Class |
Line # |
Actions |
|||
---|---|---|---|---|---|
GStructureChooser | 91 | 300 | 84 | ||
GStructureChooser.AssociateSeqOptions | 894 | 9 | 8 | ||
GStructureChooser.AssociateSeqPanel | 950 | 10 | 6 | ||
GStructureChooser.CustomComboSeparatorsRenderer | 1008 | 8 | 4 |
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 | ||
22 | package jalview.jbgui; | |
23 | ||
24 | import java.awt.BorderLayout; | |
25 | import java.awt.CardLayout; | |
26 | import java.awt.Component; | |
27 | import java.awt.Dimension; | |
28 | import java.awt.FlowLayout; | |
29 | import java.awt.Font; | |
30 | import java.awt.GridBagConstraints; | |
31 | import java.awt.GridBagLayout; | |
32 | import java.awt.GridLayout; | |
33 | import java.awt.Insets; | |
34 | import java.awt.Point; | |
35 | import java.awt.event.ActionEvent; | |
36 | import java.awt.event.ActionListener; | |
37 | import java.awt.event.ItemEvent; | |
38 | import java.awt.event.ItemListener; | |
39 | import java.awt.event.KeyAdapter; | |
40 | import java.awt.event.KeyEvent; | |
41 | import java.awt.event.MouseAdapter; | |
42 | import java.awt.event.MouseEvent; | |
43 | import java.util.Arrays; | |
44 | import java.util.HashMap; | |
45 | import java.util.Map; | |
46 | ||
47 | import javax.swing.ImageIcon; | |
48 | import javax.swing.JButton; | |
49 | import javax.swing.JCheckBox; | |
50 | import javax.swing.JComboBox; | |
51 | import javax.swing.JFrame; | |
52 | import javax.swing.JInternalFrame; | |
53 | import javax.swing.JLabel; | |
54 | import javax.swing.JList; | |
55 | import javax.swing.JPanel; | |
56 | import javax.swing.JScrollPane; | |
57 | import javax.swing.JSeparator; | |
58 | import javax.swing.JTabbedPane; | |
59 | import javax.swing.JTable; | |
60 | import javax.swing.JTextField; | |
61 | import javax.swing.ListCellRenderer; | |
62 | import javax.swing.SwingConstants; | |
63 | import javax.swing.Timer; | |
64 | import javax.swing.event.ChangeEvent; | |
65 | import javax.swing.event.ChangeListener; | |
66 | import javax.swing.event.DocumentEvent; | |
67 | import javax.swing.event.DocumentListener; | |
68 | import javax.swing.event.InternalFrameEvent; | |
69 | import javax.swing.table.TableColumn; | |
70 | ||
71 | import jalview.datamodel.SequenceI; | |
72 | import jalview.fts.api.FTSDataColumnI; | |
73 | import jalview.fts.core.FTSDataColumnPreferences; | |
74 | import jalview.gui.AlignmentPanel; | |
75 | import jalview.gui.Desktop; | |
76 | import jalview.gui.JvSwingUtils; | |
77 | import jalview.gui.StructureViewer; | |
78 | import jalview.structure.StructureImportSettings; | |
79 | import jalview.structure.StructureImportSettings.TFType; | |
80 | import jalview.util.MessageManager; | |
81 | import jalview.util.Platform; | |
82 | import net.miginfocom.swing.MigLayout; | |
83 | ||
84 | @SuppressWarnings("serial") | |
85 | /** | |
86 | * GUI layout for structure chooser | |
87 | * | |
88 | * @author tcnofoegbu | |
89 | * | |
90 | */ | |
91 | public abstract class GStructureChooser extends JPanel | |
92 | implements ItemListener | |
93 | { | |
94 | private static final Font VERDANA_12 = new Font("Verdana", 0, 12); | |
95 | ||
96 | private static final Font VERDANA_10 = new Font("Verdana", 0, 10); | |
97 | ||
98 | public static final String VIEWS_FILTER = "VIEWS_FILTER"; | |
99 | ||
100 | protected static final String VIEWS_FROM_FILE = "VIEWS_FROM_FILE"; | |
101 | ||
102 | protected static final String VIEWS_ENTER_ID = "VIEWS_ENTER_ID"; | |
103 | ||
104 | /* | |
105 | * 'cached' structure view | |
106 | */ | |
107 | protected static final String VIEWS_LOCAL_PDB = "VIEWS_LOCAL_PDB"; | |
108 | ||
109 | protected JPanel actionsPanel; | |
110 | ||
111 | protected JPanel statusPanel = new JPanel(); | |
112 | ||
113 | public JLabel statusBar = new JLabel(); | |
114 | ||
115 | protected String frameTitle = MessageManager | |
116 | .getString("label.structure_chooser"); | |
117 | ||
118 | protected JInternalFrame mainFrame = new JInternalFrame(frameTitle); | |
119 | ||
120 | protected JComboBox<FilterOption> cmb_filterOption = new JComboBox<>(); | |
121 | ||
122 | protected AlignmentPanel ap; | |
123 | ||
124 | protected StringBuilder errorWarning = new StringBuilder(); | |
125 | ||
126 | protected JButton btn_cancel; | |
127 | ||
128 | protected JButton btn_add; | |
129 | ||
130 | protected JButton btn_newView; | |
131 | ||
132 | protected JButton btn_pdbFromFile = new JButton(); | |
133 | ||
134 | protected JLabel lbl_pdbFile = new JLabel(); | |
135 | ||
136 | protected JLabel lbl_chooseTempFacType = new JLabel(); | |
137 | ||
