![[ChimeraX Issue Tracking System]](/trac/ChimeraX/chrome/site/ChimeraX-icon.svg){kind=icon}
Opened 14 months ago
Closed 14 months ago
#15935 closed defect (duplicate)
Crash on Mac waking from sleep
| Reported by: | Owned by: | Tom Goddard | |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Window Toolkit | Version: | |
| Keywords: | Cc: | ||
| Blocked By: | Blocking: | ||
| Notify when closed: | Platform: | all | |
| Project: | ChimeraX |
Description
The following bug report has been submitted:
Platform: macOS-14.5-x86_64-i386-64bit
ChimeraX Version: 1.8 (2024-06-10 23:15:52 UTC)
Description
Last time you used ChimeraX it crashed.
Please describe steps that led to the crash here.
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{
"uptime" : 110000,
"procRole" : "Background",
"version" : 2,
"userID" : 503,
"deployVersion" : 210,
"modelCode" : "MacBookPro18,1",
"coalitionID" : 1440,
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"build" : "23F79",
"releaseType" : "User"
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"codeSigningMonitor" : 1,
"incident" : "62601106-8C39-4DBB-A239-D769FCDA0F26",
"pid" : 2205,
"translated" : true,
"cpuType" : "X86-64",
"roots_installed" : 0,
"bug_type" : "309",
"procLaunch" : "2024-09-03 17:41:35.6736 +0200",
"procStartAbsTime" : 24937528090,
"procExitAbsTime" : 2770351905291,
"procName" : "ChimeraX",
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"codeSigningID" : "edu.ucsf.cgl.ChimeraX",
"codeSigningTeamID" : "LWV8X224YF",
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"sleepWakeUUID" : "876FD977-B66E-42C3-8C96-A56BA5E67BE7",
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"experimentId" : "6639bc6ba73d460582162323",
"deploymentId" : 400000006
},
{
"treatmentId" : "45f4e2a5-551b-4bc2-a2dc-19c244dda8f8",
"experimentId" : "6643969b3099cf28e049862f",
"deploymentId" : 400000007
}
]
},
"reportNotes" : [
"PC register does not match crashing frame (0x0 vs 0x1492CE944)"
]
}
===== Log before crash start =====
Startup Messages
---
note | available bundle cache has not been initialized yet
UCSF ChimeraX version: 1.8 (2024-06-10)
© 2016-2024 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open /Users/jana/Downloads/cryosparc_P4_J3466_map.mrc format mrc
Opened cryosparc_P4_J3466_map.mrc as #1, grid size 288,288,288, pixel 1.66,
shown at level 0.024, step 2, values float32
> color cornflower blue
> lighting soft
> close
> open
> "/Users/jana/Downloads/cryosparc_P4_J3550_volume_multi_ds/cryosparc_P4_J3547_map
> (1).mrc"
Opened cryosparc_P4_J3547_map (1).mrc as #1, grid size 576,576,576, pixel
0.83, shown at level 0.00826, step 4, values float32
> open
> /Users/jana/Downloads/cryosparc_P4_J3550_volume_multi_ds/J3550_map_aligned_0.mrc
Opened J3550_map_aligned_0.mrc as #2, grid size 576,576,576, pixel 0.83, shown
at level 0.00926, step 4, values float32
> open
> /Users/jana/Downloads/cryosparc_P4_J3550_volume_multi_ds/J3550_map_aligned_1.mrc
Opened J3550_map_aligned_1.mrc as #3, grid size 576,576,576, pixel 0.83, shown
at level 0.00824, step 4, values float32
> open
> /Users/jana/Downloads/cryosparc_P4_J3550_volume_multi_ds/J3550_map_aligned_2.mrc
Opened J3550_map_aligned_2.mrc as #4, grid size 576,576,576, pixel 0.83, shown
at level 0.00894, step 4, values float32
> open
> /Users/jana/Downloads/cryosparc_P4_J3550_volume_multi_ds/J3550_map_aligned_3.mrc
Opened J3550_map_aligned_3.mrc as #5, grid size 576,576,576, pixel 0.83, shown
at level 0.00917, step 4, values float32
> open
> /Users/jana/Downloads/cryosparc_P4_J3550_volume_multi_ds/J3550_map_aligned_4.mrc
Opened J3550_map_aligned_4.mrc as #6, grid size 576,576,576, pixel 0.83, shown
at level 0.00827, step 4, values float32
> open
> /Users/jana/Downloads/cryosparc_P4_J3550_volume_multi_ds/J3550_map_aligned_5.mrc
Opened J3550_map_aligned_5.mrc as #7, grid size 576,576,576, pixel 0.83, shown
at level 0.00837, step 4, values float32
> set bgColor white
> set bgColor #ffffff00
> surface dust #1 size 8.3
> surface dust #2 size 8.3
> surface dust #3 size 8.3
> surface dust #4 size 8.3
> surface dust #5 size 8.3
> surface dust #6 size 8.3
> surface dust #7 size 8.3
> color cornflower blue
> tile
7 models tiled
> hide #!7 models
> show #!7 models
The cached device pixel ratio value was stale on window expose. Please file a
QTBUG which explains how to reproduce.
> hide #!2 models
> show #!2 models
> hide #!2 models
> hide #!3 models
> hide #!1 models
> hide #!6 models
> hide #!5 models
> show #!5 models
> hide #!4 models
> show #!4 models
> hide #!4 models
> show #!4 models
> hide #!7 models
> show #!7 models
> hide #!7 models
> hide #!4 models
> volume resample #1 onGrid #1
Opened cryosparc_P4_J3547_map (1).mrc resampled as #8, grid size 576,576,576,
pixel 0.83, shown at step 1, values float32
> volume resample #2 onGrid #1
Opened J3550_map_aligned_0.mrc resampled as #9, grid size 576,576,576, pixel
0.83, shown at step 1, values float32
> volume resample #3 onGrid #1
Opened J3550_map_aligned_1.mrc resampled as #10, grid size 576,576,576, pixel
0.83, shown at step 1, values float32
> volume resample #4 onGrid #1
Opened J3550_map_aligned_2.mrc resampled as #11, grid size 576,576,576, pixel
0.83, shown at step 1, values float32
> close #11
> close #10
> close #9
> close #8
> show #!6 models
> show #!7 models
> show #!4 models
> show #!3 models
> show #!2 models
> show #!1 models
> tile off
> hide #!7 models
> hide #!6 models
> hide #!5 models
> hide #!4 models
> hide #!3 models
> hide #!2 models
> hide #!1 models
> volume resample #1 onGrid #1
Opened cryosparc_P4_J3547_map (1).mrc resampled as #8, grid size 576,576,576,
pixel 0.83, shown at step 1, values float32
> volume resample #2 onGrid #1
Opened J3550_map_aligned_0.mrc resampled as #9, grid size 576,576,576, pixel
0.83, shown at step 1, values float32
> volume resample #3 onGrid #1
Opened J3550_map_aligned_1.mrc resampled as #10, grid size 576,576,576, pixel
0.83, shown at step 1, values float32
> volume resample #4 onGrid #1
Opened J3550_map_aligned_2.mrc resampled as #11, grid size 576,576,576, pixel
0.83, shown at step 1, values float32
> volume resample #5 onGrid #1
Opened J3550_map_aligned_3.mrc resampled as #12, grid size 576,576,576, pixel
0.83, shown at step 1, values float32
> volume resample #6 onGrid #1
Opened J3550_map_aligned_4.mrc resampled as #13, grid size 576,576,576, pixel
0.83, shown at step 1, values float32
> volume resample #7 onGrid #1
Opened J3550_map_aligned_5.mrc resampled as #14, grid size 576,576,576, pixel
0.83, shown at step 1, values float32
> color #8-14 cornflower blue
> surface dust #8 size 8.3
> surface dust #9 size 8.3
> surface dust #10 size 8.3
> surface dust #11 size 8.3
> surface dust #12 size 8.3
> surface dust #13 size 8.3
> surface dust #14 size 8.3
> lighting simple
> lighting soft
The cached device pixel ratio value was stale on window expose. Please file a
QTBUG which explains how to reproduce.
