src/jalview/jbgui/GStructureViewer.java

   1 /*
   2  * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
   3  * Copyright (C) $$Year-Rel$$ The Jalview Authors
   4  *
   5  * This file is part of Jalview.
   6  *
   7  * Jalview is free software: you can redistribute it and/or
   8  * modify it under the terms of the GNU General Public License
   9  * as published by the Free Software Foundation, either version 3
  10  * of the License, or (at your option) any later version.
  11  *
  12  * Jalview is distributed in the hope that it will be useful, but
  13  * WITHOUT ANY WARRANTY; without even the implied warranty
  14  * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
  15  * PURPOSE.  See the GNU General Public License for more details.
  16  *
  17  * You should have received a copy of the GNU General Public License
  18  * along with Jalview.  If not, see <http://www.gnu.org/licenses/>.
  19  * The Jalview Authors are detailed in the 'AUTHORS' file.
  20  */
  21 package jalview.jbgui;
  22
  23 import jalview.api.structures.JalviewStructureDisplayI;
  24 import jalview.util.MessageManager;
  25
  26 import java.awt.GridLayout;
  27 import java.awt.event.ActionEvent;
  28 import java.awt.event.ActionListener;
  29
  30 import javax.swing.ButtonGroup;
  31 import javax.swing.JInternalFrame;
  32 import javax.swing.JLabel;
  33 import javax.swing.JMenu;
  34 import javax.swing.JMenuBar;
  35 import javax.swing.JMenuItem;
  36 import javax.swing.JPanel;
  37 import javax.swing.JRadioButtonMenuItem;
  38
  39 public abstract class GStructureViewer extends JInternalFrame implements
  40         JalviewStructureDisplayI
  41 {
  42   // private AAStructureBindingModel bindingModel;
  43
  44   protected JMenu savemenu = new JMenu();
  45
  46   protected JMenu viewMenu = new JMenu();
  47
  48   protected JMenu chainMenu = new JMenu();
  49
  50   protected JMenu viewerActionMenu = new JMenu();
  51
  52   protected JMenuItem alignStructs = new JMenuItem();
  53
  54   protected JMenuItem fitToWindow = new JMenuItem();
  55
  56   protected JMenuItem highlightSelection = new JMenuItem();
  57
  58   protected JRadioButtonMenuItem seqColour = new JRadioButtonMenuItem();
  59
  60   protected JRadioButtonMenuItem chainColour = new JRadioButtonMenuItem();
  61
  62   protected JRadioButtonMenuItem chargeColour = new JRadioButtonMenuItem();
  63
  64   protected JRadioButtonMenuItem zappoColour = new JRadioButtonMenuItem();
  65
  66   protected JRadioButtonMenuItem taylorColour = new JRadioButtonMenuItem();
  67
  68   protected JRadioButtonMenuItem hydroColour = new JRadioButtonMenuItem();
  69
  70   protected JRadioButtonMenuItem strandColour = new JRadioButtonMenuItem();
  71
  72   protected JRadioButtonMenuItem helixColour = new JRadioButtonMenuItem();
  73
  74   protected JRadioButtonMenuItem turnColour = new JRadioButtonMenuItem();
  75
  76   protected JRadioButtonMenuItem buriedColour = new JRadioButtonMenuItem();
  77
  78   protected JRadioButtonMenuItem purinePyrimidineColour = new JRadioButtonMenuItem();
  79
  80   protected JRadioButtonMenuItem userColour = new JRadioButtonMenuItem();
  81
  82   protected JRadioButtonMenuItem viewerColour = new JRadioButtonMenuItem();
  83
  84   protected JMenuItem helpItem = new JMenuItem();
  85
  86   protected JLabel statusBar = new JLabel();
  87
  88   protected JPanel statusPanel = new JPanel();
  89
  90   /**
  91    * Constructor
  92    */
  93   public GStructureViewer()
  94   {
  95     try
  96     {
  97       jbInit();
  98     } catch (Exception ex)
  99     {
 100       ex.printStackTrace();
 101     }
 102   }
 103
 104   private void jbInit() throws Exception
 105   {
 106     JMenuBar menuBar = new JMenuBar();
 107     this.setJMenuBar(menuBar);
 108
 109     JMenu fileMenu = new JMenu();
 110     fileMenu.setText(MessageManager.getString("action.file"));
 111
 112     savemenu.setActionCommand(MessageManager.getString("action.save_image"));
 113     savemenu.setText(MessageManager.getString("action.save_as"));
 114
 115     JMenuItem pdbFile = new JMenuItem();