138 | protected JComboBox<StructureImportSettings.TFType> combo_tempFacAs = new JComboBox<>(); | |
139 | ||
140 | protected boolean tempFacAsChanged = false; | |
141 | ||
142 | protected JButton btn_paeMatrixFile = new JButton(); | |
143 | ||
144 | protected JLabel lbl_paeFile = new JLabel(); | |
145 | ||
146 | // holder for icon and button | |
147 | protected JPanel pnl_queryTDB; | |
148 | ||
149 | protected JButton btn_queryTDB = new JButton(); | |
150 | ||
151 | protected JCheckBox chk_superpose = new JCheckBox( | |
152 | MessageManager.getString("label.superpose_structures")); | |
153 | ||
154 | protected JTextField txt_search = new JTextField(14); | |
155 | ||
156 | protected JPanel pnl_switchableViews = new JPanel(new CardLayout()); | |
157 | ||
158 | protected CardLayout layout_switchableViews = (CardLayout) (pnl_switchableViews | |
159 | .getLayout()); | |
160 | ||
161 | protected JCheckBox chk_invertFilter = new JCheckBox( | |
162 | MessageManager.getString("label.invert")); | |
163 | ||
164 | protected ImageIcon loadingImage = new ImageIcon( | |
165 | getClass().getResource("/images/loading.gif")); | |
166 | ||
167 | protected ImageIcon goodImage = new ImageIcon( | |
168 | getClass().getResource("/images/good.png")); | |
169 | ||
170 | protected ImageIcon errorImage = new ImageIcon( | |
171 | getClass().getResource("/images/error.png")); | |
172 | ||
173 | protected ImageIcon warningImage = new ImageIcon( | |
174 | getClass().getResource("/images/warning.gif")); | |
175 | ||
176 | protected ImageIcon tdbImage = new ImageIcon(getClass() | |
177 | .getResource("/images/3d-beacons-logo-transparent.png")); | |
178 | ||
179 | protected JLabel lbl_loading = new JLabel(loadingImage); | |
180 | ||
181 | protected JLabel lbl_pdbManualFetchStatus = new JLabel(errorImage); | |
182 | ||
183 | // protected JLabel lbl_fromFileStatus = new JLabel(errorImage); | |
184 | ||
185 | protected AssociateSeqPanel idInputAssSeqPanel = new AssociateSeqPanel(); | |
186 | ||
187 | protected AssociateSeqPanel fileChooserAssSeqPanel = new AssociateSeqPanel(); | |
188 | ||
189 | protected JComboBox<StructureViewer> targetView = new JComboBox<>(); | |
190 | ||
191 | protected JTable tbl_local_pdb = new JTable(); | |
192 | ||
193 | protected JTabbedPane pnl_filter = new JTabbedPane(); | |
194 | ||
195 | protected abstract FTSDataColumnPreferences getFTSDocFieldPrefs(); | |
196 | ||
197 | protected abstract void setFTSDocFieldPrefs( | |
198 | FTSDataColumnPreferences newPrefs); | |
199 | ||
200 | protected FTSDataColumnI[] previousWantedFields; | |
201 | ||
202 | protected static Map<String, Integer> tempUserPrefs = new HashMap<>(); | |
203 | ||
204 | private JTable tbl_summary = new JTable() | |
205 | { | |
206 | private boolean inLayout; | |
207 | ||
208 | 602 | @Override |
209 | public boolean getScrollableTracksViewportWidth() | |
210 | { | |
211 | 602 | return hasExcessWidth(); |
212 | ||
213 | } | |
214 | ||
215 | 91 | @Override |
216 | public void doLayout() | |
217 | { | |
218 | 91 | if (hasExcessWidth()) |
219 | { | |
220 | 73 | autoResizeMode = AUTO_RESIZE_SUBSEQUENT_COLUMNS; |
221 | } | |
222 | 91 | inLayout = true; |
223 | 91 | super.doLayout(); |
224 | 91 | inLayout = false; |
225 | 91 | autoResizeMode = AUTO_RESIZE_OFF; |
226 | } | |
227 | ||
228 | 693 | protected boolean hasExcessWidth() |
229 | { | |
230 | 693 | return getPreferredSize().width < getParent().getWidth(); |
231 | } | |
232 | ||
233 | 163 | @Override |
234 | public void columnMarginChanged(ChangeEvent e) | |
235 | { | |
236 | 163 | if (isEditing()) |
237 | { | |
238 | 0 | removeEditor(); |
239 | } | |
240 | 163 | TableColumn resizingColumn = getTableHeader().getResizingColumn(); |
241 | // Need to do this here, before the parent's | |
242 | // layout manager calls getPreferredSize(). | |
243 | 163 | if (resizingColumn != null && autoResizeMode == AUTO_RESIZE_OFF |
244 | && !inLayout) | |
245 | { | |
246 | 0 | resizingColumn.setPreferredWidth(resizingColumn.getWidth()); |
247 | 0 | String colHeader = resizingColumn.getHeaderValue().toString(); |
248 | 0 | tempUserPrefs.put(colHeader, resizingColumn.getWidth()); |
249 | } | |
250 | 163 | resizeAndRepaint(); |
251 | } | |
252 | ||
253 | 0 | @Override |
254 | public String getToolTipText(MouseEvent evt) | |
255 | { | |
256 | 0 | String toolTipText = null; |
257 | 0 | java.awt.Point pnt = evt.getPoint(); |
258 | 0 | int rowIndex = rowAtPoint(pnt); |
259 | 0 | int colIndex = columnAtPoint(pnt); |
260 | ||
261 | 0 | try |
262 | { | |
263 | 0 | if (getValueAt(rowIndex, colIndex) == null) |
264 | { | |
265 | 0 | return null; |
266 | } | |