> volume #14 step 4
The cached device pixel ratio value was stale on window expose. Please file a
QTBUG which explains how to reproduce.
> volume #13 step 4
The cached device pixel ratio value was stale on window expose. Please file a
QTBUG which explains how to reproduce.
> volume #12 step 4
The cached device pixel ratio value was stale on window expose. Please file a
QTBUG which explains how to reproduce.
> volume #11 step 4
The cached device pixel ratio value was stale on window expose. Please file a
QTBUG which explains how to reproduce.
> volume #10 step 4
The cached device pixel ratio value was stale on window expose. Please file a
QTBUG which explains how to reproduce.
> volume #9 step 4
The cached device pixel ratio value was stale on window expose. Please file a
QTBUG which explains how to reproduce.
> volume #8 step 4
> hide #!8 models
> hide #!9 models
> hide #!10 models
> hide #!11 models
> hide #!12 models
> hide #!13 models
> hide #!14 models
> show #!1 models
> hide #!1 models
> show #!2 models
> hide #!2 models
> show #!3 models
> hide #!3 models
> show #!2 models
> hide #!2 models
> show #!3 models
> hide #!3 models
> show #!8 models
> show #!9 models
> hide #!8 models
> hide #!9 models
> show #!8 models
> show #!9 models
> show #!10 models
> show #!11 models
> show #!12 models
> show #!13 models
> show #!14 models
> tile
7 models tiled
> hide #!8 models
> show #!8 models
> hide #!9 models
> show #!9 models
> hide #!9 models
> hide #!10 models
> hide #!11 models
> show #!11 models
> show #!1 models
> hide #!1 models
> hide #!8 models
> show #!8 models
> hide #!13 models
> show #!13 models
> hide #!8 models
> show #!8 models
> hide #!13 models
> show #!13 models
> hide #!13 models
> hide #!8 models
> hide #!14 models
> show #!14 models
> hide #!14 models
> hide #!11 models
> hide #!12 models
> show #!11 models
> show #!12 models
> hide #!12 models
> hide #!11 models
> show #!9 models
> show #!10 models
> show #!8 models
> show #!11 models
> show #!12 models
> show #!13 models
> show #!14 models
> tile off
> hide #!8 models
> hide #!9 models
> hide #!11 models
> hide #!10 models
> hide #!12 models
> hide #!13 models
> hide #!14 models
> volume morph #12 #11 #14 #8 #13 #10 #9
Map positions are not the same, J3550_map_aligned_2.mrc resampled #11 and
J3550_map_aligned_3.mrc resampled #12. Use the "volume resample" command to
make a copy of one map with the same grid as the other map.
> close #14
> close #13
> close #12
> close #11
> close #10
> close #9
> close #8
> volume resample #1 onGrid #7
Opened cryosparc_P4_J3547_map (1).mrc resampled as #8, grid size 576,576,576,
pixel 0.83, shown at step 1, values float32
> volume resample #2 onGrid #7
Opened J3550_map_aligned_0.mrc resampled as #9, grid size 576,576,576, pixel
0.83, shown at step 1, values float32
> volume resample #3 onGrid #7
Opened J3550_map_aligned_1.mrc resampled as #10, grid size 576,576,576, pixel
0.83, shown at step 1, values float32
> volume resample #4 onGrid #7
Opened J3550_map_aligned_2.mrc resampled as #11, grid size 576,576,576, pixel
0.83, shown at step 1, values float32
> volume resample #5 onGrid #7
Opened J3550_map_aligned_3.mrc resampled as #12, grid size 576,576,576, pixel
0.83, shown at step 1, values float32
> volume resample #6 onGrid #7
Opened J3550_map_aligned_4.mrc resampled as #13, grid size 576,576,576, pixel
0.83, shown at step 1, values float32
> volume resample #7 onGrid #7
Opened J3550_map_aligned_5.mrc resampled as #14, grid size 576,576,576, pixel
0.83, shown at step 1, values float32
> surface dust #8 size 8.3
> surface dust #9 size 8.3
> surface dust #10 size 8.3
> surface dust #11 size 8.3
> surface dust #12 size 8.3
> surface dust #13 size 8.3
> surface dust #14 size 8.3
> color #8-14 cornflower blue
> volume morph #12 #11 #14 #8 #13 #10 #9
Opened morph as #15, grid size 576,576,576, pixel 0.83, shown at step 1,
values float32
The cached device pixel ratio value was stale on window expose. Please file a
QTBUG which explains how to reproduce.
> volume #15 step 4
> surface dust #15 size 8.3
> volume #15 level 0.02905
> lighting soft
> volume #15 level 0.0345
> volume #15 level 0.03482
> volume #15 step 2
> volume #15 level 0.04114
> movie record
> movie encode /Users/jana/Desktop/movie13.mp4 framerate 25.0
Movie saved to /Users/jana/Desktop/movie13.mp4
> movie record
> movie encode /Users/jana/Desktop/movie13.mp4 framerate 25.0
Error processing trigger "new frame":
Movie encoding failed because no images were recorded.
> movie record
> movie encode /Users/jana/Desktop/movie13.mp4 framerate 25.0
Movie saved to /Users/jana/Desktop/movie13.mp4
> movie record
> movie encode /Users/jana/Desktop/movie13.mp4 framerate 25.0
Movie saved to /Users/jana/Desktop/movie13.mp4
> movie record
> movie encode /Users/jana/Desktop/movie13.mp4 framerate 25.0
Movie saved to /Users/jana/Desktop/movie13.mp4
> movie record
> movie encode /Users/jana/Desktop/movie14.mp4 framerate 25.0
Movie saved to /Users/jana/Desktop/movie14.mp4
> movie record
> movie encode /Users/jana/Desktop/movie15.mp4 framerate 25.0
Movie saved to /Users/jana/Desktop/movie15.mp4
> movie record
> movie encode /Users/jana/Desktop/movie16.mp4 framerate 25.0
Movie saved to /Users/jana/Desktop/movie16.mp4
> close
> open /Users/jana/Downloads/cryosparc_P4_J2818_004_volume_map.mrc
Opened cryosparc_P4_J2818_004_volume_map.mrc as #1, grid size 576,576,576,
pixel 0.83, shown at level 0.0171, step 4, values float32
> color #1 #785ebfff models
> surface dust #1 size 8.3
> volume #1 level 0.03003
> volume #1 level 0.03238
> volume #1 level 0.02
> volume #1 level 0.01
> volume #1 level 0.025
> volume #1 level 0.03
> volume #1 level 0.05461
The cached device pixel ratio value was stale on window expose. Please file a
QTBUG which explains how to reproduce.
