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Opened 3 years ago
Closed 3 years ago
#7644 closed defect (can't reproduce)
Crash drawing side view
| Reported by: | Owned by: | Greg Couch | |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Graphics | Version: | |
| Keywords: | Cc: | Tom Goddard | |
| Blocked By: | Blocking: | ||
| Notify when closed: | Platform: | all | |
| Project: | ChimeraX |
Description
The following bug report has been submitted:
Platform: Windows-10-10.0.19044
ChimeraX Version: 1.3 (2021-12-08 23:08:33 UTC)
Description
Last time you used ChimeraX it crashed.
Please describe steps that led to the crash here.
Windows fatal exception: access violation
Current thread 0x00005b14 (most recent call first):
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-packages\chimerax\graphics\opengl.py", line 235 in swap_buffers
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-packages\chimerax\graphics\opengl.py", line 496 in swap_buffers
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-packages\chimerax\graphics\view.py", line 179 in draw
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-packages\chimerax\sideview\tool.py", line 276 in render
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-packages\chimerax\sideview\tool.py", line 112 in _redraw
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-packages\chimerax\core\triggerset.py", line 134 in invoke
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-packages\chimerax\core\triggerset.py", line 217 in _activate
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-packages\chimerax\core\triggerset.py", line 186 in activate
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-packages\chimerax\core\triggerset.py", line 354 in activate_trigger
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-packages\chimerax\core\updateloop.py", line 89 in draw_new_frame
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-packages\chimerax\core\updateloop.py", line 139 in _redraw_timer_callback
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-packages\chimerax\ui\gui.py", line 301 in event_loop
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-packages\ChimeraX_main.py", line 867 in init
File "C:\Program Files\ChimeraX 1.3\bin\lib\site-packages\ChimeraX_main.py", line 1018 in
File "C:\Program Files\ChimeraX 1.3\bin\lib\runpy.py", line 87 in _run_code
File "C:\Program Files\ChimeraX 1.3\bin\lib\runpy.py", line 197 in _run_module_as_main
===== Log before crash start =====
UCSF ChimeraX version: 1.3 (2021-12-08)
© 2016-2021 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open C:\Users\gunna\Downloads\motivelist_NAPs.em format motl
Summary of feedback from opening C:\Users\gunna\Downloads\motivelist_NAPs.em
---
note | Preset expands to these ChimeraX commands:
set bgColor black
lighting depthCue false
camera ortho
Opened Particle list motivelist_NAPs.em with 651 particles.
> ui mousemode right select
Drag select of axes, 651 atoms
> artiax fit sphere
Created sphere with center: (422.72, 301.89, 91.13) and radius: 228.66.
> hide #!1.3.1 models
> artiax fit line
Created a Curved line through 651 particles.
Select exactly one particle as a starting point.
> hide #!1.3.2 models
> artiax fit surface
Created a Surface through 651 particles with normal (-0.15, 0.10, 0.98).
> artiax info #1.2.1
Particle List #1.2.1 - motivelist_NAPs.em
containing 651 particles
of data type: ArtiatomiParticleData
Displayed particle coordinates scaled by factor: 1
Displayed particle offsets scaled by factor: 1
Particles have 20 unique attributes:
1. class_number
* Aliases: row_20
* Is position parameter:
* min: 1.00 | max 1.00 | mean 1.00 | std 0.00 | var 0.00
2. cross_correlation
* Aliases: xcorr, row_1
* Is position parameter:
* min: 0.12 | max 0.33 | mean 0.21 | std 0.04 | var 0.00
3. legacy_num
* Aliases: row_4
* Is position parameter:
* min: 1.00 | max 772.00 | mean 375.64 | std 220.86 | var 48778.54
4. legacy_shift_x
* Aliases: row_14
* Is position parameter:
* min: -6.44 | max 6.76 | mean -0.61 | std 2.67 | var 7.14
5. legacy_shift_y
* Aliases: row_15
* Is position parameter:
* min: -6.52 | max 6.43 | mean -0.74 | std 2.76 | var 7.63
6. legacy_shift_z
* Aliases: row_16
* Is position parameter:
* min: -6.65 | max 6.95 | mean 0.32 | std 2.97 | var 8.82
7. legacy_x
* Aliases: row_2
* Is position parameter:
* min: 140.00 | max 721.00 | mean 434.44 | std 187.79 | var 35264.70
8. legacy_y
* Aliases: row_3
* Is position parameter:
* min: 71.00 | max 518.00 | mean 322.38 | std 121.65 | var 14797.68
9. part_number
* Aliases: row_6
* Is position parameter:
* min: 1.00 | max 772.00 | mean 375.64 | std 220.86 | var 48778.54
10. phi
* Aliases: row_17
* Is position parameter: ang_1
* min: -125.84 | max 136.21 | mean -6.00 | std 91.46 | var 8364.40
11. position_x
* Aliases: row_8
* Is position parameter: pos_x
* min: 139.00 | max 720.00 | mean 433.90 | std 187.77 | var 35256.21
12. position_y
* Aliases: row_9
* Is position parameter: pos_y
* min: 70.00 | max 516.00 | mean 320.83 | std 121.61 | var 14789.00
13. position_z
* Aliases: row_10
* Is position parameter: pos_z
* min: 25.00 | max 152.00 | mean 86.57 | std 41.64 | var 1734.24
14. psi
* Aliases: row_18
* Is position parameter: ang_3
* min: -171.84 | max 167.00 | mean 24.77 | std 98.64 | var 9730.78
15. shift_x
* Aliases: row_11
* Is position parameter: shift_x
* min: 0.00 | max 0.00 | mean 0.00 | std 0.00 | var 0.00
16. shift_y
* Aliases: row_12
* Is position parameter: shift_y
* min: 0.00 | max 0.00 | mean 0.00 | std 0.00 | var 0.00
17. shift_z
* Aliases: row_13
* Is position parameter: shift_z
* min: 0.00 | max 0.00 | mean 0.00 | std 0.00 | var 0.00
18. the
* Aliases: row_19
* Is position parameter: ang_2
* min: 44.97 | max 139.42 | mean 91.35 | std 15.12 | var 228.48
19. tomo_number
* Aliases: row_5
* Is position parameter:
* min: 1.00 | max 772.00 | mean 375.64 | std 220.86 | var 48778.54
20. wedge_number
* Aliases: row_7
* Is position parameter:
* min: 0.00 | max 0.00 | mean 0.00 | std 0.00 | var 0.00
> hide #!1.3.3 models
> artiax boundary
Created a boundary with 651 vertices.
> ui mousemode right "mark point"
> marker #1.2.1.3 position 364.4,315.2,225.1 color #f0a3ff radius 4
> marker #1.2.1.3 position 604,176.1,131.4 color #f0a3ff radius 4
> ui mousemode right select
Drag select of axes, 601 of 653 instances, boundary, 778 of 840 triangles, 607
atoms
> select clear
> artiax select inside surface
dist to end: 122.0
dist to tri: -0.0
old start [383. 366. 31.]
new start: [383.0, 366.0, 31.001]
dist to end: 121.999
dist to tri: 0.9209213852882385
old start [383.0, 366.0, 31.001]
new start: [383.0, 366.0, 143.3534880837798]
pos: [383. 366. 31.]:
intersepts: 2
dist to end: 122.0
dist to tri: 0.0
old start [386. 338. 31.]
new start: [386.0, 338.0, 31.001]
dist to end: 121.999
dist to tri: 0.9386373162269592
old start [386.0, 338.0, 31.001]
new start: [386.0, 338.0, 145.5148139423728]
pos: [386. 338. 31.]:
intersepts: 2
dist to end: 122.0
dist to tri: -0.0
old start [353. 324. 31.]