267 | 0 | toolTipText = getValueAt(rowIndex, colIndex).toString(); |
268 | } catch (Exception e) | |
269 | { | |
270 | // e.printStackTrace(); | |
271 | } | |
272 | 0 | toolTipText = (toolTipText == null ? null |
273 | 0 | : (toolTipText.length() > 500 |
274 | ? JvSwingUtils.wrapTooltip(true, | |
275 | "\"" + toolTipText.subSequence(0, 500) | |
276 | + "...\"") | |
277 | : JvSwingUtils.wrapTooltip(true, toolTipText))); | |
278 | 0 | return toolTipText; |
279 | } | |
280 | }; | |
281 | ||
282 | 55 | public GStructureChooser() |
283 | { | |
284 | } | |
285 | ||
286 | 55 | protected void initDialog() |
287 | { | |
288 | ||
289 | 55 | try |
290 | { | |
291 | 55 | jbInit(); |
292 | 55 | mainFrame.setFrameIcon(null); |
293 | 55 | mainFrame.setVisible(false); |
294 | 55 | mainFrame.invalidate(); |
295 | 55 | mainFrame.pack(); |
296 | } catch (Exception e) | |
297 | { | |
298 | 0 | jalview.bin.Console.outPrintln(e); // for JavaScript TypeError |
299 | 0 | e.printStackTrace(); |
300 | } | |
301 | } | |
302 | ||
303 | // BH SwingJS optimization | |
304 | // (a) 100-ms interruptable timer for text entry -- BH 1/10/2019 | |
305 | // (b) two-character minimum, at least for JavaScript. | |
306 | ||
307 | private Timer timer; | |
308 | ||
309 | 0 | protected void txt_search_ActionPerformedDelayed() |
310 | { | |
311 | 0 | if (timer != null) |
312 | { | |
313 | 0 | timer.stop(); |
314 | } | |
315 | 0 | timer = new Timer(300, new ActionListener() |
316 | { | |
317 | ||
318 | 0 | @Override |
319 | public void actionPerformed(ActionEvent e) | |
320 | { | |
321 | 0 | txt_search_ActionPerformed(); |
322 | } | |
323 | }); | |
324 | 0 | timer.setRepeats(false); |
325 | 0 | timer.start(); |
326 | } | |
327 | // | |
328 | ||
329 | /** | |
330 | * Initializes the GUI default properties | |
331 | * | |
332 | * @throws Exception | |
333 | */ | |
334 | 55 | private void jbInit() throws Exception |
335 | { | |
336 | 55 | Integer width = tempUserPrefs.get("structureChooser.width") == null |
337 | ? 800 | |
338 | : tempUserPrefs.get("structureChooser.width"); | |
339 | 55 | Integer height = tempUserPrefs.get("structureChooser.height") == null |
340 | ? 400 | |
341 | : tempUserPrefs.get("structureChooser.height"); | |
342 | 55 | tbl_summary.setAutoCreateRowSorter(true); |
343 | 55 | tbl_summary.getTableHeader().setReorderingAllowed(false); |
344 | 55 | tbl_summary.addMouseListener(new MouseAdapter() |
345 | { | |
346 | 0 | @Override |
347 | public void mousePressed(MouseEvent e) | |
348 | { | |
349 | 0 | if (!popupAction(e)) |
350 | { | |
351 | 0 | super.mousePressed(e); |
352 | } | |
353 | } | |
354 | ||
355 | 0 | @Override |
356 | public void mouseClicked(MouseEvent e) | |
357 | { | |
358 | 0 | if (!popupAction(e)) |
359 | { | |
360 | 0 | validateSelections(); |
361 | } | |
362 | } | |
363 | ||
364 | 0 | @Override |
365 | public void mouseReleased(MouseEvent e) | |
366 | { | |
367 | 0 | if (!popupAction(e)) |
368 | { | |
369 | 0 | validateSelections(); |
370 | } | |
371 | } | |
372 | ||
373 | 0 | boolean popupAction(MouseEvent e) |
374 | { | |
375 | 0 | if (e.isPopupTrigger()) |
376 | { | |
377 | 0 | Point pt = e.getPoint(); |
378 | 0 | int selectedRow = tbl_summary.rowAtPoint(pt); |
379 | 0 | if (showPopupFor(selectedRow, pt.x, pt.y)) |
380 | { | |
381 | 0 | return true; |
382 | } | |
383 | } | |
384 | 0 | return false; |
385 | } | |
386 | }); | |
387 | 55 | tbl_summary.addKeyListener(new KeyAdapter() |
388 | { | |
389 | 0 | @Override |
390 | public void keyPressed(KeyEvent evt) | |
391 | { | |
392 | 0 | validateSelections(); |
393 | 0 | switch (evt.getKeyCode()) |
394 | { | |
395 | 0 | case KeyEvent.VK_ESCAPE: // escape key |
396 | 0 | mainFrame.dispose(); |
397 | 0 | break; |
398 | 0 | case KeyEvent.VK_ENTER: // enter key |
399 | 0 | if (btn_add.isEnabled()) |
400 | { | |
401 | 0 | add_ActionPerformed(); |
402 | } | |
403 | 0 | break; |
404 | 0 | case KeyEvent.VK_TAB: // tab key |
405 | 0 | if (evt.isShiftDown()) |
406 | { | |
407 | 0 | pnl_filter.requestFocus(); |
408 | } | |
409 | else | |
410 | { | |
411 | 0 | btn_add.requestFocus(); |
412 | } | |
413 | 0 | evt.consume(); |
414 | 0 | break; |
415 | 0 | default: |
416 | 0 | return; |
417 | } | |
418 | } | |
419 | }); | |
420 | ||
421 | 55 | btn_cancel = new JButton(MessageManager.getString("action.cancel")); |
422 | 55 | btn_cancel.setFont(VERDANA_12); |
423 | 55 | btn_cancel.addActionListener(new ActionListener() |
424 | { | |
425 | 0 | @Override |
426 | public void actionPerformed(ActionEvent e) | |
427 | { | |
428 | 0 | closeAction(pnl_filter.getHeight()); |
429 | } | |
430 | }); | |
