id	summary	reporter	owner	description	type	status	priority	milestone	component	version	resolution	keywords	cc	blockedby	blocking	notify_on_close	platform	project
17220	Crash on Mac waking from sleep	chimerax-bug-report@…	Tom Goddard	"{{{
The following bug report has been submitted:
Platform:        macOS-15.3.2-arm64-arm-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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    ""size"" : 5197824,
    ""uuid"" : ""190e6a36-fcaa-3ea3-94bb-7009c44653da"",
    ""path"" : ""\/System\/Library\/Frameworks\/CoreFoundation.framework\/Versions\/A\/CoreFoundation"",
    ""name"" : ""CoreFoundation"",
    ""CFBundleVersion"" : ""3302.1.400""
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    ""name"" : ""HIToolbox""
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    ""arch"" : ""arm64e"",
    ""base"" : 6841180160,
    ""size"" : 532288,
    ""uuid"" : ""398a133c-9bcb-317f-a064-a40d3cea3c0f"",
    ""path"" : ""\/usr\/lib\/dyld"",
    ""name"" : ""dyld""
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    ""size"" : 0,
    ""source"" : ""A"",
    ""base"" : 0,
    ""uuid"" : ""00000000-0000-0000-0000-000000000000""
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  {
    ""source"" : ""P"",
    ""arch"" : ""arm64e"",
    ""base"" : 6844846080,
    ""size"" : 53248,
    ""uuid"" : ""642faf7a-874e-37e6-8aba-2b0cc09a3025"",
    ""path"" : ""\/usr\/lib\/system\/libsystem_pthread.dylib"",
    ""name"" : ""libsystem_pthread.dylib""
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    ""uuid"" : ""eee9d0d3-dffc-37cb-9ced-b27cd0286d8c"",
    ""path"" : ""\/usr\/lib\/system\/libsystem_kernel.dylib"",
    ""name"" : ""libsystem_kernel.dylib""
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    ""arch"" : ""arm64e"",
    ""base"" : 6843912192,
    ""size"" : 581628,
    ""uuid"" : ""bbab286c-2e51-3d64-9ae3-a4102935fe32"",
    ""path"" : ""\/usr\/lib\/libc++.1.dylib"",
    ""name"" : ""libc++.1.dylib""
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],
  ""sharedCache"" : {
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  ""uuid"" : ""5700d77a-6190-36e0-884d-fee6d586d62f""
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  ""vmSummary"" : ""ReadOnly portion of Libraries: Total=1.9G resident=0K(0%) swapped_out_or_unallocated=1.9G(100%)\nWritable regions: Total=3.9G written=2136K(0%) resident=2136K(0%) swapped_out=0K(0%) unallocated=3.9G(100%)\n\n                                VIRTUAL   REGION \nREGION TYPE                        SIZE    COUNT (non-coalesced) \n===========                     =======  ======= \nAccelerate framework               256K        2 \nActivity Tracing                   256K        1 \nCG image                           416K       17 \nColorSync                          656K       33 \nCoreAnimation                     1568K       98 \nCoreGraphics                        80K        5 \nCoreUI image data                 5552K       53 \nFoundation                          32K        2 \nKernel Alloc Once                   32K        1 \nMALLOC                             3.1G      139 \nMALLOC guard page                  288K       18 \nMach message                        64K        3 \nOpenGL GLSL                        384K        4 \nSTACK GUARD                       56.8M       51 \nStack                            169.3M       51 \nVM_ALLOCATE                      268.2M      274 \nVM_ALLOCATE (reserved)           256.0M        3         reserved VM address space (unallocated)\n__AUTH                            5283K      670 \n__AUTH_CONST                      70.8M      918 \n__CTF                               824        1 \n__DATA                            33.2M     1054 \n__DATA_CONST                      34.0M     1071 \n__DATA_DIRTY                      2763K      342 \n__FONT_DATA                        2352        1 \n__GLSLBUILTINS                    5174K        1 \n__INFO_FILTER                         8        1 \n__LINKEDIT                       635.9M      147 \n__OBJC_RW                         2374K        1 \n__TEXT                             1.2G     1091 \n__TPRO_CONST                       272K        2 \ndyld private memory                 32K        2 \nmapped file                      238.8M       55 \nowned unmapped memory            100.0M        1 \npage table in kernel              2136K        1 \nshared memory                     3152K       22 \n===========                     =======  ======= \nTOTAL                              6.2G     6136 \nTOTAL, minus reserved VM space     5.9G     6136 \n"",
  ""legacyInfo"" : {
  ""threadTriggered"" : {
    ""name"" : ""CrBrowserMain"",
    ""queue"" : ""com.apple.main-thread""
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},
  ""logWritingSignature"" : ""b6278355c6ee8cf30d72a567c34b5da438889a02"",
  ""trialInfo"" : {
  ""rollouts"" : [
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}
}
===== 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/noah/Downloads/cryosparc_P252_J1122_003_volume_map.mrc

Opened cryosparc_P252_J1122_003_volume_map.mrc as #1, grid size 128,128,128,
pixel 3.64, shown at level 0.871, step 1, values float32  

> volume #1 level 0.4589

> ui tool show ""Side View""

> open emdb:52229

Summary of feedback from opening 52229 fetched from emdb  
---  
note | Fetching map header 52229 from ftp://ftp.ebi.ac.uk/pub/databases/emdb/structures/EMD-52229/header/emd-52229.xml  
  
Opened emdb 52229 as #2, grid size 256,256,256, pixel 1.9, shown at level
0.65, step 1, values float32  

> hide #!1 models

> show #!1 models

> select add #1

2 models selected  

> close #1

> open /Users/noah/Downloads/cryosparc_P252_J1122_003_volume_map.mrc

Opened cryosparc_P252_J1122_003_volume_map.mrc as #1, grid size 128,128,128,
pixel 3.64, shown at level 0.871, step 1, values float32  

> select add #1

2 models selected  

> ui mousemode right ""rotate selected models""

> view matrix models
> #1,0.99946,0.026595,-0.019206,-2.2899,0.029656,-0.48223,0.87554,165.02,0.014023,-0.87564,-0.48276,481.27

> view matrix models
> #1,0.97922,0.02314,-0.20145,38.069,-0.021473,-0.97605,-0.21649,499.05,-0.20164,0.21632,-0.95527,371.39

