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  1. Project Clover database Wed Nov 12 2025 13:01:44 GMT
  2. Package jalview.gui

File SeqPanelTest.java

 

Code metrics

8
518
16
1
1,073
715
22
0.04
32.38
16
1.38

Classes

Class Line # Actions
SeqPanelTest 58 518 22
0.953874595.4%
 

Contributing tests

This file is covered by 10 tests. .

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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.gui;
22   
23    import static org.testng.Assert.assertEquals;
24    import static org.testng.Assert.assertNull;
25    import static org.testng.Assert.assertTrue;
26   
27    import java.awt.EventQueue;
28    import java.awt.FontMetrics;
29    import java.awt.event.MouseEvent;
30    import java.lang.reflect.InvocationTargetException;
31   
32    import javax.swing.JLabel;
33   
34    import org.testng.annotations.AfterMethod;
35    import org.testng.annotations.BeforeClass;
36    import org.testng.annotations.Test;
37   
38    import jalview.api.AlignViewportI;
39    import jalview.bin.Cache;
40    import jalview.bin.Jalview;
41    import jalview.commands.EditCommand;
42    import jalview.commands.EditCommand.Action;
43    import jalview.commands.EditCommand.Edit;
44    import jalview.datamodel.Alignment;
45    import jalview.datamodel.AlignmentAnnotation;
46    import jalview.datamodel.AlignmentI;
47    import jalview.datamodel.SearchResults;
48    import jalview.datamodel.SearchResultsI;
49    import jalview.datamodel.Sequence;
50    import jalview.datamodel.SequenceI;
51    import jalview.gui.SeqPanel.MousePos;
52    import jalview.io.DataSourceType;
53    import jalview.io.FileLoader;
54    import jalview.util.MessageManager;
55    import jalview.viewmodel.ViewportRanges;
56    import junit.extensions.PA;
57   
 
58    public class SeqPanelTest
59    {
60    AlignFrame af;
61   
 
62  1 toggle @BeforeClass(alwaysRun = true)
63    public void setUpJvOptionPane()
64    {
65  1 JvOptionPane.setInteractiveMode(false);
66  1 JvOptionPane.setMockResponse(JvOptionPane.CANCEL_OPTION);
67    }
68   
 
69  1 toggle @Test(groups = "Functional")
70    public void testSetStatusReturnsNearestResiduePosition()
71    {
72  1 SequenceI seq1 = new Sequence("Seq1", "AACDE");
73  1 SequenceI seq2 = new Sequence("Seq2", "AA--E");
74  1 AlignmentI al = new Alignment(new SequenceI[] { seq1, seq2 });
75  1 AlignFrame alignFrame = new AlignFrame(al, al.getWidth(),
76    al.getHeight());
77  1 AlignmentI visAl = alignFrame.getViewport().getAlignment();
78   
79    // Test either side of gap
80  1 assertEquals(alignFrame.alignPanel.getSeqPanel()
81    .setStatusMessage(visAl.getSequenceAt(1), 1, 1), 2);
82  1 assertEquals(((JLabel) PA.getValue(alignFrame, "statusBar")).getText(),
83    "Sequence 2 ID: Seq2 Residue: ALA (2)");
84  1 assertEquals(alignFrame.alignPanel.getSeqPanel()
85    .setStatusMessage(visAl.getSequenceAt(1), 4, 1), 3);
86  1 assertEquals(((JLabel) PA.getValue(alignFrame, "statusBar")).getText(),
87    "Sequence 2 ID: Seq2 Residue: GLU (3)");
88    // no status message at a gap, returns next residue position to the right
89  1 assertEquals(alignFrame.alignPanel.getSeqPanel()
90    .setStatusMessage(visAl.getSequenceAt(1), 2, 1), 3);
91  1 assertEquals(((JLabel) PA.getValue(alignFrame, "statusBar")).getText(),
92    "Sequence 2 ID: Seq2");
93  1 assertEquals(alignFrame.alignPanel.getSeqPanel()
94    .setStatusMessage(visAl.getSequenceAt(1), 3, 1), 3);
95  1 assertEquals(((JLabel) PA.getValue(alignFrame, "statusBar")).getText(),
96    "Sequence 2 ID: Seq2");
97    }
98   
 
99  1 toggle @Test(groups = "Functional")
100    public void testAmbiguousAminoAcidGetsStatusMessage()
101    {
102  1 SequenceI seq1 = new Sequence("Seq1", "ABCDE");
103  1 SequenceI seq2 = new Sequence("Seq2", "AB--E");
104  1 AlignmentI al = new Alignment(new SequenceI[] { seq1, seq2 });
105  1 AlignFrame alignFrame = new AlignFrame(al, al.getWidth(),
106    al.getHeight());
107  1 AlignmentI visAl = alignFrame.getViewport().getAlignment();
108   
109  1 assertEquals(alignFrame.alignPanel.getSeqPanel()
110    .setStatusMessage(visAl.getSequenceAt(1), 1, 1), 2);
111  1 assertEquals(((JLabel) PA.getValue(alignFrame, "statusBar")).getText(),
112    "Sequence 2 ID: Seq2 Residue: B (2)");
113    }
114   
 
