src/jalview/jbgui/GPreferences.java

   1 /*\r
   2  * Jalview - A Sequence Alignment Editor and Viewer\r
   3  * Copyright (C) 2007 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 import java.awt.event.*;\r
  23 import javax.swing.*;\r
  24 import javax.swing.border.*;\r
  25 import javax.swing.event.*;\r
  26 \r
  27 /**\r
  28  * DOCUMENT ME!\r
  29  *\r
  30  * @author $author$\r
  31  * @version $Revision$\r
  32  */\r
  33 public class GPreferences\r
  34     extends JPanel\r
  35 {\r
  36   JTabbedPane tabbedPane = new JTabbedPane();\r
  37 \r
  38   JButton ok = new JButton();\r
  39   JButton cancel = new JButton();\r
  40   JPanel okCancelPanel = new JPanel();\r
  41   BorderLayout borderLayout1 = new BorderLayout();\r
  42   protected JCheckBox quality = new JCheckBox();\r
  43   JPanel visualTab = new JPanel();\r
  44   protected JCheckBox fullScreen = new JCheckBox();\r
  45   protected JCheckBox conservation = new JCheckBox();\r
  46   protected JCheckBox identity = new JCheckBox();\r
  47   protected JCheckBox annotations = new JCheckBox();\r
  48   JLabel gapLabel = new JLabel();\r
  49   protected JComboBox colour = new JComboBox();\r
  50   JLabel colourLabel = new JLabel();\r
  51   JLabel fontLabel = new JLabel();\r
  52   protected JComboBox fontSizeCB = new JComboBox();\r
  53   protected JComboBox fontStyleCB = new JComboBox();\r
  54   protected JComboBox fontNameCB = new JComboBox();\r
  55   protected JComboBox gapSymbolCB = new JComboBox();\r
  56   protected JCheckBox startupCheckbox = new JCheckBox();\r
  57   protected JTextField startupFileTextfield = new JTextField();\r
  58   JPanel connectTab = new JPanel();\r
  59   JLabel serverLabel = new JLabel();\r
  60   protected JList linkURLList = new JList();\r
  61   protected JTextField proxyServerTB = new JTextField();\r
  62   protected JTextField proxyPortTB = new JTextField();\r
  63   JLabel portLabel = new JLabel();\r
  64   JLabel browserLabel = new JLabel();\r
  65   protected JTextField defaultBrowser = new JTextField();\r
  66   JButton newLink = new JButton();\r
  67   JButton editLink = new JButton();\r
  68   JButton deleteLink = new JButton();\r
  69   JScrollPane linkScrollPane = new JScrollPane();\r
  70   JPanel linkPanel = new JPanel();\r
  71   BorderLayout borderLayout2 = new BorderLayout();\r
  72   JPanel editLinkButtons = new JPanel();\r
  73   GridLayout gridLayout1 = new GridLayout();\r
  74   protected JList linkNameList = new JList();\r
  75   JPanel linkPanel2 = new JPanel();\r
  76   BorderLayout borderLayout3 = new BorderLayout();\r
  77   protected JCheckBox useProxy = new JCheckBox();\r
  78   JPanel jPanel1 = new JPanel();\r
  79   TitledBorder titledBorder1 = new TitledBorder("Proxy Server");\r
  80   TitledBorder titledBorder2 = new TitledBorder("File Output");\r
  81   GridBagLayout gridBagLayout2 = new GridBagLayout();\r
  82   GridBagLayout gridBagLayout1 = new GridBagLayout();\r
  83   GridBagLayout gridBagLayout3 = new GridBagLayout();\r
  84   protected JComboBox sortby = new JComboBox();\r
  85   JLabel sortLabel = new JLabel();\r