> volume #1 step 2
> volume #1 step 4
> open /Users/jana/Downloads/cryosparc_P4_J2155_008_volume_map_sharp.mrc
Opened cryosparc_P4_J2155_008_volume_map_sharp.mrc as #2, grid size
576,576,576, pixel 0.83, shown at level 0.0114, step 4, values float32
> volume #2 color #5152ff
> volume #2 color #817bff
> volume #2 color #ff96ec
> volume #2 color #63ff43
> volume #2 color #5762ff
> volume #2 color #7d91ff
> surface dust #1 size 8.3
> surface dust #2 size 8.3
> volume #2 level 0.02
> select add #2
2 models selected
> ui mousemode right "rotate selected models"
> view matrix models
> #2,0.99207,-0.12361,0.022909,27.343,-0.12535,-0.95887,0.25467,456.22,-0.0095132,-0.25552,-0.96676,482.08
> volume #2 level 0.02641
> ui mousemode right "translate selected models"
> view matrix models
> #2,0.99207,-0.12361,0.022909,24.899,-0.12535,-0.95887,0.25467,444.13,-0.0095132,-0.25552,-0.96676,519.22
> volume #2 level 0.04563
> fitmap #2 inMap #1
Fit map cryosparc_P4_J2155_008_volume_map_sharp.mrc in map
cryosparc_P4_J2818_004_volume_map.mrc using 8030 points
correlation = 0.8573, correlation about mean = 0.5672, overlap = 62.76
steps = 188, shift = 8.68, angle = 13.5 degrees
Position of cryosparc_P4_J2155_008_volume_map_sharp.mrc (#2) relative to
cryosparc_P4_J2818_004_volume_map.mrc (#1) coordinates:
Matrix rotation and translation
0.99917232 -0.00946997 -0.03955993 11.18307829
-0.00704964 -0.99812026 0.06087890 465.89082054
-0.04006209 -0.06054963 -0.99736090 494.63692145
Axis -0.99979287 0.00413458 0.01992801
Axis point 0.00000000 240.48627912 240.34893058
Rotation angle (degrees) 176.51846610
Shift along axis 0.60262989
> select subtract #2
Nothing selected
> hide #!2 models
> show #!2 models
> hide #!1 models
> volume #2 level 0.01199
> show #!1 models
> volume #2 level 0.04162
> tile
2 models tiled
> tile off
> select add #2
2 models selected
> view matrix models
> #2,0.99919,0.037675,-0.013796,-4.5787,-0.037606,0.99928,0.0052042,7.3627,0.013982,-0.0046812,0.99989,8.8619
> ui mousemode right "rotate selected models"
> view matrix models
> #2,-0.74948,0.66021,-0.049039,285.19,0.65925,0.75106,0.035886,-111.79,0.060524,-0.0054336,-0.99815,443.77
> view matrix models
> #2,-0.72126,0.69223,-0.024455,264.84,0.69092,0.7215,0.045489,-114.56,0.049133,0.015913,-0.99867,441.49
> ui mousemode right "move picked models"
> view matrix models
> #2,-0.72126,0.69223,-0.024455,260.58,0.69092,0.7215,0.045489,-102.67,0.049133,0.015913,-0.99867,452.91
> fitmap #2 inMap #1
Fit map cryosparc_P4_J2155_008_volume_map_sharp.mrc in map
cryosparc_P4_J2818_004_volume_map.mrc using 9050 points
correlation = 0.8482, correlation about mean = 0.57, overlap = 64.74
steps = 212, shift = 10.6, angle = 18.8 degrees
Position of cryosparc_P4_J2155_008_volume_map_sharp.mrc (#2) relative to
cryosparc_P4_J2818_004_volume_map.mrc (#1) coordinates:
Matrix rotation and translation
-0.49142794 0.87004143 -0.03907037 157.21475217
0.86769872 0.49297217 0.06385436 -100.21752844
0.07481654 -0.00252149 -0.99719413 453.25903961
Axis -0.50346218 -0.86383452 -0.01776950
Axis point 99.15561706 0.00000000 230.65671920
Rotation angle (degrees) 176.22035568
Shift along axis -0.63450745
> select subtract #2
Nothing selected
> lighting soft
> volume #2 level 0.05203
> volume #2 level 0.05123
> tile
2 models tiled
> undo
> lighting soft
> fitmap #1 inMap #2
Fit map cryosparc_P4_J2818_004_volume_map.mrc in map
cryosparc_P4_J2155_008_volume_map_sharp.mrc using 7699 points
correlation = 0.8733, correlation about mean = 0.5266, overlap = 62.47
steps = 60, shift = 0.154, angle = 0.189 degrees
Position of cryosparc_P4_J2818_004_volume_map.mrc (#1) relative to
cryosparc_P4_J2155_008_volume_map_sharp.mrc (#2) coordinates:
Matrix rotation and translation
-0.48950701 0.86888785 0.07359882 129.91063775
0.87106902 0.49113770 -0.00474455 -85.37922390
-0.04026964 0.06178717 -0.99727664 465.27258262
Axis 0.50441544 0.86330273 0.01653672
Axis point 98.79384786 0.00000000 230.96560700
Rotation angle (degrees) 176.21863755
Shift along axis -0.48510267
> fitmap #1 inMap #2
Fit map cryosparc_P4_J2818_004_volume_map.mrc in map
cryosparc_P4_J2155_008_volume_map_sharp.mrc using 7699 points
correlation = 0.8734, correlation about mean = 0.5267, overlap = 62.47
steps = 80, shift = 0.00628, angle = 0.00419 degrees
Position of cryosparc_P4_J2818_004_volume_map.mrc (#1) relative to
cryosparc_P4_J2155_008_volume_map_sharp.mrc (#2) coordinates:
Matrix rotation and translation
-0.48950874 0.86888747 0.07359182 129.91133843
0.87106527 0.49114365 -0.00481701 -85.36244954
-0.04032959 0.06174532 -0.99727681 465.30304426
Axis 0.50441383 0.86330430 0.01650357
Axis point 98.79386840 0.00000000 230.97786856
Rotation angle (degrees) 176.21688345
Shift along axis -0.48553266
> fitmap #1 inMap #2
Fit map cryosparc_P4_J2818_004_volume_map.mrc in map
cryosparc_P4_J2155_008_volume_map_sharp.mrc using 7699 points
correlation = 0.8733, correlation about mean = 0.5265, overlap = 62.47
steps = 120, shift = 0.0102, angle = 0.0101 degrees
Position of cryosparc_P4_J2818_004_volume_map.mrc (#1) relative to
cryosparc_P4_J2155_008_volume_map_sharp.mrc (#2) coordinates:
Matrix rotation and translation
-0.48950835 0.86889804 0.07346948 129.94456874
0.87106314 0.49114616 -0.00494427 -85.32435934
-0.04038032 0.06157630 -0.99728521 465.35640396
Axis 0.50441504 0.86330523 0.01641764
Axis point 98.79477826 0.00000000 231.00097793
Rotation angle (degrees) 176.21926916
Shift along axis -0.47491735
> fitmap #1 inMap #2
Fit map cryosparc_P4_J2818_004_volume_map.mrc in map
cryosparc_P4_J2155_008_volume_map_sharp.mrc using 7699 points
correlation = 0.8734, correlation about mean = 0.5267, overlap = 62.47
steps = 64, shift = 0.0152, angle = 0.00914 degrees
Position of cryosparc_P4_J2818_004_volume_map.mrc (#1) relative to
cryosparc_P4_J2155_008_volume_map_sharp.mrc (#2) coordinates:
Matrix rotation and translation
-0.48951426 0.86889050 0.07351932 129.93557816
0.87106479 0.49114474 -0.00479279 -85.36923918
-0.04027304 0.06169395 -0.99728228 465.31452982
Axis 0.50441292 0.86330498 0.01649564
Axis point 98.79800691 0.00000000 230.98567699
Rotation angle (degrees) 176.22117837
Shift along axis -0.48284174
> volume #1 level 0.06751
> volume #2 level 0.05123
> volume #1 step 2
The cached device pixel ratio value was stale on window expose. Please file a
QTBUG which explains how to reproduce.