> view matrix models
> #1,0.99924,0.0029678,0.038967,-7.9653,0.011331,-0.97628,-0.21621,491.48,0.037401,0.21649,-0.97557,320.08

> view matrix models
> #1,0.99873,-0.036698,0.034654,2.0647,-0.036054,-0.99917,-0.019025,469.9,0.035323,0.017752,-0.99922,370.61

> ui mousemode right ""translate selected models""

> view matrix models
> #1,0.99873,-0.036698,0.034654,7.0152,-0.036054,-0.99917,-0.019025,480.55,0.035323,0.017752,-0.99922,448.33

> fitmap #2 inMap #1

Fit map emdb 52229 in map cryosparc_P252_J1122_003_volume_map.mrc using 43251
points  
correlation = 0.9112, correlation about mean = -0.03618, overlap = 3.421e+04  
steps = 116, shift = 46.1, angle = 8.04 degrees  
  
Position of emdb 52229 (#2) relative to
cryosparc_P252_J1122_003_volume_map.mrc (#1) coordinates:  
Matrix rotation and translation  
0.98520480 -0.17124008 0.00695216 29.80088580  
-0.17120543 -0.98522104 -0.00531047 518.61873053  
0.00775878 0.00404166 -0.99996173 502.07212680  
Axis 0.99629431 -0.08593027 0.00369144  
Axis point 0.00000000 260.00316208 251.59033255  
Rotation angle (degrees) 179.73108364  
Shift along axis -13.02122646  
  

> select subtract #1

Nothing selected  

> volume #2 level 0.3072

> fitmap #2 inMap #1

Fit map emdb 52229 in map cryosparc_P252_J1122_003_volume_map.mrc using 457150
points  
correlation = 0.7256, correlation about mean = 0.2567, overlap = 9.673e+04  
steps = 196, shift = 4.4, angle = 2.05 degrees  
  
Position of emdb 52229 (#2) relative to
cryosparc_P252_J1122_003_volume_map.mrc (#1) coordinates:  
Matrix rotation and translation  
0.99055264 -0.13713226 -0.00046638 26.08953795  
-0.13713228 -0.99055274 -0.00001062 507.54256108  
-0.00046052 0.00007448 -0.99999989 503.98900511  
Axis 0.99763540 -0.06872809 -0.00023154  
Axis point 0.00000000 254.66456111 252.00294798  
Rotation angle (degrees) 179.99755635  
Shift along axis -8.97127718  
  

> select add #2

3 models selected  

> ui mousemode right ""translate selected models""

> view matrix models
> #2,0.99431,-0.1006,-0.035119,31.104,0.10131,0.99467,0.019053,-37.182,0.033015,-0.022502,0.9992,-27.44

> fitmap #2 inMap #1

Fit map emdb 52229 in map cryosparc_P252_J1122_003_volume_map.mrc using 457150
points  
correlation = 0.7484, correlation about mean = 0.003138, overlap = 9.392e+04  
steps = 64, shift = 7.59, angle = 3.72 degrees  
  
Position of emdb 52229 (#2) relative to
cryosparc_P252_J1122_003_volume_map.mrc (#1) coordinates:  
Matrix rotation and translation  
0.97957605 -0.20107281 0.00070032 43.59825832  
-0.20107301 -0.97957623 0.00021997 520.19811630  
0.00064178 -0.00035629 -0.99999973 478.35376926  
Axis -0.99488090 0.10105384 -0.00033712  
Axis point 0.00000000 262.34809164 239.13170639  
Rotation angle (degrees) 179.98340637  
Shift along axis 9.03168192  
  

> select subtract #2

Nothing selected  

> volume #2 level 0.4018

> ui mousemode right translate

> hide #!1 models

> show #!1 models

> hide #!2 models

> volume #1 level 0.4357

> show #!2 models

> hide #!2 models

> show #!2 models

> hide #!2 models

> show #!2 models

> hide #!2 models

> show #!2 models

> hide #!2 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

> show #!1 models

> hide #!2 models

> open /Users/noah/Downloads/cryosparc_P253_J720_class_00_00122_volume.mrc

Opened cryosparc_P253_J720_class_00_00122_volume.mrc as #3, grid size
128,128,128, pixel 1.9, shown at level 0.318, step 1, values float32  

> hide #!1 models

> hide #!3 models

> show #!3 models

> view

> volume #3 level 0.145

> open /Users/noah/Downloads/cryosparc_P253_J720_class_01_00122_volume.mrc

Opened cryosparc_P253_J720_class_01_00122_volume.mrc as #4, grid size
128,128,128, pixel 1.9, shown at level 0.377, step 1, values float32  

> hide #!3 models

> volume #4 level 0.05881

> volume #4 level 0.03611

> open /Users/noah/Downloads/cryosparc_P253_J720_class_02_00122_volume.mrc

Opened cryosparc_P253_J720_class_02_00122_volume.mrc as #5, grid size
128,128,128, pixel 1.9, shown at level 0.357, step 1, values float32  

> hide #!4 models

> volume #5 level 0.1572

> open /Users/noah/Downloads/cryosparc_P253_J720_class_03_00122_volume.mrc

Opened cryosparc_P253_J720_class_03_00122_volume.mrc as #6, grid size
128,128,128, pixel 1.9, shown at level 0.319, step 1, values float32  

> hide #!5 models

> volume #6 level 0.1895

> open /Users/noah/Downloads/cryosparc_P253_J720_class_04_00122_volume.mrc

Opened cryosparc_P253_J720_class_04_00122_volume.mrc as #7, grid size
128,128,128, pixel 1.9, shown at level 0.356, step 1, values float32  

> hide #!6 models

> volume #7 level 0.09611

> open /Users/noah/Downloads/cryosparc_P253_J720_class_05_00122_volume.mrc

Opened cryosparc_P253_J720_class_05_00122_volume.mrc as #8, grid size
128,128,128, pixel 1.9, shown at level 0.319, step 1, values float32  

> hide #!7 models

> volume #8 level 0.1444

> open /Users/noah/Downloads/cryosparc_P253_J720_class_06_00122_volume.mrc

Opened cryosparc_P253_J720_class_06_00122_volume.mrc as #9, grid size
128,128,128, pixel 1.9, shown at level 0.321, step 1, values float32  