  86   JPanel jPanel2 = new JPanel();\r
  87   GridLayout gridLayout2 = new GridLayout();\r
  88   JPanel jPanel3 = new JPanel();\r
  89   JPanel exportTab = new JPanel();\r
  90   JLabel epsLabel = new JLabel();\r
  91   protected JComboBox epsRendering = new JComboBox();\r
  92   JLabel jLabel1 = new JLabel();\r
  93   protected JCheckBox blcjv = new JCheckBox();\r
  94   protected JCheckBox pileupjv = new JCheckBox();\r
  95   protected JCheckBox clustaljv = new JCheckBox();\r
  96   protected JCheckBox msfjv = new JCheckBox();\r
  97   protected JCheckBox fastajv = new JCheckBox();\r
  98   protected JCheckBox pfamjv = new JCheckBox();\r
  99   FlowLayout flowLayout1 = new FlowLayout();\r
 100   protected JCheckBox pirjv = new JCheckBox();\r
 101   JPanel jPanel11 = new JPanel();\r
 102   Font verdana11 = new java.awt.Font("Verdana", Font.PLAIN, 11);\r
 103   protected JCheckBox seqLimit = new JCheckBox();\r
 104   GridLayout gridLayout3 = new GridLayout();\r
 105   protected JCheckBox smoothFont = new JCheckBox();\r
 106   JPanel calcTab = new JPanel();\r
 107   protected JCheckBox autoCalculateConsCheck = new JCheckBox();\r
 108   protected JCheckBox padGaps = new JCheckBox();\r
 109   protected JCheckBox modellerOutput = new JCheckBox();\r
 110   protected JPanel dasPanel = new JPanel();\r
 111   BorderLayout borderLayout4 = new BorderLayout();\r
 112   protected JCheckBox wrap = new JCheckBox();\r
 113   protected JCheckBox rightAlign = new JCheckBox();\r
 114   protected JCheckBox idItalics = new JCheckBox();\r
 115   /**\r
 116    * Creates a new GPreferences object.\r
 117    */\r
 118   public GPreferences()\r
 119   {\r
 120     try\r
 121     {\r
 122       jbInit();\r
 123     }\r
 124     catch (Exception ex)\r
 125     {\r
 126       ex.printStackTrace();\r
 127     }\r
 128   }\r
 129 \r
 130   /**\r
 131    * DOCUMENT ME!\r
 132    *\r
 133    * @throws Exception DOCUMENT ME!\r
 134    */\r
 135   private void jbInit()\r
 136       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.setText("Maximise Window");\r
 167     conservation.setEnabled(false);\r
 168     conservation.setFont(verdana11);\r
 169     conservation.setHorizontalAlignment(SwingConstants.RIGHT);\r
 170     conservation.setHorizontalTextPosition(SwingConstants.LEFT);\r
 171     conservation.setSelected(true);\r
 172     conservation.setText("Conservation");\r
 173     identity.setEnabled(false);\r
 174     identity.setFont(verdana11);\r
 175     identity.setHorizontalAlignment(SwingConstants.RIGHT);\r
 176     identity.setHorizontalTextPosition(SwingConstants.LEFT);\r
 177     identity.setSelected(true);\r
 178     identity.setText("Consensus");\r
 179     annotations.setFont(verdana11);\r
 180     annotations.setHorizontalAlignment(SwingConstants.RIGHT);\r
 181     annotations.setHorizontalTextPosition(SwingConstants.LEFT);\r
 182     annotations.setSelected(true);\r
 183     annotations.setText("Show Annotations");\r
 184     annotations.addActionListener(new ActionListener()\r
 185     {\r
 186       public void actionPerformed(ActionEvent e)\r
