src/jalview/jbgui/GPreferences.java

   1 /*\r
   2 * Jalview - A Sequence Alignment Editor and Viewer\r
   3 * Copyright (C) 2005 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   /**\r
 117      * Creates a new GPreferences object.\r
 118      */\r
 119     public GPreferences()\r
 120     {\r
 121         try\r
 122         {\r
 123             jbInit();\r
 124         }\r
 125         catch (Exception ex)\r
 126         {\r
 127             ex.printStackTrace();\r
 128         }\r
 129     }\r
 130 \r
 131     /**\r
 132      * DOCUMENT ME!\r
 133      *\r
 134      * @throws Exception DOCUMENT ME!\r
 135      */\r
 136     private void jbInit() throws Exception\r
 137     {\r
 138         this.setLayout(borderLayout1);\r
 139         ok.setText("OK");\r
 140         ok.addActionListener(new ActionListener()\r
 141             {\r
 142                 public void actionPerformed(ActionEvent e)\r
 143                 {\r
 144                     ok_actionPerformed(e);\r
 145                 }\r
 146             });\r
 147         cancel.setText("Cancel");\r
 148         cancel.addActionListener(new ActionListener()\r
 149             {\r
 150                 public void actionPerformed(ActionEvent e)\r
 151                 {\r
 152                     cancel_actionPerformed(e);\r
 153                 }\r
 154             });\r
 155         quality.setEnabled(false);\r
 156         quality.setFont(verdana11);\r
 157         quality.setHorizontalAlignment(SwingConstants.RIGHT);\r
 158         quality.setHorizontalTextPosition(SwingConstants.LEFT);\r
 159         quality.setSelected(true);\r
 160         quality.setText("Quality");\r
 161     visualTab.setBorder(new TitledBorder("Open new alignment"));\r
 162     visualTab.setLayout(null);\r
 163     fullScreen.setFont(verdana11);\r
 164         fullScreen.setHorizontalAlignment(SwingConstants.RIGHT);\r
 165         fullScreen.setHorizontalTextPosition(SwingConstants.LEFT);\r
 166     fullScreen.setMargin(new Insets(2, 2, 2, 0));\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.setMargin(new Insets(2, 2, 2, 0));\r
 184     annotations.setSelected(true);\r
 185         annotations.setText("Show Annotations");\r
 186     annotations.addActionListener(new ActionListener()\r
 187             {\r
 188                 public void actionPerformed(ActionEvent e)\r
 189                 {\r
 190                     annotations_actionPerformed(e);\r
 191                 }\r
 192             });\r
 193         gapLabel.setFont(verdana11);\r
 194         gapLabel.setHorizontalAlignment(SwingConstants.RIGHT);\r
 195         gapLabel.setText("Gap Symbol ");\r
 196     colour.setFont(verdana11);\r
 197         colour.setBounds(new Rectangle(172, 188, 155, 21));\r
 198         colourLabel.setFont(verdana11);\r
 199         colourLabel.setHorizontalAlignment(SwingConstants.RIGHT);\r
 200         colourLabel.setText("Colour ");\r
 201     fontLabel.setFont(verdana11);\r
 202         fontLabel.setHorizontalAlignment(SwingConstants.RIGHT);\r
 203         fontLabel.setText("Font ");\r
 204     fontSizeCB.setFont(verdana11);\r
 205         fontSizeCB.setBounds(new Rectangle(317, 92, 49, 21));\r
 206         fontStyleCB.setFont(verdana11);\r
 207         fontStyleCB.setBounds(new Rectangle(364, 92, 70, 21));\r
 208         fontNameCB.setFont(verdana11);\r
 209         fontNameCB.setBounds(new Rectangle(171, 92, 147, 21));\r
 210         gapSymbolCB.setFont(verdana11);\r
 211         gapSymbolCB.setBounds(new Rectangle(172, 163, 69, 21));\r