431 | 55 | btn_cancel.addKeyListener(new KeyAdapter() |
432 | { | |
433 | 0 | @Override |
434 | public void keyPressed(KeyEvent evt) | |
435 | { | |
436 | 0 | if (evt.getKeyCode() == KeyEvent.VK_ENTER) |
437 | { | |
438 | 0 | closeAction(pnl_filter.getHeight()); |
439 | } | |
440 | } | |
441 | }); | |
442 | ||
443 | 55 | tbl_local_pdb.setAutoCreateRowSorter(true); |
444 | 55 | tbl_local_pdb.getTableHeader().setReorderingAllowed(false); |
445 | 55 | tbl_local_pdb.addMouseListener(new MouseAdapter() |
446 | { | |
447 | 0 | @Override |
448 | public void mouseClicked(MouseEvent e) | |
449 | { | |
450 | 0 | validateSelections(); |
451 | } | |
452 | ||
453 | 0 | @Override |
454 | public void mouseReleased(MouseEvent e) | |
455 | { | |
456 | 0 | validateSelections(); |
457 | } | |
458 | }); | |
459 | 55 | tbl_local_pdb.addKeyListener(new KeyAdapter() |
460 | { | |
461 | 0 | @Override |
462 | public void keyPressed(KeyEvent evt) | |
463 | { | |
464 | 0 | validateSelections(); |
465 | 0 | switch (evt.getKeyCode()) |
466 | { | |
467 | 0 | case KeyEvent.VK_ESCAPE: // escape key |
468 | 0 | mainFrame.dispose(); |
469 | 0 | break; |
470 | 0 | case KeyEvent.VK_ENTER: // enter key |
471 | 0 | if (btn_add.isEnabled()) |
472 | { | |
473 | 0 | add_ActionPerformed(); |
474 | } | |
475 | 0 | break; |
476 | 0 | case KeyEvent.VK_TAB: // tab key |
477 | 0 | if (evt.isShiftDown()) |
478 | { | |
479 | 0 | cmb_filterOption.requestFocus(); |
480 | } | |
481 | else | |
482 | { | |
483 | 0 | if (btn_add.isEnabled()) |
484 | { | |
485 | 0 | btn_add.requestFocus(); |
486 | } | |
487 | else | |
488 | { | |
489 | 0 | btn_cancel.requestFocus(); |
490 | } | |
491 | } | |
492 | 0 | evt.consume(); |
493 | 0 | break; |
494 | 0 | default: |
495 | 0 | return; |
496 | } | |
497 | } | |
498 | }); | |
499 | ||
500 | 55 | btn_newView = new JButton( |
501 | MessageManager.formatMessage("action.new_structure_view_with", | |
502 | StructureViewer.getViewerType().toString())); | |
503 | 55 | btn_newView.setFont(VERDANA_12); |
504 | 55 | btn_newView.addActionListener(new ActionListener() |
505 | { | |
506 | 0 | @Override |
507 | public void actionPerformed(ActionEvent e) | |
508 | { | |
509 | 0 | newView_ActionPerformed(); |
510 | } | |
511 | }); | |
512 | 55 | btn_newView.addKeyListener(new KeyAdapter() |
513 | { | |
514 | 0 | @Override |
515 | public void keyPressed(KeyEvent evt) | |
516 | { | |
517 | 0 | if (evt.getKeyCode() == KeyEvent.VK_ENTER) |
518 | { | |
519 | 0 | newView_ActionPerformed(); |
520 | } | |
521 | } | |
522 | }); | |
523 | ||
524 | // TODO: JAL-3898 - get list of available external programs to view | |
525 | // structures with | |
526 | ||
527 | 55 | btn_add = new JButton(MessageManager.getString("action.add")); |
528 | 55 | btn_add.setFont(VERDANA_12); |
529 | 55 | btn_add.addActionListener(new ActionListener() |
530 | { | |
531 | 0 | @Override |
532 | public void actionPerformed(ActionEvent e) | |
533 | { | |
534 | 0 | add_ActionPerformed(); |
535 | } | |
536 | }); | |
537 | 55 | btn_add.addKeyListener(new KeyAdapter() |
538 | { | |
539 | 0 | @Override |
540 | public void keyPressed(KeyEvent evt) | |
541 | { | |
542 | 0 | if (evt.getKeyCode() == KeyEvent.VK_ENTER) |
543 | { | |
544 | 0 | add_ActionPerformed(); |
545 | } | |
546 | } | |
547 | }); | |
548 | ||
549 | 55 | btn_pdbFromFile.setFont(VERDANA_12); |
550 | 55 | String btn_title = MessageManager.getString("label.select_pdb_file"); |
551 | 55 | btn_pdbFromFile.setText(btn_title + " "); |
552 | 55 | btn_pdbFromFile.addActionListener(new ActionListener() |
553 | { | |
554 | 0 | @Override |
555 | public void actionPerformed(ActionEvent e) | |
556 | { | |
557 | 0 | pdbFromFile_actionPerformed(); |
558 | } | |
559 | }); | |
560 | 55 | btn_pdbFromFile.addKeyListener(new KeyAdapter() |
561 | { | |
562 | 0 | @Override |
563 | public void keyPressed(KeyEvent evt) | |
564 | { | |
565 | 0 | if (evt.getKeyCode() == KeyEvent.VK_ENTER) |
566 | { | |
567 | 0 | pdbFromFile_actionPerformed(); |
568 | } | |
569 | } | |
570 | }); | |
571 | 55 | lbl_pdbFile.setFont(VERDANA_10); |
572 | 55 | lbl_pdbFile.setFont(VERDANA_10); |
573 | ||
574 | 55 | lbl_chooseTempFacType.setFont(VERDANA_12); |
575 | 55 | lbl_chooseTempFacType.setText( |
576 | MessageManager.getString("label.interpret_tempfac_as")); | |
577 | ||
578 | 55 | combo_tempFacAs.setFont(VERDANA_12); |
579 | 55 | for (TFType t : TFType.values()) |
580 | { | |
581 | 110 | combo_tempFacAs.addItem(t); |
582 | } | |
583 | 55 | combo_tempFacAs.addItemListener(new ItemListener() |
584 | { | |
585 | 0 | @Override |
586 | public void itemStateChanged(ItemEvent e) | |