115  1 toggle @Test(groups = "Functional")
116    public void testGetEditStatusMessage()
117    {
118  1 assertNull(SeqPanel.getEditStatusMessage(null));
119   
120  1 EditCommand edit = new EditCommand(); // empty
121  1 assertNull(SeqPanel.getEditStatusMessage(edit));
122   
123  1 SequenceI[] seqs = new SequenceI[] { new Sequence("a", "b") };
124   
125    // 1 gap
126  1 edit.addEdit(edit.new Edit(Action.INSERT_GAP, seqs, 1, 1, '-'));
127  1 String expected = MessageManager.formatMessage("label.insert_gap", "1");
128  1 assertEquals(SeqPanel.getEditStatusMessage(edit), expected);
129   
130    // 3 more gaps makes +4
131  1 edit.addEdit(edit.new Edit(Action.INSERT_GAP, seqs, 1, 3, '-'));
132  1 expected = MessageManager.formatMessage("label.insert_gaps", "4");
133  1 assertEquals(SeqPanel.getEditStatusMessage(edit), expected);
134   
135    // 2 deletes makes + 2
136  1 edit.addEdit(edit.new Edit(Action.DELETE_GAP, seqs, 1, 2, '-'));
137  1 expected = MessageManager.formatMessage("label.insert_gaps", "2");
138  1 assertEquals(SeqPanel.getEditStatusMessage(edit), expected);
139   
140    // 2 more deletes makes 0 - no text
141  1 edit.addEdit(edit.new Edit(Action.DELETE_GAP, seqs, 1, 2, '-'));
142  1 assertNull(SeqPanel.getEditStatusMessage(edit));
143   
144    // 1 more delete makes 1 delete
145  1 edit.addEdit(edit.new Edit(Action.DELETE_GAP, seqs, 1, 1, '-'));
146  1 expected = MessageManager.formatMessage("label.delete_gap", "1");
147  1 assertEquals(SeqPanel.getEditStatusMessage(edit), expected);
148   
149    // 1 more delete makes 2 deletes
150  1 edit.addEdit(edit.new Edit(Action.DELETE_GAP, seqs, 1, 1, '-'));
151  1 expected = MessageManager.formatMessage("label.delete_gaps", "2");
152  1 assertEquals(SeqPanel.getEditStatusMessage(edit), expected);
153    }
154   
155    /**
156    * Tests that simulate 'locked editing', where an inserted gap is balanced by
157    * a gap deletion in the selection group, and vice versa
158    */
 
159  1 toggle @Test(groups = "Functional")
160    public void testGetEditStatusMessage_lockedEditing()
161    {
162  1 EditCommand edit = new EditCommand(); // empty
163  1 SequenceI[] seqs = new SequenceI[] { new Sequence("a", "b") };
164   
165    // 1 gap inserted, balanced by 1 delete
166  1 Edit e1 = edit.new Edit(Action.INSERT_GAP, seqs, 1, 1, '-');
167  1 edit.addEdit(e1);
168  1 Edit e2 = edit.new Edit(Action.DELETE_GAP, seqs, 5, 1, '-');
169  1 e2.setSystemGenerated(true);
170  1 edit.addEdit(e2);
171  1 String expected = MessageManager.formatMessage("label.insert_gap", "1");
172  1 assertEquals(SeqPanel.getEditStatusMessage(edit), expected);
173   
174    // 2 more gaps makes +3
175  1 Edit e3 = edit.new Edit(Action.INSERT_GAP, seqs, 1, 2, '-');
176  1 edit.addEdit(e3);
177  1 Edit e4 = edit.new Edit(Action.DELETE_GAP, seqs, 5, 2, '-');
178  1 e4.setSystemGenerated(true);
179  1 edit.addEdit(e4);
180  1 expected = MessageManager.formatMessage("label.insert_gaps", "3");
181  1 assertEquals(SeqPanel.getEditStatusMessage(edit), expected);
182   
183    // 2 deletes makes + 1
184  1 Edit e5 = edit.new Edit(Action.DELETE_GAP, seqs, 1, 2, '-');
185  1 edit.addEdit(e5);
186  1 Edit e6 = edit.new Edit(Action.INSERT_GAP, seqs, 5, 2, '-');
187  1 e6.setSystemGenerated(true);
188  1 edit.addEdit(e6);
189  1 expected = MessageManager.formatMessage("label.insert_gap", "1");
190  1 assertEquals(SeqPanel.getEditStatusMessage(edit), expected);
191   
192    // 1 more delete makes 0 - no text
193  1 Edit e7 = edit.new Edit(Action.DELETE_GAP, seqs, 1, 1, '-');
194  1 edit.addEdit(e7);
195  1 Edit e8 = edit.new Edit(Action.INSERT_GAP, seqs, 5, 1, '-');
196  1 e8.setSystemGenerated(true);
197  1 edit.addEdit(e8);
198  1 expected = MessageManager.formatMessage("label.insert_gaps", "2");
199  1 assertNull(SeqPanel.getEditStatusMessage(edit));
200   
201    // 1 more delete makes 1 delete
202  1 Edit e9 = edit.new Edit(Action.DELETE_GAP, seqs, 1, 1, '-');
203  1 edit.addEdit(e9);
204  1 Edit e10 = edit.new Edit(Action.INSERT_GAP, seqs, 5, 1, '-');
205  1 e10.setSystemGenerated(true);
206  1 edit.addEdit(e10);
207  1 expected = MessageManager.formatMessage("label.delete_gap", "1");
208  1 assertEquals(SeqPanel.getEditStatusMessage(edit), expected);
209   
210    // 2 more deletes makes 3 deletes
211  1 Edit e11 = edit.new Edit(Action.DELETE_GAP, seqs, 1, 2, '-');
212  1 edit.addEdit(e11);
213  1 Edit e12 = edit.new Edit(Action.INSERT_GAP, seqs, 5, 2, '-');
214  1 e12.setSystemGenerated(true);
215  1 edit.addEdit(e12);
216  1 expected = MessageManager.formatMessage("label.delete_gaps", "3");
217  1 assertEquals(SeqPanel.getEditStatusMessage(edit), expected);
218    }
219   
 