 187       {\r
 188         annotations_actionPerformed(e);\r
 189       }\r
 190     });\r
 191     gapLabel.setFont(verdana11);\r
 192     gapLabel.setHorizontalAlignment(SwingConstants.RIGHT);\r
 193     gapLabel.setText("Gap Symbol ");\r
 194     colour.setFont(verdana11);\r
 195     colour.setBounds(new Rectangle(172, 225, 155, 21));\r
 196     colourLabel.setFont(verdana11);\r
 197     colourLabel.setHorizontalAlignment(SwingConstants.RIGHT);\r
 198     colourLabel.setText("Colour ");\r
 199     fontLabel.setFont(verdana11);\r
 200     fontLabel.setHorizontalAlignment(SwingConstants.RIGHT);\r
 201     fontLabel.setText("Font ");\r
 202     fontSizeCB.setFont(verdana11);\r
 203     fontSizeCB.setBounds(new Rectangle(319, 111, 49, 21));\r
 204     fontStyleCB.setFont(verdana11);\r
 205     fontStyleCB.setBounds(new Rectangle(367, 111, 70, 21));\r
 206     fontNameCB.setFont(verdana11);\r
 207     fontNameCB.setBounds(new Rectangle(172, 111, 147, 21));\r
 208     gapSymbolCB.setFont(verdana11);\r
 209     gapSymbolCB.setBounds(new Rectangle(172, 204, 69, 21));\r
 210     startupCheckbox.setText("Open file");\r
 211     startupCheckbox.setFont(verdana11);\r
 212     startupCheckbox.setHorizontalAlignment(SwingConstants.RIGHT);\r
 213     startupCheckbox.setHorizontalTextPosition(SwingConstants.LEFT);\r
 214     startupCheckbox.setSelected(true);\r
 215     startupFileTextfield.setFont(verdana11);\r
 216     startupFileTextfield.setBounds(new Rectangle(172, 273, 270, 20));\r
 217     startupFileTextfield.addMouseListener(new MouseAdapter()\r
 218     {\r
 219       public void mouseClicked(MouseEvent e)\r
 220       {\r
 221         if (e.getClickCount() > 1)\r
 222         {\r
 223           startupFileTextfield_mouseClicked();\r
 224         }\r
 225       }\r
 226     });\r
 227 \r
 228     connectTab.setLayout(gridBagLayout3);\r
 229     serverLabel.setText("Address");\r
 230     serverLabel.setHorizontalAlignment(SwingConstants.RIGHT);\r
 231     serverLabel.setFont(verdana11);\r
 232     proxyServerTB.setFont(verdana11);\r
 233     proxyPortTB.setFont(verdana11);\r
 234     portLabel.setFont(verdana11);\r
 235     portLabel.setHorizontalAlignment(SwingConstants.RIGHT);\r
 236     portLabel.setText("Port");\r
 237     browserLabel.setFont(new java.awt.Font("SansSerif", 0, 11));\r
 238     browserLabel.setHorizontalAlignment(SwingConstants.TRAILING);\r
 239     browserLabel.setText("Default Browser (Unix)");\r
 240     defaultBrowser.setFont(verdana11);\r
 241     defaultBrowser.setText("");\r
 242     newLink.setText("New");\r
 243     newLink.addActionListener(new java.awt.event.ActionListener()\r
 244     {\r
 245       public void actionPerformed(ActionEvent e)\r
 246       {\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     {\r
 253       public void actionPerformed(ActionEvent e)\r
 254       {\r
 255         editLink_actionPerformed(e);\r
 256       }\r
 257     });\r
 258     deleteLink.setText("Delete");\r
 259     deleteLink.addActionListener(new java.awt.event.ActionListener()\r
 260     {\r
 261       public void actionPerformed(ActionEvent e)\r