new start: [353.0, 324.0, 31.001]
dist to end: 121.999
dist to tri: 0.9362462162971497
old start [353.0, 324.0, 31.001]
new start: [353.0, 324.0, 145.22310214203597]
pos: [353. 324. 31.]:
intersepts: 2
dist to end: 124.0
dist to tri: 0.0
old start [325. 363. 29.]
new start: [325.0, 363.0, 29.001]
dist to end: 123.999
dist to tri: 0.9053547978401184
old start [325.0, 363.0, 29.001]
new start: [325.0, 363.0, 141.26508957737684]
pos: [325. 363. 29.]:
intersepts: 2
dist to end: 126.0
dist to tri: 0.0
old start [222. 397. 27.]
new start: [222.0, 397.0, 27.001]
dist to end: 125.999
dist to tri: 0.7437604069709778
old start [222.0, 397.0, 27.001]
new start: [222.0, 397.0, 120.71506751793623]
pos: [222. 397. 27.]:
intersepts: 2
dist to end: 126.0
dist to tri: -0.0
old start [314. 430. 27.]
new start: [314.0, 430.0, 27.001]
dist to end: 125.999
dist to tri: 0.8188270926475525
old start [314.0, 430.0, 27.001]
new start: [314.0, 430.0, 130.17339484649895]
pos: [314. 430. 27.]:
intersepts: 2
dist to end: 125.0
dist to tri: 0.0
old start [333. 472. 28.]
new start: [333.0, 472.0, 28.001]
dist to end: 124.999
dist to tri: 0.4095388650894165
old start [333.0, 472.0, 28.001]
new start: [333.0, 472.0, 79.19394859731197]
pos: [333. 472. 28.]:
intersepts: 2
dist to end: 127.0
dist to tri: -0.0
old start [251. 429. 26.]
new start: [251.0, 429.0, 26.001]
dist to end: 126.999
dist to tri: 0.7156980037689209
old start [251.0, 429.0, 26.001]
new start: [251.0, 429.0, 116.89493078064919]
pos: [251. 429. 26.]:
intersepts: 2
dist to end: 126.0
dist to tri: 0.0
old start [268. 431. 27.]
new start: [268.0, 431.0, 27.001]
dist to end: 125.999
dist to tri: 0.7491564750671387
old start [268.0, 431.0, 27.001]
new start: [268.0, 431.0, 121.39496670198442]
pos: [268. 431. 27.]:
intersepts: 2
dist to end: 128.0
dist to tri: 0.0
old start [257. 411. 25.]
new start: [257.0, 411.0, 25.001]
dist to end: 127.999
dist to tri: 0.8002636432647705
old start [257.0, 411.0, 25.001]
new start: [257.0, 411.0, 127.43494607424736]
pos: [257. 411. 25.]:
intersepts: 2
dist to end: 125.0
dist to tri: 0.0
old start [287. 432. 28.]
new start: [287.0, 432.0, 28.001]
dist to end: 124.999
dist to tri: 0.7741103172302246
old start [287.0, 432.0, 28.001]
new start: [287.0, 432.0, 124.76501554346085]
pos: [287. 432. 28.]:
intersepts: 2
dist to end: 124.0
dist to tri: 0.3059496283531189
old start [310. 477. 29.]
new start: [310.0, 477.0, 66.93875391578675]
pos: [310. 477. 29.]:
intersepts: 1
dist to end: 126.0
dist to tri: -0.0
old start [296. 451. 27.]
new start: [296.0, 451.0, 27.001]
dist to end: 125.999
dist to tri: 0.5830560326576233
old start [296.0, 451.0, 27.001]
new start: [296.0, 451.0, 100.46647705882788]
pos: [296. 451. 27.]:
intersepts: 2
dist to end: 126.0
dist to tri: 0.0
old start [241. 406. 27.]
new start: [241.0, 406.0, 27.001]
dist to end: 125.999
dist to tri: 0.7675991058349609
old start [241.0, 406.0, 27.001]
new start: [241.0, 406.0, 123.71871973609925]
pos: [241. 406. 27.]:
intersepts: 2
dist to end: 123.0
dist to tri: 0.9238826632499695
old start [337. 337. 30.]
new start: [337.0, 337.0, 143.63856757974625]
pos: [337. 337. 30.]:
intersepts: 1
dist to end: 124.0
dist to tri: -0.0
old start [329. 330. 29.]
new start: [329.0, 330.0, 29.001]
dist to end: 123.999
dist to tri: 0.9260464310646057
old start [329.0, 330.0, 29.001]
new start: [329.0, 330.0, 143.83083140558003]
pos: [329. 330. 29.]:
intersepts: 2
dist to end: 122.0
dist to tri: -0.0
old start [371. 353. 31.]
new start: [371.0, 353.0, 31.001]
dist to end: 121.999
dist to tri: 0.9247797727584839
old start [371.0, 353.0, 31.001]
new start: [371.0, 353.0, 143.82420749676228]
pos: [371. 353. 31.]:
intersepts: 2
dist to end: 122.0
dist to tri: -0.0
old start [378. 345. 31.]
new start: [378.0, 345.0, 31.001]
dist to end: 121.999
dist to tri: 0.9318444132804871
old start [378.0, 345.0, 31.001]
new start: [378.0, 345.0, 144.68608657580614]
pos: [378. 345. 31.]:
intersepts: 2
dist to end: 121.0
dist to tri: 0.937254011631012
old start [376. 334. 32.]
new start: [376.0, 334.0, 145.40873540735245]
pos: [376. 334. 32.]:
intersepts: 1
dist to end: 122.0
dist to tri: -0.0
old start [368. 326. 31.]
new start: [368.0, 326.0, 31.001]
dist to end: 121.999
dist to tri: 0.9399415254592896
old start [368.0, 326.0, 31.001]
new start: [368.0, 326.0, 145.67392616450786]
pos: [368. 326. 31.]:
intersepts: 2
dist to end: 122.0
dist to tri: 0.0
old start [396. 368. 31.]
new start: [396.0, 368.0, 31.001]
dist to end: 121.999
dist to tri: 0.9239646196365356
old start [396.0, 368.0, 31.001]
new start: [396.0, 368.0, 143.7247596310377]
pos: [396. 368. 31.]:
intersepts: 2
dist to end: 122.0
dist to tri: 0.9209763407707214
old start [352. 349. 31.]
new start: [352.0, 349.0, 143.36011357402802]
pos: [352. 349. 31.]:
intersepts: 1
dist to end: 123.0
dist to tri: 0.0
old start [360. 356. 30.]
new start: [360.0, 356.0, 30.001]
dist to end: 122.999
dist to tri: 0.9200550317764282
old start [360.0, 356.0, 30.001]
new start: [360.0, 356.0, 143.16784885346888]
pos: [360. 356. 30.]:
intersepts: 2
dist to end: 123.0
dist to tri: 0.0
old start [340. 359. 30.]
new start: [340.0, 359.0, 30.001]
dist to end: 122.999
dist to tri: 0.9118081331253052
old start [340.0, 359.0, 30.001]
new start: [340.0, 359.0, 142.1534885662794]
pos: [340. 359. 30.]:
intersepts: 2
dist to end: 124.0
dist to tri: 0.0
old start [331. 354. 29.]
new start: [331.0, 354.0, 29.001]
dist to end: 123.999
dist to tri: 0.9125728011131287
old start [331.0, 354.0, 29.001]
new start: [331.0, 354.0, 142.16011476522684]
pos: [331. 354. 29.]:
intersepts: 2
dist to end: 124.0
dist to tri: -0.0
old start [339. 349. 29.]