220  0 toggle public void testFindMousePosition_unwrapped()
221    {
222  0 String seqData = ">Seq1\nAACDE\n>Seq2\nAA--E\n";
223  0 AlignFrame alignFrame = new FileLoader().LoadFileWaitTillLoaded(seqData,
224    DataSourceType.PASTE);
225  0 AlignViewportI av = alignFrame.getViewport();
226  0 av.setShowAnnotation(true);
227  0 av.setWrapAlignment(false);
228  0 final int charHeight = av.getCharHeight();
229  0 final int charWidth = av.getCharWidth();
230    // sanity checks:
231  0 assertTrue(charHeight > 0);
232  0 assertTrue(charWidth > 0);
233  0 assertTrue(alignFrame.alignPanel.getSeqPanel().getWidth() > 0);
234   
235  0 SeqPanel testee = alignFrame.alignPanel.getSeqPanel();
236  0 int x = 0;
237  0 int y = 0;
238   
239    /*
240    * mouse at top left of unwrapped panel
241    */
242  0 MouseEvent evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0,
243    x, y, 0, 0, 0, false, 0);
244  0 MousePos pos = testee.findMousePosition(evt);
245  0 assertEquals(pos.column, 0);
246  0 assertEquals(pos.seqIndex, 0);
247  0 assertEquals(pos.annotationIndex, -1);
248    }
249   
 
250  10 toggle @AfterMethod(alwaysRun = true)
251    public void tearDown()
252    {
253  10 if (Desktop.instance != null)
254  10 Desktop.instance.closeAll_actionPerformed(null);
255    }
256   
 
257  1 toggle @Test(groups = "Functional")
258    public void testFindMousePosition_wrapped_annotations()
259    {
260  1 Cache.applicationProperties.setProperty("SHOW_ANNOTATIONS", "true");
261  1 Cache.applicationProperties.setProperty("WRAP_ALIGNMENT", "true");
262  1 AlignFrame alignFrame = new FileLoader().LoadFileWaitTillLoaded(
263    "examples/uniref50.fa", DataSourceType.FILE);
264  1 AlignViewportI av = alignFrame.getViewport();
265  1 av.setScaleAboveWrapped(false);
266  1 av.setScaleLeftWrapped(false);
267  1 av.setScaleRightWrapped(false);
268   
269  1 alignFrame.alignPanel.updateLayout();
270   
271  1 final int charHeight = av.getCharHeight();
272  1 final int charWidth = av.getCharWidth();
273  1 final int alignmentHeight = av.getAlignment().getHeight();
274   
275    // sanity checks:
276  1 assertTrue(charHeight > 0);
277  1 assertTrue(charWidth > 0);
278  1 assertTrue(alignFrame.alignPanel.getSeqPanel().getWidth() > 0);
279   
280  1 SeqPanel testee = alignFrame.alignPanel.getSeqPanel();
281  1 int x = 0;
282  1 int y = 0;
283   
284    /*
285    * mouse at top left of wrapped panel; there is a gap of charHeight
286    * above the alignment
287    */
288  1 MouseEvent evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0,
289    x, y, 0, 0, 0, false, 0);
290  1 MousePos pos = testee.findMousePosition(evt);
291  1 assertEquals(pos.column, 0);
292  1 assertEquals(pos.seqIndex, -1); // above sequences
293  1 assertEquals(pos.annotationIndex, -1);
294   
295    /*
296    * cursor at bottom of gap above
297    */
298  1 y = charHeight - 1;
299  1 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, y, 0, 0,
300    0, false, 0);
301  1 pos = testee.findMousePosition(evt);
302  1 assertEquals(pos.seqIndex, -1);
303  1 assertEquals(pos.annotationIndex, -1);
304   
305    /*
306    * cursor over top of first sequence
307    */
308  1 y = charHeight;
309  1 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, y, 0, 0,
310    0, false, 0);
311  1 pos = testee.findMousePosition(evt);
312  1 assertEquals(pos.seqIndex, 0);
313  1 assertEquals(pos.annotationIndex, -1);
314   
315    /*
316    * cursor at bottom of first sequence
317    */
318  1 y = 2 * charHeight - 1;
319  1 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, y, 0, 0,
320    0, false, 0);
321  1 pos = testee.findMousePosition(evt);
322  1 assertEquals(pos.seqIndex, 0);
323  1 assertEquals(pos.annotationIndex, -1);
324   
325    /*
326    * cursor at top of second sequence
327    */
328  1 y = 2 * charHeight;
329  1 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, y, 0, 0,
330    0, false, 0);
331  1 pos = testee.findMousePosition(evt);
332  1 assertEquals(pos.seqIndex, 1);
333  1 assertEquals(pos.annotationIndex, -1);
334   
335    /*
336    * cursor at bottom of second sequence
337    */
338  1 y = 3 * charHeight - 1;
339  1 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, y, 0, 0,
340    0, false, 0);
341  1 pos = testee.findMousePosition(evt);
342  1 assertEquals(pos.seqIndex, 1);
343  1 assertEquals(pos.annotationIndex, -1);
344   
345    /*
346    * cursor at bottom of last sequence
347    */
348  1 y = charHeight * (1 + alignmentHeight) - 1;
349  1 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, y, 0, 0,
350    0, false, 0);
351  1 pos = testee.findMousePosition(evt);
352  1 assertEquals(pos.seqIndex, alignmentHeight - 1);
353  1 assertEquals(pos.annotationIndex, -1);
354   
355    /*
356    * cursor below sequences, in 3-pixel gap above annotations
357    * method reports index of nearest sequence above
358    */
359  1 y += 1;
360  1 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, y, 0, 0,
361    0, false, 0);
362  1 pos = testee.findMousePosition(evt);
363  1 assertEquals(pos.seqIndex, alignmentHeight - 1);
364  1 assertEquals(pos.annotationIndex, -1);
365   
366    /*
367    * cursor still in the gap above annotations, now at the bottom of it
368    */
369  1 y += SeqCanvas.SEQS_ANNOTATION_GAP - 1; // 3-1 = 2
370  1 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, y, 0, 0,
371    0, false, 0);
372  1 pos = testee.findMousePosition(evt);
373  1 assertEquals(pos.seqIndex, alignmentHeight - 1);
374  1 assertEquals(pos.annotationIndex, -1);
375   
376  1 AlignmentAnnotation[] annotationRows = av.getAlignment()
377    .getAlignmentAnnotation();
378  5 for (int n = 0; n < annotationRows.length; n++)
379    {
380    /*
381    * cursor at the top of the n'th annotation
382    */
383  4 y += 1;
384  4 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, y, 0,
385    0, 0, false, 0);
386  4 pos = testee.findMousePosition(evt);
387  4 assertEquals(pos.seqIndex, alignmentHeight - 1);
388  4 assertEquals(pos.annotationIndex, n); // over n'th annotation
389   
390    /*
391    * cursor at the bottom of the n'th annotation
392    */
393  4 y += annotationRows[n].height - 1;
394  4 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, y, 0,
395    0, 0, false, 0);
396  4 pos = testee.findMousePosition(evt);
397  4 assertEquals(pos.seqIndex, alignmentHeight - 1);
398  4 assertEquals(pos.annotationIndex, n);
399    }
400   
401    /*
402    * cursor in gap between wrapped widths
403    */
404  1 y += 1;
405  1 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, y, 0, 0,
406    0, false, 0);
407  1 pos = testee.findMousePosition(evt);
408  1 assertEquals(pos.seqIndex, -1);
409  1 assertEquals(pos.annotationIndex, -1);
410   
411    /*
412    * cursor at bottom of gap between wrapped widths
413    */
414  1 y += charHeight - 1;
415  1 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, y, 0, 0,
416    0, false, 0);
417  1 pos = testee.findMousePosition(evt);
418  1 assertEquals(pos.seqIndex, -1);
419  1 assertEquals(pos.annotationIndex, -1);
420   
421    /*
422    * cursor at top of first sequence, second wrapped width
423    */
424  1 y += 1;
425  1 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, y, 0, 0,
426    0, false, 0);
427  1 pos = testee.findMousePosition(evt);
428  1 assertEquals(pos.seqIndex, 0);
429  1 assertEquals(pos.annotationIndex, -1);
430    }
431   
 