> volume #2 step 2
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> volume #1 level 0.06618
> show #!2 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> ui tool show "Side View"
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> hide #!2 models
> show #!2 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> hide #!1 models
> show #!1 models
> show #!2 models
> hide #!1 models
> show #!1 models
> hide #!2 models
> show #!2 models
> hide #!1 models
> show #!1 models
> hide #!2 models
> show #!2 models
> hide #!1 models
> ui tool show "Side View"
> open /Users/jana/Downloads/cryosparc_P4_J2154_006_volume_map_sharp.mrc
Opened cryosparc_P4_J2154_006_volume_map_sharp.mrc as #3, grid size
576,576,576, pixel 0.83, shown at level 0.0108, step 4, values float32
The cached device pixel ratio value was stale on window expose. Please file a
QTBUG which explains how to reproduce.
> volume #3 step 2
> surface dust #2 size 8.3
> surface dust #3 size 8.3
> volume #3 level 0.04239
> color #3 #ff3431ff models
> color #3 #ff6d62ff models
> color #3 #ff9281ff models
> select add #3
3 models selected
> ui mousemode right "rotate selected models"
> view matrix models
> #3,-0.99856,0.048375,-0.02332,451.76,0.050148,0.99532,-0.082638,9.3084,0.019213,-0.083688,-0.99631,490.91
> view matrix models
> #3,0.72285,0.69085,-0.014501,-103.91,0.68776,-0.71728,0.11181,240.54,0.06684,-0.090793,-0.99362,481.11
> select subtract #3
Nothing selected
> hide #!3 models
> hide #!2 models
> show #!3 models
> show #!2 models
> hide #!2 models
> show #!2 models
> fitmap #2 inMap #3
Fit map cryosparc_P4_J2155_008_volume_map_sharp.mrc in map
cryosparc_P4_J2154_006_volume_map_sharp.mrc using 55028 points
correlation = 0.5991, correlation about mean = 0.1146, overlap = 143
steps = 276, shift = 11, angle = 8.61 degrees
Position of cryosparc_P4_J2155_008_volume_map_sharp.mrc (#2) relative to
cryosparc_P4_J2154_006_volume_map_sharp.mrc (#3) coordinates:
Matrix rotation and translation
0.13975348 0.99007986 -0.01452094 -25.06555740
-0.98811789 0.14039394 0.06255079 443.78814909
0.06396893 0.00560671 0.99793615 -10.33369132
Axis -0.02875132 -0.03962988 -0.99880070
Axis point 242.99881270 236.64013045 0.00000000
Rotation angle (degrees) 82.00759754
Shift along axis -6.54530453
> ui mousemode right "translate selected models"
> select add #3
2 models selected
> view matrix models
> #3,0.72285,0.69085,-0.014501,-96.1,0.68776,-0.71728,0.11181,229.01,0.06684,-0.090793,-0.99362,479.15
> view matrix models
> #3,0.72285,0.69085,-0.014501,-99.025,0.68776,-0.71728,0.11181,231.51,0.06684,-0.090793,-0.99362,480.25
> ui mousemode right "rotate selected models"
> view matrix models
> #3,-0.99877,-0.036171,-0.033812,480.1,-0.035011,0.9988,-0.034289,7.4503,0.035011,-0.033063,-0.99884,474.51
> ui mousemode right "translate selected models"
> view matrix models
> #3,-0.99877,-0.036171,-0.033812,501.46,-0.035011,0.9988,-0.034289,32.322,0.035011,-0.033063,-0.99884,475.18
> ui mousemode right "rotate selected models"
> view matrix models
> #3,-0.98462,-0.057501,0.16495,456.23,-0.055471,0.99832,0.016891,24.964,-0.16564,0.0074813,-0.98616,508.14
> fitmap #3 inMap #2
Fit map cryosparc_P4_J2154_006_volume_map_sharp.mrc in map
cryosparc_P4_J2155_008_volume_map_sharp.mrc using 76199 points
correlation = 0.662, correlation about mean = 0.1636, overlap = 220.5
steps = 320, shift = 7.04, angle = 24.9 degrees
Position of cryosparc_P4_J2154_006_volume_map_sharp.mrc (#3) relative to
cryosparc_P4_J2155_008_volume_map_sharp.mrc (#2) coordinates:
Matrix rotation and translation
0.14654941 0.98584263 -0.08147118 -13.25671755
-0.98917852 0.14546449 -0.01912868 444.87738943
-0.00700670 0.08339284 0.99649211 -24.53992326
Axis 0.05180257 -0.03762577 -0.99794829
Axis point 250.63393705 230.79376193 0.00000000
Rotation angle (degrees) 81.70597526
Shift along axis 7.06398662
> select add #3
3 models selected
> select subtract #3
Nothing selected
> ui tool show "Side View"
> hide #!2 models
> show #!2 models
> hide #!3 models
> show #!3 models
> hide #!2 models
> show #!2 models
> hide #!3 models
> show #!3 models
> hide #!2 models
> show #!2 models
> hide #!3 models
> show #!3 models
> hide #!3 models
> show #!3 models
> hide #!2 models
> show #!2 models
> hide #!3 models
> show #!3 models
> hide #!3 models
> show #!3 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> hide #!3 models
> show #!2 models
> show #!1 models
> hide #!2 models
> volume #1 level 0.04026
> show #!2 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!3 models
> hide #!2 models
> open /Users/jana/Downloads/cryosparc_P4_J3596_map.mrc
Opened cryosparc_P4_J3596_map.mrc as #4, grid size 576,576,576, pixel 0.83,
shown at level 0.00812, step 4, values float32
> open /Users/jana/Downloads/cryosparc_P4_J2155_008_volume_map.mrc
Opened cryosparc_P4_J2155_008_volume_map.mrc as #5, grid size 576,576,576,
pixel 0.83, shown at level 0.00748, step 4, values float32
> close #3
> close #2
> hide #!5 models
> show #!5 models
The cached device pixel ratio value was stale on window expose. Please file a
QTBUG which explains how to reproduce.
> volume #4 step 2
The cached device pixel ratio value was stale on window expose. Please file a
QTBUG which explains how to reproduce.