new start: [339.0, 349.0, 29.001]
dist to end: 123.999
dist to tri: 0.9180799126625061
old start [339.0, 349.0, 29.001]
new start: [339.0, 349.0, 142.8429910902381]
pos: [339. 349. 29.]:
intersepts: 2
dist to end: 122.0
dist to tri: 0.9368988275527954
old start [322. 306. 31.]
new start: [322.0, 306.0, 145.30265696144104]
pos: [322. 306. 31.]:
intersepts: 1
dist to end: 124.0
dist to tri: -0.0
old start [324. 295. 29.]
new start: [324.0, 295.0, 29.001]
dist to end: 123.999
dist to tri: 0.9450271725654602
old start [324.0, 295.0, 29.001]
new start: [324.0, 295.0, 146.1844243709445]
pos: [324. 295. 29.]:
intersepts: 2
dist to end: 121.0
dist to tri: -0.0
old start [334. 295. 32.]
new start: [334.0, 295.0, 32.001]
dist to end: 120.999
dist to tri: 0.9469517469406128
old start [334.0, 295.0, 32.001]
new start: [334.0, 295.0, 146.5822144280672]
pos: [334. 295. 32.]:
intersepts: 2
dist to end: 122.0
dist to tri: 0.9506577849388123
old start [305. 271. 31.]
new start: [305.0, 271.0, 146.9812497625351]
pos: [305. 271. 31.]:
intersepts: 1
dist to end: 122.0
dist to tri: -0.0
old start [314. 261. 31.]
new start: [314.0, 261.0, 31.001]
dist to end: 121.999
dist to tri: 0.9568232893943787
old start [314.0, 261.0, 31.001]
new start: [314.0, 261.0, 147.7334844828248]
pos: [314. 261. 31.]:
intersepts: 2
dist to end: 120.0
dist to tri: 0.953450083732605
old start [306. 255. 33.]
new start: [306.0, 255.0, 147.4150100479126]
pos: [306. 255. 33.]:
intersepts: 1
dist to end: 123.0
dist to tri: 0.0
old start [299. 277. 30.]
new start: [299.0, 277.0, 30.001]
dist to end: 122.999
dist to tri: 0.9448662400245667
old start [299.0, 277.0, 30.001]
new start: [299.0, 277.0, 146.21960265678166]
pos: [299. 277. 30.]:
intersepts: 2
dist to end: 124.0
dist to tri: -0.0
old start [313. 289. 29.]
new start: [313.0, 289.0, 29.001]
dist to end: 123.999
dist to tri: 0.9437318444252014
old start [313.0, 289.0, 29.001]
new start: [313.0, 289.0, 146.02380497688054]
pos: [313. 289. 29.]:
intersepts: 2
dist to end: 123.0
dist to tri: 0.939123809337616
old start [303. 289. 30.]
new start: [303.0, 289.0, 145.51322854852677]
pos: [303. 289. 30.]:
intersepts: 1
dist to end: 124.0
dist to tri: 0.0
old start [301. 302. 29.]
new start: [301.0, 302.0, 29.001]
dist to end: 123.999
dist to tri: 0.9308351278305054
old start [301.0, 302.0, 29.001]
new start: [301.0, 302.0, 144.42462501585484]
pos: [301. 302. 29.]:
intersepts: 2
dist to end: 123.0
dist to tri: 0.9301866292953491
old start [310. 309. 30.]
new start: [310.0, 309.0, 144.41395540332795]
pos: [310. 309. 30.]:
intersepts: 1
dist to end: 123.0
dist to tri: 0.9212701916694641
old start [308. 323. 30.]
new start: [308.0, 323.0, 143.3172335753441]
pos: [308. 323. 30.]:
intersepts: 1
dist to end: 123.0
dist to tri: 0.9280330538749695
old start [315. 318. 30.]
new start: [315.0, 318.0, 144.14906562662125]
pos: [315. 318. 30.]:
intersepts: 1
dist to end: 125.0
dist to tri: -0.0
old start [314. 336. 28.]
new start: [314.0, 336.0, 28.001]
dist to end: 124.999
dist to tri: 0.9183639883995056
old start [314.0, 336.0, 28.001]
new start: [314.0, 336.0, 142.7965801859498]
pos: [314. 336. 28.]:
intersepts: 2
dist to end: 123.0
dist to tri: -0.0
old start [332. 310. 30.]
new start: [332.0, 310.0, 30.001]
dist to end: 122.999
dist to tri: 0.9382737874984741
old start [332.0, 310.0, 30.001]
new start: [332.0, 310.0, 145.40873758852482]
pos: [332. 310. 30.]:
intersepts: 2
dist to end: 121.0
dist to tri: 0.9311172962188721
old start [339. 324. 32.]
new start: [339.0, 324.0, 144.66619284248353]
pos: [339. 324. 32.]:
intersepts: 1
dist to end: 123.0
dist to tri: 0.9147734045982361
old start [318. 342. 30.]
new start: [318.0, 342.0, 142.51812876558304]
pos: [318. 342. 30.]:
intersepts: 1
dist to end: 121.0
dist to tri: 0.9292543530464172
old start [348. 332. 32.]
new start: [348.0, 332.0, 144.4407767186165]
pos: [348. 332. 32.]:
intersepts: 1
dist to end: 121.0
dist to tri: 0.9236108064651489
old start [351. 343. 32.]
new start: [351.0, 343.0, 143.75790758228302]
pos: [351. 343. 32.]:
intersepts: 1
dist to end: 122.0
dist to tri: 0.9500818848609924
old start [317. 280. 31.]
new start: [317.0, 280.0, 146.91098995304108]
pos: [317. 280. 31.]:
intersepts: 1
dist to end: 124.0
dist to tri: 0.716045081615448
old start [213. 396. 29.]
new start: [213.0, 396.0, 117.79059012031556]
pos: [213. 396. 29.]:
intersepts: 1
dist to end: 123.0
dist to tri: -0.0
old start [198. 391. 30.]
new start: [198.0, 391.0, 30.001]
dist to end: 122.999
dist to tri: 0.6865782141685486
old start [198.0, 391.0, 30.001]
new start: [198.0, 391.0, 114.45043376451731]
pos: [198. 391. 30.]:
intersepts: 2
dist to end: 124.0
dist to tri: -0.0
old start [191. 380. 29.]
new start: [191.0, 380.0, 29.001]
dist to end: 123.999
dist to tri: 0.7086999416351318
old start [191.0, 380.0, 29.001]
new start: [191.0, 380.0, 116.88008406281472]
pos: [191. 380. 29.]:
intersepts: 2
dist to end: 124.0
dist to tri: -0.0
old start [186. 370. 29.]
new start: [186.0, 370.0, 29.001]
dist to end: 123.999
dist to tri: 0.7228997945785522
old start [186.0, 370.0, 29.001]
new start: [186.0, 370.0, 118.6408516279459]
pos: [186. 370. 29.]:
intersepts: 2
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dist to end: 13.0
dist to tri: -0.0
old start [220. 206. 140.]
new start: [220.0, 206.0, 140.001]
pos: [220. 206. 140.]:
intersepts: 1
dist to end: 17.0
dist to tri: -0.0
old start [208. 218. 136.]
new start: [208.0, 218.0, 136.001]
pos: [208. 218. 136.]:
intersepts: 1
dist to end: 5.0
dist to tri: 0.0
old start [322. 269. 148.]
new start: [322.0, 269.0, 148.001]
pos: [322. 269. 148.]:
intersepts: 1
dist to end: 4.0
dist to tri: -0.0
old start [326. 239. 149.]
new start: [326.0, 239.0, 149.001]
pos: [326. 239. 149.]:
intersepts: 1
dist to end: 12.0
dist to tri: -0.0
old start [217. 218. 141.]