> hide #!8 models

> volume #9 level 0.1263

> open /Users/noah/Downloads/cryosparc_P253_J720_class_07_00122_volume.mrc

Opened cryosparc_P253_J720_class_07_00122_volume.mrc as #10, grid size
128,128,128, pixel 1.9, shown at level 0.379, step 1, values float32  

> hide #!9 models

> volume #10 level 0.04584

> open /Users/noah/Downloads/cryosparc_P253_J719_volume_map(1).mrc

Opened cryosparc_P253_J719_volume_map(1).mrc as #11, grid size 128,128,128,
pixel 1.9, shown at level 0.338, step 1, values float32  

> hide #!10 models

> volume #11 level 0.1263

> hide #!11 models

> show #!10 models

> show #!9 models

> hide #!10 models

> open /Users/noah/Downloads/cryosparc_P252_J1121_class_00_00122_volume.mrc

Opened cryosparc_P252_J1121_class_00_00122_volume.mrc as #12, grid size
128,128,128, pixel 3.64, shown at level 0.835, step 1, values float32  

> close #1-12

> open emdb:52229

Opened emdb 52229 as #1, grid size 256,256,256, pixel 1.9, shown at level
0.65, step 1, values float32  

> open /Users/noah/Downloads/cryosparc_P252_J1121_class_00_00122_volume.mrc

Opened cryosparc_P252_J1121_class_00_00122_volume.mrc as #2, grid size
128,128,128, pixel 3.64, shown at level 0.835, step 1, values float32  

> open /Users/noah/Downloads/cryosparc_P252_J1121_class_01_00122_volume.mrc

Opened cryosparc_P252_J1121_class_01_00122_volume.mrc as #3, grid size
128,128,128, pixel 3.64, shown at level 0.72, step 1, values float32  

> open /Users/noah/Downloads/cryosparc_P252_J1121_class_02_00122_volume.mrc

Opened cryosparc_P252_J1121_class_02_00122_volume.mrc as #4, grid size
128,128,128, pixel 3.64, shown at level 1.06, step 1, values float32  

> open /Users/noah/Downloads/cryosparc_P252_J1121_class_03_00122_volume.mrc

Opened cryosparc_P252_J1121_class_03_00122_volume.mrc as #5, grid size
128,128,128, pixel 3.64, shown at level 0.778, step 1, values float32  

> open /Users/noah/Downloads/cryosparc_P252_J1121_class_04_00122_volume.mrc

Opened cryosparc_P252_J1121_class_04_00122_volume.mrc as #6, grid size
128,128,128, pixel 3.64, shown at level 0.816, step 1, values float32  

> open /Users/noah/Downloads/cryosparc_P252_J1121_class_05_00122_volume.mrc

Opened cryosparc_P252_J1121_class_05_00122_volume.mrc as #7, grid size
128,128,128, pixel 3.64, shown at level 0.807, step 1, values float32  

> open /Users/noah/Downloads/cryosparc_P252_J1121_class_06_00122_volume.mrc

Opened cryosparc_P252_J1121_class_06_00122_volume.mrc as #8, grid size
128,128,128, pixel 3.64, shown at level 0.924, step 1, values float32  

> open /Users/noah/Downloads/cryosparc_P252_J1121_class_07_00122_volume.mrc

Opened cryosparc_P252_J1121_class_07_00122_volume.mrc as #9, grid size
128,128,128, pixel 3.64, shown at level 0.759, step 1, values float32  

The cached device pixel ratio value was stale on window expose. Please file a
QTBUG which explains how to reproduce.  

> hide #!1 models

> show #!1 models

> hide #!3 models

> hide #!4 models

> hide #!9 models

> hide #!8 models

> hide #!7 models

> hide #!6 models

> hide #!5 models

> hide #!2 models

> show #!2 models

> hide #!2 models

> volume #2 level 0.7263

> hide #!1 models

> volume #2 level 0.5175

> show #!1 models

> fitmap #1 inMap #2

Fit map emdb 52229 in map cryosparc_P252_J1121_class_00_00122_volume.mrc using
43251 points  
correlation = 0.915, correlation about mean = 0.1087, overlap = 2.163e+04  
steps = 72, shift = 18.8, angle = 0.16 degrees  
  
Position of emdb 52229 (#1) relative to
cryosparc_P252_J1121_class_00_00122_volume.mrc (#2) coordinates:  
Matrix rotation and translation  
0.99999616 0.00266993 0.00074283 -10.96054555  
-0.00267023 0.99999635 0.00040175 -9.55075231  
-0.00074176 -0.00040373 0.99999964 -11.89950826  
Axis -0.14381280 0.26506177 -0.95344645  
Axis point -4612.97341764 3538.87905397 0.00000000  
Rotation angle (degrees) 0.16045450  
Shift along axis 10.39027129  
  

> ui tool show ""Side View""

> hide #!1 models

> show #!1 models

> hide #!1 models

> show #!1 models

> hide #!2 models

> show #!2 models

> hide #!2 models

> show #!2 models

> hide #!2 models

> show #!2 models

> hide #!2 models

> show #!2 models

> hide #!1 models

> show #!3 models

> hide #!2 models

> volume #3 level 0.4852

> show #!1 models

> hide #!1 models

> show #!1 models

> hide #!1 models

> show #!1 models

> hide #!1 models

> hide #!3 models

> show #!4 models

> volume #4 level 0.4134

> show #!5 models

> hide #!4 models

> volume #5 level 0.3461

> show #!6 models

> hide #!5 models

> volume #6 level 0.2178

> show #!7 models

> hide #!6 models

> volume #7 level 0.5112

> show #!8 models

> hide #!7 models

> volume #8 level 0.2145

> show #!9 models

> hide #!8 models

> volume #9 level 0.472

> show #!1 models

> hide #!1 models

> show #!1 models

> hide #!1 models

> show #!1 models

> hide #!1 models

> show #!1 models

> show #!2 models

> hide #!1 models

> hide #!9 models

> show #!1 models

> hide #!1 models

> show #!3 models

> hide #!2 models

> volume #3 level 0.4444

> show #!4 models

> hide #!3 models

> show #!6 models

> hide #!4 models

> volume #6 level 0.2422

> show #!7 models

> hide #!6 models

> show #!8 models

> hide #!7 models

> volume #8 level 0.1999

> show #!9 models

> hide #!8 models

> show #!8 models

> hide #!8 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

> show #!2 models

> hide #!1 models

> hide #!9 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

> show #!2 models

> hide #!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 #!2 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