 212         startupCheckbox.setText("Open file");\r
 213     startupCheckbox.setFont(verdana11);\r
 214         startupCheckbox.setHorizontalAlignment(SwingConstants.RIGHT);\r
 215         startupCheckbox.setHorizontalTextPosition(SwingConstants.LEFT);\r
 216         startupCheckbox.setSelected(true);\r
 217         startupFileTextfield.setFont(verdana11);\r
 218         startupFileTextfield.setBounds(new Rectangle(171, 236, 270, 20));\r
 219         startupFileTextfield.addMouseListener(new MouseAdapter()\r
 220             {\r
 221                 public void mouseClicked(MouseEvent e)\r
 222                 {\r
 223                     if (e.getClickCount() > 1)\r
 224                     {\r
 225                         startupFileTextfield_mouseClicked();\r
 226                     }\r
 227                 }\r
 228             });\r
 229 \r
 230      connectTab.setLayout(gridBagLayout3);\r
 231     serverLabel.setText("Address");\r
 232     serverLabel.setHorizontalAlignment(SwingConstants.RIGHT);\r
 233     serverLabel.setFont(verdana11);\r
 234     proxyServerTB.setFont(verdana11);\r
 235     proxyPortTB.setFont(verdana11);\r
 236     portLabel.setFont(verdana11);\r
 237     portLabel.setHorizontalAlignment(SwingConstants.RIGHT);\r
 238     portLabel.setText("Port");\r
 239     browserLabel.setFont(new java.awt.Font("SansSerif", 0, 11));\r
 240     browserLabel.setHorizontalAlignment(SwingConstants.TRAILING);\r
 241     browserLabel.setText("Default Browser (Unix)");\r
 242     defaultBrowser.setFont(verdana11);\r
 243     defaultBrowser.setText("");\r
 244     newLink.setText("New");\r
 245     newLink.addActionListener(new java.awt.event.ActionListener() {\r
 246       public void actionPerformed(ActionEvent e) {\r
 247         newLink_actionPerformed(e);\r
 248       }\r
 249     });\r
 250     editLink.setText("Edit");\r
 251     editLink.addActionListener(new java.awt.event.ActionListener() {\r
 252       public void actionPerformed(ActionEvent e) {\r
 253         editLink_actionPerformed(e);\r
 254       }\r
 255     });\r
 256     deleteLink.setText("Delete");\r
 257     deleteLink.addActionListener(new java.awt.event.ActionListener() {\r
 258       public void actionPerformed(ActionEvent e) {\r
 259         deleteLink_actionPerformed(e);\r
 260       }\r
 261     });\r
 262 \r
 263     linkURLList.addListSelectionListener(new ListSelectionListener()\r
 264          {\r
 265             public void valueChanged(ListSelectionEvent e)\r
 266             {\r
 267                int index = linkURLList.getSelectedIndex();\r
 268                linkNameList.setSelectedIndex(index);\r
 269             }\r
 270          });\r
 271 \r
 272     linkNameList.addListSelectionListener(new ListSelectionListener()\r
 273         {\r
 274           public void valueChanged(ListSelectionEvent e)\r
 275           {\r
 276               int index = linkNameList.getSelectedIndex();\r
 277               linkURLList.setSelectedIndex(index);\r
 278           }\r
 279         });\r
 280 \r
 281     linkScrollPane.setBorder(null);\r
 282     linkPanel.setBorder(new TitledBorder("URL link from Sequence ID"));\r
 283     linkPanel.setLayout(borderLayout2);\r
 284     editLinkButtons.setLayout(gridLayout1);\r
 285     gridLayout1.setRows(3);\r
 286     linkNameList.setFont(verdana11);\r
 287     linkNameList.setSelectionMode(ListSelectionModel.SINGLE_SELECTION);\r
 288     linkPanel2.setLayout(borderLayout3);\r
 289     linkURLList.setFont(verdana11);\r
 290     linkURLList.setSelectionMode(ListSelectionModel.SINGLE_SELECTION);\r