432  1 toggle @Test(groups = "Functional")
433    public void testFindMousePosition_wrapped_scaleAbove()
434    {
435  1 Cache.applicationProperties.setProperty("SHOW_ANNOTATIONS", "true");
436  1 Cache.applicationProperties.setProperty("WRAP_ALIGNMENT", "true");
437  1 AlignFrame alignFrame = new FileLoader().LoadFileWaitTillLoaded(
438    "examples/uniref50.fa", DataSourceType.FILE);
439  1 AlignViewportI av = alignFrame.getViewport();
440  1 av.setScaleAboveWrapped(true);
441  1 av.setScaleLeftWrapped(false);
442  1 av.setScaleRightWrapped(false);
443  1 alignFrame.alignPanel.updateLayout();
444   
445  1 final int charHeight = av.getCharHeight();
446  1 final int charWidth = av.getCharWidth();
447  1 final int alignmentHeight = av.getAlignment().getHeight();
448   
449    // sanity checks:
450  1 assertTrue(charHeight > 0);
451  1 assertTrue(charWidth > 0);
452  1 assertTrue(alignFrame.alignPanel.getSeqPanel().getWidth() > 0);
453   
454  1 SeqPanel testee = alignFrame.alignPanel.getSeqPanel();
455  1 int x = 0;
456  1 int y = 0;
457   
458    /*
459    * mouse at top left of wrapped panel; there is a gap of charHeight
460    * above the alignment
461    */
462  1 MouseEvent evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0,
463    x, y, 0, 0, 0, false, 0);
464  1 MousePos pos = testee.findMousePosition(evt);
465  1 assertEquals(pos.column, 0);
466  1 assertEquals(pos.seqIndex, -1); // above sequences
467  1 assertEquals(pos.annotationIndex, -1);
468   
469    /*
470    * cursor at bottom of gap above
471    * two charHeights including scale panel
472    */
473  1 y = 2 * charHeight - 1;
474  1 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, y, 0, 0,
475    0, false, 0);
476  1 pos = testee.findMousePosition(evt);
477  1 assertEquals(pos.seqIndex, -1);
478  1 assertEquals(pos.annotationIndex, -1);
479   
480    /*
481    * cursor over top of first sequence
482    */
483  1 y += 1;
484  1 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, y, 0, 0,
485    0, false, 0);
486  1 pos = testee.findMousePosition(evt);
487  1 assertEquals(pos.seqIndex, 0);
488  1 assertEquals(pos.annotationIndex, -1);
489   
490    /*
491    * cursor at bottom of first sequence
492    */
493  1 y += charHeight - 1;
494  1 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, y, 0, 0,
495    0, false, 0);
496  1 pos = testee.findMousePosition(evt);
497  1 assertEquals(pos.seqIndex, 0);
498  1 assertEquals(pos.annotationIndex, -1);
499   
500    /*
501    * cursor at top of second sequence
502    */
503  1 y += 1;
504  1 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, y, 0, 0,
505    0, false, 0);
506  1 pos = testee.findMousePosition(evt);
507  1 assertEquals(pos.seqIndex, 1);
508  1 assertEquals(pos.annotationIndex, -1);
509   
510    /*
511    * cursor at bottom of second sequence
512    */
513  1 y += charHeight - 1;
514  1 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, y, 0, 0,
515    0, false, 0);
516  1 pos = testee.findMousePosition(evt);
517  1 assertEquals(pos.seqIndex, 1);
518  1 assertEquals(pos.annotationIndex, -1);
519   
520    /*
521    * cursor at bottom of last sequence
522    * (scale + gap + sequences)
523    */
524  1 y = charHeight * (2 + alignmentHeight) - 1;
525  1 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, y, 0, 0,
526    0, false, 0);
527  1 pos = testee.findMousePosition(evt);
528  1 assertEquals(pos.seqIndex, alignmentHeight - 1);
529  1 assertEquals(pos.annotationIndex, -1);
530   
531    /*
532    * cursor below sequences, in 3-pixel gap above annotations
533    */
534  1 y += 1;
535  1 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, y, 0, 0,
536    0, false, 0);
537  1 pos = testee.findMousePosition(evt);
538  1 assertEquals(pos.seqIndex, alignmentHeight - 1);
539  1 assertEquals(pos.annotationIndex, -1);
540   
541    /*
542    * cursor still in the gap above annotations, now at the bottom of it
543    * method reports index of nearest sequence above
544    */
545  1 y += SeqCanvas.SEQS_ANNOTATION_GAP - 1; // 3-1 = 2
546  1 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, y, 0, 0,
547    0, false, 0);
548  1 pos = testee.findMousePosition(evt);
549  1 assertEquals(pos.seqIndex, alignmentHeight - 1);
550  1 assertEquals(pos.annotationIndex, -1);
551   
552  1 AlignmentAnnotation[] annotationRows = av.getAlignment()
553    .getAlignmentAnnotation();
554  5 for (int n = 0; n < annotationRows.length; n++)
555    {
556    /*
557    * cursor at the top of the n'th annotation
558    */
559  4 y += 1;
560  4 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, y, 0,
561    0, 0, false, 0);
562  4 pos = testee.findMousePosition(evt);
563  4 assertEquals(pos.seqIndex, alignmentHeight - 1);
564  4 assertEquals(pos.annotationIndex, n); // over n'th annotation
565   
566    /*
567    * cursor at the bottom of the n'th annotation
568    */
569  4 y += annotationRows[n].height - 1;
570  4 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, y, 0,
571    0, 0, false, 0);
572  4 pos = testee.findMousePosition(evt);
573  4 SeqCanvas sc = testee.seqCanvas;
574  4 assertEquals(pos.seqIndex, alignmentHeight - 1,
575    String.format("%s n=%d y=%d %d, %d, %d, %d",
576    annotationRows[n].label, n, y, sc.getWidth(),
577    sc.getHeight(), sc.wrappedRepeatHeightPx,
578    sc.wrappedSpaceAboveAlignment));
579  4 assertEquals(pos.annotationIndex, n);
580    }
581   
582    /*
583    * cursor in gap between wrapped widths
584    */
585  1 y += 1;
586  1 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, y, 0, 0,
587    0, false, 0);
588  1 pos = testee.findMousePosition(evt);
589  1 assertEquals(pos.seqIndex, -1);
590  1 assertEquals(pos.annotationIndex, -1);
591   
592    /*
593    * cursor at bottom of gap between wrapped widths
594    */
595  1 y += charHeight - 1;
596  1 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, y, 0, 0,
597    0, false, 0);
598  1 pos = testee.findMousePosition(evt);
599  1 assertEquals(pos.seqIndex, -1);
600  1 assertEquals(pos.annotationIndex, -1);
601   
602    /*
603    * cursor at top of scale, second wrapped width
604    */
605  1 y += 1;
606  1 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, y, 0, 0,
607    0, false, 0);
608  1 pos = testee.findMousePosition(evt);
609  1 assertEquals(pos.seqIndex, -1);
610  1 assertEquals(pos.annotationIndex, -1);
611   
612    /*
613    * cursor at bottom of scale, second wrapped width
614    */
615  1 y += charHeight - 1;
616  1 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, y, 0, 0,
617    0, false, 0);
618  1 pos = testee.findMousePosition(evt);
619  1 assertEquals(pos.seqIndex, -1);
620  1 assertEquals(pos.annotationIndex, -1);
621   
622    /*
623    * cursor at top of first sequence, second wrapped width
624    */
625  1 y += 1;
626  1 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, y, 0, 0,
627    0, false, 0);
628  1 pos = testee.findMousePosition(evt);
629  1 assertEquals(pos.seqIndex, 0);
630  1 assertEquals(pos.annotationIndex, -1);
631    }
632   
 