 262       {\r
 263         deleteLink_actionPerformed(e);\r
 264       }\r
 265     });\r
 266 \r
 267     linkURLList.addListSelectionListener(new ListSelectionListener()\r
 268     {\r
 269       public void valueChanged(ListSelectionEvent e)\r
 270       {\r
 271         int index = linkURLList.getSelectedIndex();\r
 272         linkNameList.setSelectedIndex(index);\r
 273       }\r
 274     });\r
 275 \r
 276     linkNameList.addListSelectionListener(new ListSelectionListener()\r
 277     {\r
 278       public void valueChanged(ListSelectionEvent e)\r
 279       {\r
 280         int index = linkNameList.getSelectedIndex();\r
 281         linkURLList.setSelectedIndex(index);\r
 282       }\r
 283     });\r
 284 \r
 285     linkScrollPane.setBorder(null);\r
 286     linkPanel.setBorder(new TitledBorder("URL link from Sequence ID"));\r
 287     linkPanel.setLayout(borderLayout2);\r
 288     editLinkButtons.setLayout(gridLayout1);\r
 289     gridLayout1.setRows(3);\r
 290     linkNameList.setFont(verdana11);\r
 291     linkNameList.setSelectionMode(ListSelectionModel.SINGLE_SELECTION);\r
 292     linkPanel2.setLayout(borderLayout3);\r
 293     linkURLList.setFont(verdana11);\r
 294     linkURLList.setSelectionMode(ListSelectionModel.SINGLE_SELECTION);\r
 295 \r
 296     defaultBrowser.addMouseListener(new MouseAdapter()\r
 297     {\r
 298       public void mouseClicked(MouseEvent e)\r
 299       {\r
 300         if (e.getClickCount() > 1)\r
 301         {\r
 302           defaultBrowser_mouseClicked(e);\r
 303         }\r
 304       }\r
 305     });\r
 306     useProxy.setFont(verdana11);\r
 307     useProxy.setHorizontalAlignment(SwingConstants.RIGHT);\r
 308     useProxy.setHorizontalTextPosition(SwingConstants.LEADING);\r
 309     useProxy.setText("Use a proxy server");\r
 310     useProxy.addActionListener(new ActionListener()\r
 311     {\r
 312       public void actionPerformed(ActionEvent e)\r
 313       {\r
 314         useProxy_actionPerformed();\r
 315       }\r
 316     });\r
 317     jPanel1.setBorder(titledBorder1);\r
 318     jPanel1.setLayout(gridBagLayout1);\r
 319     sortby.setFont(verdana11);\r
 320     sortby.setBounds(new Rectangle(172, 249, 155, 21));\r
 321     sortLabel.setFont(verdana11);\r
 322     sortLabel.setHorizontalAlignment(SwingConstants.RIGHT);\r
 323     sortLabel.setText("Sort by ");\r
 324     jPanel2.setBounds(new Rectangle(7, 17, 158, 278));\r
 325     jPanel2.setLayout(gridLayout2);\r
 326     gridLayout2.setRows(12);\r
 327     jPanel3.setBounds(new Rectangle(173, 35, 274, 26));\r
 328     exportTab.setLayout(null);\r
 329     epsLabel.setFont(verdana11);\r
 330     epsLabel.setHorizontalAlignment(SwingConstants.RIGHT);\r
 331     epsLabel.setText("EPS Rendering Style");\r
 332     epsLabel.setBounds(new Rectangle(9, 31, 140, 24));\r
 333     epsRendering.setFont(verdana11);\r
 334     epsRendering.setBounds(new Rectangle(154, 34, 187, 21));\r
 335     jLabel1.setFont(verdana11);\r
 336     jLabel1.setHorizontalAlignment(SwingConstants.CENTER);\r
 337     jLabel1.setText("Append /start-end (/15-380)");\r