> volume #5 step 2
> surface dust #4 size 8.3
> surface dust #5 size 8.3
> select add #5
2 models selected
> ui mousemode right "rotate selected models"
> view matrix models
> #5,-0.72868,0.67499,0.11581,234.72,0.63477,0.72914,-0.25578,-35.676,-0.25709,-0.11287,-0.95977,503.21
> ui mousemode right "translate selected models"
> view matrix models
> #5,-0.72868,0.67499,0.11581,235.41,0.63477,0.72914,-0.25578,-38.202,-0.25709,-0.11287,-0.95977,544.69
> view matrix models
> #5,-0.72868,0.67499,0.11581,234.91,0.63477,0.72914,-0.25578,-38.493,-0.25709,-0.11287,-0.95977,549.22
> fitmap #5 inMap #4
Fit map cryosparc_P4_J2155_008_volume_map.mrc in map
cryosparc_P4_J3596_map.mrc using 238785 points
correlation = 0.951, correlation about mean = 0.8604, overlap = 362.9
steps = 236, shift = 13.9, angle = 23.3 degrees
Position of cryosparc_P4_J2155_008_volume_map.mrc (#5) relative to
cryosparc_P4_J3596_map.mrc (#4) coordinates:
Matrix rotation and translation
-0.46808143 0.88367442 0.00439293 138.79973646
0.88078966 0.46694395 -0.07856796 -66.00022371
-0.07147975 -0.03290696 -0.99689908 495.26036448
Axis 0.51536278 0.85635337 -0.03255946
Axis point 95.66742830 0.00000000 244.57212538
Rotation angle (degrees) 177.46097372
Shift along axis -1.11270731
> select subtract #5
Nothing selected
> volume #4 level 0.01827
> volume #5 level 0.01515
> volume #4 level 0.01972
> volume #5 level 0.01917
> lighting soft
> color #5 #a08affff models
> color #5 #acb3ffff models
> color #5 #928effff models
> color #4 #54ff52ff models
> color #4 #beff89ff models
> color #4 #ffa194ff models
> color #5 #ffa69cff models
> color #5 #7b91ffff models
> color #5 #7df5ffff models
> color #5 #7fff91ff models
> color #5 #787bffff models
> volume #5 level 0.01954
> lighting soft
> lighting simple
> lighting soft
> lighting simple
> lighting soft
> hide #!4 models
> show #!4 models
> hide #!4 models
> show #!4 models
> hide #!4 models
> show #!4 models
> hide #!4 models
> show #!4 models
> hide #!4 models
> show #!4 models
> hide #!4 models
> show #!4 models
> hide #!4 models
> show #!4 models
> hide #!4 models
> show #!4 models
> hide #!4 models
> show #!4 models
> volume #4 level 0.02806
> volume #5 level 0.03343
> hide #!4 models
> show #!4 models
> hide #!4 models
> show #!4 models
> hide #!4 models
> show #!4 models
> show #!1 models
> hide #!1 models
> hide #!4 models
> show #!4 models
> hide #!4 models
> show #!4 models
> hide #!4 models
> show #!4 models
> hide #!4 models
> show #!4 models
> hide #!4 models
> show #!4 models
> hide #!4 models
> show #!4 models
> hide #!4 models
> show #!4 models
> hide #!5 models
> color #4 #ff9184ff models
> color #4 #ff7e67ff models
> color #4 #ffbd7eff models
> color #4 #ffccabff models
> color #4 #ff9379ff models
> color #4 #ff4c48ff models
> color #4 #ff6478ff models
> color #4 #ffa885ff models
> color #4 #ffa46fff models
> color #4 #ff855fff models
> color #4 #ff7b5fff models
> show #!5 models
> hide #!5 models
> show #!5 models
> hide #!5 models
> show #!5 models
> hide #!4 models
> show #!4 models
> hide #!4 models
> show #!4 models
> hide #!4 models
> show #!4 models
> hide #!4 models
> show #!4 models
> hide #!4 models
> show #!4 models
> hide #!4 models
> show #!4 models
> hide #!5 models
> show #!5 models
> hide #!5 models
> show #!5 models
> hide #!5 models
> show #!5 models
> hide #!5 models
> show #!5 models
> hide #!5 models
> show #!5 models
> hide #!5 models
> show #!5 models
> hide #!5 models
> show #!5 models
> hide #!5 models
> show #!5 models
> hide #!4 models
> hide #!5 models
> show #!1 models
> show #!4 models
> hide #!4 models
> show #!5 models
> hide #!1 models
> show #!1 models
> color #1 #6dcb7cff models
> color #1 #52895eff models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> volume #5 step 4
> volume #1 step 4
> show #!1 models
> hide #!5 models
> show #!5 models
> hide #!5 models
> show #!5 models
> color #5 #ff7e75ff models
> color #5 #85423dff models
> color #5 #855e4eff models
> color #5 #85413bff models
> color #5 #853c49ff models
> hide #!1 models
> show #!1 models
> hide #!5 models
> show #!5 models
> hide #!5 models
> show #!5 models
> hide #!5 models
> show #!5 models
> hide #!5 models
> show #!5 models
> hide #!5 models
> show #!5 models
> hide #!5 models
> show #!5 models
> hide #!5 models
> show #!5 models
> hide #!5 models
> show #!5 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> fitmap #1 inMap #5
Fit map cryosparc_P4_J2818_004_volume_map.mrc in map
cryosparc_P4_J2155_008_volume_map.mrc using 10411 points
correlation = 0.8817, correlation about mean = 0.4922, overlap = 53.71
steps = 172, shift = 2.42, angle = 8.13 degrees
Position of cryosparc_P4_J2818_004_volume_map.mrc (#1) relative to
cryosparc_P4_J2155_008_volume_map.mrc (#5) coordinates:
Matrix rotation and translation
-0.49085214 0.86816992 0.07311069 130.55837617
0.87040375 0.49233189 -0.00257414 -86.10859607
-0.03822952 0.06237230 -0.99732051 464.56907393
Axis 0.50378370 0.86365603 0.01732763
Axis point 99.07085090 0.00000000 230.70463048
Rotation angle (degrees) 176.30422872
Shift along axis -0.54514576
> fitmap #1 inMap #5
Fit map cryosparc_P4_J2818_004_volume_map.mrc in map
cryosparc_P4_J2155_008_volume_map.mrc using 10411 points
correlation = 0.8817, correlation about mean = 0.4923, overlap = 53.71