633  1 toggle @Test(groups = "Functional")
634    public void testFindMousePosition_wrapped_noAnnotations()
635    {
636  1 Cache.applicationProperties.setProperty("SHOW_ANNOTATIONS", "false");
637  1 Cache.applicationProperties.setProperty("WRAP_ALIGNMENT", "true");
638  1 Cache.applicationProperties.setProperty("FONT_SIZE", "10");
639  1 AlignFrame alignFrame = new FileLoader().LoadFileWaitTillLoaded(
640    "examples/uniref50.fa", DataSourceType.FILE);
641  1 AlignViewportI av = alignFrame.getViewport();
642  1 av.setScaleAboveWrapped(false);
643  1 av.setScaleLeftWrapped(false);
644  1 av.setScaleRightWrapped(false);
645  1 alignFrame.alignPanel.updateLayout();
646   
647  1 final int charHeight = av.getCharHeight();
648  1 final int charWidth = av.getCharWidth();
649  1 final int alignmentHeight = av.getAlignment().getHeight();
650   
651    // sanity checks:
652  1 assertTrue(charHeight > 0);
653  1 assertTrue(charWidth > 0);
654  1 assertTrue(alignFrame.alignPanel.getSeqPanel().getWidth() > 0);
655   
656  1 SeqPanel testee = alignFrame.alignPanel.getSeqPanel();
657  1 int x = 0;
658  1 int y = 0;
659   
660    /*
661    * mouse at top left of wrapped panel; there is a gap of charHeight
662    * above the alignment
663    */
664  1 MouseEvent evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0,
665    x, y, 0, 0, 0, false, 0);
666  1 MousePos pos = testee.findMousePosition(evt);
667  1 assertEquals(pos.column, 0);
668  1 assertEquals(pos.seqIndex, -1); // above sequences
669  1 assertEquals(pos.annotationIndex, -1);
670   
671    /*
672    * cursor over top of first sequence
673    */
674  1 y = charHeight;
675  1 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, y, 0, 0,
676    0, false, 0);
677  1 pos = testee.findMousePosition(evt);
678  1 assertEquals(pos.seqIndex, 0);
679  1 assertEquals(pos.annotationIndex, -1);
680   
681    /*
682    * cursor at bottom of last sequence
683    */
684  1 y = charHeight * (1 + alignmentHeight) - 1;
685  1 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, y, 0, 0,
686    0, false, 0);
687  1 pos = testee.findMousePosition(evt);
688  1 assertEquals(pos.seqIndex, alignmentHeight - 1);
689  1 assertEquals(pos.annotationIndex, -1);
690   
691    /*
692    * cursor below sequences, at top of charHeight gap between widths
693    */
694  1 y += 1;
695  1 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, y, 0, 0,
696    0, false, 0);
697  1 pos = testee.findMousePosition(evt);
698  1 assertEquals(pos.seqIndex, -1);
699  1 assertEquals(pos.annotationIndex, -1);
700   
701    /*
702    * cursor below sequences, at top of charHeight gap between widths
703    */
704  1 y += charHeight - 1;
705  1 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, y, 0, 0,
706    0, false, 0);
707  1 pos = testee.findMousePosition(evt);
708  1 assertEquals(pos.seqIndex, -1);
709  1 assertEquals(pos.annotationIndex, -1);
710   
711    /*
712    * cursor at the top of the first sequence, second width
713    */
714  1 y += 1;
715  1 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, y, 0, 0,
716    0, false, 0);
717  1 pos = testee.findMousePosition(evt);
718  1 assertEquals(pos.seqIndex, 0);
719  1 assertEquals(pos.annotationIndex, -1);
720    }
721   
 