587 | { | |
588 | // used to determine if we should guess pLDDT or leave a user-choice | |
589 | 0 | tempFacAsChanged = true; |
590 | } | |
591 | }); | |
592 | ||
593 | 55 | btn_paeMatrixFile.setFont(VERDANA_12); |
594 | 55 | btn_paeMatrixFile |
595 | .setText(MessageManager.getString("label.add_pae_matrix_file")); | |
596 | 55 | btn_paeMatrixFile.addActionListener(new ActionListener() |
597 | { | |
598 | 0 | @Override |
599 | public void actionPerformed(ActionEvent e) | |
600 | { | |
601 | 0 | paeMatrixFile_actionPerformed(); |
602 | } | |
603 | }); | |
604 | 55 | btn_paeMatrixFile.addKeyListener(new KeyAdapter() |
605 | { | |
606 | 0 | @Override |
607 | public void keyPressed(KeyEvent evt) | |
608 | { | |
609 | 0 | if (evt.getKeyCode() == KeyEvent.VK_ENTER) |
610 | { | |
611 | 0 | paeMatrixFile_actionPerformed(); |
612 | } | |
613 | } | |
614 | }); | |
615 | 55 | lbl_paeFile.setFont(VERDANA_10); |
616 | ||
617 | 55 | JScrollPane scrl_foundStructures = new JScrollPane(tbl_summary); |
618 | 55 | scrl_foundStructures.setPreferredSize(new Dimension(width, height)); |
619 | ||
620 | 55 | JScrollPane scrl_localPDB = new JScrollPane(tbl_local_pdb); |
621 | 55 | scrl_localPDB.setPreferredSize(new Dimension(width, height)); |
622 | 55 | scrl_localPDB.setHorizontalScrollBarPolicy( |
623 | JScrollPane.HORIZONTAL_SCROLLBAR_NEVER); | |
624 | ||
625 | 55 | chk_invertFilter.setFont(VERDANA_12); |
626 | 55 | txt_search.setToolTipText(JvSwingUtils.wrapTooltip(true, |
627 | MessageManager.getString("label.enter_pdb_id_tip"))); | |
628 | 55 | txt_search.getDocument().addDocumentListener(new DocumentListener() |
629 | { | |
630 | 0 | @Override |
631 | public void insertUpdate(DocumentEvent e) | |
632 | { | |
633 | 0 | txt_search_ActionPerformedDelayed(); |
634 | } | |
635 | ||
636 | 0 | @Override |
637 | public void removeUpdate(DocumentEvent e) | |
638 | { | |
639 | 0 | txt_search_ActionPerformedDelayed(); |
640 | } | |
641 | ||
642 | 0 | @Override |
643 | public void changedUpdate(DocumentEvent e) | |
644 | { | |
645 | 0 | txt_search_ActionPerformedDelayed(); |
646 | } | |
647 | }); | |
648 | ||
649 | 55 | cmb_filterOption.setFont(VERDANA_12); |
650 | 55 | cmb_filterOption.setToolTipText( |
651 | MessageManager.getString("info.select_filter_option")); | |
652 | 55 | cmb_filterOption.addItemListener(this); |
653 | // add CustomComboSeparatorsRenderer to filter option combo-box | |
654 | 55 | cmb_filterOption.setRenderer(new CustomComboSeparatorsRenderer( |
655 | (ListCellRenderer<Object>) cmb_filterOption.getRenderer()) | |
656 | { | |
657 | 23 | @Override |
658 | protected boolean addSeparatorAfter(JList list, FilterOption value, | |
659 | int index) | |
660 | { | |
661 | 23 | return value.isAddSeparatorAfter(); |
662 | } | |
663 | }); | |
664 | ||
665 | 55 | chk_invertFilter.addItemListener(this); |
666 | 55 | btn_queryTDB = new JButton(); |
667 | 55 | if (Platform.isMac()) |
668 | { | |
669 | // needed to make icon button have round corners in vaqua | |
670 | 0 | btn_queryTDB.putClientProperty("JButton.buttonType", "bevel"); |
671 | } | |
672 | 55 | btn_queryTDB.setMargin(new Insets(0, 16, 0, 20)); |
673 | 55 | btn_queryTDB |
674 | .setText(MessageManager.getString("label.search_3dbeacons")); | |
675 | 55 | btn_queryTDB.setIconTextGap(12); |
676 | 55 | btn_queryTDB.setIcon(tdbImage); |
677 | 55 | btn_queryTDB.setVerticalTextPosition(SwingConstants.CENTER); |
678 | 55 | btn_queryTDB.setHorizontalTextPosition(SwingConstants.TRAILING); |
679 | 55 | btn_queryTDB.setFont(VERDANA_12); |
680 | 55 | btn_queryTDB.setToolTipText( |
681 | MessageManager.getString("label.find_models_from_3dbeacons")); | |
682 | // btn_queryTDB.setPreferredSize(new Dimension(200, 32)); | |
683 | 55 | btn_queryTDB.setVisible(false); |
684 | ||
685 | 55 | targetView.setVisible(false); |
686 | ||
687 | 55 | actionsPanel = new JPanel(new MigLayout()); |
688 | 55 | actionsPanel.add(targetView, "left"); |
689 | 55 | actionsPanel.add(btn_add, "wrap"); |
690 | 55 | actionsPanel.add(chk_superpose, "left"); |
691 | 55 | actionsPanel.add(btn_newView); |
692 | 55 | actionsPanel.add(btn_cancel, "right"); |
693 | ||
694 | 55 | JPanel pnl_main = new JPanel(new BorderLayout()); |
695 | 55 | JPanel pnl_controls = new JPanel(); |
696 | 55 | pnl_queryTDB = new JPanel(); |
697 | 55 | pnl_queryTDB.setLayout(new FlowLayout(FlowLayout.CENTER, 4, 4)); |
698 | 55 | pnl_queryTDB.setBackground(getBackground()); |
699 | 55 | pnl_queryTDB.add(btn_queryTDB); |
700 | ||
701 | 55 | pnl_queryTDB.setVisible(false); |
702 | 55 | pnl_main.add(pnl_queryTDB, BorderLayout.NORTH); |