> open /Users/noah/Downloads/cryosparc_P252_J1130_class_01_00160_volume.mrc

Opened cryosparc_P252_J1130_class_01_00160_volume.mrc as #10, grid size
128,128,128, pixel 3.95, shown at level 0.695, step 1, values float32  

> hide #!2 models

> hide #!3 models

> open /Users/noah/Downloads/cryosparc_P252_J1130_class_02_00160_volume.mrc

Opened cryosparc_P252_J1130_class_02_00160_volume.mrc as #11, grid size
128,128,128, pixel 3.95, shown at level 0.687, step 1, values float32  

> hide #!10 models

> volume #11 level 0.8913

> open emdb:21412

Opened emdb 21412 as #12, grid size 128,128,128, pixel 2.2, shown at level
0.19, step 1, values float32  

> select add #12

3 models selected  

> ui mousemode right ""translate selected models""

> view matrix models #12,1,0,0,129.21,0,1,0,371.3,0,0,1,170.86

> view matrix models #12,1,0,0,271.97,0,1,0,273.07,0,0,1,277.08

> view matrix models #12,1,0,0,255.8,0,1,0,250.63,0,0,1,251.48

> view matrix models #12,1,0,0,253,0,1,0,252.03,0,0,1,251.25

> ui mousemode right ""rotate selected models""

> view matrix models
> #12,-0.15962,-0.82825,0.53714,242.22,-0.92398,0.3169,0.21407,241.91,-0.34753,-0.46214,-0.81588,233.88

> view matrix models
> #12,-0.33784,-0.93831,-0.073786,236.17,-0.9403,0.33991,-0.017281,240.43,0.041295,0.063543,-0.99712,239.01

> ui mousemode right ""translate selected models""

> view matrix models
> #12,-0.33784,-0.93831,-0.073786,254.46,-0.9403,0.33991,-0.017281,252.72,0.041295,0.063543,-0.99712,239.12

> fitmap #12 inMap #11

Fit map emdb 21412 in map cryosparc_P252_J1130_class_02_00160_volume.mrc using
29801 points  
correlation = 0.9256, correlation about mean = 0.2389, overlap = 8945  
steps = 68, shift = 4.13, angle = 4.33 degrees  
  
Position of emdb 21412 (#12) relative to
cryosparc_P252_J1130_class_02_00160_volume.mrc (#11) coordinates:  
Matrix rotation and translation  
-0.32458869 -0.94585408 -0.00149448 251.21041564  
-0.94585226 0.32459123 -0.00200958 251.89887310  
0.00238587 0.00076127 -0.99999686 242.15046311  
Axis 0.58112369 -0.81381516 0.00038346  
Axis point 215.36497949 0.00000000 121.34363311  
Rotation angle (degrees) 179.86340392  
Shift along axis -58.92194312  
  

> select subtract #12

Nothing selected  

> ui mousemode right translate

> hide #!11 models

> show #!11 models

> hide #!12 models

> show #!12 models

> hide #!12 models

> show #!12 models

> hide #!12 models

> show #!12 models

> open /Users/noah/Downloads/cryosparc_P252_J1130_class_03_00160_volume.mrc

Opened cryosparc_P252_J1130_class_03_00160_volume.mrc as #13, grid size
128,128,128, pixel 3.95, shown at level 0.89, step 1, values float32  

> hide #!12 models

> hide #!11 models

> volume #13 level 0.1702

> open /Users/noah/Downloads/cryosparc_P252_J1123_002_volume_map.mrc

Opened cryosparc_P252_J1123_002_volume_map.mrc as #14, grid size 208,208,208,
pixel 2.43, shown at level 0.38, step 1, values float32  

> hide #!13 models

> show #!13 models

> hide #!14 models

> show #!11 models

> hide #!13 models

> hide #!11 models

> show #!14 models

> volume #14 level 0.2851

> show #!12 models

> fitmap #12 inMap #14

Fit map emdb 21412 in map cryosparc_P252_J1123_002_volume_map.mrc using 29801
points  
correlation = 0.9609, correlation about mean = 0.4871, overlap = 6147  
steps = 64, shift = 0.604, angle = 0.727 degrees  
  
Position of emdb 21412 (#12) relative to
cryosparc_P252_J1123_002_volume_map.mrc (#14) coordinates:  
Matrix rotation and translation  
-0.31277619 -0.94982685 -0.00011194 251.13089240  
-0.94982685 0.31277620 -0.00007925 251.86008163  
0.00011028 0.00008154 -0.99999999 241.54755395  
Axis 0.58618457 -0.81017754 -0.00000101  
Axis point 216.66889146 0.00000000 120.78565851  
Rotation angle (degrees) 179.99214216  
Shift along axis -56.84256991  
  

> open /Users/noah/Downloads/cryosparc_P252_J1124_002_volume_map.mrc

Opened cryosparc_P252_J1124_002_volume_map.mrc as #15, grid size 208,208,208,
pixel 2.43, shown at level 0.326, step 1, values float32  

> hide #!14 models

> hide #!12 models

> volume #15 level 0.2904

> show #!12 models

> fitmap #12 inMap #15

Fit map emdb 21412 in map cryosparc_P252_J1124_002_volume_map.mrc using 29801
points  
correlation = 0.9657, correlation about mean = 0.5395, overlap = 7005  
steps = 44, shift = 0.57, angle = 0.112 degrees  
  
Position of emdb 21412 (#12) relative to
cryosparc_P252_J1124_002_volume_map.mrc (#15) coordinates:  
Matrix rotation and translation  
-0.31092930 -0.95043304 -0.00000722 251.14584571  
-0.95043304 0.31092930 0.00003894 251.85710693  
-0.00003477 0.00001897 -1.00000000 240.97724001  
Axis -0.58696824 0.80960996 0.00001548  
Axis point 216.87254930 0.00000000 120.48471909  
Rotation angle (degrees) 179.99902515  
Shift along axis 56.49511544  
  

> show #!14 models

> hide #!12 models

> hide #!15 models

> show #!15 models

> hide #!14 models

> show #!14 models

> hide #!15 models

> open /Users/noah/Downloads/cryosparc_P252_J1126_002_volume_map.mrc

Opened cryosparc_P252_J1126_002_volume_map.mrc as #16, grid size 208,208,208,
pixel 2.43, shown at level 0.416, step 1, values float32  