 116     pdbFile.setText(MessageManager.getString("label.pdb_file"));
 117     pdbFile.addActionListener(new ActionListener()
 118     {
 119       @Override
 120       public void actionPerformed(ActionEvent actionEvent)
 121       {
 122         pdbFile_actionPerformed(actionEvent);
 123       }
 124     });
 125
 126     JMenuItem png = new JMenuItem();
 127     png.setText("PNG");
 128     png.addActionListener(new ActionListener()
 129     {
 130       @Override
 131       public void actionPerformed(ActionEvent actionEvent)
 132       {
 133         png_actionPerformed(actionEvent);
 134       }
 135     });
 136
 137     JMenuItem eps = new JMenuItem();
 138     eps.setText("EPS");
 139     eps.addActionListener(new ActionListener()
 140     {
 141       @Override
 142       public void actionPerformed(ActionEvent actionEvent)
 143       {
 144         eps_actionPerformed(actionEvent);
 145       }
 146     });
 147
 148     JMenuItem viewMapping = new JMenuItem();
 149     viewMapping.setText(MessageManager.getString("label.view_mapping"));
 150     viewMapping.addActionListener(new ActionListener()
 151     {
 152       @Override
 153       public void actionPerformed(ActionEvent actionEvent)
 154       {
 155         viewMapping_actionPerformed(actionEvent);
 156       }
 157     });
 158     viewMenu.setText(MessageManager.getString("action.view"));
 159
 160     chainMenu.setText(MessageManager.getString("action.show_chain"));
 161
 162     fitToWindow.setText(MessageManager.getString("label.fit_to_window"));
 163     fitToWindow.addActionListener(new ActionListener()
 164     {
 165       @Override
 166       public void actionPerformed(ActionEvent actionEvent)
 167       {
 168         fitToWindow_actionPerformed();
 169       }
 170     });
 171
 172     highlightSelection.setText(MessageManager
 173             .getString("label.highlight_selection"));
 174     highlightSelection.addActionListener(new ActionListener()
 175     {
 176       @Override
 177       public void actionPerformed(ActionEvent actionEvent)
 178       {
 179         highlightSelection_actionPerformed();
 180       }
 181     });
 182
 183     JMenu colourMenu = new JMenu();
 184     colourMenu.setText(MessageManager.getString("label.colours"));
 185
 186     JMenuItem backGround = new JMenuItem();
 187     backGround
 188             .setText(MessageManager.getString("action.background_colour"));
 189     backGround.addActionListener(new ActionListener()
 190     {
 191       @Override
 192       public void actionPerformed(ActionEvent actionEvent)
 193       {
 194         backGround_actionPerformed(actionEvent);
 195       }
 196     });
 197     seqColour.setSelected(false);
 198     seqColour.setText(MessageManager.getString("action.by_sequence"));
 199     seqColour.addActionListener(new ActionListener()
 200     {
 201       @Override
 202       public void actionPerformed(ActionEvent actionEvent)
 203       {
 204         seqColour_actionPerformed(actionEvent);
 205       }
 206     });
 207     chainColour.setText(MessageManager.getString("action.by_chain"));
 208     chainColour.addActionListener(new ActionListener()
 209     {
 210       @Override
 211       public void actionPerformed(ActionEvent actionEvent)
 212       {
 213         chainColour_actionPerformed(actionEvent);
 214       }
 215     });
 216     chargeColour.setText(MessageManager.getString("label.charge_cysteine"));
 217     chargeColour.addActionListener(new ActionListener()
 218     {
 219       @Override
 220       public void actionPerformed(ActionEvent actionEvent)
 221       {
 222         chargeColour_actionPerformed(actionEvent);
 223       }
 224     });
 225     zappoColour.setText(MessageManager.getString("label.zappo"));
 226     zappoColour.addActionListener(new ActionListener()
 227     {
 228       @Override
 229       public void actionPerformed(ActionEvent actionEvent)
 230       {
 231         zappoColour_actionPerformed(actionEvent);
 232       }
 233     });
 234     taylorColour.setText(MessageManager.getString("label.taylor"));
