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   protected JCheckBox idItalics = new JCheckBox();\r
 118   /**\r
 119      * Creates a new GPreferences object.\r
 120      */\r
 121     public GPreferences()\r
 122     {\r
 123         try\r
 124         {\r
 125             jbInit();\r
 126         }\r
 127         catch (Exception ex)\r
 128         {\r
 129             ex.printStackTrace();\r
 130         }\r
 131     }\r
 132 \r
 133     /**\r
 134      * DOCUMENT ME!\r
 135      *\r
 136      * @throws Exception DOCUMENT ME!\r
 137      */\r
 138     private void jbInit() throws Exception\r
 139     {\r
 140         this.setLayout(borderLayout1);\r
 141         ok.setText("OK");\r
 142         ok.addActionListener(new ActionListener()\r
 143             {\r
 144                 public void actionPerformed(ActionEvent e)\r
 145                 {\r
 146                     ok_actionPerformed(e);\r
 147                 }\r
 148             });\r
 149         cancel.setText("Cancel");\r
 150         cancel.addActionListener(new ActionListener()\r
 151             {\r
 152                 public void actionPerformed(ActionEvent e)\r
 153                 {\r
 154                     cancel_actionPerformed(e);\r
 155                 }\r
 156             });\r
 157         quality.setEnabled(false);\r
 158         quality.setFont(verdana11);\r
 159         quality.setHorizontalAlignment(SwingConstants.RIGHT);\r
 160         quality.setHorizontalTextPosition(SwingConstants.LEFT);\r
 161         quality.setSelected(true);\r
 162         quality.setText("Quality");\r
 163     visualTab.setBorder(new TitledBorder("Open new alignment"));\r
 164     visualTab.setLayout(null);\r
 165     fullScreen.setFont(verdana11);\r
 166         fullScreen.setHorizontalAlignment(SwingConstants.RIGHT);\r
 167         fullScreen.setHorizontalTextPosition(SwingConstants.LEFT);\r
 168     fullScreen.setText("Maximise Window");\r
 169     conservation.setEnabled(false);\r
 170         conservation.setFont(verdana11);\r
 171         conservation.setHorizontalAlignment(SwingConstants.RIGHT);\r
 172         conservation.setHorizontalTextPosition(SwingConstants.LEFT);\r
 173         conservation.setSelected(true);\r
 174         conservation.setText("Conservation");\r
 175     identity.setEnabled(false);\r
 176         identity.setFont(verdana11);\r
 177         identity.setHorizontalAlignment(SwingConstants.RIGHT);\r
 178         identity.setHorizontalTextPosition(SwingConstants.LEFT);\r
 179         identity.setSelected(true);\r
 180         identity.setText("Consensus");\r
 181     annotations.setFont(verdana11);\r
 182         annotations.setHorizontalAlignment(SwingConstants.RIGHT);\r
 183         annotations.setHorizontalTextPosition(SwingConstants.LEFT);\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, 225, 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(319, 111, 49, 21));\r
 206         fontStyleCB.setFont(verdana11);\r
 207         fontStyleCB.setBounds(new Rectangle(367, 111, 70, 21));\r
 208         fontNameCB.setFont(verdana11);\r
 209         fontNameCB.setBounds(new Rectangle(172, 111, 147, 21));\r
 210         gapSymbolCB.setFont(verdana11);\r
 211         gapSymbolCB.setBounds(new Rectangle(172, 204, 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(172, 273, 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(172, 249, 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, 278));\r
 321     jPanel2.setLayout(gridLayout2);\r
 322     gridLayout2.setRows(12);\r
 323     jPanel3.setBounds(new Rectangle(173, 35, 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.setText("Full Sequence Id");\r
 364     gridLayout3.setRows(8);\r
 365     smoothFont.setFont(verdana11);\r
 366     smoothFont.setHorizontalAlignment(SwingConstants.RIGHT);\r