722  1 toggle @Test(groups = "Functional")
723    public void testFindColumn_unwrapped()
724    {
725  1 Cache.applicationProperties.setProperty("WRAP_ALIGNMENT", "false");
726  1 AlignFrame alignFrame = new FileLoader().LoadFileWaitTillLoaded(
727    "examples/uniref50.fa", DataSourceType.FILE);
728  1 SeqPanel testee = alignFrame.alignPanel.getSeqPanel();
729  1 int x = 0;
730  1 final int charWidth = alignFrame.getViewport().getCharWidth();
731  1 assertTrue(charWidth > 0); // sanity check
732  1 ViewportRanges ranges = alignFrame.getViewport().getRanges();
733  1 assertEquals(ranges.getStartRes(), 0);
734   
735    /*
736    * mouse at top left of unwrapped panel
737    */
738  1 MouseEvent evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0,
739    x, 0, 0, 0, 0, false, 0);
740  1 assertEquals(testee.findColumn(evt), 0);
741   
742    /*
743    * not quite one charWidth across
744    */
745  1 x = charWidth - 1;
746  1 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, 0, 0, 0,
747    0, false, 0);
748  1 assertEquals(testee.findColumn(evt), 0);
749   
750    /*
751    * one charWidth across
752    */
753  1 x = charWidth;
754  1 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, 0, 0, 0,
755    0, false, 0);
756  1 assertEquals(testee.findColumn(evt), 1);
757   
758    /*
759    * two charWidths across
760    */
761  1 x = 2 * charWidth;
762  1 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, 0, 0, 0,
763    0, false, 0);
764  1 assertEquals(testee.findColumn(evt), 2);
765   
766    /*
767    * limited to last column of seqcanvas
768    */
769  1 x = 20000;
770  1 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, 0, 0, 0,
771    0, false, 0);
772  1 SeqCanvas seqCanvas = alignFrame.alignPanel.getSeqPanel().seqCanvas;
773  1 int w = seqCanvas.getWidth();
774    // limited to number of whole columns, base 0,
775    // and to end of visible range
776  1 int expected = w / charWidth;
777  1 expected = Math.min(expected, ranges.getEndRes());
778  1 assertEquals(testee.findColumn(evt), expected);
779   
780    /*
781    * hide columns 5-10 (base 1)
782    */
783  1 alignFrame.getViewport().hideColumns(4, 9);
784  1 x = 5 * charWidth + 2;
785    // x is in 6th visible column, absolute column 12, or 11 base 0
786  1 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, 0, 0, 0,
787    0, false, 0);
788  1 assertEquals(testee.findColumn(evt), 11);
789    }
790   
 