new start: [217.0, 218.0, 141.001]
pos: [217. 218. 141.]:
intersepts: 1
dist to end: 12.0
dist to tri: -0.0
old start [222. 211. 141.]
new start: [222.0, 211.0, 141.001]
pos: [222. 211. 141.]:
intersepts: 1
dist to end: 10.0
dist to tri: 0.0
old start [240. 204. 143.]
new start: [240.0, 204.0, 143.001]
pos: [240. 204. 143.]:
intersepts: 1
dist to end: 12.0
dist to tri: -0.0
old start [210. 230. 141.]
new start: [210.0, 230.0, 141.001]
pos: [210. 230. 141.]:
intersepts: 1
dist to end: 11.0
dist to tri: -0.0
old start [437. 197. 142.]
new start: [437.0, 197.0, 142.001]
pos: [437. 197. 142.]:
intersepts: 1
dist to end: 11.0
dist to tri: 0.09777015447616577
old start [576. 330. 142.]
new start: [576.0, 330.0, 143.07647169923783]
pos: [576. 330. 142.]:
intersepts: 1
dist to end: 5.0
dist to tri: -0.0
old start [465. 347. 148.]
new start: [465.0, 347.0, 148.001]
pos: [465. 347. 148.]:
intersepts: 1
dist to end: 4.0
dist to tri: 0.0
old start [503. 342. 149.]
new start: [503.0, 342.0, 149.001]
pos: [503. 342. 149.]:
intersepts: 1
dist to end: 7.0
dist to tri: 0.5432955622673035
old start [514. 340. 146.]
new start: [514.0, 340.0, 149.80406893587113]
pos: [514. 340. 146.]:
intersepts: 1
dist to end: 5.0
dist to tri: 0.3819819688796997
old start [531. 297. 148.]
new start: [531.0, 297.0, 149.9109098443985]
pos: [531. 297. 148.]:
intersepts: 1
dist to end: 7.0
dist to tri: -0.0
old start [552. 292. 146.]
new start: [552.0, 292.0, 146.001]
pos: [552. 292. 146.]:
intersepts: 1
dist to end: 7.0
dist to tri: -0.0
old start [531. 280. 146.]
new start: [531.0, 280.0, 146.001]
pos: [531. 280. 146.]:
intersepts: 1
dist to end: 6.0
dist to tri: 0.0
old start [506. 262. 147.]
new start: [506.0, 262.0, 147.001]
pos: [506. 262. 147.]:
intersepts: 1
dist to end: 8.0
dist to tri: -0.0
old start [502. 255. 145.]
new start: [502.0, 255.0, 145.001]
pos: [502. 255. 145.]:
intersepts: 1
dist to end: 22.0
dist to tri: 0.4036855101585388
old start [648. 418. 131.]
new start: [648.0, 418.0, 139.88208122348786]
pos: [648. 418. 131.]:
intersepts: 1
dist to end: 22.0
dist to tri: 0.42598551511764526
old start [653. 417. 131.]
new start: [653.0, 417.0, 140.3726813325882]
pos: [653. 417. 131.]:
intersepts: 1
dist to end: 22.0
dist to tri: 0.38810139894485474
old start [627. 416. 131.]
new start: [627.0, 416.0, 139.5392307767868]
pos: [627. 416. 131.]:
intersepts: 1
dist to end: 9.0
dist to tri: 0.0
old start [575. 361. 144.]
new start: [575.0, 361.0, 144.001]
pos: [575. 361. 144.]:
intersepts: 1
dist to end: 3.0
dist to tri: 0.42286500334739685
old start [527. 304. 150.]
new start: [527.0, 304.0, 151.2695950100422]
pos: [527. 304. 150.]:
intersepts: 1
dist to end: 1.0
dist to tri: 0.0
old start [518. 298. 152.]
new start: [518.0, 298.0, 152.001]
pos: [518. 298. 152.]:
intersepts: 1
dist to end: 2.0
dist to tri: 0.0
old start [486. 313. 151.]
new start: [486.0, 313.0, 151.001]
pos: [486. 313. 151.]:
intersepts: 1
dist to end: 5.0
dist to tri: 0.6230088472366333
old start [532. 348. 148.]
new start: [532.0, 348.0, 151.11604423618317]
pos: [532. 348. 148.]:
intersepts: 1
dist to end: 1.0
dist to tri: 0.0
old start [542. 348. 152.]
new start: [542.0, 348.0, 152.001]
pos: [542. 348. 152.]:
intersepts: 1
dist to end: 8.0
dist to tri: -0.0
old start [549. 380. 145.]
new start: [549.0, 380.0, 145.001]
pos: [549. 380. 145.]:
intersepts: 1
dist to end: 8.0
dist to tri: -0.0
old start [574. 387. 145.]
new start: [574.0, 387.0, 145.001]
pos: [574. 387. 145.]:
intersepts: 1
dist to end: 11.0
dist to tri: -0.0
old start [596. 412. 142.]
new start: [596.0, 412.0, 142.001]
pos: [596. 412. 142.]:
intersepts: 1
dist to end: 10.0
dist to tri: 0.20000000298023224
old start [578. 399. 143.]
new start: [578.0, 399.0, 145.00100002980233]
pos: [578. 399. 143.]:
intersepts: 1
dist to end: 9.0
dist to tri: 0.1111111119389534
old start [584. 403. 144.]
new start: [584.0, 403.0, 145.00100000745059]
pos: [584. 403. 144.]:
intersepts: 1
dist to end: 12.0
dist to tri: -0.0
old start [668. 442. 141.]
new start: [668.0, 442.0, 141.001]
pos: [668. 442. 141.]:
intersepts: 1
dist to end: 20.0
dist to tri: 0.07215908914804459
old start [606. 371. 133.]
new start: [606.0, 371.0, 134.4441817829609]
pos: [606. 371. 133.]:
intersepts: 1
dist to end: 25.0
dist to tri: 0.15368421375751495
old start [597. 332. 128.]
new start: [597.0, 332.0, 131.84310534393788]
pos: [597. 332. 128.]:
intersepts: 1
dist to end: 31.0
dist to tri: 0.36397498846054077
old start [637. 402. 122.]
new start: [637.0, 402.0, 133.28422464227677]
pos: [637. 402. 122.]:
intersepts: 1
dist to end: 31.0
dist to tri: 0.15769368410110474
old start [684. 409. 122.]
new start: [684.0, 409.0, 126.88950420713425]
pos: [684. 409. 122.]:
intersepts: 1
dist to end: 28.0
dist to tri: 0.0
old start [693. 412. 125.]
new start: [693.0, 412.0, 125.001]
pos: [693. 412. 125.]:
intersepts: 1
dist to end: 28.0
dist to tri: -0.0
old start [495. 482. 125.]
new start: [495.0, 482.0, 125.001]
pos: [495. 482. 125.]:
intersepts: 1
dist to end: 29.0
dist to tri: 0.09359605610370636
old start [507. 479. 124.]
new start: [507.0, 479.0, 126.71528562700749]
pos: [507. 479. 124.]:
intersepts: 1
dist to end: 30.0
dist to tri: 0.0
old start [519. 484. 123.]
new start: [519.0, 484.0, 123.001]
pos: [519. 484. 123.]:
intersepts: 1
dist to end: 22.0
dist to tri: 0.0
old start [499. 473. 131.]
new start: [499.0, 473.0, 131.001]
pos: [499. 473. 131.]:
intersepts: 1
dist to end: 21.0
dist to tri: 0.1900254338979721
old start [596. 445. 132.]
new start: [596.0, 445.0, 135.99153411185742]
pos: [596. 445. 132.]:
intersepts: 1
dist to end: 24.0
dist to tri: 0.4719763994216919
old start [633. 408. 129.]
