
 289     linkURLList.setSelectionMode(ListSelectionModel.SINGLE_SELECTION);\r
 290 \r
 291     defaultBrowser.addMouseListener(new MouseAdapter()\r
 292     {\r
 293       public void mouseClicked(MouseEvent e)\r
 294       {\r
 295         if (e.getClickCount() > 1)\r
 296             {\r
 297               defaultBrowser_mouseClicked(e);\r
 298             }\r
 299       }\r
 300     });\r
 301     useProxy.setFont(verdana11);\r
 302     useProxy.setHorizontalAlignment(SwingConstants.RIGHT);\r
 303     useProxy.setHorizontalTextPosition(SwingConstants.LEADING);\r
 304     useProxy.setText("Use a proxy server");\r
 305     useProxy.addActionListener(new ActionListener()\r
 306     {\r
 307       public void actionPerformed(ActionEvent e)\r
 308       {\r
 309         useProxy_actionPerformed();\r
 310       }\r
 311     });\r
 312     jPanel1.setBorder(titledBorder1);\r
 313     jPanel1.setLayout(gridBagLayout1);\r
 314     sortby.setFont(verdana11);\r
 315     sortby.setBounds(new Rectangle(172, 225, 155, 21));\r
 316     sortLabel.setFont(verdana11);\r
 317     sortLabel.setHorizontalAlignment(SwingConstants.RIGHT);\r
 318     sortLabel.setText("Sort by ");\r
 319     jPanel2.setBounds(new Rectangle(7, 17, 158, 257));\r
 320     jPanel2.setLayout(gridLayout2);\r
 321     gridLayout2.setRows(11);\r
 322     jPanel3.setBounds(new Rectangle(169, 39, 274, 26));\r
 323     exportTab.setLayout(null);\r
 324     epsLabel.setFont(verdana11);\r
 325     epsLabel.setHorizontalAlignment(SwingConstants.RIGHT);\r
 326     epsLabel.setText("EPS Rendering Style");\r
 327     epsLabel.setBounds(new Rectangle(9, 31, 140, 24));\r
 328     epsRendering.setFont(verdana11);\r
 329     epsRendering.setBounds(new Rectangle(154, 34, 187, 21));\r
 330     jLabel1.setFont(verdana11);\r
 331     jLabel1.setHorizontalAlignment(SwingConstants.CENTER);\r
 332     jLabel1.setText("Append /start-end (/15-380)");\r
 333     jLabel1.setFont(verdana11);\r
 334     fastajv.setFont(verdana11);\r
 335     fastajv.setHorizontalAlignment(SwingConstants.LEFT);\r
 336     clustaljv.setText("Clustal     ");\r
 337     blcjv.setText("BLC     ");\r
 338     fastajv.setText("Fasta     ");\r
 339     msfjv.setText("MSF     ");\r
 340     pfamjv.setText("PFAM     ");\r
 341     pileupjv.setText("Pileup     ");\r
 342     msfjv.setFont(verdana11);\r
 343     msfjv.setHorizontalAlignment(SwingConstants.LEFT);\r
 344     pirjv.setText("PIR     ");\r
 345     jPanel11.setFont(verdana11);\r
 346     jPanel11.setBorder(titledBorder2);\r
 347     jPanel11.setBounds(new Rectangle(30, 72, 196, 182));\r
 348     jPanel11.setLayout(gridLayout3);\r
 349     blcjv.setFont(verdana11);\r
 350     blcjv.setHorizontalAlignment(SwingConstants.LEFT);\r
 351     clustaljv.setFont(verdana11);\r
 352     clustaljv.setHorizontalAlignment(SwingConstants.LEFT);\r
 353     pfamjv.setFont(verdana11);\r
 354     pfamjv.setHorizontalAlignment(SwingConstants.LEFT);\r
 355     pileupjv.setFont(verdana11);\r
 356     pileupjv.setHorizontalAlignment(SwingConstants.LEFT);\r
 357     pirjv.setFont(verdana11);\r
 358     pirjv.setHorizontalAlignment(SwingConstants.LEFT);\r
 359     seqLimit.setFont(verdana11);\r
 360     seqLimit.setHorizontalAlignment(SwingConstants.RIGHT);\r
 361     seqLimit.setHorizontalTextPosition(SwingConstants.LEFT);\r
 362     seqLimit.setText("Full Sequence Id");\r
 363     gridLayout3.setRows(8);\r
 364     smoothFont.setFont(verdana11);\r
 365     smoothFont.setHorizontalAlignment(SwingConstants.RIGHT);\r
 366     smoothFont.setHorizontalTextPosition(SwingConstants.LEADING);\r
 367     smoothFont.setText("Smooth Font");\r
 368     calcTab.setLayout(null);\r