703 | 55 | pnl_controls.add(cmb_filterOption); |
704 | 55 | pnl_controls.add(lbl_loading); |
705 | 55 | pnl_controls.add(chk_invertFilter); |
706 | 55 | pnl_main.add(pnl_controls, BorderLayout.CENTER); |
707 | 55 | lbl_loading.setVisible(false); |
708 | ||
709 | // JPanel pnl_fileChooser = new JPanel(new FlowLayout()); | |
710 | // pnl_fileChooser.add(btn_pdbFromFile); | |
711 | // pnl_fileChooser.add(lbl_fromFileStatus); | |
712 | ||
713 | 55 | JPanel pnl_fileOptions = new JPanel(); |
714 | 55 | pnl_fileOptions.setLayout(new GridBagLayout()); |
715 | 55 | GridBagConstraints gbc = new GridBagConstraints(); |
716 | 55 | gbc.gridx = 0; |
717 | 55 | gbc.gridy = 0; |
718 | 55 | gbc.weightx = 0.0; |
719 | 55 | gbc.weighty = 0.0; |
720 | 55 | gbc.insets = new Insets(0, 0, 2, 0); |
721 | 55 | gbc.fill = GridBagConstraints.NONE; |
722 | 55 | gbc.anchor = GridBagConstraints.FIRST_LINE_START; |
723 | // pnl_fileOptions.add(pnl_fileChooser, gbc); | |
724 | 55 | pnl_fileOptions.add(btn_pdbFromFile, gbc); |
725 | 55 | gbc.gridy++; |
726 | 55 | gbc.insets = new Insets(0, 0, 18, 0); |
727 | 55 | pnl_fileOptions.add(lbl_pdbFile, gbc); |
728 | 55 | gbc.gridy++; |
729 | ||
730 | 55 | gbc.insets = new Insets(0, 0, 2, 0); |
731 | 55 | pnl_fileOptions.add(new JLabel( |
732 | MessageManager.getString("label.structure_import_options")), | |
733 | gbc); | |
734 | 55 | gbc.gridy++; |
735 | ||
736 | 55 | gbc.insets = new Insets(0, 0, 6, 0); |
737 | 55 | pnl_fileOptions.add(lbl_chooseTempFacType, gbc); |
738 | 55 | gbc.gridy++; |
739 | 55 | gbc.insets = new Insets(0, 0, 18, 0); |
740 | 55 | pnl_fileOptions.add(combo_tempFacAs, gbc); |
741 | 55 | gbc.gridy++; |
742 | 55 | gbc.insets = new Insets(0, 0, 6, 0); |
743 | 55 | pnl_fileOptions.add(btn_paeMatrixFile, gbc); |
744 | 55 | gbc.gridy++; |
745 | 55 | gbc.insets = new Insets(0, 0, 2, 0); |
746 | 55 | gbc.weighty = 1.0; |
747 | 55 | pnl_fileOptions.add(lbl_paeFile, gbc); |
748 | ||
749 | 55 | JPanel pnl_fileChooserBL = new JPanel(new BorderLayout()); |
750 | 55 | pnl_fileChooserBL.add(fileChooserAssSeqPanel, BorderLayout.PAGE_START); |
751 | 55 | pnl_fileChooserBL.add(pnl_fileOptions, BorderLayout.CENTER); |
752 | ||
753 | 55 | JPanel pnl_idInput = new JPanel(new FlowLayout()); |
754 | 55 | pnl_idInput.add(txt_search); |
755 | 55 | pnl_idInput.add(lbl_pdbManualFetchStatus); |
756 | ||
757 | 55 | JPanel pnl_idInputBL = new JPanel(new BorderLayout()); |
758 | 55 | pnl_idInputBL.add(idInputAssSeqPanel, BorderLayout.NORTH); |
759 | 55 | pnl_idInputBL.add(pnl_idInput, BorderLayout.CENTER); |
760 | ||
761 | 55 | final String foundStructureSummary = MessageManager |
762 | .getString("label.found_structures_summary"); | |
763 | 55 | final String configureCols = MessageManager |
764 | .getString("label.configure_displayed_columns"); | |
765 | 55 | ChangeListener changeListener = new ChangeListener() |
766 | { | |
767 | 55 | @Override |
768 | public void stateChanged(ChangeEvent changeEvent) | |
769 | { | |
770 | 55 | JTabbedPane sourceTabbedPane = (JTabbedPane) changeEvent |
771 | .getSource(); | |
772 | 55 | int index = sourceTabbedPane.getSelectedIndex(); |
773 | 55 | btn_add.setVisible(targetView.isVisible()); |
774 | 55 | btn_newView.setVisible(true); |
775 | 55 | btn_cancel.setVisible(true); |
776 | 55 | if (sourceTabbedPane.getTitleAt(index).equals(configureCols)) |
777 | { | |
778 | 0 | btn_add.setEnabled(false); |
779 | 0 | btn_cancel.setEnabled(false); |
780 | 0 | btn_add.setVisible(false); |
781 | 0 | btn_newView.setEnabled(false); |
782 | 0 | btn_cancel.setVisible(false); |
783 | 0 | previousWantedFields = getFTSDocFieldPrefs() |
784 | .getStructureSummaryFields() | |
785 | .toArray(new FTSDataColumnI[0]); | |
786 | } | |
787 | 55 | if (sourceTabbedPane.getTitleAt(index) |
788 | .equals(foundStructureSummary)) | |
789 | { | |
790 | 55 | btn_cancel.setEnabled(true); |
791 | 55 | if (wantedFieldsUpdated()) |
792 | { | |
793 | 55 | tabRefresh(); |
794 | } | |
795 | else | |
796 | { | |
797 | 0 | validateSelections(); |
798 | } | |
799 | } | |
800 | } | |
801 | }; | |
802 | 55 | pnl_filter.addChangeListener(changeListener); |
803 | 55 | pnl_filter.setPreferredSize(new Dimension(width, height)); |
804 | 55 | pnl_filter.add(foundStructureSummary, scrl_foundStructures); |
805 | 55 | pnl_filter.add(configureCols, getFTSDocFieldPrefs()); |
806 | ||
807 | 55 | JPanel pnl_locPDB = new JPanel(new BorderLayout()); |
808 | 55 | pnl_locPDB.add(scrl_localPDB); |
809 | ||
810 | 55 | pnl_switchableViews.add(pnl_fileChooserBL, VIEWS_FROM_FILE); |
811 | 55 | pnl_switchableViews.add(pnl_idInputBL, VIEWS_ENTER_ID); |