steps = 40, shift = 0.00715, angle = 0.0055 degrees
Position of cryosparc_P4_J2818_004_volume_map.mrc (#1) relative to
cryosparc_P4_J2155_008_volume_map.mrc (#5) coordinates:
Matrix rotation and translation
-0.49085372 0.86816504 0.07315796 130.54449091
0.87040502 0.49233007 -0.00249060 -86.13405474
-0.03818012 0.06245454 -0.99731725 464.53601410
Axis 0.50378294 0.86365550 0.01737568
Axis point 99.07053991 0.00000000 230.69098728
Rotation angle (degrees) 176.30429745
Shift along axis -0.55243484
> fitmap #1 inMap #5
Fit map cryosparc_P4_J2818_004_volume_map.mrc in map
cryosparc_P4_J2155_008_volume_map.mrc using 10411 points
correlation = 0.8817, correlation about mean = 0.4922, overlap = 53.71
steps = 40, shift = 0.0104, angle = 0.00696 degrees
Position of cryosparc_P4_J2818_004_volume_map.mrc (#1) relative to
cryosparc_P4_J2155_008_volume_map.mrc (#5) coordinates:
Matrix rotation and translation
-0.49085244 0.86817362 0.07306470 130.57239932
0.87040480 0.49233006 -0.00256822 -86.10923451
-0.03820161 0.06233524 -0.99732389 464.56987678
Axis 0.50378458 0.86365570 0.01731859
Axis point 99.07235028 0.00000000 230.70597314
Rotation angle (degrees) 176.30668399
Shift along axis -0.54267593
> fitmap #1 inMap #5
Fit map cryosparc_P4_J2818_004_volume_map.mrc in map
cryosparc_P4_J2155_008_volume_map.mrc using 10411 points
correlation = 0.8817, correlation about mean = 0.4922, overlap = 53.71
steps = 48, shift = 0.00907, angle = 0.00536 degrees
Position of cryosparc_P4_J2818_004_volume_map.mrc (#1) relative to
cryosparc_P4_J2155_008_volume_map.mrc (#5) coordinates:
Matrix rotation and translation
-0.49085454 0.86817286 0.07305958 130.56767852
0.87040729 0.49232614 -0.00247496 -86.13488095
-0.03811784 0.06237675 -0.99732451 464.53519403
Axis 0.50378476 0.86365481 0.01735763
Axis point 99.06993673 0.00000000 230.69280989
Rotation angle (degrees) 176.30963471
Shift along axis -0.54956901
> fitmap #1 inMap #5
Fit map cryosparc_P4_J2818_004_volume_map.mrc in map
cryosparc_P4_J2155_008_volume_map.mrc using 10411 points
correlation = 0.8817, correlation about mean = 0.4923, overlap = 53.71
steps = 48, shift = 0.0153, angle = 0.0159 degrees
Position of cryosparc_P4_J2818_004_volume_map.mrc (#1) relative to
cryosparc_P4_J2155_008_volume_map.mrc (#5) coordinates:
Matrix rotation and translation
-0.49085660 0.86815250 0.07328738 130.51107131
0.87040716 0.49232713 -0.00231866 -86.18356918
-0.03809432 0.06265174 -0.99730817 464.46659943
Axis 0.50378091 0.86365453 0.01748267
Axis point 99.07033192 0.00000000 230.66167099
Rotation angle (degrees) 176.30284335
Shift along axis -0.56372555
> fitmap #1 inMap #5
Fit map cryosparc_P4_J2818_004_volume_map.mrc in map
cryosparc_P4_J2155_008_volume_map.mrc using 10411 points
correlation = 0.8817, correlation about mean = 0.4923, overlap = 53.71
steps = 44, shift = 0.00782, angle = 0.00595 degrees
Position of cryosparc_P4_J2818_004_volume_map.mrc (#1) relative to
cryosparc_P4_J2155_008_volume_map.mrc (#5) coordinates:
Matrix rotation and translation
-0.49085431 0.86815600 0.07326124 130.51710489
0.87040518 0.49233014 -0.00241907 -86.15386258
-0.03816885 0.06257955 -0.99730985 464.49733026
Axis 0.50378138 0.86365527 0.01743266
Axis point 99.06902145 0.00000000 230.67312443
Rotation angle (degrees) 176.30123822
Shift along axis -0.55772672
> fitmap #1 inMap #5
Fit map cryosparc_P4_J2818_004_volume_map.mrc in map
cryosparc_P4_J2155_008_volume_map.mrc using 10411 points
correlation = 0.8817, correlation about mean = 0.4922, overlap = 53.71
steps = 44, shift = 0.0142, angle = 0.0124 degrees
Position of cryosparc_P4_J2818_004_volume_map.mrc (#1) relative to
cryosparc_P4_J2155_008_volume_map.mrc (#5) coordinates:
Matrix rotation and translation
-0.49084954 0.86816776 0.07315369 130.54578760
0.87040304 0.49233296 -0.00260649 -86.09748589
-0.03827885 0.06239380 -0.99731727 464.57249850
Axis 0.50378371 0.86365608 0.01732451
Axis point 99.06858759 0.00000000 230.70429863
Rotation angle (degrees) 176.30116020
Shift along axis -0.54328383
> fitmap #1 inMap #5
Fit map cryosparc_P4_J2818_004_volume_map.mrc in map
cryosparc_P4_J2155_008_volume_map.mrc using 10411 points
correlation = 0.8817, correlation about mean = 0.4923, overlap = 53.71
steps = 40, shift = 0.00985, angle = 0.00513 degrees
Position of cryosparc_P4_J2818_004_volume_map.mrc (#1) relative to
cryosparc_P4_J2155_008_volume_map.mrc (#5) coordinates:
Matrix rotation and translation
-0.49085156 0.86816874 0.07312851 130.54911960
0.87040573 0.49232866 -0.00252077 -86.12436209
-0.03819172 0.06241415 -0.99731934 464.55370406
Axis 0.50378427 0.86365514 0.01735523
Axis point 99.06904595 0.00000000 230.69903599
Rotation angle (degrees) 176.30488951
Shift along axis -0.55071976
> fitmap #1 inMap #5
Fit map cryosparc_P4_J2818_004_volume_map.mrc in map
cryosparc_P4_J2155_008_volume_map.mrc using 10411 points
correlation = 0.8817, correlation about mean = 0.4923, overlap = 53.71
steps = 44, shift = 0.00597, angle = 0.0064 degrees
Position of cryosparc_P4_J2818_004_volume_map.mrc (#1) relative to
cryosparc_P4_J2155_008_volume_map.mrc (#5) coordinates:
Matrix rotation and translation
-0.49085343 0.86816195 0.07319657 130.53600242
0.87040657 0.49232761 -0.00243239 -86.15075425
-0.03814840 0.06251683 -0.99731457 464.51991593