new start: [633.0, 408.0, 140.3284335861206]
pos: [633. 408. 129.]:
intersepts: 1
dist to end: 21.0
dist to tri: -0.0
old start [630. 398. 132.]
new start: [630.0, 398.0, 132.001]
pos: [630. 398. 132.]:
intersepts: 1
dist to end: 11.0
dist to tri: 0.0
old start [493. 429. 142.]
new start: [493.0, 429.0, 142.001]
pos: [493. 429. 142.]:
intersepts: 1
dist to end: 12.0
dist to tri: 0.0
old start [490. 438. 141.]
new start: [490.0, 438.0, 141.001]
pos: [490. 438. 141.]:
intersepts: 1
dist to end: 13.0
dist to tri: 0.0
old start [498. 443. 140.]
new start: [498.0, 443.0, 140.001]
pos: [498. 443. 140.]:
intersepts: 1
dist to end: 17.0
dist to tri: 0.28856825828552246
old start [513. 440. 136.]
new start: [513.0, 440.0, 140.9066603908539]
pos: [513. 440. 136.]:
intersepts: 1
dist to end: 17.0
dist to tri: -0.0
old start [486. 462. 136.]
new start: [486.0, 462.0, 136.001]
pos: [486. 462. 136.]:
intersepts: 1
dist to end: 17.0
dist to tri: -0.0
old start [495. 462. 136.]
new start: [495.0, 462.0, 136.001]
pos: [495. 462. 136.]:
intersepts: 1
dist to end: 20.0
dist to tri: 0.2542452812194824
old start [488. 452. 133.]
new start: [488.0, 452.0, 138.08590562438965]
pos: [488. 452. 133.]:
intersepts: 1
dist to end: 18.0
dist to tri: -0.0
old start [271. 406. 135.]
new start: [271.0, 406.0, 135.001]
pos: [271. 406. 135.]:
intersepts: 1
dist to end: 17.0
dist to tri: -0.0
old start [299. 421. 136.]
new start: [299.0, 421.0, 136.001]
pos: [299. 421. 136.]:
intersepts: 1
dist to end: 22.0
dist to tri: 0.0
old start [525. 247. 131.]
new start: [525.0, 247.0, 131.001]
pos: [525. 247. 131.]:
intersepts: 1
pos: [604.00832963 176.14028179 131.44656565]:
intersepts: 0
> artiax flip x
Drag select of axes, 2 of 653 instances, 2 atoms
> artiax flip x
> artiax flip y
> artiax flip z
Drag select of axes, 1 of 653 instances, 1 atoms
> artiax flip x
> artiax flip y
> artiax flip z
> artiax flip y
> ui mousemode right "mark maximum"
> ui mousemode right "mark plane"
> ui mousemode right "mark surface"
> ui mousemode right "mark center"
> ui mousemode right "mark point"
> artiax flip x
> artiax flip y
> artiax flip z
> marker #1.2.1.3 position 584.3,296.7,260.1 color #f0a3ff radius 4
> marker #1.2.1.3 position 600.6,261,204.6 color #f0a3ff radius 4
> artiax view xy
> artiax view xz
> artiax view yz
> hide #!1.2.1 models
> open "C:\Users\gunna\PycharmProjects\test data\curved_line.em" format motl
Opened Particle list curved_line.em with 7 particles.
> hide #!1.3.4 models
> artiax view xy
> ui mousemode right select
Drag select of axes, 5 of 7 instances, 6 atoms
> select clear
Drag select of axes, 7 atoms
> artiax fit line
Created a Curved line through 7 particles.
> artiax geomodel color #1.3.5 94,64,100,100
> artiax geomodel color #1.3.5 30,0,36,100
> artiax geomodel color #1.3.5 100,80,60,100
> hide #!1.2.2 models
> hide #!1.3.5 models
> ui mousemode right "mark point"
> marker #1.2.2.3 position -111.4,-42.32,209.2 color #0075dc radius 4
> marker #1.2.3.3 position -118,-39.54,205.4 color #993f00 radius 4
> marker #1.2.3.3 position -87.85,-57.25,189.2 color #993f00 radius 4
> marker #1.2.3.3 position -148.8,-4.288,268.4 color #993f00 radius 4
> marker #1.2.3.3 position -167.6,-25.8,268.6 color #993f00 radius 4
> marker #1.2.3.3 position -166.7,-56.56,228.1 color #993f00 radius 4
> marker #1.2.3.3 position -150,-86.9,186.8 color #993f00 radius 4
> marker #1.2.3.3 position -216.2,-67.42,212.3 color #993f00 radius 4
> marker #1.2.3.3 position -228.4,-55.54,245.9 color #993f00 radius 4
> marker #1.2.3.3 position -107.2,-55.56,271.4 color #993f00 radius 4
> marker #1.2.3.3 position -172.4,-118.4,194.8 color #993f00 radius 4
> ui mousemode right select
Drag select of axes, 1 of 10 instances
Drag select of axes, 10 atoms
> artiax view xy
> artiax fit surface
Created a Surface through 10 particles with normal (0.17, -0.74, 0.65).
> hide #!1.3.6 models
> artiax fit line
Created a Curved line through 10 particles.
> hide #!1.2.3 models
> hide #!1.3.7 models
> show #!1.3.7 models
> hide #!1.2.4 models
> lighting flat
> lighting full
> lighting soft
> lighting simple
> lighting full
> lighting simple
> lighting soft
> lighting full
> lighting flat
> lighting shadows true intensity 0.5
> graphics silhouettes false
> graphics silhouettes true
> ui tool show "Side View"
> view
> view orient
> lighting simple
> volume appearance airways
No volumes specified
> ui mousemode right "move planes"
> volume appearance chest
No volumes specified
> volume appearance airways
No volumes specified
> volume appearance brain
No volumes specified
> volume appearance brain
No volumes specified
> undo
> hide #!1.2.6 models
> show #!1.2.6 models
> hide #!1.2.6 models
> show #!1.2.6 models
> artiax geomodel color #1.3.7 94,64,100,100
> artiax geomodel color #1.3.7 17,81,28,100
> artiax geomodel color #1.3.7 0,46,86,100
> artiax geomodel color #1.3.7 0,47,89,100
> artiax geomodel color #1.3.7 0,48,90,100
> artiax geomodel color #1.3.7 0,49,93,100
> artiax geomodel color #1.3.7 0,50,93,100
> artiax geomodel color #1.3.7 0,50,94,100
> artiax geomodel color #1.3.7 0,51,95,100
> artiax geomodel color #1.3.7 0,51,96,100
> artiax geomodel color #1.3.7 0,52,97,100
> artiax geomodel color #1.3.7 0,52,98,100
> artiax geomodel color #1.3.7 0,53,99,100
> artiax geomodel color #1.3.7 0,53,100,100
> artiax geomodel color #1.3.7 100,93,18,100
> artiax geomodel color #1.3.7 100,94,19,100
> artiax geomodel color #1.3.7 100,97,21,100
> artiax geomodel color #1.3.7 100,100,22,100
> artiax geomodel color #1.3.7 98,100,22,100
> artiax geomodel color #1.3.7 96,100,23,100
> artiax geomodel color #1.3.7 96,100,24,100
> artiax geomodel color #1.3.7 96,100,25,100
> artiax geomodel color #1.3.7 96,100,26,100
> artiax geomodel color #1.3.7 96,100,27,100
> artiax geomodel color #1.3.7 96,100,28,100
> artiax geomodel color #1.3.7 96,100,29,100
> artiax geomodel color #1.3.7 96,100,30,100
> artiax geomodel color #1.3.7 96,100,31,100
> artiax geomodel color #1.3.7 96,100,32,100
> artiax geomodel color #1.3.7 96,100,33,100
> artiax geomodel color #1.3.7 96,100,32,100
> artiax geomodel color #1.3.7 96,100,28,100
> artiax geomodel color #1.3.7 93,100,26,100
> artiax geomodel color #1.3.7 92,100,24,100
> artiax geomodel color #1.3.7 89,100,22,100
> artiax geomodel color #1.3.7 86,100,20,100
> artiax geomodel color #1.3.7 86,100,19,100
> artiax geomodel color #1.3.7 86,100,18,100
> artiax geomodel color #1.3.7 86,100,17,100
> artiax geomodel color #1.3.7 85,100,16,100
> artiax geomodel color #1.3.7 85,100,15,100
> artiax geomodel color #1.3.7 85,100,14,100
> artiax geomodel color #1.3.7 85,100,13,100
> artiax geomodel color #1.3.7 85,100,12,100
> artiax geomodel color #1.3.7 85,100,11,100
> artiax geomodel color #1.3.7 85,100,10,100
> artiax geomodel color #1.3.7 87,100,10,100
> artiax geomodel color #1.3.7 91,100,9,100
> artiax geomodel color #1.3.7 92,100,8,100
> artiax geomodel color #1.3.7 92,100,7,100
> artiax geomodel color #1.3.7 95,100,6,100
> artiax geomodel color #1.3.7 95,100,5,100
> artiax geomodel color #1.3.7 95,100,5,39
> artiax geomodel color #1.3.7 95,100,5,29
> show #!1.2.4 models
> hide #!1.3.7 models
> artiax boundary
Created a boundary with 22 vertices.