812 | 55 | pnl_switchableViews.add(pnl_filter, VIEWS_FILTER); |
813 | 55 | pnl_switchableViews.add(pnl_locPDB, VIEWS_LOCAL_PDB); |
814 | ||
815 | 55 | this.setLayout(new BorderLayout()); |
816 | 55 | this.add(pnl_main, java.awt.BorderLayout.NORTH); |
817 | 55 | this.add(pnl_switchableViews, java.awt.BorderLayout.CENTER); |
818 | // this.add(pnl_actions, java.awt.BorderLayout.SOUTH); | |
819 | 55 | statusPanel.setLayout(new GridLayout()); |
820 | ||
821 | 55 | JPanel pnl_actionsAndStatus = new JPanel(new BorderLayout()); |
822 | 55 | pnl_actionsAndStatus.add(actionsPanel, BorderLayout.CENTER); |
823 | 55 | pnl_actionsAndStatus.add(statusPanel, BorderLayout.SOUTH); |
824 | 55 | statusPanel.add(statusBar, null); |
825 | 55 | this.add(pnl_actionsAndStatus, java.awt.BorderLayout.SOUTH); |
826 | ||
827 | 55 | mainFrame.addInternalFrameListener( |
828 | new javax.swing.event.InternalFrameAdapter() | |
829 | { | |
830 | 0 | @Override |
831 | public void internalFrameClosing(InternalFrameEvent e) | |
832 | { | |
833 | 0 | closeAction(pnl_filter.getHeight()); |
834 | } | |
835 | }); | |
836 | 55 | mainFrame.setVisible(true); |
837 | 55 | mainFrame.setContentPane(this); |
838 | 55 | mainFrame.setDefaultCloseOperation(JFrame.DISPOSE_ON_CLOSE); |
839 | 55 | Integer x = tempUserPrefs.get("structureChooser.x"); |
840 | 55 | Integer y = tempUserPrefs.get("structureChooser.y"); |
841 | 55 | if (x != null && y != null) |
842 | { | |
843 | 0 | mainFrame.setLocation(x, y); |
844 | } | |
845 | 55 | Desktop.addInternalFrame(mainFrame, frameTitle, width, height); |
846 | } | |
847 | ||
848 | protected abstract boolean showPopupFor(int selectedRow, int x, int y); | |
849 | ||
850 | 0 | protected void closeAction(int preferredHeight) |
851 | { | |
852 | // jalview.bin.Console.outPrintln(">>>>>>>>>> closing internal frame!!!"); | |
853 | // jalview.bin.Console.outPrintln("width : " + mainFrame.getWidth()); | |
854 | // jalview.bin.Console.outPrintln("heigh : " + mainFrame.getHeight()); | |
855 | // jalview.bin.Console.outPrintln("x : " + mainFrame.getX()); | |
856 | // jalview.bin.Console.outPrintln("y : " + mainFrame.getY()); | |
857 | 0 | tempUserPrefs.put("structureChooser.width", pnl_filter.getWidth()); |
858 | 0 | tempUserPrefs.put("structureChooser.height", preferredHeight); |
859 | 0 | tempUserPrefs.put("structureChooser.x", mainFrame.getX()); |
860 | 0 | tempUserPrefs.put("structureChooser.y", mainFrame.getY()); |
861 | 0 | mainFrame.dispose(); |
862 | } | |
863 | ||
864 | 55 | public boolean wantedFieldsUpdated() |
865 | { | |
866 | 55 | if (previousWantedFields == null) |
867 | { | |
868 | 55 | return true; |
869 | } | |
870 | ||
871 | 0 | FTSDataColumnI[] currentWantedFields = getFTSDocFieldPrefs() |
872 | .getStructureSummaryFields().toArray(new FTSDataColumnI[0]); | |
873 | 0 | return Arrays.equals(currentWantedFields, previousWantedFields) ? false |
874 | : true; | |
875 | ||
876 | } | |
877 | ||
878 | 0 | @Override |
879 | /** | |
880 | * Event listener for the 'filter' combo-box and 'invert' check-box | |
881 | */ | |
882 | public void itemStateChanged(ItemEvent e) | |
883 | { | |
884 | 0 | stateChanged(e); |
885 | } | |
886 | ||
887 | /** | |
888 | * This inner class provides the provides the data model for associate | |
889 | * sequence combo-box - cmb_assSeq | |
890 | * | |
891 | * @author tcnofoegbu | |
892 | * | |
893 | */ | |
894 | public class AssociateSeqOptions | |
895 | { | |
896 | private SequenceI sequence; | |
897 | ||
898 | private String name; | |
899 | ||
900 | 0 | public AssociateSeqOptions(SequenceI seq) |
901 | { | |
902 | 0 | this.sequence = seq; |
903 | 0 | this.name = (seq.getName().length() >= 23) |
904 | ? seq.getName().substring(0, 23) | |
905 | : seq.getName(); | |
906 | } | |
907 | ||
908 | 2 | public AssociateSeqOptions(String name, SequenceI seq) |
909 | { | |
910 | 2 | this.name = name; |
911 | 2 | this.sequence = seq; |
912 | } | |
913 | ||
914 | 3 | @Override |
915 | public String toString() | |
916 | { | |
917 | 3 | return name; |
918 | } | |
919 | ||
920 | 0 | public String getName() |
921 | { | |
922 | 0 | return name; |
923 | } | |
924 | ||
925 | 0 | public void setName(String name) |
926 | { | |
927 | 0 | this.name = name; |
928 | } | |
929 | ||
930 | 0 | public SequenceI getSequence() |
931 | { | |
932 | 0 | return sequence; |
933 | } | |
934 | ||
935 | 0 | public void setSequence(SequenceI sequence) |
936 | { | |
937 | 0 | this.sequence = sequence; |
938 | } | |
939 | ||
940 | } | |
941 | ||
942 | /** | |
943 | * This inner class holds the Layout and configuration of the panel which | |