791  1 toggle @Test(groups = "Functional")
792    public void testFindColumn_and_FindAlignmentColumn_wrapped()
793    {
794  1 Cache.applicationProperties.setProperty("WRAP_ALIGNMENT", "true");
795  1 AlignFrame alignFrame = new FileLoader().LoadFileWaitTillLoaded(
796    "examples/uniref50.fa", DataSourceType.FILE);
797  1 AlignViewport av = alignFrame.getViewport();
798  1 av.setScaleAboveWrapped(false);
799  1 av.setScaleLeftWrapped(false);
800  1 av.setScaleRightWrapped(false);
801  1 alignFrame.alignPanel.updateLayout();
802  1 SeqPanel testee = alignFrame.alignPanel.getSeqPanel();
803  1 int x = 0;
804  1 final int charWidth = av.getCharWidth();
805  1 assertTrue(charWidth > 0); // sanity check
806  1 assertEquals(av.getRanges().getStartRes(), 0);
807   
808    /*
809    * mouse at top left of wrapped panel, no West (left) scale
810    */
811  1 MouseEvent evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0,
812    x, 0, 0, 0, 0, false, 0);
813  1 assertEquals(testee.findColumn(evt), 0);
814  1 assertEquals(testee.findAlignmentColumn(evt), 0);
815   
816    /*
817    * not quite one charWidth across
818    */
819  1 x = charWidth - 1;
820  1 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, 0, 0, 0,
821    0, false, 0);
822  1 assertEquals(testee.findColumn(evt), 0);
823  1 assertEquals(testee.findAlignmentColumn(evt), 0);
824   
825    /*
826    * one charWidth across
827    */
828  1 x = charWidth;
829  1 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, 0, 0, 0,
830    0, false, 0);
831  1 assertEquals(testee.findColumn(evt), 1);
832  1 assertEquals(testee.findAlignmentColumn(evt), 1);
833   
834    /*
835    * x over scale left (before drawn columns) results in -1
836    */
837  1 av.setScaleLeftWrapped(true);
838  1 alignFrame.alignPanel.updateLayout();
839  1 SeqCanvas seqCanvas = testee.seqCanvas;
840  1 int labelWidth = (int) PA.getValue(seqCanvas, "labelWidthWest");
841  1 assertTrue(labelWidth > 0);
842  1 x = labelWidth - 1;
843  1 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, 0, 0, 0,
844    0, false, 0);
845  1 assertEquals(testee.findColumn(evt), -1);
846  1 assertEquals(testee.findAlignmentColumn(evt), 0);
847   
848  1 x = labelWidth;
849  1 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, 0, 0, 0,
850    0, false, 0);
851  1 assertEquals(testee.findColumn(evt), 0);
852  1 assertEquals(testee.findAlignmentColumn(evt), 0);
853   
854    /*
855    * x over right edge of last residue (including scale left)
856    */
857  1 int residuesWide = av.getRanges().getViewportWidth();
858  1 assertTrue(residuesWide > 0);
859  1 x = labelWidth + charWidth * residuesWide - 1;
860  1 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, 0, 0, 0,
861    0, false, 0);
862  1 assertEquals(testee.findColumn(evt), residuesWide - 1);
863  1 assertEquals(testee.findAlignmentColumn(evt), residuesWide - 1);
864   
865    /*
866    * x over scale right (beyond drawn columns) results in -1
867    */
868  1 av.setScaleRightWrapped(true);
869  1 alignFrame.alignPanel.updateLayout();
870  1 labelWidth = (int) PA.getValue(seqCanvas, "labelWidthEast");
871  1 assertTrue(labelWidth > 0);
872  1 int residuesWide2 = av.getRanges().getViewportWidth();
873  1 assertTrue(residuesWide2 > 0);
874  1 assertTrue(residuesWide2 < residuesWide); // available width reduced
875  1 x += 1; // just over left edge of scale right
876  1 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, 0, 0, 0,
877    0, false, 0);
878    // on scale
879  1 assertEquals(testee.findColumn(evt), -1);
880    // return right-most column visible
881  1 assertEquals(testee.findAlignmentColumn(evt), residuesWide2 - 1);
882   
883    // todo add startRes offset, hidden columns
884   
885    }
886   
 
887  1 toggle @BeforeClass(alwaysRun = true)
888    public static void setUpBeforeClass() throws Exception
889    {
890    /*
891    * use read-only test properties file
892    */
893  1 Cache.loadProperties("test/jalview/io/testProps.jvprops");
894  1 Jalview.main(new String[] { "--nonews" });
895    }
896   
897    /**
898    * waits for Swing event dispatch queue to empty
899    */
 
900  0 toggle synchronized void waitForSwing()
901    {
902  0 try
903    {
904  0 EventQueue.invokeAndWait(new Runnable()
905    {
 
906  0 toggle @Override
907    public void run()
908    {
909    }
910    });
911    } catch (InterruptedException | InvocationTargetException e)
912    {
913  0 e.printStackTrace();
914    }
915    }
916   
 