 235     taylorColour.addActionListener(new ActionListener()
 236     {
 237       @Override
 238       public void actionPerformed(ActionEvent actionEvent)
 239       {
 240         taylorColour_actionPerformed(actionEvent);
 241       }
 242     });
 243     hydroColour.setText(MessageManager.getString("label.hydrophobicity"));
 244     hydroColour.addActionListener(new ActionListener()
 245     {
 246       @Override
 247       public void actionPerformed(ActionEvent actionEvent)
 248       {
 249         hydroColour_actionPerformed(actionEvent);
 250       }
 251     });
 252     strandColour.setText(MessageManager
 253             .getString("label.strand_propensity"));
 254     strandColour.addActionListener(new ActionListener()
 255     {
 256       @Override
 257       public void actionPerformed(ActionEvent actionEvent)
 258       {
 259         strandColour_actionPerformed(actionEvent);
 260       }
 261     });
 262     helixColour.setText(MessageManager.getString("label.helix_propensity"));
 263     helixColour.addActionListener(new ActionListener()
 264     {
 265       @Override
 266       public void actionPerformed(ActionEvent actionEvent)
 267       {
 268         helixColour_actionPerformed(actionEvent);
 269       }
 270     });
 271     turnColour.setText(MessageManager.getString("label.turn_propensity"));
 272     turnColour.addActionListener(new ActionListener()
 273     {
 274       @Override
 275       public void actionPerformed(ActionEvent actionEvent)
 276       {
 277         turnColour_actionPerformed(actionEvent);
 278       }
 279     });
 280     buriedColour.setText(MessageManager.getString("label.buried_index"));
 281     buriedColour.addActionListener(new ActionListener()
 282     {
 283       @Override
 284       public void actionPerformed(ActionEvent actionEvent)
 285       {
 286         buriedColour_actionPerformed(actionEvent);
 287       }
 288     });
 289     purinePyrimidineColour.setText(MessageManager
 290             .getString("label.purine_pyrimidine"));
 291     purinePyrimidineColour.addActionListener(new ActionListener()
 292     {
 293       @Override
 294       public void actionPerformed(ActionEvent actionEvent)
 295       {
 296         purinePyrimidineColour_actionPerformed(actionEvent);
 297       }
 298     });
 299
 300     userColour.setText(MessageManager.getString("action.user_defined"));
 301     userColour.addActionListener(new ActionListener()
 302     {
 303       @Override
 304       public void actionPerformed(ActionEvent actionEvent)
 305       {
 306         userColour_actionPerformed(actionEvent);
 307       }
 308     });
 309     viewerColour.setSelected(false);
 310     viewerColour
 311             .setText(MessageManager.getString("label.colour_with_jmol"));
 312     viewerColour.setToolTipText(MessageManager
 313             .getString("label.let_jmol_manage_structure_colours"));
 314     viewerColour.addActionListener(new ActionListener()
 315     {
 316       @Override
 317       public void actionPerformed(ActionEvent actionEvent)
 318       {
 319         viewerColour_actionPerformed(actionEvent);
 320       }
 321     });
 322
 323     JMenu helpMenu = new JMenu();
 324     helpMenu.setText(MessageManager.getString("action.help"));
 325     helpItem.setText(MessageManager.getString("label.jmol_help"));
 326     helpItem.addActionListener(new ActionListener()
 327     {
 328       @Override
 329       public void actionPerformed(ActionEvent actionEvent)
 330       {
 331         showHelp_actionPerformed(actionEvent);
 332       }
 333     });
 334     alignStructs
 335             .setText(MessageManager.getString("label.align_structures"));
 336     alignStructs.addActionListener(new ActionListener()
 337     {
 338       @Override
 339       public void actionPerformed(ActionEvent actionEvent)
 340       {
 341         alignStructs_actionPerformed(actionEvent);
 342       }
 343     });
 344     viewerActionMenu.setText(MessageManager.getString("label.jmol"));
 345     menuBar.add(fileMenu);
 346     menuBar.add(viewMenu);
 347     menuBar.add(colourMenu);