> hide #!14 models

> ui tool show ""Side View""

> view

> volume #16 level 0.1849

> open /Users/noah/Downloads/cryosparc_P252_J1128_002_volume_map.mrc

Opened cryosparc_P252_J1128_002_volume_map.mrc as #17, grid size 208,208,208,
pixel 2.43, shown at level 0.499, step 1, values float32  

> hide #!16 models

> volume #17 level 0.1213

> volume #17 level 0.06922

> open /Users/noah/Downloads/cryosparc_P252_J1129_002_volume_map.mrc

Opened cryosparc_P252_J1129_002_volume_map.mrc as #18, grid size 208,208,208,
pixel 2.43, shown at level 0.417, step 1, values float32  

> hide #!17 models

> volume #18 level 0.09408

> hide #!18 models

> show #!14 models

> show #!15 models

> hide #!14 models

> hide #!15 models

> close #2-18

> open emdb:21412

Opened emdb 21412 as #2, grid size 128,128,128, pixel 2.2, shown at level
0.19, step 1, values float32  

> open /Users/noah/Downloads/cryosparc_P252_J1103_class_00_00028_volume.mrc

Opened cryosparc_P252_J1103_class_00_00028_volume.mrc as #3, grid size
208,208,208, pixel 2.43, shown at level 0.359, step 1, values float32  

> open /Users/noah/Downloads/cryosparc_P252_J1103_class_01_00028_volume.mrc

Opened cryosparc_P252_J1103_class_01_00028_volume.mrc as #4, grid size
208,208,208, pixel 2.43, shown at level 0.359, step 1, values float32  

> open /Users/noah/Downloads/cryosparc_P252_J1103_class_02_00028_volume.mrc

Opened cryosparc_P252_J1103_class_02_00028_volume.mrc as #5, grid size
208,208,208, pixel 2.43, shown at level 0.403, step 1, values float32  

> open /Users/noah/Downloads/cryosparc_P252_J1103_class_03_00028_volume.mrc

Opened cryosparc_P252_J1103_class_03_00028_volume.mrc as #6, grid size
208,208,208, pixel 2.43, shown at level 0.404, step 1, values float32  

> open /Users/noah/Downloads/cryosparc_P252_J1103_class_04_00028_volume.mrc

Opened cryosparc_P252_J1103_class_04_00028_volume.mrc as #7, grid size
208,208,208, pixel 2.43, shown at level 0.367, step 1, values float32  

> open /Users/noah/Downloads/cryosparc_P252_J1103_class_05_00028_volume.mrc

Opened cryosparc_P252_J1103_class_05_00028_volume.mrc as #8, grid size
208,208,208, pixel 2.43, shown at level 0.425, step 1, values float32  

> open /Users/noah/Downloads/cryosparc_P252_J1103_class_06_00028_volume.mrc

Opened cryosparc_P252_J1103_class_06_00028_volume.mrc as #9, grid size
208,208,208, pixel 2.43, shown at level 0.375, step 1, values float32  

> open /Users/noah/Downloads/cryosparc_P252_J1103_class_07_00028_volume.mrc

Opened cryosparc_P252_J1103_class_07_00028_volume.mrc as #10, grid size
208,208,208, pixel 2.43, shown at level 0.372, step 1, values float32  

> open /Users/noah/Downloads/cryosparc_P252_J1103_class_08_00028_volume.mrc

Opened cryosparc_P252_J1103_class_08_00028_volume.mrc as #11, grid size
208,208,208, pixel 2.43, shown at level 0.373, step 1, values float32  

> open /Users/noah/Downloads/cryosparc_P252_J1103_class_09_00028_volume.mrc

Opened cryosparc_P252_J1103_class_09_00028_volume.mrc as #12, grid size
208,208,208, pixel 2.43, shown at level 0.417, step 1, values float32  

> hide #!2 models

> hide #!4 models

> hide #!5 models

> hide #!6 models

> hide #!7 models

> hide #!8 models

> hide #!9 models

> hide #!10 models

> hide #!11 models

> hide #!12 models

> volume #3 level 0.05626

> show #!4 models

> hide #!3 models

> volume #4 level 0.1222

> volume #4 level 0.04973

> show #!5 models

> hide #!4 models

> volume #5 level 0.2421

> show #!6 models

> hide #!5 models

> volume #6 level 0.2767

> show #!7 models

> hide #!6 models

> volume #7 level 0.1002

> show #!8 models

> hide #!7 models

> volume #8 level 0.2859

> show #!9 models

> hide #!8 models

> volume #9 level 0.2622

> show #!10 models

> hide #!9 models

> volume #10 level 0.1387

> hide #!10 models

> show #!11 models

> volume #11 level 0.2028

> hide #!11 models

> show #!12 models

> volume #12 level 0.001818

> hide #!12 models

> show #!3 models

> show #!4 models

> hide #!3 models

> show #!5 models

> hide #!4 models

> show #!6 models

> hide #!5 models

> hide #!6 models

> show #!7 models

> hide #!7 models

> show #!9 models

> open /Users/noah/Downloads/cryosparc_P252_J1103_class_00_00028_volume(1).mrc

Opened cryosparc_P252_J1103_class_00_00028_volume(1).mrc as #13, grid size
208,208,208, pixel 2.43, shown at level 0.359, step 1, values float32  

> hide #!9 models

> volume #13 level 0.02872

> open /Users/noah/Downloads/cryosparc_P252_J1102_class_00_00028_volume.mrc

Opened cryosparc_P252_J1102_class_00_00028_volume.mrc as #14, grid size
108,108,108, pixel 4.68, shown at level 0.996, step 1, values float32  

> open /Users/noah/Downloads/cryosparc_P252_J1102_class_01_00028_volume.mrc

Opened cryosparc_P252_J1102_class_01_00028_volume.mrc as #15, grid size
108,108,108, pixel 4.68, shown at level 1.05, step 1, values float32  

> open /Users/noah/Downloads/cryosparc_P252_J1102_class_02_00028_volume.mrc

Opened cryosparc_P252_J1102_class_02_00028_volume.mrc as #16, grid size
108,108,108, pixel 4.68, shown at level 1.07, step 1, values float32  

> open /Users/noah/Downloads/cryosparc_P252_J1102_class_03_00028_volume.mrc

Opened cryosparc_P252_J1102_class_03_00028_volume.mrc as #17, grid size
108,108,108, pixel 4.68, shown at level 0.935, step 1, values float32  