 367     smoothFont.setHorizontalTextPosition(SwingConstants.LEADING);\r
 368     smoothFont.setText("Smooth Font");\r
 369     calcTab.setLayout(null);\r
 370     autoCalculateConsCheck.setFont(new java.awt.Font("Verdana", Font.PLAIN, 11));\r
 371     autoCalculateConsCheck.setText("AutoCalculate Consensus");\r
 372     autoCalculateConsCheck.setBounds(new Rectangle(21, 52, 209, 23));\r
 373     padGaps.setFont(new java.awt.Font("Verdana", Font.PLAIN, 11));\r
 374     padGaps.setText("Pad gaps when editing");\r
 375     padGaps.setBounds(new Rectangle(22, 94, 168, 23));\r
 376     modellerOutput.setFont(new java.awt.Font("Verdana", Font.PLAIN, 11));\r
 377     modellerOutput.setText("Use Modeller Output");\r
 378     modellerOutput.setBounds(new Rectangle(228, 226, 168, 23));\r
 379     dasPanel.setLayout(borderLayout4);\r
 380     wrap.setFont(new java.awt.Font("Verdana", Font.PLAIN, 11));\r
 381     wrap.setHorizontalAlignment(SwingConstants.TRAILING);\r
 382     wrap.setHorizontalTextPosition(SwingConstants.LEADING);\r
 383     wrap.setText("Wrap Alignment");\r
 384     rightAlign.setFont(new java.awt.Font("Verdana", Font.PLAIN, 11));\r
 385     rightAlign.setForeground(Color.black);\r
 386     rightAlign.setHorizontalAlignment(SwingConstants.RIGHT);\r
 387     rightAlign.setHorizontalTextPosition(SwingConstants.LEFT);\r
 388     rightAlign.setText("Right Align Ids");\r
 389     idItalics.setFont(new java.awt.Font("Verdana", Font.PLAIN, 11));\r
 390     idItalics.setHorizontalAlignment(SwingConstants.RIGHT);\r
 391     idItalics.setHorizontalTextPosition(SwingConstants.LEADING);\r
 392     idItalics.setText("Sequence Name Italics");\r
 393     jPanel2.add(fullScreen);\r
 394     jPanel2.add(annotations);\r
 395     jPanel2.add(seqLimit);\r
 396     jPanel2.add(rightAlign);\r
 397     jPanel2.add(fontLabel);\r
 398     jPanel2.add(idItalics);\r
 399     jPanel2.add(smoothFont);\r
 400     jPanel2.add(wrap);\r
 401     jPanel2.add(gapLabel);\r
 402     jPanel2.add(colourLabel);\r
 403     jPanel2.add(sortLabel);\r
 404     jPanel2.add(startupCheckbox);\r
 405     visualTab.add(startupFileTextfield);\r
 406     visualTab.add(sortby);\r
 407     visualTab.add(colour);\r
 408     visualTab.add(gapSymbolCB);\r
 409     visualTab.add(jPanel3);\r
 410     visualTab.add(fontNameCB);\r
 411     visualTab.add(fontSizeCB);\r
 412     visualTab.add(fontStyleCB);\r
 413     jPanel3.add(conservation);\r
 414     jPanel3.add(identity);\r
 415     jPanel3.add(quality);\r
 416     visualTab.add(jPanel2);\r
 417     linkPanel.add(editLinkButtons, BorderLayout.EAST);\r
 418     editLinkButtons.add(newLink, null);\r
 419     editLinkButtons.add(editLink, null);\r
 420     editLinkButtons.add(deleteLink, null);\r
 421     linkPanel.add(linkScrollPane, BorderLayout.CENTER);\r
 422     linkScrollPane.getViewport().add(linkPanel2, null);\r
 423     linkPanel2.add(linkURLList, BorderLayout.CENTER);\r
 424     linkPanel2.add(linkNameList, BorderLayout.WEST);\r
 425         okCancelPanel.add(ok);\r
 426         okCancelPanel.add(cancel);\r
 427     this.add(tabbedPane, java.awt.BorderLayout.CENTER);\r
 428 \r
 429         this.add(okCancelPanel, java.awt.BorderLayout.SOUTH);\r
 430     jPanel1.add(serverLabel, new GridBagConstraints(0, 1, 1, 1, 0.0, 0.0\r
 431         , GridBagConstraints.WEST, GridBagConstraints.NONE,\r
 432         new Insets(0, 2, 4, 0), 5, 0));\r
 433     jPanel1.add(portLabel, new GridBagConstraints(2, 1, 1, 1, 0.0, 0.0\r
 434                                                   , GridBagConstraints.WEST,\r
 435                                                   GridBagConstraints.NONE,\r
 436                                                   new Insets(0, 0, 4, 0), 11, 6));\r
 437     connectTab.add(linkPanel, new GridBagConstraints(0, 0, 2, 1, 1.0, 1.0\r