 291 \r
 292     defaultBrowser.addMouseListener(new MouseAdapter()\r
 293     {\r
 294       public void mouseClicked(MouseEvent e)\r
 295       {\r
 296         if (e.getClickCount() > 1)\r
 297             {\r
 298               defaultBrowser_mouseClicked(e);\r
 299             }\r
 300       }\r
 301     });\r
 302     useProxy.setFont(verdana11);\r
 303     useProxy.setHorizontalAlignment(SwingConstants.RIGHT);\r
 304     useProxy.setHorizontalTextPosition(SwingConstants.LEADING);\r
 305     useProxy.setText("Use a proxy server");\r
 306     useProxy.addActionListener(new ActionListener()\r
 307     {\r
 308       public void actionPerformed(ActionEvent e)\r
 309       {\r
 310         useProxy_actionPerformed();\r
 311       }\r
 312     });\r
 313     jPanel1.setBorder(titledBorder1);\r
 314     jPanel1.setLayout(gridBagLayout1);\r
 315     sortby.setFont(verdana11);\r
 316     sortby.setBounds(new Rectangle(171, 213, 155, 21));\r
 317     sortLabel.setFont(verdana11);\r
 318     sortLabel.setHorizontalAlignment(SwingConstants.RIGHT);\r
 319     sortLabel.setText("Sort by ");\r
 320     jPanel2.setBounds(new Rectangle(7, 17, 158, 245));\r
 321     jPanel2.setLayout(gridLayout2);\r
 322     gridLayout2.setRows(10);\r
 323     jPanel3.setBounds(new Rectangle(169, 39, 274, 26));\r
 324     exportTab.setLayout(null);\r
 325     epsLabel.setFont(verdana11);\r
 326     epsLabel.setHorizontalAlignment(SwingConstants.RIGHT);\r
 327     epsLabel.setText("EPS Rendering Style");\r
 328     epsLabel.setBounds(new Rectangle(9, 31, 140, 24));\r
 329     epsRendering.setFont(verdana11);\r
 330     epsRendering.setBounds(new Rectangle(154, 34, 187, 21));\r
 331     jLabel1.setFont(verdana11);\r
 332     jLabel1.setHorizontalAlignment(SwingConstants.CENTER);\r
 333     jLabel1.setText("Append /start-end (/15-380)");\r
 334     jLabel1.setFont(verdana11);\r
 335     fastajv.setFont(verdana11);\r
 336     fastajv.setHorizontalAlignment(SwingConstants.LEFT);\r
 337     clustaljv.setText("Clustal     ");\r
 338     blcjv.setText("BLC     ");\r
 339     fastajv.setText("Fasta     ");\r
 340     msfjv.setText("MSF     ");\r
 341     pfamjv.setText("PFAM     ");\r
 342     pileupjv.setText("Pileup     ");\r
 343     msfjv.setFont(verdana11);\r
 344     msfjv.setHorizontalAlignment(SwingConstants.LEFT);\r
 345     pirjv.setText("PIR     ");\r
 346     jPanel11.setFont(verdana11);\r
 347     jPanel11.setBorder(titledBorder2);\r
 348     jPanel11.setBounds(new Rectangle(30, 72, 196, 182));\r
 349     jPanel11.setLayout(gridLayout3);\r
 350     blcjv.setFont(verdana11);\r
 351     blcjv.setHorizontalAlignment(SwingConstants.LEFT);\r
 352     clustaljv.setFont(verdana11);\r
 353     clustaljv.setHorizontalAlignment(SwingConstants.LEFT);\r
 354     pfamjv.setFont(verdana11);\r
 355     pfamjv.setHorizontalAlignment(SwingConstants.LEFT);\r
 356     pileupjv.setFont(verdana11);\r
 357     pileupjv.setHorizontalAlignment(SwingConstants.LEFT);\r
 358     pirjv.setFont(verdana11);\r
 359     pirjv.setHorizontalAlignment(SwingConstants.LEFT);\r
 360     seqLimit.setFont(verdana11);\r
 361     seqLimit.setHorizontalAlignment(SwingConstants.RIGHT);\r
 362     seqLimit.setHorizontalTextPosition(SwingConstants.LEFT);\r
 363     seqLimit.setMargin(new Insets(2, 2, 2, 0));\r
 364     seqLimit.setText("Full Sequence Id");\r
 365     gridLayout3.setRows(8);\r
 366     smoothFont.setFont(verdana11);\r
 367     smoothFont.setHorizontalAlignment(SwingConstants.RIGHT);\r