> hide #!1.3.8 models
> show #!1.3.7 models
> hide #!1.2.4 models
> artiax geomodel color #1.3.8 0,46,86,100
> artiax geomodel color #1.3.8 17,81,28,100
> artiax geomodel color #1.3.7 0,46,86,29
> artiax geomodel color #1.3.7 0,46,86,100
> artiax geomodel color #1.3.7 95,100,5,100
> artiax geomodel color #1.3.7 95,100,5,97
> artiax geomodel color #1.3.7 95,100,5,77
> show #!1.2.4 models
> hide #!1.2.4 models
> show #!1.2.4 models
> hide #!1.2.4 models
> hide #!1.3.7 models
> show #!1.2.1 models
> hide #!1.2.1 models
> show #!1.3.3 models
> hide #!1.3.3 models
> show #!1.3.4 models
> artiax view xy
> artiax mask
> volume onesmask #1.3.6
Opened mask masked as #2, grid size 101,78,72, pixel 1.32, shown at step 1,
values int8
> hide #!1.3.4 models
> show #!1.2.1 models
> ui mousemode right "mark point"
> marker #1.2.1.3 position 313.7,486.2,302.9 color #f0a3ff radius 4
> marker #1.2.1.3 position 344.4,475.4,338.5 color #f0a3ff radius 4
> marker #1.2.1.3 position 376.9,445.1,360.7 color #f0a3ff radius 4
> marker #1.2.1.3 position 416.4,413,376.2 color #f0a3ff radius 4
> ui mousemode right select
Drag select of axes, 4 of 659 instances, 3 atoms
Drag select of axes, 3 of 655 instances, 3 atoms
Drag select of axes, 1 of 652 instances, 1 atoms
> artiax view xy
> select clear
Drag select of 2 mask masked
> select clear
Drag select of axes, 651 atoms
> artiax boundary
Created a boundary with 651 vertices.
> hide #!1.3.9 models
> artiax fit sphere
Created sphere with center: (422.72, 301.89, 91.13) and radius: 228.66.
> hide #!1.3.10 models
> ui mousemode right "mark point"
> marker #1.2.1.3 position 138.4,164.8,-252.5 color #f0a3ff radius 4
> marker #1.2.1.3 position 205.5,192.8,-302.9 color #f0a3ff radius 4
> marker #1.2.1.3 position 293.1,228.5,-315 color #f0a3ff radius 4
> marker #1.2.1.3 position 361.6,256.4,-307 color #f0a3ff radius 4
> marker #1.2.1.3 position 451.3,293.1,-289 color #f0a3ff radius 4
> marker #1.2.1.3 position 545.3,331.6,-244.4 color #f0a3ff radius 4
> marker #1.2.1.3 position 645.4,372.8,-183.4 color #f0a3ff radius 4
> marker #1.2.1.3 position 709.4,398.7,-199.6 color #f0a3ff radius 4
> ui mousemode right select
Drag select of axes, 8 of 659 instances, 8 atoms
> artiax fit line
Created a Curved line through 8 particles.
> hide #!1.3.11 models
> hide #!1.2.5 models
> show #!1.2.5 models
> hide #!1.2.1 models
Drag select of axes, 26 atoms
> select clear
Drag select of axes, 26 atoms
> artiax fit surface
Created a Surface through 26 particles with normal (0.38, -0.93, 0.00).
> hide #!1.3.12 models
> artiax boundary
Created a boundary with 26 vertices.
> ui mousemode right "delete tetra from boundary"
> hide #!1.3.13 models
> show #!1.3.9 models
> undo
> show #!1.3.9 models
> undo
> redo
> show #!1.2.4 models
> hide #!1.2.4 models
> show #!1.2.1 models
> ui mousemode right "mark point"
> marker #1.2.1.3 position 314.2,263.7,-19.88 color #f0a3ff radius 4
> ui mousemode right select
Drag select of axes, 185 of 660 instances, boundary, 332 of 940 triangles, 202
atoms
Drag select of axes, 226 of 660 instances, boundary, 280 of 940 triangles, 210
atoms
> hide #!1.3.12 models
> hide #!1.3.13 models
> hide #!1.2.5 models
> volume #2 style image region all imageMode "tilted slab" tiltedSlabAxis
> 0,0,1 tiltedSlabOffset 230.3 tiltedSlabSpacing 1.319 tiltedSlabPlaneCount 10
> mousemode rightMode "rotate slab"
===== Log before crash end =====
Log:
UCSF ChimeraX version: 1.3 (2021-12-08)
© 2016-2021 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
Errors may have occurred when running pip:
pip standard error:
\---
WARNING: Value for scheme.platlib does not match. Please report this to
<https://github.com/pypa/pip/issues/10151>
distutils: C:\Users\gunna\AppData\Local\UCSF\ChimeraX\1.3\site-packages
sysconfig: C:\Users\gunna\AppData\Roaming\Python\Python39\site-packages
WARNING: Value for scheme.purelib does not match. Please report this to
<https://github.com/pypa/pip/issues/10151>
distutils: C:\Users\gunna\AppData\Local\UCSF\ChimeraX\1.3\site-packages
sysconfig: C:\Users\gunna\AppData\Roaming\Python\Python39\site-packages
WARNING: Value for scheme.headers does not match. Please report this to
<https://github.com/pypa/pip/issues/10151>
distutils:
C:\Users\gunna\AppData\Local\UCSF\ChimeraX\Python39\Include\ChimeraX-ArtiaX
sysconfig: C:\Users\gunna\AppData\Roaming\Python\Python39\Include\ChimeraX-
ArtiaX
WARNING: Value for scheme.scripts does not match. Please report this to
<https://github.com/pypa/pip/issues/10151>
distutils: C:\Users\gunna\AppData\Local\UCSF\ChimeraX\Python39\Scripts
sysconfig: C:\Users\gunna\AppData\Roaming\Python\Python39\Scripts
WARNING: Value for scheme.data does not match. Please report this to
<https://github.com/pypa/pip/issues/10151>
distutils: C:\Users\gunna\AppData\Local\UCSF\ChimeraX
sysconfig: C:\Users\gunna\AppData\Roaming\Python
WARNING: Additional context:
user = True
home = None
root = None
prefix = None
WARNING: Value for scheme.headers does not match. Please report this to
<https://github.com/pypa/pip/issues/10151>
distutils: C:\Users\gunna\AppData\Local\UCSF\ChimeraX\Python39\Include\UNKNOWN
sysconfig: C:\Users\gunna\AppData\Roaming\Python\Python39\Include\UNKNOWN
WARNING: You are using pip version 21.2.4; however, version 22.2.2 is
available.