 348     menuBar.add(viewerActionMenu);
 349     viewerActionMenu.setVisible(false);
 350     menuBar.add(helpMenu);
 351     fileMenu.add(savemenu);
 352     fileMenu.add(viewMapping);
 353     savemenu.add(pdbFile);
 354     savemenu.add(png);
 355     savemenu.add(eps);
 356     viewMenu.add(chainMenu);
 357
 358     colourMenu.add(seqColour);
 359     colourMenu.add(chainColour);
 360     colourMenu.add(chargeColour);
 361     colourMenu.add(zappoColour);
 362     colourMenu.add(taylorColour);
 363     colourMenu.add(hydroColour);
 364     colourMenu.add(helixColour);
 365     colourMenu.add(strandColour);
 366     colourMenu.add(turnColour);
 367     colourMenu.add(buriedColour);
 368     colourMenu.add(purinePyrimidineColour);
 369     colourMenu.add(userColour);
 370     colourMenu.add(viewerColour);
 371     colourMenu.add(backGround);
 372
 373     ButtonGroup colourButtons = new ButtonGroup();
 374
 375     colourButtons.add(seqColour);
 376     colourButtons.add(chainColour);
 377     colourButtons.add(chargeColour);
 378     colourButtons.add(zappoColour);
 379     colourButtons.add(taylorColour);
 380     colourButtons.add(hydroColour);
 381     colourButtons.add(helixColour);
 382     colourButtons.add(strandColour);
 383     colourButtons.add(turnColour);
 384     colourButtons.add(buriedColour);
 385     colourButtons.add(purinePyrimidineColour);
 386     colourButtons.add(userColour);
 387     colourButtons.add(viewerColour);
 388
 389     helpMenu.add(helpItem);
 390     viewerActionMenu.add(alignStructs);
 391
 392     statusPanel.setLayout(new GridLayout());
 393     this.getContentPane().add(statusPanel, java.awt.BorderLayout.SOUTH);
 394     statusPanel.add(statusBar, null);
 395   }
 396
 397   protected void fitToWindow_actionPerformed()
 398   {
 399   }
 400
 401   protected void highlightSelection_actionPerformed()
 402   {
 403   }
 404
 405   protected void viewerColour_actionPerformed(ActionEvent actionEvent)
 406   {
 407   }
 408
 409   protected void alignStructs_actionPerformed(ActionEvent actionEvent)
 410   {
 411   }
 412
 413   public void pdbFile_actionPerformed(ActionEvent actionEvent)
 414   {
 415
 416   }
 417
 418   public void png_actionPerformed(ActionEvent actionEvent)
 419   {
 420
 421   }
 422
 423   public void eps_actionPerformed(ActionEvent actionEvent)
 424   {
 425
 426   }
 427
 428   public void viewMapping_actionPerformed(ActionEvent actionEvent)
 429   {
 430
 431   }
 432
 433   public void seqColour_actionPerformed(ActionEvent actionEvent)
 434   {
 435
 436   }
 437
 438   public void chainColour_actionPerformed(ActionEvent actionEvent)
 439   {
 440
 441   }
 442
 443   public void chargeColour_actionPerformed(ActionEvent actionEvent)
 444   {
 445
 446   }
 447
 448   public void zappoColour_actionPerformed(ActionEvent actionEvent)
 449   {
 450
 451   }
 452
 453   public void taylorColour_actionPerformed(ActionEvent actionEvent)
 454   {
 455
 456   }
 457
 458   public void hydroColour_actionPerformed(ActionEvent actionEvent)
 459   {
 460
 461   }
 462
 463   public void helixColour_actionPerformed(ActionEvent actionEvent)
 464   {
 465
 466   }
 467
 468   public void strandColour_actionPerformed(ActionEvent actionEvent)
 469   {
 470
 471   }
 472
 473   public void turnColour_actionPerformed(ActionEvent actionEvent)
 474   {
 475
 476   }
 477
 478   public void buriedColour_actionPerformed(ActionEvent actionEvent)
 479   {
 480
 481   }
 482
 483   public void purinePyrimidineColour_actionPerformed(ActionEvent actionEvent)
 484   {
 485
 486   }
 487
 488   public void userColour_actionPerformed(ActionEvent actionEvent)
 489   {
 490
 491   }
 492
 493   public void backGround_actionPerformed(ActionEvent actionEvent)
 494   {
 495
 496   }
 497
 498   public void showHelp_actionPerformed(ActionEvent actionEvent)
 499   {
 500
 501   }
 502
 503   // {
 504   // return bindingModel;
 505   // }
 506
 507   // public void setBindingModel(AAStructureBindingModel bindingModel)
 508   // {
 509   // this.bindingModel = bindingModel;
 510   // }
 511
 512 }