> open /Users/noah/Downloads/cryosparc_P252_J1102_class_04_00028_volume.mrc

Opened cryosparc_P252_J1102_class_04_00028_volume.mrc as #18, grid size
108,108,108, pixel 4.68, shown at level 0.952, step 1, values float32  

> open /Users/noah/Downloads/cryosparc_P252_J1102_class_05_00028_volume.mrc

Opened cryosparc_P252_J1102_class_05_00028_volume.mrc as #19, grid size
108,108,108, pixel 4.68, shown at level 0.983, step 1, values float32  

> open /Users/noah/Downloads/cryosparc_P252_J1102_class_06_00028_volume.mrc

Opened cryosparc_P252_J1102_class_06_00028_volume.mrc as #20, grid size
108,108,108, pixel 4.68, shown at level 1.01, step 1, values float32  

> open /Users/noah/Downloads/cryosparc_P252_J1102_class_07_00028_volume.mrc

Opened cryosparc_P252_J1102_class_07_00028_volume.mrc as #21, grid size
108,108,108, pixel 4.68, shown at level 1.03, step 1, values float32  

> open /Users/noah/Downloads/cryosparc_P252_J1102_class_08_00028_volume.mrc

Opened cryosparc_P252_J1102_class_08_00028_volume.mrc as #22, grid size
108,108,108, pixel 4.68, shown at level 1.03, step 1, values float32  

> open /Users/noah/Downloads/cryosparc_P252_J1102_class_09_00028_volume.mrc

Opened cryosparc_P252_J1102_class_09_00028_volume.mrc as #23, grid size
108,108,108, pixel 4.68, shown at level 1.1, step 1, values float32  

> hide #!13 models

> hide #!15 models

> hide #!16 models

> hide #!17 models

> hide #!18 models

> hide #!19 models

> hide #!20 models

> hide #!21 models

> hide #!22 models

> hide #!23 models

> volume #14 level 0.6849

> show #!15 models

> hide #!14 models

> volume #15 level 0.757

> show #!16 models

> hide #!15 models

> volume #16 level 0.6847

> show #!17 models

> hide #!16 models

> volume #17 level 0.4371

> volume #17 level 0.3466

> show #!18 models

> hide #!17 models

> volume #18 level 0.4557

> show #!19 models

> hide #!18 models

> volume #19 level 0.4718

> show #!20 models

> hide #!19 models

> show #!21 models

> hide #!20 models

> show #!22 models

> hide #!21 models

> volume #22 level 0.614

> show #!23 models

> show #!21 models

> hide #!21 models

> hide #!23 models

> show #!23 models

> hide #!22 models

> volume #23 level 0.005316

> open /Users/noah/Downloads/cryosparc_P252_J1105_class_00_00027_volume.mrc

Opened cryosparc_P252_J1105_class_00_00027_volume.mrc as #24, grid size
72,72,72, pixel 7.02, shown at level 1.32, step 1, values float32  

> open /Users/noah/Downloads/cryosparc_P252_J1105_class_01_00027_volume.mrc

Opened cryosparc_P252_J1105_class_01_00027_volume.mrc as #25, grid size
72,72,72, pixel 7.02, shown at level 1.35, step 1, values float32  

> open /Users/noah/Downloads/cryosparc_P252_J1105_class_02_00027_volume.mrc

Opened cryosparc_P252_J1105_class_02_00027_volume.mrc as #26, grid size
72,72,72, pixel 7.02, shown at level 1.31, step 1, values float32  

> open /Users/noah/Downloads/cryosparc_P252_J1105_class_03_00027_volume.mrc

Opened cryosparc_P252_J1105_class_03_00027_volume.mrc as #27, grid size
72,72,72, pixel 7.02, shown at level 1.27, step 1, values float32  

> open /Users/noah/Downloads/cryosparc_P252_J1105_class_04_00027_volume.mrc

Opened cryosparc_P252_J1105_class_04_00027_volume.mrc as #28, grid size
72,72,72, pixel 7.02, shown at level 1.3, step 1, values float32  

> open /Users/noah/Downloads/cryosparc_P252_J1105_class_05_00027_volume.mrc

Opened cryosparc_P252_J1105_class_05_00027_volume.mrc as #29, grid size
72,72,72, pixel 7.02, shown at level 1.28, step 1, values float32  

> open /Users/noah/Downloads/cryosparc_P252_J1105_class_06_00027_volume.mrc

Opened cryosparc_P252_J1105_class_06_00027_volume.mrc as #30, grid size
72,72,72, pixel 7.02, shown at level 1.37, step 1, values float32  

> open /Users/noah/Downloads/cryosparc_P252_J1105_class_07_00027_volume.mrc

Opened cryosparc_P252_J1105_class_07_00027_volume.mrc as #31, grid size
72,72,72, pixel 7.02, shown at level 1.35, step 1, values float32  

> open /Users/noah/Downloads/cryosparc_P252_J1105_class_08_00027_volume.mrc

Opened cryosparc_P252_J1105_class_08_00027_volume.mrc as #32, grid size
72,72,72, pixel 7.02, shown at level 1.35, step 1, values float32  

> open /Users/noah/Downloads/cryosparc_P252_J1105_class_09_00027_volume.mrc

Opened cryosparc_P252_J1105_class_09_00027_volume.mrc as #33, grid size
72,72,72, pixel 7.02, shown at level 1.23, step 1, values float32  

> hide #!23 models

> hide #!25 models

> hide #!26 models

> hide #!27 models

> hide #!28 models

> hide #!29 models

> hide #!30 models

> hide #!31 models

> hide #!32 models

> hide #!33 models

> volume #24 level 0.71

> show #!25 models

> hide #!24 models

> show #!26 models

> hide #!25 models

> show #!27 models

> hide #!26 models

> volume #27 level 0.7678

> show #!28 models

> hide #!27 models

> volume #28 level 0.6485

> show #!29 models

> hide #!28 models

> volume #29 level 0.965

> show #!30 models

> hide #!29 models

> show #!31 models

> hide #!30 models

> show #!32 models

> hide #!31 models

> show #!33 models

> hide #!32 models

> volume #33 level 0.3931

> show #!2 models

> select add #2

2 models selected  

> ui mousemode right ""translate selected models""