You should consider upgrading via the 'C:\Program Files\ChimeraX
1.3\bin\ChimeraX.exe -m pip install --upgrade pip' command.
\---
pip standard output:
\---
Looking in indexes: https://pypi.org/simple,
https://cxtoolshed.rbvi.ucsf.edu/pypi/
Collecting ChimeraX-ArtiaX==0.2
Downloading
https://cxtoolshed.rbvi.ucsf.edu/media/chimeraxartiax/releases/0.2/ChimeraX_ArtiaX-0.2-py3-none-
any.whl (1.2 MB)
Installing collected packages: ChimeraX-ArtiaX
Attempting uninstall: ChimeraX-ArtiaX
Found existing installation: ChimeraX-ArtiaX 0.2a1
Uninstalling ChimeraX-ArtiaX-0.2a1:
Successfully uninstalled ChimeraX-ArtiaX-0.2a1
Successfully installed ChimeraX-ArtiaX-0.2
\---
Successfully installed ChimeraX-ArtiaX-0.2
Installed ChimeraX-ArtiaX (0.2)
Replacing data format 'Artiatomi Motivelist' as defined by ChimeraX-ArtiaX
with definition from ChimeraX-ArtiaX
Replacing data format 'Generic Particle List' as defined by ChimeraX-ArtiaX
with definition from ChimeraX-ArtiaX
Replacing data format 'Dynamo Table' as defined by ChimeraX-ArtiaX with
definition from ChimeraX-ArtiaX
Replacing data format 'RELION STAR file' as defined by ChimeraX-ArtiaX with
definition from ChimeraX-ArtiaX
Replacing data format 'Coords file' as defined by ChimeraX-ArtiaX with
definition from ChimeraX-ArtiaX
Replacing data format 'PEET mod/csv' as defined by ChimeraX-ArtiaX with
definition from ChimeraX-ArtiaX
Replacing data format 'ArtiaX geometric model' as defined by ChimeraX-ArtiaX
with definition from ChimeraX-ArtiaX
Overriding existing toolbar provider for toolbar provider 'Launch' in bundle
'ChimeraX-ArtiaX'
Overriding existing toolbar provider for toolbar provider 'Help' in bundle
'ChimeraX-ArtiaX'
Overriding existing toolbar provider for toolbar provider 'XY' in bundle
'ChimeraX-ArtiaX'
Overriding existing toolbar provider for toolbar provider 'XZ' in bundle
'ChimeraX-ArtiaX'
Overriding existing toolbar provider for toolbar provider 'YZ' in bundle
'ChimeraX-ArtiaX'
Overriding existing toolbar provider for toolbar provider 'Invert Selection'
in bundle 'ChimeraX-ArtiaX'
Overriding existing toolbar provider for toolbar provider 'Sphere' in bundle
'ChimeraX-ArtiaX'
Overriding existing toolbar provider for toolbar provider 'Line' in bundle
'ChimeraX-ArtiaX'
Overriding existing toolbar provider for toolbar provider 'Surface' in bundle
'ChimeraX-ArtiaX'
Overriding existing toolbar provider for toolbar provider 'Boundary' in bundle
'ChimeraX-ArtiaX'
Overriding existing toolbar provider for toolbar provider 'Triangles From
Links' in bundle 'ChimeraX-ArtiaX'
Overriding existing toolbar provider for toolbar provider 'Triangulate' in
bundle 'ChimeraX-ArtiaX'
Overriding existing toolbar provider for toolbar provider 'Remove Selected' in
bundle 'ChimeraX-ArtiaX'
Overriding existing toolbar provider for toolbar provider 'Create Mask' in
bundle 'ChimeraX-ArtiaX'
OpenGL version: 3.3.0 NVIDIA 512.59
OpenGL renderer: NVIDIA GeForce GTX 1060 with Max-Q Design/PCIe/SSE2
OpenGL vendor: NVIDIA Corporation
Manufacturer: LENOVO
Model: 80YY
OS: Microsoft Windows 10 Home (Build 19044)
Memory: 8,476,856,320
MaxProcessMemory: 137,438,953,344
CPU: 8 Intel(R) Core(TM) i7-7700HQ CPU @ 2.80GHz
OSLanguage: en-US
Locale: ('en_SE', 'cp1252')
PyQt5 5.15.2, Qt 5.15.2
Installed Packages:
alabaster: 0.7.12
appdirs: 1.4.4
Babel: 2.9.1
backcall: 0.2.0
blockdiag: 2.0.1
certifi: 2021.10.8
cftime: 1.5.1.1
charset-normalizer: 2.0.9
ChimeraX-AddCharge: 1.2.2
ChimeraX-AddH: 2.1.11
ChimeraX-AlignmentAlgorithms: 2.0
ChimeraX-AlignmentHdrs: 3.2
ChimeraX-AlignmentMatrices: 2.0
ChimeraX-Alignments: 2.2.3
ChimeraX-AlphaFold: 1.0
ChimeraX-AltlocExplorer: 1.0.1
ChimeraX-AmberInfo: 1.0
ChimeraX-Arrays: 1.0
ChimeraX-ArtiaX: 0.2a1
ChimeraX-Atomic: 1.31
ChimeraX-AtomicLibrary: 4.2
ChimeraX-AtomSearch: 2.0
ChimeraX-AtomSearchLibrary: 1.0
ChimeraX-AxesPlanes: 2.0
ChimeraX-BasicActions: 1.1
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 2.0
ChimeraX-BondRot: 2.0
ChimeraX-BugReporter: 1.0
ChimeraX-BuildStructure: 2.6.1
ChimeraX-Bumps: 1.0
ChimeraX-BundleBuilder: 1.1
ChimeraX-ButtonPanel: 1.0
ChimeraX-CageBuilder: 1.0
ChimeraX-CellPack: 1.0
ChimeraX-Centroids: 1.2
ChimeraX-ChemGroup: 2.0
ChimeraX-Clashes: 2.2.2
ChimeraX-ColorActions: 1.0
ChimeraX-ColorGlobe: 1.0
ChimeraX-ColorKey: 1.5
ChimeraX-CommandLine: 1.1.5
ChimeraX-ConnectStructure: 2.0
ChimeraX-Contacts: 1.0
ChimeraX-Core: 1.3
ChimeraX-CoreFormats: 1.1
ChimeraX-coulombic: 1.3.2
ChimeraX-Crosslinks: 1.0
ChimeraX-Crystal: 1.0
ChimeraX-CrystalContacts: 1.0
ChimeraX-DataFormats: 1.2.2
ChimeraX-Dicom: 1.0
ChimeraX-DistMonitor: 1.1.5
ChimeraX-DistUI: 1.0
ChimeraX-Dssp: 2.0
ChimeraX-EMDB-SFF: 1.0