 369     autoCalculateConsCheck.setFont(new java.awt.Font("Verdana", Font.PLAIN, 11));\r
 370     autoCalculateConsCheck.setText("AutoCalculate Consensus");\r
 371     autoCalculateConsCheck.setBounds(new Rectangle(21, 52, 209, 23));\r
 372     padGaps.setFont(new java.awt.Font("Verdana", Font.PLAIN, 11));\r
 373     padGaps.setText("Pad gaps when editing");\r
 374     padGaps.setBounds(new Rectangle(22, 94, 168, 23));\r
 375     modellerOutput.setFont(new java.awt.Font("Verdana", Font.PLAIN, 11));\r
 376     modellerOutput.setText("Use Modeller Output");\r
 377     modellerOutput.setBounds(new Rectangle(228, 226, 168, 23));\r
 378     dasPanel.setLayout(borderLayout4);\r
 379     wrap.setFont(new java.awt.Font("Verdana", Font.PLAIN, 11));\r
 380     wrap.setHorizontalAlignment(SwingConstants.TRAILING);\r
 381     wrap.setHorizontalTextPosition(SwingConstants.LEADING);\r
 382     wrap.setText("Wrap Alignment");\r
 383     rightAlign.setFont(new java.awt.Font("Verdana", Font.PLAIN, 11));\r
 384     rightAlign.setForeground(Color.black);\r
 385     rightAlign.setHorizontalAlignment(SwingConstants.RIGHT);\r
 386     rightAlign.setHorizontalTextPosition(SwingConstants.LEFT);\r
 387     rightAlign.setText("Right Align Ids");\r
 388     jPanel2.add(fullScreen);\r
 389 \r
 390     jPanel2.add(annotations);\r
 391     jPanel2.add(seqLimit);\r
 392     jPanel2.add(rightAlign);\r
 393     jPanel2.add(fontLabel);\r
 394     jPanel2.add(smoothFont);\r
 395     jPanel2.add(wrap);\r
 396     jPanel2.add(gapLabel);\r
 397     jPanel2.add(colourLabel);\r
 398     jPanel2.add(sortLabel);\r
 399     jPanel2.add(startupCheckbox);\r
 400     visualTab.add(fontNameCB);\r
 401     visualTab.add(fontSizeCB);\r
 402     visualTab.add(fontStyleCB);\r
 403     visualTab.add(startupFileTextfield);\r
 404     visualTab.add(gapSymbolCB);\r
 405     visualTab.add(colour);\r
 406     visualTab.add(sortby);\r
 407     visualTab.add(jPanel3);\r
 408     jPanel3.add(conservation);\r
 409     jPanel3.add(identity);\r
 410     jPanel3.add(quality);\r
 411     visualTab.add(jPanel2);\r
 412     linkPanel.add(editLinkButtons, BorderLayout.EAST);\r
 413     editLinkButtons.add(newLink, null);\r
 414     editLinkButtons.add(editLink, null);\r
 415     editLinkButtons.add(deleteLink, null);\r
 416     linkPanel.add(linkScrollPane, BorderLayout.CENTER);\r
 417     linkScrollPane.getViewport().add(linkPanel2, null);\r
 418     linkPanel2.add(linkURLList, BorderLayout.CENTER);\r
 419     linkPanel2.add(linkNameList, BorderLayout.WEST);\r
 420         okCancelPanel.add(ok);\r
 421         okCancelPanel.add(cancel);\r
 422     this.add(tabbedPane, java.awt.BorderLayout.CENTER);\r
 423 \r
 424         this.add(okCancelPanel, java.awt.BorderLayout.SOUTH);\r
 425     jPanel1.add(serverLabel, new GridBagConstraints(0, 1, 1, 1, 0.0, 0.0\r
 426         , GridBagConstraints.WEST, GridBagConstraints.NONE,\r
 427         new Insets(0, 2, 4, 0), 5, 0));\r
 428     jPanel1.add(portLabel, new GridBagConstraints(2, 1, 1, 1, 0.0, 0.0\r
 429                                                   , GridBagConstraints.WEST,\r
 430                                                   GridBagConstraints.NONE,\r
 431                                                   new Insets(0, 0, 4, 0), 11, 6));\r
 432     connectTab.add(linkPanel, new GridBagConstraints(0, 0, 2, 1, 1.0, 1.0\r
 433         , GridBagConstraints.CENTER, GridBagConstraints.BOTH,\r
 434         new Insets(16, 0, 0, 12), 359, -17));\r
 435     connectTab.add(jPanel1, new GridBagConstraints(0, 2, 2, 1, 1.0, 1.0\r
 436         , GridBagConstraints.CENTER, GridBagConstraints.BOTH,\r