944 | * handles association of manually fetched structures to a unique sequence | |
945 | * when more than one sequence selection is made | |
946 | * | |
947 | * @author tcnofoegbu | |
948 | * | |
949 | */ | |
950 | public class AssociateSeqPanel extends JPanel implements ItemListener | |
951 | { | |
952 | private JComboBox<AssociateSeqOptions> cmb_assSeq = new JComboBox<>(); | |
953 | ||
954 | private JLabel lbl_associateSeq = new JLabel(); | |
955 | ||
956 | 110 | public AssociateSeqPanel() |
957 | { | |
958 | 110 | this.setLayout(new FlowLayout()); |
959 | 110 | this.add(cmb_assSeq); |
960 | 110 | this.add(lbl_associateSeq); |
961 | 110 | cmb_assSeq.setToolTipText( |
962 | MessageManager.getString("info.associate_wit_sequence")); | |
963 | 110 | cmb_assSeq.addItemListener(this); |
964 | } | |
965 | ||
966 | 2 | public void loadCmbAssSeq() |
967 | { | |
968 | 2 | populateCmbAssociateSeqOptions(cmb_assSeq, lbl_associateSeq); |
969 | } | |
970 | ||
971 | 3 | public JComboBox<AssociateSeqOptions> getCmb_assSeq() |
972 | { | |
973 | 3 | return cmb_assSeq; |
974 | } | |
975 | ||
976 | 0 | public void setCmb_assSeq(JComboBox<AssociateSeqOptions> cmb_assSeq) |
977 | { | |
978 | 0 | this.cmb_assSeq = cmb_assSeq; |
979 | } | |
980 | ||
981 | 2 | @Override |
982 | public void itemStateChanged(ItemEvent e) | |
983 | { | |
984 | 2 | if (e.getStateChange() == ItemEvent.SELECTED) |
985 | { | |
986 | 2 | cmbAssSeqStateChanged(); |
987 | } | |
988 | } | |
989 | } | |
990 | ||
991 | 10 | public JTable getResultTable() |
992 | { | |
993 | 10 | return tbl_summary; |
994 | } | |
995 | ||
996 | 6 | public JComboBox<FilterOption> getCmbFilterOption() |
997 | { | |
998 | 6 | return cmb_filterOption; |
999 | } | |
1000 | ||
1001 | /** | |
1002 | * Custom ListCellRenderer for adding a separator between different categories | |
1003 | * of structure chooser filter option drop-down. | |
1004 | * | |
1005 | * @author tcnofoegbu | |
1006 | * | |
1007 | */ | |
1008 | public abstract class CustomComboSeparatorsRenderer | |
1009 | implements ListCellRenderer<Object> | |
1010 | { | |
1011 | private ListCellRenderer<Object> regent; | |
1012 | ||
1013 | private JPanel separatorPanel = new JPanel(new BorderLayout()); | |
1014 | ||
1015 | private JSeparator jSeparator = new JSeparator(); | |
1016 | ||
1017 | 55 | public CustomComboSeparatorsRenderer( |
1018 | ListCellRenderer<Object> listCellRenderer) | |
1019 | { | |
1020 | 55 | this.regent = listCellRenderer; |
1021 | } | |
1022 | ||
1023 | 66 | @Override |
1024 | public Component getListCellRendererComponent(JList list, Object value, | |
1025 | int index, boolean isSelected, boolean cellHasFocus) | |
1026 | { | |
1027 | ||
1028 | 66 | Component comp = regent.getListCellRendererComponent(list, value, |
1029 | index, isSelected, cellHasFocus); | |
1030 | 66 | if (index != -1 |
1031 | && addSeparatorAfter(list, (FilterOption) value, index)) | |
1032 | { | |
1033 | 1 | separatorPanel.removeAll(); |
1034 | 1 | separatorPanel.add(comp, BorderLayout.CENTER); |
1035 | 1 | separatorPanel.add(jSeparator, BorderLayout.SOUTH); |
1036 | 1 | return separatorPanel; |
1037 | } | |
1038 | else | |
1039 | { | |
1040 | 65 | return comp; |
1041 | } | |
1042 | } | |
1043 | ||
1044 | protected abstract boolean addSeparatorAfter(JList list, | |
1045 | FilterOption value, int index); | |
1046 | } | |
1047 | ||
1048 | protected abstract void stateChanged(ItemEvent e); | |
1049 | ||
1050 | protected abstract void add_ActionPerformed(); | |
1051 | ||
1052 | protected abstract void newView_ActionPerformed(); | |
1053 | ||
1054 | protected abstract void pdbFromFile_actionPerformed(); | |
1055 | ||
1056 | protected abstract void paeMatrixFile_actionPerformed(); | |
1057 | ||
1058 | protected abstract void txt_search_ActionPerformed(); | |
1059 | ||
1060 | protected abstract void populateCmbAssociateSeqOptions( | |
1061 | JComboBox<AssociateSeqOptions> cmb_assSeq, | |
1062 | JLabel lbl_associateSeq); | |
1063 | ||
1064 | protected abstract void cmbAssSeqStateChanged(); | |
1065 | ||
1066 | protected abstract void tabRefresh(); | |
1067 | ||
1068 | protected abstract void validateSelections(); | |
1069 | ||
1070 | 0 | public JInternalFrame getFrame() |
1071 | { | |
1072 | 0 | return mainFrame; |
1073 | } | |
1074 | ||
1075 | 0 | public void setPdbOptionsEnabled(boolean b) |
1076 | { | |
1077 | 0 | lbl_chooseTempFacType.setEnabled(b); |
1078 | 0 | combo_tempFacAs.setEnabled(b); |
1079 | 0 | btn_paeMatrixFile.setEnabled(b); |
1080 | 0 | lbl_paeFile.setEnabled(b); |
1081 | } | |
1082 | } |