 338     jLabel1.setFont(verdana11);\r
 339     fastajv.setFont(verdana11);\r
 340     fastajv.setHorizontalAlignment(SwingConstants.LEFT);\r
 341     clustaljv.setText("Clustal     ");\r
 342     blcjv.setText("BLC     ");\r
 343     fastajv.setText("Fasta     ");\r
 344     msfjv.setText("MSF     ");\r
 345     pfamjv.setText("PFAM     ");\r
 346     pileupjv.setText("Pileup     ");\r
 347     msfjv.setFont(verdana11);\r
 348     msfjv.setHorizontalAlignment(SwingConstants.LEFT);\r
 349     pirjv.setText("PIR     ");\r
 350     jPanel11.setFont(verdana11);\r
 351     jPanel11.setBorder(titledBorder2);\r
 352     jPanel11.setBounds(new Rectangle(30, 72, 196, 182));\r
 353     jPanel11.setLayout(gridLayout3);\r
 354     blcjv.setFont(verdana11);\r
 355     blcjv.setHorizontalAlignment(SwingConstants.LEFT);\r
 356     clustaljv.setFont(verdana11);\r
 357     clustaljv.setHorizontalAlignment(SwingConstants.LEFT);\r
 358     pfamjv.setFont(verdana11);\r
 359     pfamjv.setHorizontalAlignment(SwingConstants.LEFT);\r
 360     pileupjv.setFont(verdana11);\r
 361     pileupjv.setHorizontalAlignment(SwingConstants.LEFT);\r
 362     pirjv.setFont(verdana11);\r
 363     pirjv.setHorizontalAlignment(SwingConstants.LEFT);\r
 364     seqLimit.setFont(verdana11);\r
 365     seqLimit.setHorizontalAlignment(SwingConstants.RIGHT);\r
 366     seqLimit.setHorizontalTextPosition(SwingConstants.LEFT);\r
 367     seqLimit.setText("Full Sequence Id");\r
 368     gridLayout3.setRows(8);\r
 369     smoothFont.setFont(verdana11);\r
 370     smoothFont.setHorizontalAlignment(SwingConstants.RIGHT);\r
 371     smoothFont.setHorizontalTextPosition(SwingConstants.LEADING);\r
 372     smoothFont.setText("Smooth Font");\r
 373     calcTab.setLayout(null);\r
 374     autoCalculateConsCheck.setFont(new java.awt.Font("Verdana", Font.PLAIN, 11));\r
 375     autoCalculateConsCheck.setText("AutoCalculate Consensus");\r
 376     autoCalculateConsCheck.setBounds(new Rectangle(21, 52, 209, 23));\r
 377     padGaps.setFont(new java.awt.Font("Verdana", Font.PLAIN, 11));\r
 378     padGaps.setText("Pad gaps when editing");\r
 379     padGaps.setBounds(new Rectangle(22, 94, 168, 23));\r
 380     modellerOutput.setFont(new java.awt.Font("Verdana", Font.PLAIN, 11));\r
 381     modellerOutput.setText("Use Modeller Output");\r
 382     modellerOutput.setBounds(new Rectangle(228, 226, 168, 23));\r
 383     dasPanel.setLayout(borderLayout4);\r
 384     wrap.setFont(new java.awt.Font("Verdana", Font.PLAIN, 11));\r
 385     wrap.setHorizontalAlignment(SwingConstants.TRAILING);\r
 386     wrap.setHorizontalTextPosition(SwingConstants.LEADING);\r
 387     wrap.setText("Wrap Alignment");\r
 388     rightAlign.setFont(new java.awt.Font("Verdana", Font.PLAIN, 11));\r
 389     rightAlign.setForeground(Color.black);\r
 390     rightAlign.setHorizontalAlignment(SwingConstants.RIGHT);\r
 391     rightAlign.setHorizontalTextPosition(SwingConstants.LEFT);\r
 392     rightAlign.setText("Right Align Ids");\r
 393     idItalics.setFont(new java.awt.Font("Verdana", Font.PLAIN, 11));\r