> view matrix models #2,1,0,0,-33.242,0,1,0,102.1,0,0,1,196.37

> view matrix models #2,1,0,0,260.07,0,1,0,255.6,0,0,1,243.67

> ui mousemode right ""rotate selected models""

> view matrix models
> #2,-0.66534,-0.74577,0.033868,242.53,-0.7433,0.66599,0.062942,248.08,-0.069496,0.016703,-0.99744,230.27

> view matrix models
> #2,-0.24657,-0.96839,0.037741,244.5,-0.96777,0.2481,0.043229,243.6,-0.051226,-0.025866,-0.99835,230.15

> ui mousemode right ""translate selected models""

> view matrix models
> #2,-0.24657,-0.96839,0.037741,254.56,-0.96777,0.2481,0.043229,251.47,-0.051226,-0.025866,-0.99835,231.4

> fitmap #2 inMap #33

Fit map emdb 21412 in map cryosparc_P252_J1105_class_09_00027_volume.mrc using
29801 points  
correlation = 0.9157, correlation about mean = 0.3509, overlap = 1.968e+04  
steps = 64, shift = 8.45, angle = 4.2 degrees  
  
Position of emdb 21412 (#2) relative to
cryosparc_P252_J1105_class_09_00027_volume.mrc (#33) coordinates:  
Matrix rotation and translation  
-0.29359924 -0.95592767 0.00133163 251.05056699  
-0.95592711 0.29360096 0.00135671 251.53070835  
-0.00168789 -0.00087461 -0.99999819 239.03770930  
Axis -0.59430618 0.80423886 0.00014987  
Axis point 218.60124810 0.00000000 119.33049351  
Rotation angle (degrees) 179.89244119  
Shift along axis 53.12568971  
  

> select subtract #2

Nothing selected  

> hide #!2 models

> show #!2 models

> hide #!2 models

> show #!24 models

> hide #!33 models

> show #!25 models

> hide #!24 models

> show #!26 models

> hide #!25 models

> show #!27 models

> hide #!26 models

> show #!28 models

> hide #!27 models

> show #!2 models

> fitmap #2 inMap #28

Fit map emdb 21412 in map cryosparc_P252_J1105_class_04_00027_volume.mrc using
29801 points  
correlation = 0.8839, correlation about mean = 0.2778, overlap = 1.777e+04  
steps = 64, shift = 2.5, angle = 0.734 degrees  
  
Position of emdb 21412 (#2) relative to
cryosparc_P252_J1105_class_04_00027_volume.mrc (#28) coordinates:  
Matrix rotation and translation  
-0.30261053 -0.95311044 -0.00271331 250.91105686  
-0.95308993 0.30262193 -0.00628964 252.87639420  
0.00681583 0.00068272 -0.99997654 241.20069471  
Axis 0.59049898 -0.80703651 0.00173690  
Axis point 217.52754899 0.00000000 121.39128467  
Rotation angle (degrees) 179.66173620  
Shift along axis -55.49881705  
  

> show #!29 models

> hide #!28 models

> hide #!2 models

> volume #29 level 0.6686

> show #!2 models

> hide #!2 models

> close #3-23

> show #!2 models

> hide #!2 models

> show #!30 models

> hide #!29 models

> show #!2 models

> show #!31 models

> hide #!30 models

> hide #!2 models

> show #!32 models

> hide #!31 models

> show #!33 models

> hide #!32 models

> open /Users/noah/Downloads/cryosparc_P252_J1106_class_00_00122_volume.mrc

Opened cryosparc_P252_J1106_class_00_00122_volume.mrc as #3, grid size
128,128,128, pixel 3.95, shown at level 0.801, step 1, values float32  

> open /Users/noah/Downloads/cryosparc_P252_J1106_class_01_00122_volume.mrc

Opened cryosparc_P252_J1106_class_01_00122_volume.mrc as #4, grid size
128,128,128, pixel 3.95, shown at level 0.791, step 1, values float32  

> open /Users/noah/Downloads/cryosparc_P252_J1106_class_02_00122_volume.mrc

Opened cryosparc_P252_J1106_class_02_00122_volume.mrc as #5, grid size
128,128,128, pixel 3.95, shown at level 1.03, step 1, values float32  

> open /Users/noah/Downloads/cryosparc_P252_J1106_class_03_00122_volume.mrc

Opened cryosparc_P252_J1106_class_03_00122_volume.mrc as #6, grid size
128,128,128, pixel 3.95, shown at level 0.788, step 1, values float32  

> open /Users/noah/Downloads/cryosparc_P252_J1106_class_04_00122_volume.mrc

Opened cryosparc_P252_J1106_class_04_00122_volume.mrc as #7, grid size
128,128,128, pixel 3.95, shown at level 1.06, step 1, values float32  

> open /Users/noah/Downloads/cryosparc_P252_J1106_class_05_00122_volume.mrc

Opened cryosparc_P252_J1106_class_05_00122_volume.mrc as #8, grid size
128,128,128, pixel 3.95, shown at level 1.22, step 1, values float32  

> open /Users/noah/Downloads/cryosparc_P252_J1106_class_06_00122_volume.mrc

Opened cryosparc_P252_J1106_class_06_00122_volume.mrc as #9, grid size
128,128,128, pixel 3.95, shown at level 0.736, step 1, values float32  

> open /Users/noah/Downloads/cryosparc_P252_J1106_class_07_00122_volume.mrc

Opened cryosparc_P252_J1106_class_07_00122_volume.mrc as #10, grid size
128,128,128, pixel 3.95, shown at level 0.927, step 1, values float32  

> close #24-33

> hide #!10 models

> hide #!9 models

> hide #!8 models

> hide #!7 models

> hide #!6 models

> hide #!5 models

> hide #!4 models

> volume #3 level 0.3225

> show #!4 models

> hide #!3 models

> volume #4 level 0.2037

> show #!5 models

> hide #!4 models

> volume #5 level 0.7081

> show #!6 models

> hide #!5 models

> volume #6 level 0.3644

> show #!7 models

> hide #!6 models

> show #!8 models

> hide #!7 models

> show #!9 models

> hide #!8 models

> show #!10 models

> hide #!9 models

> open /Users/noah/Downloads/cryosparc_P252_J1130_class_02_00181_volume.mrc

Opened cryosparc_P252_J1130_class_02_00181_volume.mrc as #11, grid size
128,128,128, pixel 3.95, shown at level 0.71, step 1, values float32  