Axis 0.50378299 0.86365477 0.01741061
Axis point 99.07144353 0.00000000 230.68482684
Rotation angle (degrees) 176.30406512
Shift along axis -0.55511656
> fitmap #1 inMap #5
Fit map cryosparc_P4_J2818_004_volume_map.mrc in map
cryosparc_P4_J2155_008_volume_map.mrc using 10411 points
correlation = 0.8817, correlation about mean = 0.4922, overlap = 53.71
steps = 48, shift = 0.0179, angle = 0.0115 degrees
Position of cryosparc_P4_J2818_004_volume_map.mrc (#1) relative to
cryosparc_P4_J2155_008_volume_map.mrc (#5) coordinates:
Matrix rotation and translation
-0.49085480 0.86817692 0.07300948 130.58597041
0.87040705 0.49232640 -0.00250560 -86.12822824
-0.03811980 0.06231808 -0.99732810 464.54908037
Axis 0.50378530 0.86365502 0.01733173
Axis point 99.07365743 0.00000000 230.69914403
Rotation angle (degrees) 176.31123564
Shift along axis -0.54634439
> fitmap #1 inMap #5
Fit map cryosparc_P4_J2818_004_volume_map.mrc in map
cryosparc_P4_J2155_008_volume_map.mrc using 10411 points
correlation = 0.8817, correlation about mean = 0.4922, overlap = 53.71
steps = 64, shift = 0.0128, angle = 0.00737 degrees
Position of cryosparc_P4_J2818_004_volume_map.mrc (#1) relative to
cryosparc_P4_J2155_008_volume_map.mrc (#5) coordinates:
Matrix rotation and translation
-0.49084997 0.86817282 0.07309071 130.56330272
0.87040423 0.49233088 -0.00260491 -86.09931796
-0.03824632 0.06233984 -0.99732189 464.58371088
Axis 0.50378482 0.86365574 0.01730931
Axis point 99.07070187 0.00000000 230.71094225
Rotation angle (degrees) 176.30433326
Shift along axis -0.54273544
> fitmap #1 inMap #5
Fit map cryosparc_P4_J2818_004_volume_map.mrc in map
cryosparc_P4_J2155_008_volume_map.mrc using 10411 points
correlation = 0.8817, correlation about mean = 0.4923, overlap = 53.71
steps = 40, shift = 0.0104, angle = 0.00768 degrees
Position of cryosparc_P4_J2818_004_volume_map.mrc (#1) relative to
cryosparc_P4_J2155_008_volume_map.mrc (#5) coordinates:
Matrix rotation and translation
-0.49085441 0.86816930 0.07310272 130.55850996
0.87040656 0.49232744 -0.00247154 -86.13735907
-0.03813620 0.06241592 -0.99732135 464.53195203
Axis 0.50378398 0.86365502 0.01736999
Axis point 99.07076855 0.00000000 230.69063826
Rotation angle (degrees) 176.30759139
Shift along axis -0.55076335
> volume #4 step 4
===== Log before crash end =====
Log:
Startup Messages
---
note | available bundle cache has not been initialized yet
UCSF ChimeraX version: 1.8 (2024-06-10)
© 2016-2024 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
OpenGL version: 4.1 Metal - 88.1
OpenGL renderer: Apple M1 Pro
OpenGL vendor: Apple
Python: 3.11.4
Locale: UTF-8
Qt version: PyQt6 6.6.1, Qt 6.6.1
Qt runtime version: 6.6.3
Qt platform: cocoa
Hardware:
Hardware Overview:
Model Name: MacBook Pro
Model Identifier: MacBookPro18,1
Model Number: MK193SM/A
Chip: Unknown
Total Number of Cores: 10 (8 performance and 2 efficiency)
Memory: 16 GB
System Firmware Version: 10151.121.1
OS Loader Version: 10151.121.1
Software:
System Software Overview:
System Version: macOS 14.5 (23F79)
Kernel Version: Darwin 23.5.0
Time since boot: 8 days, 20 hours, 11 minutes
Graphics/Displays:
Apple M1 Pro:
Chipset Model: Apple M1 Pro
Type: GPU
Bus: Built-In
Total Number of Cores: 16
Vendor: Apple (0x106b)
Metal Support: Metal 3
Displays:
Color LCD:
Display Type: Built-in Liquid Retina XDR Display
Resolution: 3456 x 2234 Retina
Main Display: Yes
Mirror: Off
Online: Yes
Automatically Adjust Brightness: Yes
Connection Type: Internal
SyncMaster:
Resolution: 1920 x 1200 (WUXGA - Widescreen Ultra eXtended Graphics Array)
UI Looks like: 1920 x 1200 @ 60.00Hz
Mirror: Off
Online: Yes
Installed Packages:
alabaster: 0.7.16
appdirs: 1.4.4
appnope: 0.1.4
asttokens: 2.4.1
Babel: 2.15.0
beautifulsoup4: 4.12.3
blockdiag: 3.0.0
blosc2: 2.0.0
build: 1.2.1
certifi: 2023.11.17
cftime: 1.6.4
charset-normalizer: 3.3.2
ChimeraX-AddCharge: 1.5.17
ChimeraX-AddH: 2.2.6
ChimeraX-AlignmentAlgorithms: 2.0.2
ChimeraX-AlignmentHdrs: 3.5
ChimeraX-AlignmentMatrices: 2.1
ChimeraX-Alignments: 2.12.7
ChimeraX-AlphaFold: 1.0
ChimeraX-AltlocExplorer: 1.1.1
ChimeraX-AmberInfo: 1.0
ChimeraX-Arrays: 1.1
ChimeraX-Atomic: 1.57.1
ChimeraX-AtomicLibrary: 14.0.6
ChimeraX-AtomSearch: 2.0.1
ChimeraX-AxesPlanes: 2.4
ChimeraX-BasicActions: 1.1.2
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 2.4.6
ChimeraX-BondRot: 2.0.4
ChimeraX-BugReporter: 1.0.1
ChimeraX-BuildStructure: 2.12.1
ChimeraX-Bumps: 1.0
ChimeraX-BundleBuilder: 1.2.7
ChimeraX-ButtonPanel: 1.0.1
ChimeraX-CageBuilder: 1.0.1
ChimeraX-CellPack: 1.0
ChimeraX-Centroids: 1.4
ChimeraX-ChangeChains: 1.1
ChimeraX-CheckWaters: 1.4
ChimeraX-ChemGroup: 2.0.1
ChimeraX-Clashes: 2.2.4
ChimeraX-ColorActions: 1.0.5
ChimeraX-ColorGlobe: 1.0
ChimeraX-ColorKey: 1.5.6
ChimeraX-CommandLine: 1.2.5
ChimeraX-ConnectStructure: 2.0.1
ChimeraX-Contacts: 1.0.1
ChimeraX-Core: 1.8
ChimeraX-CoreFormats: 1.2
ChimeraX-coulombic: 1.4.3
ChimeraX-Crosslinks: 1.0
ChimeraX-Crystal: 1.0
ChimeraX-CrystalContacts: 1.0.1
ChimeraX-DataFormats: 1.2.3
ChimeraX-Dicom: 1.2.4
ChimeraX-DiffPlot: 1.0
ChimeraX-DistMonitor: 1.4.2
ChimeraX-DockPrep: 1.1.3
ChimeraX-Dssp: 2.0
ChimeraX-EMDB-SFF: 1.0
ChimeraX-ESMFold: 1.0
ChimeraX-FileHistory: 1.0.1
ChimeraX-FunctionKey: 1.0.1
ChimeraX-Geometry: 1.3
ChimeraX-gltf: 1.0
ChimeraX-Graphics: 1.1.1