 394     idItalics.setHorizontalAlignment(SwingConstants.RIGHT);\r
 395     idItalics.setHorizontalTextPosition(SwingConstants.LEADING);\r
 396     idItalics.setText("Sequence Name Italics");\r
 397     jPanel2.add(fullScreen);\r
 398     jPanel2.add(annotations);\r
 399     jPanel2.add(seqLimit);\r
 400     jPanel2.add(rightAlign);\r
 401     jPanel2.add(fontLabel);\r
 402     jPanel2.add(idItalics);\r
 403     jPanel2.add(smoothFont);\r
 404     jPanel2.add(wrap);\r
 405     jPanel2.add(gapLabel);\r
 406     jPanel2.add(colourLabel);\r
 407     jPanel2.add(sortLabel);\r
 408     jPanel2.add(startupCheckbox);\r
 409     visualTab.add(startupFileTextfield);\r
 410     visualTab.add(sortby);\r
 411     visualTab.add(colour);\r
 412     visualTab.add(gapSymbolCB);\r
 413     visualTab.add(jPanel3);\r
 414     visualTab.add(fontNameCB);\r
 415     visualTab.add(fontSizeCB);\r
 416     visualTab.add(fontStyleCB);\r
 417     jPanel3.add(conservation);\r
 418     jPanel3.add(identity);\r
 419     jPanel3.add(quality);\r
 420     visualTab.add(jPanel2);\r
 421     linkPanel.add(editLinkButtons, BorderLayout.EAST);\r
 422     editLinkButtons.add(newLink, null);\r
 423     editLinkButtons.add(editLink, null);\r
 424     editLinkButtons.add(deleteLink, null);\r
 425     linkPanel.add(linkScrollPane, BorderLayout.CENTER);\r
 426     linkScrollPane.getViewport().add(linkPanel2, null);\r
 427     linkPanel2.add(linkURLList, BorderLayout.CENTER);\r
 428     linkPanel2.add(linkNameList, BorderLayout.WEST);\r
 429     okCancelPanel.add(ok);\r
 430     okCancelPanel.add(cancel);\r
 431     this.add(tabbedPane, java.awt.BorderLayout.CENTER);\r
 432 \r
 433     this.add(okCancelPanel, java.awt.BorderLayout.SOUTH);\r
 434     jPanel1.add(serverLabel, new GridBagConstraints(0, 1, 1, 1, 0.0, 0.0\r
 435         , GridBagConstraints.WEST, GridBagConstraints.NONE,\r
 436         new Insets(0, 2, 4, 0), 5, 0));\r
 437     jPanel1.add(portLabel, new GridBagConstraints(2, 1, 1, 1, 0.0, 0.0\r
 438                                                   , GridBagConstraints.WEST,\r
 439                                                   GridBagConstraints.NONE,\r
 440                                                   new Insets(0, 0, 4, 0), 11, 6));\r
 441     connectTab.add(linkPanel, new GridBagConstraints(0, 0, 2, 1, 1.0, 1.0\r
 442         , GridBagConstraints.CENTER, GridBagConstraints.BOTH,\r
 443         new Insets(16, 0, 0, 12), 359, -17));\r
 444     connectTab.add(jPanel1, new GridBagConstraints(0, 2, 2, 1, 1.0, 1.0\r
 445         , GridBagConstraints.CENTER, GridBagConstraints.BOTH,\r
 446         new Insets(21, 0, 35, 12), 4, 6));\r
 447     connectTab.add(browserLabel, new GridBagConstraints(0, 1, 1, 1, 0.0, 0.0\r
 448         , GridBagConstraints.WEST, GridBagConstraints.NONE,\r
 449         new Insets(16, 0, 0, 0), 5, 1));\r
 450     jPanel1.add(proxyPortTB, new GridBagConstraints(3, 1, 1, 1, 1.0, 0.0\r
 451         , GridBagConstraints.WEST, GridBagConstraints.HORIZONTAL,\r
 452         new Insets(0, 2, 4, 2), 54, 1));\r
 453     jPanel1.add(proxyServerTB, new GridBagConstraints(1, 1, 1, 1, 1.0, 0.0\r