ChimeraX-ExperimentalCommands: 1.0
ChimeraX-FileHistory: 1.0
ChimeraX-FunctionKey: 1.0
ChimeraX-Geometry: 1.1
ChimeraX-gltf: 1.0
ChimeraX-Graphics: 1.1
ChimeraX-Hbonds: 2.1.2
ChimeraX-Help: 1.2
ChimeraX-HKCage: 1.3
ChimeraX-IHM: 1.1
ChimeraX-ImageFormats: 1.2
ChimeraX-IMOD: 1.0
ChimeraX-IO: 1.0.1
ChimeraX-ItemsInspection: 1.0
ChimeraX-Label: 1.1
ChimeraX-ListInfo: 1.1.1
ChimeraX-Log: 1.1.4
ChimeraX-LookingGlass: 1.1
ChimeraX-Maestro: 1.8.1
ChimeraX-Map: 1.1
ChimeraX-MapData: 2.0
ChimeraX-MapEraser: 1.0
ChimeraX-MapFilter: 2.0
ChimeraX-MapFit: 2.0
ChimeraX-MapSeries: 2.1
ChimeraX-Markers: 1.0
ChimeraX-Mask: 1.0
ChimeraX-MatchMaker: 2.0.4
ChimeraX-MDcrds: 2.6
ChimeraX-MedicalToolbar: 1.0.1
ChimeraX-Meeting: 1.0
ChimeraX-MLP: 1.1
ChimeraX-mmCIF: 2.4
ChimeraX-MMTF: 2.1
ChimeraX-Modeller: 1.2.6
ChimeraX-ModelPanel: 1.2.1
ChimeraX-ModelSeries: 1.0
ChimeraX-Mol2: 2.0
ChimeraX-Morph: 1.0
ChimeraX-MouseModes: 1.1
ChimeraX-Movie: 1.0
ChimeraX-Neuron: 1.0
ChimeraX-Nucleotides: 2.0.2
ChimeraX-OpenCommand: 1.7
ChimeraX-PDB: 2.6.5
ChimeraX-PDBBio: 1.0
ChimeraX-PDBLibrary: 1.0.2
ChimeraX-PDBMatrices: 1.0
ChimeraX-PickBlobs: 1.0
ChimeraX-Positions: 1.0
ChimeraX-PresetMgr: 1.0.1
ChimeraX-PubChem: 2.1
ChimeraX-ReadPbonds: 1.0.1
ChimeraX-Registration: 1.1
ChimeraX-RemoteControl: 1.0
ChimeraX-ResidueFit: 1.0
ChimeraX-RestServer: 1.1
ChimeraX-RNALayout: 1.0
ChimeraX-RotamerLibMgr: 2.0.1
ChimeraX-RotamerLibsDunbrack: 2.0
ChimeraX-RotamerLibsDynameomics: 2.0
ChimeraX-RotamerLibsRichardson: 2.0
ChimeraX-SaveCommand: 1.5
ChimeraX-SchemeMgr: 1.0
ChimeraX-SDF: 2.0
ChimeraX-Segger: 1.0
ChimeraX-Segment: 1.0
ChimeraX-SelInspector: 1.0
ChimeraX-SeqView: 2.4.6
ChimeraX-Shape: 1.0.1
ChimeraX-Shell: 1.0
ChimeraX-Shortcuts: 1.1
ChimeraX-ShowAttr: 1.0
ChimeraX-ShowSequences: 1.0
ChimeraX-SideView: 1.0
ChimeraX-Smiles: 2.1
ChimeraX-SmoothLines: 1.0
ChimeraX-SpaceNavigator: 1.0
ChimeraX-StdCommands: 1.6.1
ChimeraX-STL: 1.0
ChimeraX-Storm: 1.0
ChimeraX-Struts: 1.0
ChimeraX-Surface: 1.0
ChimeraX-SwapAA: 2.0
ChimeraX-SwapRes: 2.1
ChimeraX-TapeMeasure: 1.0
ChimeraX-Test: 1.0
ChimeraX-Toolbar: 1.1
ChimeraX-ToolshedUtils: 1.2
ChimeraX-Tug: 1.0
ChimeraX-UI: 1.13.7
ChimeraX-uniprot: 2.2
ChimeraX-UnitCell: 1.0
ChimeraX-ViewDockX: 1.0.1
ChimeraX-VIPERdb: 1.0
ChimeraX-Vive: 1.1
ChimeraX-VolumeMenu: 1.0
ChimeraX-VTK: 1.0
ChimeraX-WavefrontOBJ: 1.0
ChimeraX-WebCam: 1.0
ChimeraX-WebServices: 1.0
ChimeraX-Zone: 1.0
colorama: 0.4.4
comtypes: 1.1.10
cxservices: 1.1
cycler: 0.11.0
Cython: 0.29.24
decorator: 5.1.0
docutils: 0.17.1
filelock: 3.0.12
funcparserlib: 0.3.6
geomdl: 5.3.1
grako: 3.16.5
h5py: 3.6.0
html2text: 2020.1.16
idna: 3.3
ihm: 0.21
imagecodecs: 2021.4.28
imagesize: 1.3.0
ipykernel: 5.5.5
ipython: 7.23.1
ipython-genutils: 0.2.0
jedi: 0.18.0
Jinja2: 3.0.1
jupyter-client: 6.1.12
jupyter-core: 4.9.1
kiwisolver: 1.3.2
lxml: 4.6.3
lz4: 3.1.3
MarkupSafe: 2.0.1
matplotlib: 3.4.3
matplotlib-inline: 0.1.3
msgpack: 1.0.2
netCDF4: 1.5.7
networkx: 2.6.3
numexpr: 2.8.0
numpy: 1.21.2
openvr: 1.16.801
packaging: 21.3
pandas: 1.4.3
ParmEd: 3.2.0
parso: 0.8.3
pickleshare: 0.7.5
Pillow: 8.3.2
pip: 21.2.4
pkginfo: 1.7.1
prompt-toolkit: 3.0.23
psutil: 5.8.0
pycollada: 0.7.1
pydicom: 2.1.2
Pygments: 2.10.0
PyOpenGL: 3.1.5
PyOpenGL-accelerate: 3.1.5
pyparsing: 3.0.6
PyQt5-commercial: 5.15.2
PyQt5-sip: 12.8.1
PyQtWebEngine-commercial: 5.15.2
python-dateutil: 2.8.2
pytz: 2021.3
pywin32: 228
pyzmq: 22.3.0
qtconsole: 5.1.1
QtPy: 1.11.3
RandomWords: 0.3.0
requests: 2.26.0
scipy: 1.7.1
setuptools: 57.5.0
sfftk-rw: 0.7.1
six: 1.16.0
snowballstemmer: 2.2.0
sortedcontainers: 2.4.0
Sphinx: 4.2.0
sphinx-autodoc-typehints: 1.12.0
sphinxcontrib-applehelp: 1.0.2
sphinxcontrib-blockdiag: 2.0.0
sphinxcontrib-devhelp: 1.0.2
sphinxcontrib-htmlhelp: 2.0.0
sphinxcontrib-jsmath: 1.0.1
sphinxcontrib-qthelp: 1.0.3
sphinxcontrib-serializinghtml: 1.1.5
starfile: 0.4.11
suds-jurko: 0.6
superqt: 0.3.2
tables: 3.6.1
tifffile: 2021.4.8
tinyarray: 1.2.3
tornado: 6.1
traitlets: 5.1.1
typing-extensions: 4.2.0
urllib3: 1.26.7
wcwidth: 0.2.5
webcolors: 1.11.1
wheel: 0.37.0
wheel-filename: 1.3.0
WMI: 1.5.1
Change History (3)
comment:1 by , 3 years ago
| Cc: | added |
|---|---|
| Component: | Unassigned → Graphics |
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → assigned |
| Summary: | ChimeraX bug report submission → Crash drawing side view |
comment:2 by , 3 years ago
comment:3 by , 3 years ago
| Resolution: | → can't reproduce |
|---|---|
| Status: | assigned → closed |
Note:
See TracTickets
for help on using tickets.
The crash was in OpenGL swap buffers, almost surely a graphics driver crash. The user could do is update their driver.
I suggest closing this ticket.