917  1 toggle @Test(groups = "Functional")
918    public void testFindMousePosition_wrapped_scales_longSequence()
919    {
920  1 Cache.applicationProperties.setProperty("SHOW_ANNOTATIONS", "false");
921  1 Cache.applicationProperties.setProperty("WRAP_ALIGNMENT", "true");
922  1 Cache.applicationProperties.setProperty("FONT_SIZE", "14");
923  1 Cache.applicationProperties.setProperty("FONT_NAME", "SansSerif");
924  1 Cache.applicationProperties.setProperty("FONT_STYLE", "0");
925    // sequence of 50 bases, doubled 10 times, = 51200 bases
926  1 String dna = "ATGGCCATTGGGCCCAAATTTCCCAAAGGGTTTCCCTGAGGTCAGTCAGA";
927  11 for (int i = 0; i < 10; i++)
928    {
929  10 dna += dna;
930    }
931  1 assertEquals(dna.length(), 51200);
932  1 AlignFrame alignFrame = new FileLoader()
933    .LoadFileWaitTillLoaded("dna " + dna, DataSourceType.PASTE);
934  1 SeqPanel testee = alignFrame.alignPanel.getSeqPanel();
935  1 AlignViewport av = alignFrame.getViewport();
936  1 av.setScaleAboveWrapped(true);
937  1 av.setScaleLeftWrapped(true);
938  1 av.setScaleRightWrapped(true);
939  1 alignFrame.alignPanel.updateLayout();
940   
941  1 try
942    {
943  1 Thread.sleep(200);
944    } catch (InterruptedException e)
945    {
946    }
947   
948  1 final int charHeight = av.getCharHeight();
949  1 final int charWidth = av.getCharWidth();
950  1 assertEquals(charHeight, 17);
951  1 assertEquals(charWidth, 12);
952   
953  1 double scaling = JvSwingUtilsTest.getScaling(alignFrame.alignPanel);
954   
955  1 FontMetrics fm = testee.getFontMetrics(av.getFont());
956  1 int labelWidth = fm.stringWidth("00000") + charWidth;
957    // some leeway for different OS rendering of text
958  1 assertTrue(labelWidth >= 52 && labelWidth <= 57);
959  1 assertEquals(testee.seqCanvas.getLabelWidthWest(), labelWidth);
960   
961  1 int x = 0;
962  1 int y = 0;
963   
964    /*
965    * mouse at top left of wrapped panel; there is a gap of 2 * charHeight
966    * above the alignment
967    */
968  1 MouseEvent evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0,
969    x, y, 0, 0, 0, false, 0);
970  1 MousePos pos = testee.findMousePosition(evt);
971  1 assertEquals(pos.column, -1); // over scale left, not an alignment column
972  1 assertEquals(pos.seqIndex, -1); // above sequences
973  1 assertEquals(pos.annotationIndex, -1);
974   
975    /*
976    * cursor over scale above first sequence
977    */
978  1 y += charHeight;
979  1 x = labelWidth;
980  1 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, y, 0, 0,
981    0, false, 0);
982  1 pos = testee.findMousePosition(evt);
983  1 assertEquals(pos.seqIndex, -1);
984  1 assertEquals(pos.column, 0);
985  1 assertEquals(pos.annotationIndex, -1);
986   
987    /*
988    * cursor over scale left of first sequence
989    */
990  1 y += charHeight;
991  1 x = 0;
992  1 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, y, 0, 0,
993    0, false, 0);
994  1 pos = testee.findMousePosition(evt);
995  1 assertEquals(pos.seqIndex, 0);
996  1 assertEquals(pos.column, -1);
997  1 assertEquals(pos.annotationIndex, -1);
998   
999    /*
1000    * cursor over start of first sequence
1001    */
1002  1 x = labelWidth;
1003  1 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, y, 0, 0,
1004    0, false, 0);
1005  1 pos = testee.findMousePosition(evt);
1006  1 assertEquals(pos.seqIndex, 0);
1007  1 assertEquals(pos.column, 0);
1008  1 assertEquals(pos.annotationIndex, -1);
1009   
1010    /*
1011    * move one character right, to bottom pixel of same row
1012    */
1013  1 x += charWidth;
1014  1 y += charHeight - 1;
1015  1 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, y, 0, 0,
1016    0, false, 0);
1017  1 pos = testee.findMousePosition(evt);
1018  1 assertEquals(pos.seqIndex, 0);
1019  1 assertEquals(pos.column, 1);
1020   
1021    /*
1022    * move down one pixel - now in the no man's land between rows
1023    */
1024  1 y += 1;
1025  1 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, y, 0, 0,
1026    0, false, 0);
1027  1 pos = testee.findMousePosition(evt);
1028  1 assertEquals(pos.seqIndex, -1);
1029  1 assertEquals(pos.column, 1);
1030   
1031    /*
1032    * move down two char heights less one pixel - still in the no man's land
1033    * (scale above + spacer line)
1034    */
1035  1 y += (2 * charHeight - 1);
1036  1 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, y, 0, 0,
1037    0, false, 0);
1038  1 pos = testee.findMousePosition(evt);
1039  1 assertEquals(pos.seqIndex, -1);
1040  1 assertEquals(pos.column, 1);
1041   
1042    /*
1043    * move down one more pixel - now on the next row of the sequence
1044    */
1045  1 y += 1;
1046  1 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, y, 0, 0,
1047    0, false, 0);
1048  1 pos = testee.findMousePosition(evt);
1049  1 assertEquals(pos.seqIndex, 0);
1050  1 assertEquals(pos.column, 1 + av.getWrappedWidth());
1051   
1052    /*
1053    * scroll to near the end of the sequence
1054    */
1055  1 SearchResultsI sr = new SearchResults();
1056  1 int scrollTo = dna.length() - 1000;
1057  1 sr.addResult(av.getAlignment().getSequenceAt(0), scrollTo, scrollTo);
1058  1 alignFrame.alignPanel.scrollToPosition(sr);
1059   
1060    /*
1061    * place the mouse on the first column of the 6th sequence, and
1062    * verify that (computed) findMousePosition matches (actual) ViewportRanges
1063    */
1064  1 x = labelWidth;
1065  1 y = 17 * charHeight; // 17 = 6 times two header rows and 5 sequence rows
1066  1 evt = new MouseEvent(testee, MouseEvent.MOUSE_MOVED, 0L, 0, x, y, 0, 0,
1067    0, false, 0);
1068  1 pos = testee.findMousePosition(evt);
1069  1 assertEquals(pos.seqIndex, 0);
1070  1 int expected = av.getRanges().getStartRes() + 5 * av.getWrappedWidth();
1071  1 assertEquals(pos.column, expected);
1072    }
1073    }
  • Report generated by OpenClover v 4.4.1 on Wed Nov 12 2025 13:12:42 GMT using coverage data from Wed Nov 12 2025 13:12:28 GMT.
  • OpenClover is free and open-source software.