 454         , GridBagConstraints.WEST, GridBagConstraints.HORIZONTAL,\r
 455         new Insets(0, 2, 4, 0), 263, 1));\r
 456     connectTab.add(defaultBrowser, new GridBagConstraints(1, 1, 1, 1, 1.0, 0.0\r
 457         , GridBagConstraints.WEST, GridBagConstraints.HORIZONTAL,\r
 458         new Insets(15, 0, 0, 15), 307, 1));\r
 459 \r
 460     jPanel1.add(useProxy, new GridBagConstraints(0, 0, 2, 1, 0.0, 0.0\r
 461                                                  , GridBagConstraints.WEST,\r
 462                                                  GridBagConstraints.NONE,\r
 463                                                  new Insets(0, 2, 5, 185), 2,\r
 464                                                  -4));\r
 465     DefaultListCellRenderer dlcr = new DefaultListCellRenderer();\r
 466     dlcr.setHorizontalAlignment(DefaultListCellRenderer.CENTER);\r
 467     gapSymbolCB.setRenderer(dlcr);\r
 468 \r
 469     tabbedPane.add(visualTab, "Visual");\r
 470     tabbedPane.add(connectTab, "Connections");\r
 471     tabbedPane.add(exportTab, "Output");\r
 472     jPanel11.add(jLabel1);\r
 473     jPanel11.add(blcjv);\r
 474     jPanel11.add(clustaljv);\r
 475     jPanel11.add(fastajv);\r
 476     jPanel11.add(msfjv);\r
 477     jPanel11.add(pfamjv);\r
 478     jPanel11.add(pileupjv);\r
 479     jPanel11.add(pirjv);\r
 480     exportTab.add(modellerOutput);\r
 481     tabbedPane.add(calcTab, "Editing");\r
 482     calcTab.add(autoCalculateConsCheck);\r
 483     calcTab.add(padGaps);\r
 484     tabbedPane.add(dasPanel, "DAS Settings");\r
 485 \r
 486     exportTab.add(epsLabel);\r
 487     exportTab.add(epsRendering);\r
 488     exportTab.add(jPanel11);\r
 489   }\r
 490 \r
 491   /**\r
 492    * DOCUMENT ME!\r
 493    *\r
 494    * @param e DOCUMENT ME!\r
 495    */\r
 496   public void ok_actionPerformed(ActionEvent e)\r
 497   {\r
 498   }\r
 499 \r
 500   /**\r
 501    * DOCUMENT ME!\r
 502    *\r
 503    * @param e DOCUMENT ME!\r
 504    */\r
 505   public void cancel_actionPerformed(ActionEvent e)\r
 506   {\r
 507   }\r
 508 \r
 509   /**\r
 510    * DOCUMENT ME!\r
 511    *\r
 512    * @param e DOCUMENT ME!\r
 513    */\r
 514   public void annotations_actionPerformed(ActionEvent e)\r
 515   {\r
 516   }\r
 517 \r
 518   /**\r
 519    * DOCUMENT ME!\r
 520    */\r
 521   public void startupFileTextfield_mouseClicked()\r
 522   {\r
 523   }\r
 524 \r
 525   public void newLink_actionPerformed(ActionEvent e)\r
 526   {\r
 527 \r
 528   }\r
 529 \r
 530   public void editLink_actionPerformed(ActionEvent e)\r
 531   {\r
 532 \r
 533   }\r
 534 \r
 535   public void deleteLink_actionPerformed(ActionEvent e)\r
 536   {\r
 537 \r
 538   }\r
 539 \r
 540   public void defaultBrowser_mouseClicked(MouseEvent e)\r
 541   {\r
 542 \r
 543   }\r
 544 \r
 545   public void linkURLList_keyTyped(KeyEvent e)\r
 546   {\r
 547 \r
 548   }\r
 549 \r
 550   public void useProxy_actionPerformed()\r
 551   {\r
 552     proxyServerTB.setEnabled(useProxy.isSelected());\r
 553     proxyPortTB.setEnabled(useProxy.isSelected());\r
 554   }\r
 555 \r
 556 }\r