ChimeraX-Hbonds: 2.4
ChimeraX-Help: 1.2.2
ChimeraX-HKCage: 1.3
ChimeraX-IHM: 1.1
ChimeraX-ImageFormats: 1.2
ChimeraX-IMOD: 1.0
ChimeraX-IO: 1.0.1
ChimeraX-ItemsInspection: 1.0.1
ChimeraX-IUPAC: 1.0
ChimeraX-Label: 1.1.10
ChimeraX-ListInfo: 1.2.2
ChimeraX-Log: 1.1.6
ChimeraX-LookingGlass: 1.1
ChimeraX-Maestro: 1.9.1
ChimeraX-Map: 1.2
ChimeraX-MapData: 2.0
ChimeraX-MapEraser: 1.0.1
ChimeraX-MapFilter: 2.0.1
ChimeraX-MapFit: 2.0
ChimeraX-MapSeries: 2.1.1
ChimeraX-Markers: 1.0.1
ChimeraX-Mask: 1.0.2
ChimeraX-MatchMaker: 2.1.3
ChimeraX-MCopy: 1.0
ChimeraX-MDcrds: 2.7.1
ChimeraX-MedicalToolbar: 1.0.3
ChimeraX-Meeting: 1.0.1
ChimeraX-MLP: 1.1.1
ChimeraX-mmCIF: 2.14.1
ChimeraX-MMTF: 2.2
ChimeraX-Modeller: 1.5.17
ChimeraX-ModelPanel: 1.5
ChimeraX-ModelSeries: 1.0.1
ChimeraX-Mol2: 2.0.3
ChimeraX-Mole: 1.0
ChimeraX-Morph: 1.0.2
ChimeraX-MouseModes: 1.2
ChimeraX-Movie: 1.0
ChimeraX-Neuron: 1.0
ChimeraX-Nifti: 1.2
ChimeraX-NMRSTAR: 1.0.2
ChimeraX-NRRD: 1.2
ChimeraX-Nucleotides: 2.0.3
ChimeraX-OpenCommand: 1.13.5
ChimeraX-PDB: 2.7.5
ChimeraX-PDBBio: 1.0.1
ChimeraX-PDBLibrary: 1.0.4
ChimeraX-PDBMatrices: 1.0
ChimeraX-PhenixUI: 1.3.5
ChimeraX-PickBlobs: 1.0.1
ChimeraX-Positions: 1.0
ChimeraX-PresetMgr: 1.1.1
ChimeraX-PubChem: 2.2
ChimeraX-ReadPbonds: 1.0.1
ChimeraX-Registration: 1.1.2
ChimeraX-RemoteControl: 1.0
ChimeraX-RenderByAttr: 1.4.1
ChimeraX-RenumberResidues: 1.1
ChimeraX-ResidueFit: 1.0.1
ChimeraX-RestServer: 1.2
ChimeraX-RNALayout: 1.0
ChimeraX-RotamerLibMgr: 4.0
ChimeraX-RotamerLibsDunbrack: 2.0
ChimeraX-RotamerLibsDynameomics: 2.0
ChimeraX-RotamerLibsRichardson: 2.0
ChimeraX-SaveCommand: 1.5.1
ChimeraX-SchemeMgr: 1.0
ChimeraX-SDF: 2.0.2
ChimeraX-Segger: 1.0
ChimeraX-Segment: 1.0.1
ChimeraX-Segmentations: 3.0.15
ChimeraX-SelInspector: 1.0
ChimeraX-SeqView: 2.11.2
ChimeraX-Shape: 1.0.1
ChimeraX-Shell: 1.0.1
ChimeraX-Shortcuts: 1.1.1
ChimeraX-ShowSequences: 1.0.3
ChimeraX-SideView: 1.0.1
ChimeraX-Smiles: 2.1.2
ChimeraX-SmoothLines: 1.0
ChimeraX-SpaceNavigator: 1.0
ChimeraX-StdCommands: 1.16.5
ChimeraX-STL: 1.0.1
ChimeraX-Storm: 1.0
ChimeraX-StructMeasure: 1.2.1
ChimeraX-Struts: 1.0.1
ChimeraX-Surface: 1.0.1
ChimeraX-SwapAA: 2.0.1
ChimeraX-SwapRes: 2.5
ChimeraX-TapeMeasure: 1.0
ChimeraX-TaskManager: 1.0
ChimeraX-Test: 1.0
ChimeraX-Toolbar: 1.1.2
ChimeraX-ToolshedUtils: 1.2.4
ChimeraX-Topography: 1.0
ChimeraX-ToQuest: 1.0
ChimeraX-Tug: 1.0.1
ChimeraX-UI: 1.39.1
ChimeraX-uniprot: 2.3
ChimeraX-UnitCell: 1.0.1
ChimeraX-ViewDockX: 1.4.3
ChimeraX-VIPERdb: 1.0
ChimeraX-Vive: 1.1
ChimeraX-VolumeMenu: 1.0.1
ChimeraX-vrml: 1.0
ChimeraX-VTK: 1.0
ChimeraX-WavefrontOBJ: 1.0
ChimeraX-WebCam: 1.0.2
ChimeraX-WebServices: 1.1.4
ChimeraX-Zone: 1.0.1
colorama: 0.4.6
comm: 0.2.2
contourpy: 1.2.1
cxservices: 1.2.2
cycler: 0.12.1
Cython: 3.0.10
debugpy: 1.8.1
decorator: 5.1.1
docutils: 0.20.1
executing: 2.0.1
filelock: 3.13.4
fonttools: 4.53.0
funcparserlib: 2.0.0a0
glfw: 2.7.0
grako: 3.16.5
h5py: 3.11.0
html2text: 2024.2.26
idna: 3.7
ihm: 1.0
imagecodecs: 2024.1.1
imagesize: 1.4.1
ipykernel: 6.29.2
ipython: 8.21.0
ipywidgets: 8.1.3
jedi: 0.19.1
jinja2: 3.1.4
jupyter-client: 8.6.0
jupyter-core: 5.7.2
jupyterlab-widgets: 3.0.11
kiwisolver: 1.4.5
line-profiler: 4.1.2
lxml: 5.2.1
lz4: 4.3.3
MarkupSafe: 2.1.5
matplotlib: 3.8.4
matplotlib-inline: 0.1.7
msgpack: 1.0.8
nest-asyncio: 1.6.0
netCDF4: 1.6.5
networkx: 3.3
nibabel: 5.2.0
nptyping: 2.5.0
numexpr: 2.10.0
numpy: 1.26.4
openvr: 1.26.701
packaging: 23.2
ParmEd: 4.2.2
parso: 0.8.4
pep517: 0.13.1
pexpect: 4.9.0
pillow: 10.3.0
pip: 24.0
pkginfo: 1.10.0
platformdirs: 4.2.2
prompt-toolkit: 3.0.47
psutil: 5.9.8
ptyprocess: 0.7.0
pure-eval: 0.2.2
py-cpuinfo: 9.0.0
pycollada: 0.8
pydicom: 2.4.4
pygments: 2.17.2
pynmrstar: 3.3.4
pynrrd: 1.0.0
PyOpenGL: 3.1.7
PyOpenGL-accelerate: 3.1.7
pyopenxr: 1.0.3401
pyparsing: 3.1.2
pyproject-hooks: 1.1.0
PyQt6-commercial: 6.6.1
PyQt6-Qt6: 6.6.3
PyQt6-sip: 13.6.0
PyQt6-WebEngine-commercial: 6.6.0
PyQt6-WebEngine-Qt6: 6.6.3
python-dateutil: 2.9.0.post0
pytz: 2024.1
pyzmq: 26.0.3
qtconsole: 5.5.1
QtPy: 2.4.1
RandomWords: 0.4.0
requests: 2.31.0
scipy: 1.13.0
setuptools: 69.5.1
setuptools-scm: 8.0.4
sfftk-rw: 0.8.1
six: 1.16.0
snowballstemmer: 2.2.0
sortedcontainers: 2.4.0
soupsieve: 2.5
sphinx: 7.2.6
sphinx-autodoc-typehints: 2.0.1
sphinxcontrib-applehelp: 1.0.8
sphinxcontrib-blockdiag: 3.0.0
sphinxcontrib-devhelp: 1.0.6
sphinxcontrib-htmlhelp: 2.0.5
sphinxcontrib-jsmath: 1.0.1
sphinxcontrib-qthelp: 1.0.7
sphinxcontrib-serializinghtml: 1.1.10
stack-data: 0.6.3
superqt: 0.6.3
tables: 3.8.0
tcia-utils: 1.5.1
tifffile: 2024.1.30
tinyarray: 1.2.4
tornado: 6.4.1
traitlets: 5.14.2
typing-extensions: 4.12.2
tzdata: 2024.1
urllib3: 2.2.1
wcwidth: 0.2.13
webcolors: 1.13
wheel: 0.43.0
wheel-filename: 1.4.1
widgetsnbextension: 4.0.11
Change History (2)
comment:1 by , 14 months ago
| Component: | Unassigned → Window Toolkit |
|---|---|
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → assigned |
| Summary: | ChimeraX bug report submission → Crash on Mac waking from sleep |
comment:2 by , 14 months ago
| Resolution: | → duplicate |
|---|---|
| Status: | assigned → closed |
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Crash in Mac Qt 6.6 in _NSViewHierarchyDidChangeBackingProperties. Probably connecting or disconnecting a display or waking from sleep.