 437         new Insets(21, 0, 35, 12), 4, 6));\r
 438     connectTab.add(browserLabel, new GridBagConstraints(0, 1, 1, 1, 0.0, 0.0\r
 439         , GridBagConstraints.WEST, GridBagConstraints.NONE,\r
 440         new Insets(16, 0, 0, 0), 5, 1));\r
 441     jPanel1.add(proxyPortTB, new GridBagConstraints(3, 1, 1, 1, 1.0, 0.0\r
 442         , GridBagConstraints.WEST, GridBagConstraints.HORIZONTAL,\r
 443         new Insets(0, 2, 4, 2), 54, 1));\r
 444     jPanel1.add(proxyServerTB, new GridBagConstraints(1, 1, 1, 1, 1.0, 0.0\r
 445         , GridBagConstraints.WEST, GridBagConstraints.HORIZONTAL,\r
 446         new Insets(0, 2, 4, 0), 263, 1));\r
 447     connectTab.add(defaultBrowser, new GridBagConstraints(1, 1, 1, 1, 1.0, 0.0\r
 448         , GridBagConstraints.WEST, GridBagConstraints.HORIZONTAL,\r
 449         new Insets(15, 0, 0, 15), 307, 1));\r
 450 \r
 451 \r
 452     jPanel1.add(useProxy, new GridBagConstraints(0, 0, 2, 1, 0.0, 0.0\r
 453                                                  , GridBagConstraints.WEST,\r
 454                                                  GridBagConstraints.NONE,\r
 455                                                  new Insets(0, 2, 5, 185), 2,\r
 456                                                  -4));\r
 457     DefaultListCellRenderer dlcr = new DefaultListCellRenderer();\r
 458         dlcr.setHorizontalAlignment(DefaultListCellRenderer.CENTER);\r
 459         gapSymbolCB.setRenderer(dlcr);\r
 460 \r
 461     tabbedPane.add(visualTab, "Visual");\r
 462     tabbedPane.add(connectTab,"Connections");\r
 463     tabbedPane.add(exportTab, "Output");\r
 464     jPanel11.add(jLabel1);\r
 465     jPanel11.add(blcjv);\r
 466     jPanel11.add(clustaljv);\r
 467     jPanel11.add(fastajv);\r
 468     jPanel11.add(msfjv);\r
 469     jPanel11.add(pfamjv);\r
 470     jPanel11.add(pileupjv);\r
 471     jPanel11.add(pirjv);\r
 472     exportTab.add(modellerOutput);\r
 473     tabbedPane.add(calcTab, "Editing");\r
 474     calcTab.add(autoCalculateConsCheck);\r
 475     calcTab.add(padGaps);\r
 476     tabbedPane.add(dasPanel, "DAS Settings");\r
 477 \r
 478     exportTab.add(epsLabel);\r
 479     exportTab.add(epsRendering);\r
 480     exportTab.add(jPanel11);\r
 481   }\r
 482 \r
 483     /**\r
 484      * DOCUMENT ME!\r
 485      *\r
 486      * @param e DOCUMENT ME!\r
 487      */\r
 488     public void ok_actionPerformed(ActionEvent e)\r
 489     {\r
 490     }\r
 491 \r
 492     /**\r
 493      * DOCUMENT ME!\r
 494      *\r
 495      * @param e DOCUMENT ME!\r
 496      */\r
 497     public void cancel_actionPerformed(ActionEvent e)\r
 498     {\r
 499     }\r
 500 \r
 501     /**\r
 502      * DOCUMENT ME!\r
 503      *\r
 504      * @param e DOCUMENT ME!\r
 505      */\r
 506     public void annotations_actionPerformed(ActionEvent e)\r
 507     {\r
 508     }\r
 509 \r
 510 \r
 511     /**\r
 512      * DOCUMENT ME!\r
 513      */\r
 514     public void startupFileTextfield_mouseClicked()\r
 515     {\r
 516     }\r
 517 \r
 518 \r
 519   public void newLink_actionPerformed(ActionEvent e) {\r
 520 \r
 521   }\r
 522 \r
 523   public void editLink_actionPerformed(ActionEvent e) {\r
 524 \r
 525   }\r
 526 \r
 527   public void deleteLink_actionPerformed(ActionEvent e) {\r
 528 \r
 529   }\r
 530 \r
 531   public void defaultBrowser_mouseClicked(MouseEvent e)\r
 532   {\r
 533 \r
 534   }\r
 535 \r
 536   public void linkURLList_keyTyped(KeyEvent e)\r
 537   {\r
 538 \r
 539   }\r
 540 \r
 541   public void useProxy_actionPerformed()\r
 542   {\r
 543       proxyServerTB.setEnabled(useProxy.isSelected());\r
 544       proxyPortTB.setEnabled(useProxy.isSelected());\r
 545   }\r
 546 }\r