 368     smoothFont.setHorizontalTextPosition(SwingConstants.LEADING);\r
 369     smoothFont.setText("Smooth Font");\r
 370     calcTab.setLayout(null);\r
 371     autoCalculateConsCheck.setFont(new java.awt.Font("Verdana", Font.PLAIN, 11));\r
 372     autoCalculateConsCheck.setText("AutoCalculate Consensus");\r
 373     autoCalculateConsCheck.setBounds(new Rectangle(21, 52, 209, 23));\r
 374     padGaps.setFont(new java.awt.Font("Verdana", Font.PLAIN, 11));\r
 375     padGaps.setText("Pad gaps when editing");\r
 376     padGaps.setBounds(new Rectangle(22, 94, 168, 23));\r
 377     modellerOutput.setFont(new java.awt.Font("Verdana", Font.PLAIN, 11));\r
 378     modellerOutput.setText("Use Modeller Output");\r
 379     modellerOutput.setBounds(new Rectangle(228, 226, 168, 23));\r
 380     dasPanel.setLayout(borderLayout4);\r
 381     wrap.setFont(new java.awt.Font("Verdana", Font.PLAIN, 11));\r
 382     wrap.setHorizontalAlignment(SwingConstants.TRAILING);\r
 383     wrap.setHorizontalTextPosition(SwingConstants.LEADING);\r
 384     wrap.setText("Wrap Alignment");\r
 385     jPanel2.add(fullScreen);\r
 386 \r
 387     jPanel2.add(annotations);\r
 388     jPanel2.add(seqLimit);\r
 389     jPanel2.add(fontLabel);\r
 390     jPanel2.add(smoothFont);\r
 391     jPanel2.add(wrap);\r
 392     jPanel2.add(gapLabel);\r
 393     jPanel2.add(colourLabel);\r
 394     jPanel2.add(sortLabel);\r
 395     jPanel2.add(startupCheckbox);\r
 396     visualTab.add(sortby);\r
 397     visualTab.add(gapSymbolCB);\r
 398     visualTab.add(colour);\r
 399     visualTab.add(fontNameCB);\r
 400     visualTab.add(fontSizeCB);\r
 401     visualTab.add(fontStyleCB);\r
 402     visualTab.add(jPanel3);\r
 403     visualTab.add(startupFileTextfield);\r
 404     jPanel3.add(conservation);\r
 405     jPanel3.add(identity);\r
 406     jPanel3.add(quality);\r
 407     visualTab.add(jPanel2);\r
 408     linkPanel.add(editLinkButtons, BorderLayout.EAST);\r
 409     editLinkButtons.add(newLink, null);\r
 410     editLinkButtons.add(editLink, null);\r
 411     editLinkButtons.add(deleteLink, null);\r
 412     linkPanel.add(linkScrollPane, BorderLayout.CENTER);\r
 413     linkScrollPane.getViewport().add(linkPanel2, null);\r
 414     linkPanel2.add(linkURLList, BorderLayout.CENTER);\r
 415     linkPanel2.add(linkNameList, BorderLayout.WEST);\r
 416         okCancelPanel.add(ok);\r
 417         okCancelPanel.add(cancel);\r
 418     this.add(tabbedPane, java.awt.BorderLayout.CENTER);\r
 419 \r
 420         this.add(okCancelPanel, java.awt.BorderLayout.SOUTH);\r
 421     jPanel1.add(serverLabel, new GridBagConstraints(0, 1, 1, 1, 0.0, 0.0\r
 422         , GridBagConstraints.WEST, GridBagConstraints.NONE,\r
 423         new Insets(0, 2, 4, 0), 5, 0));\r
 424     jPanel1.add(portLabel, new GridBagConstraints(2, 1, 1, 1, 0.0, 0.0\r
 425                                                   , GridBagConstraints.WEST,\r
 426                                                   GridBagConstraints.NONE,\r
 427                                                   new Insets(0, 0, 4, 0), 11, 6));\r
 428     connectTab.add(linkPanel, new GridBagConstraints(0, 0, 2, 1, 1.0, 1.0\r
 429         , GridBagConstraints.CENTER, GridBagConstraints.BOTH,\r
 430         new Insets(16, 0, 0, 12), 359, -17));\r
 431     connectTab.add(jPanel1, new GridBagConstraints(0, 2, 2, 1, 1.0, 1.0\r
 432         , GridBagConstraints.CENTER, GridBagConstraints.BOTH,\r
 433         new Insets(21, 0, 35, 12), 4, 6));\r
 434     connectTab.add(browserLabel, new GridBagConstraints(0, 1, 1, 1, 0.0, 0.0\r