> hide #!10 models

> volume #11 level 0.9542

> show #!2 models

> fitmap #2 inMap #11

Fit map emdb 21412 in map cryosparc_P252_J1130_class_02_00181_volume.mrc using
29801 points  
correlation = 0.9291, correlation about mean = 0.2308, overlap = 9186  
steps = 64, shift = 1.11, angle = 1.56 degrees  
  
Position of emdb 21412 (#2) relative to
cryosparc_P252_J1130_class_02_00181_volume.mrc (#11) coordinates:  
Matrix rotation and translation  
-0.32806305 -0.94465484 -0.00136603 251.18100148  
-0.94465284 0.32806531 -0.00204080 251.87059601  
0.00237599 0.00062091 -0.99999698 241.56949411  
Axis 0.57962710 -0.81488173 0.00043561  
Axis point 214.99836207 0.00000000 121.05331739  
Rotation angle (degrees) 179.86844585  
Shift along axis -59.54819994  
  

> hide #!2 models

> show #!2 models

> hide #!2 models

> show #!2 models

> hide #!2 models

> show #!2 models

> open /Users/noah/Downloads/cryosparc_P252_J1130_class_01_00181_volume.mrc

Opened cryosparc_P252_J1130_class_01_00181_volume.mrc as #12, grid size
128,128,128, pixel 3.95, shown at level 0.717, step 1, values float32  

> hide #!11 models

> hide #!2 models

> open /Users/noah/Downloads/cryosparc_P252_J1143_001_volume_map.mrc

Opened cryosparc_P252_J1143_001_volume_map.mrc as #13, grid size 208,208,208,
pixel 2.43, shown at level 0.404, step 1, values float32  

> open /Users/noah/Downloads/cryosparc_P252_J1143_002_volume_map.mrc

Opened cryosparc_P252_J1143_002_volume_map.mrc as #14, grid size 208,208,208,
pixel 2.43, shown at level 0.402, step 1, values float32  

> hide #!12 models

> show #!1 models

> hide #!1 models

> close #13

> open /Users/noah/Downloads/cryosparc_P252_J1145_003_volume_map.mrc

Opened cryosparc_P252_J1145_003_volume_map.mrc as #13, grid size 208,208,208,
pixel 2.43, shown at level 0.395, step 1, values float32  

> hide #!14 models

> volume #13 level 0.3281

> show #!2 models

> select add #2

2 models selected  

> ui mousemode right ""rotate selected models""

> view matrix models
> #2,0.35114,0.93632,1.0633e-06,268.12,-0.93491,0.35061,0.054853,252.46,0.05136,-0.019262,0.99849,254.8

> view matrix models
> #2,0.34676,0.93759,0.02629,268.26,-0.93795,0.34655,0.012212,252.13,0.0023387,-0.028893,0.99958,254.36

> view matrix models
> #2,0.33433,0.92456,0.18278,269.1,-0.93217,0.35298,-0.080452,251.61,-0.1389,-0.14348,0.97986,252.41

> view matrix models
> #2,0.85967,0.47686,0.18326,270.51,-0.48516,0.87443,0.00055067,258.88,-0.15998,-0.089381,0.98307,252.59

> ui mousemode right ""translate selected models""

> view matrix models
> #2,0.85967,0.47686,0.18326,250.19,-0.48516,0.87443,0.00055067,254.79,-0.15998,-0.089381,0.98307,253.94

> view matrix models
> #2,0.85967,0.47686,0.18326,251.65,-0.48516,0.87443,0.00055067,254.21,-0.15998,-0.089381,0.98307,259.54

> fitmap #2 inMap #13

Fit map emdb 21412 in map cryosparc_P252_J1145_003_volume_map.mrc using 29801
points  
correlation = 0.9266, correlation about mean = 0.1927, overlap = 5068  
steps = 80, shift = 1.46, angle = 15 degrees  
  
Position of emdb 21412 (#2) relative to
cryosparc_P252_J1145_003_volume_map.mrc (#13) coordinates:  
Matrix rotation and translation  
0.94932689 0.31429038 -0.00011226 253.95878453  
-0.31429040 0.94932685 -0.00027786 253.28941946  
0.00001924 0.00029906 0.99999995 259.95737410  
Axis 0.00091781 -0.00020921 -0.99999956  
Axis point 912.42007111 -661.68760739 0.00000000  
Rotation angle (degrees) 18.31798884  
Shift along axis -259.77716510  
  

> select subtract #2

Nothing selected  

> open /Users/noah/Downloads/cryosparc_P253_J722_003_volume_map.mrc

Opened cryosparc_P253_J722_003_volume_map.mrc as #15, grid size 128,128,128,
pixel 1.9, shown at level 0.321, step 1, values float32  

> hide #!2 models

> hide #!13 models

> volume #15 level 0.1698

> volume #15 level 0.1887


===== 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  

> open /Users/noah/Downloads/cryosparc_P252_J1150_000_volume_map.mrc

Opened cryosparc_P252_J1150_000_volume_map.mrc as #1, grid size 192,192,192,
pixel 2.43, shown at level 0.397, step 1, values float32  




OpenGL version: 4.1 Metal - 89.3
OpenGL renderer: Apple M3 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: Mac15,6
      Model Number: Z1AU002JQD/A
      Chip: Apple M3 Pro
      Total Number of Cores: 11 (5 performance and 6 efficiency)
      Memory: 18 GB
      System Firmware Version: 11881.81.4
      OS Loader Version: 11881.81.4

Software:

    System Software Overview:

      System Version: macOS 15.3.2 (24D81)
      Kernel Version: Darwin 24.3.0
      Time since boot: 6 days, 20 hours, 47 minutes

Graphics/Displays:

    Apple M3 Pro:

      Chipset Model: Apple M3 Pro
      Type: GPU
      Bus: Built-In
      Total Number of Cores: 14
      Vendor: Apple (0x106b)
      Metal Support: Metal 3
      Displays:
        Color LCD:
          Display Type: Built-in Liquid Retina XDR Display
          Resolution: 3024 x 1964 Retina
          Main Display: Yes
          Mirror: Off
          Online: Yes
          Automatically Adjust Brightness: Yes
          Connection Type: Internal


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-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
}}}
"	defect	closed	normal		Window Toolkit		duplicate						all	ChimeraX