 438         , GridBagConstraints.CENTER, GridBagConstraints.BOTH,\r
 439         new Insets(16, 0, 0, 12), 359, -17));\r
 440     connectTab.add(jPanel1, new GridBagConstraints(0, 2, 2, 1, 1.0, 1.0\r
 441         , GridBagConstraints.CENTER, GridBagConstraints.BOTH,\r
 442         new Insets(21, 0, 35, 12), 4, 6));\r
 443     connectTab.add(browserLabel, new GridBagConstraints(0, 1, 1, 1, 0.0, 0.0\r
 444         , GridBagConstraints.WEST, GridBagConstraints.NONE,\r
 445         new Insets(16, 0, 0, 0), 5, 1));\r
 446     jPanel1.add(proxyPortTB, new GridBagConstraints(3, 1, 1, 1, 1.0, 0.0\r
 447         , GridBagConstraints.WEST, GridBagConstraints.HORIZONTAL,\r
 448         new Insets(0, 2, 4, 2), 54, 1));\r
 449     jPanel1.add(proxyServerTB, new GridBagConstraints(1, 1, 1, 1, 1.0, 0.0\r
 450         , GridBagConstraints.WEST, GridBagConstraints.HORIZONTAL,\r
 451         new Insets(0, 2, 4, 0), 263, 1));\r
 452     connectTab.add(defaultBrowser, new GridBagConstraints(1, 1, 1, 1, 1.0, 0.0\r
 453         , GridBagConstraints.WEST, GridBagConstraints.HORIZONTAL,\r
 454         new Insets(15, 0, 0, 15), 307, 1));\r
 455 \r
 456 \r
 457     jPanel1.add(useProxy, new GridBagConstraints(0, 0, 2, 1, 0.0, 0.0\r
 458                                                  , GridBagConstraints.WEST,\r
 459                                                  GridBagConstraints.NONE,\r
 460                                                  new Insets(0, 2, 5, 185), 2,\r
 461                                                  -4));\r
 462     DefaultListCellRenderer dlcr = new DefaultListCellRenderer();\r
 463         dlcr.setHorizontalAlignment(DefaultListCellRenderer.CENTER);\r
 464         gapSymbolCB.setRenderer(dlcr);\r
 465 \r
 466     tabbedPane.add(visualTab, "Visual");\r
 467     tabbedPane.add(connectTab,"Connections");\r
 468     tabbedPane.add(exportTab, "Output");\r
 469     jPanel11.add(jLabel1);\r
 470     jPanel11.add(blcjv);\r
 471     jPanel11.add(clustaljv);\r
 472     jPanel11.add(fastajv);\r
 473     jPanel11.add(msfjv);\r
 474     jPanel11.add(pfamjv);\r
 475     jPanel11.add(pileupjv);\r
 476     jPanel11.add(pirjv);\r
 477     exportTab.add(modellerOutput);\r
 478     tabbedPane.add(calcTab, "Editing");\r
 479     calcTab.add(autoCalculateConsCheck);\r
 480     calcTab.add(padGaps);\r
 481     tabbedPane.add(dasPanel, "DAS Settings");\r
 482 \r
 483     exportTab.add(epsLabel);\r
 484     exportTab.add(epsRendering);\r
 485     exportTab.add(jPanel11);\r
 486   }\r
 487 \r
 488     /**\r
 489      * DOCUMENT ME!\r
 490      *\r
 491      * @param e DOCUMENT ME!\r
 492      */\r
 493     public void ok_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 cancel_actionPerformed(ActionEvent e)\r
 503     {\r
 504     }\r
 505 \r
 506     /**\r
 507      * DOCUMENT ME!\r
 508      *\r
 509      * @param e DOCUMENT ME!\r
 510      */\r
 511     public void annotations_actionPerformed(ActionEvent e)\r
 512     {\r
 513     }\r
 514 \r
 515 \r
 516     /**\r
 517      * DOCUMENT ME!\r
 518      */\r
 519     public void startupFileTextfield_mouseClicked()\r
 520     {\r
 521     }\r
 522 \r
 523 \r
 524   public void newLink_actionPerformed(ActionEvent e) {\r
 525 \r
 526   }\r
 527 \r
 528   public void editLink_actionPerformed(ActionEvent e) {\r
 529 \r
 530   }\r
 531 \r
 532   public void deleteLink_actionPerformed(ActionEvent e) {\r
 533 \r
 534   }\r
 535 \r
 536   public void defaultBrowser_mouseClicked(MouseEvent e)\r
 537   {\r
 538 \r
 539   }\r
 540 \r
 541   public void linkURLList_keyTyped(KeyEvent e)\r
 542   {\r
 543 \r
 544   }\r
 545 \r
 546   public void useProxy_actionPerformed()\r
 547   {\r
 548       proxyServerTB.setEnabled(useProxy.isSelected());\r
 549       proxyPortTB.setEnabled(useProxy.isSelected());\r
 550   }\r
 551 \r
 552 }\r