 435         , GridBagConstraints.WEST, GridBagConstraints.NONE,\r
 436         new Insets(16, 0, 0, 0), 5, 1));\r
 437     jPanel1.add(proxyPortTB, new GridBagConstraints(3, 1, 1, 1, 1.0, 0.0\r
 438         , GridBagConstraints.WEST, GridBagConstraints.HORIZONTAL,\r
 439         new Insets(0, 2, 4, 2), 54, 1));\r
 440     jPanel1.add(proxyServerTB, new GridBagConstraints(1, 1, 1, 1, 1.0, 0.0\r
 441         , GridBagConstraints.WEST, GridBagConstraints.HORIZONTAL,\r
 442         new Insets(0, 2, 4, 0), 263, 1));\r
 443     connectTab.add(defaultBrowser, new GridBagConstraints(1, 1, 1, 1, 1.0, 0.0\r
 444         , GridBagConstraints.WEST, GridBagConstraints.HORIZONTAL,\r
 445         new Insets(15, 0, 0, 15), 307, 1));\r
 446 \r
 447 \r
 448     jPanel1.add(useProxy, new GridBagConstraints(0, 0, 2, 1, 0.0, 0.0\r
 449                                                  , GridBagConstraints.WEST,\r
 450                                                  GridBagConstraints.NONE,\r
 451                                                  new Insets(0, 2, 5, 185), 2,\r
 452                                                  -4));\r
 453     DefaultListCellRenderer dlcr = new DefaultListCellRenderer();\r
 454         dlcr.setHorizontalAlignment(DefaultListCellRenderer.CENTER);\r
 455         gapSymbolCB.setRenderer(dlcr);\r
 456 \r
 457     tabbedPane.add(visualTab, "Visual");\r
 458     tabbedPane.add(connectTab,"Connections");\r
 459     tabbedPane.add(exportTab, "Output");\r
 460     jPanel11.add(jLabel1);\r
 461     jPanel11.add(blcjv);\r
 462     jPanel11.add(clustaljv);\r
 463     jPanel11.add(fastajv);\r
 464     jPanel11.add(msfjv);\r
 465     jPanel11.add(pfamjv);\r
 466     jPanel11.add(pileupjv);\r
 467     jPanel11.add(pirjv);\r
 468     exportTab.add(modellerOutput);\r
 469     tabbedPane.add(calcTab, "Editing");\r
 470     calcTab.add(autoCalculateConsCheck);\r
 471     calcTab.add(padGaps);\r
 472     tabbedPane.add(dasPanel, "DAS Settings");\r
 473 \r
 474     exportTab.add(epsLabel);\r
 475     exportTab.add(epsRendering);\r
 476     exportTab.add(jPanel11);\r
 477   }\r
 478 \r
 479     /**\r
 480      * DOCUMENT ME!\r
 481      *\r
 482      * @param e DOCUMENT ME!\r
 483      */\r
 484     public void ok_actionPerformed(ActionEvent e)\r
 485     {\r
 486     }\r
 487 \r
 488     /**\r
 489      * DOCUMENT ME!\r
 490      *\r
 491      * @param e DOCUMENT ME!\r
 492      */\r
 493     public void cancel_actionPerformed(ActionEvent e)\r
 494     {\r
 495     }\r
 496 \r
 497     /**\r
 498      * DOCUMENT ME!\r
 499      *\r
 500      * @param e DOCUMENT ME!\r
 501      */\r
 502     public void annotations_actionPerformed(ActionEvent e)\r
 503     {\r
 504     }\r
 505 \r
 506 \r
 507     /**\r
 508      * DOCUMENT ME!\r
 509      */\r
 510     public void startupFileTextfield_mouseClicked()\r
 511     {\r
 512     }\r
 513 \r
 514 \r
 515   public void newLink_actionPerformed(ActionEvent e) {\r
 516 \r
 517   }\r
 518 \r
 519   public void editLink_actionPerformed(ActionEvent e) {\r
 520 \r
 521   }\r
 522 \r
 523   public void deleteLink_actionPerformed(ActionEvent e) {\r
 524 \r
 525   }\r
 526 \r
 527   public void defaultBrowser_mouseClicked(MouseEvent e)\r
 528   {\r
 529 \r
 530   }\r
 531 \r
 532   public void linkURLList_keyTyped(KeyEvent e)\r
 533   {\r
 534 \r
 535   }\r
 536 \r
 537   public void useProxy_actionPerformed()\r
 538   {\r
 539       proxyServerTB.setEnabled(useProxy.isSelected());\r
 540       proxyPortTB.setEnabled(useProxy.isSelected());\r
 541   }\r
 542 }\r