![[ChimeraX Issue Tracking System]](/trac/ChimeraX/chrome/site/ChimeraX-icon.svg){kind=icon}
Opened 14 months ago
Closed 14 months ago
#15888 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-14.6.1-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.
Fatal Python error: Segmentation fault
Current thread 0x00000002053fcf40 (most recent call first):
File "/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/ui/gui.py", line 315 in event_loop
File "/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py", line 1003 in init
File "/Applications/ChimeraX-1.8.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py", line 1166 in
File "", line 88 in _run_code
File "", line 198 in _run_module_as_main
Extension modules: chimerax.arrays._arrays, numpy.core._multiarray_umath, numpy.core._multiarray_tests, numpy.linalg._umath_linalg, numpy.fft._pocketfft_internal, numpy.random._common, numpy.random.bit_generator, numpy.random._bounded_integers, numpy.random._mt19937, numpy.random.mtrand, numpy.random._philox, numpy.random._pcg64, numpy.random._sfc64, numpy.random._generator, chimerax.geometry._geometry, PyQt6.QtCore, PyQt6.QtGui, PyQt6.QtWidgets, PyQt6.QtNetwork, PyQt6.QtPrintSupport, PyQt6.QtWebChannel, PyQt6.QtWebEngineCore, PyQt6.QtWebEngineWidgets, chimerax.atomic_lib._load_libs, tinyarray, chimerax.atomic.cymol, chimerax.atomic.cytmpl, chimerax.map._map, charset_normalizer.md, PIL._imaging, matplotlib._c_internal_utils, matplotlib._path, kiwisolver._cext, matplotlib._image, OpenGL_accelerate.errorchecker, OpenGL_accelerate.wrapper, OpenGL_accelerate.formathandler, OpenGL_accelerate.arraydatatype, OpenGL_accelerate.latebind, OpenGL_accelerate.vbo, chimerax.pdb_lib._load_libs, chimerax.surface._surface, chimerax.core._mac_util, OpenGL_accelerate.numpy_formathandler, OpenGL_accelerate.nones_formathandler, psutil._psutil_osx, psutil._psutil_posix, PIL._imagingmath, chimerax.graphics._graphics, PyQt6.QtOpenGL, PyQt6.QtOpenGLWidgets, chimerax.pdb._pdbio (total: 52)
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{
"uptime" : 300000,
"procRole" : "Background",
"version" : 2,
"userID" : 271979236,
"deployVersion" : 210,
"modelCode" : "Mac14,9",
"coalitionID" : 21010,
"osVersion" : {
"train" : "macOS 14.6.1",
"build" : "23G93",
"releaseType" : "User"
},
"captureTime" : "2024-09-05 16:45:38.5759 -0400",
"codeSigningMonitor" : 1,
"incident" : "CC2D2D1C-2415-4589-8042-2B937D6BBB34",
"pid" : 7645,
"translated" : false,
"cpuType" : "ARM-64",
"roots_installed" : 0,
"bug_type" : "309",
"procLaunch" : "2024-09-02 20:37:05.1524 -0400",
"procStartAbsTime" : 2681339546252,
"procExitAbsTime" : 7375550096762,
"procName" : "ChimeraX",
"procPath" : "\/Applications\/ChimeraX-1.8.app\/Contents\/MacOS\/ChimeraX",
"bundleInfo" : {"CFBundleShortVersionString":"1.8.0","CFBundleVersion":"1.8.0.0","CFBundleIdentifier":"edu.ucsf.cgl.ChimeraX"},
"storeInfo" : {"deviceIdentifierForVendor":"7294D2FD-0049-5FAC-98B9-E5BA7A3F9ED9","thirdParty":true},
"parentProc" : "launchd",
"parentPid" : 1,
"coalitionName" : "edu.ucsf.cgl.ChimeraX",
"crashReporterKey" : "5F78518E-B996-C8F6-6E35-97976960E0FA",
"codeSigningID" : "edu.ucsf.cgl.ChimeraX",
"codeSigningTeamID" : "LWV8X224YF",
"codeSigningFlags" : 570491649,
"codeSigningValidationCategory" : 6,
"codeSigningTrustLevel" : 4294967295,
"instructionByteStream" : {"beforePC":"fyMD1f17v6n9AwCRd+D\/l78DAJH9e8Go\/w9f1sADX9YQKYDSARAA1A==","atPC":"AwEAVH8jA9X9e7+p\/QMAkWzg\/5e\/AwCR\/XvBqP8PX9bAA1\/WcAqA0g=="},
"sleepWakeUUID" : "2A08C8D0-5C1D-483A-B66D-30D467C0C002",
"sip" : "enabled",
"vmRegionInfo" : "0x168 is not in any region. Bytes before following region: 4368645784\n REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL\n UNUSED SPACE AT START\n---> \n __TEXT 104644000-104648000 [ 16K] r-x\/r-x SM=COW \/Applications\/ChimeraX-1.8.app\/Contents\/MacOS\/ChimeraX",
"exception" : {"codes":"0x0000000000000001, 0x0000000000000168","rawCodes":[1,360],"type":"EXC_BAD_ACCESS","signal":"SIGSEGV","subtype":"KERN_INVALID_ADDRESS at 0x0000000000000168"},
"termination" : {"flags":0,"code":11,"namespace":"SIGNAL","indicator":"Segmentation fault: 11","byProc":"ChimeraX","byPid":7645},
"vmregioninfo" : "0x168 is not in any region. Bytes before following region: 4368645784\n REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL\n UNUSED SPACE AT START\n---> \n __TEXT 104644000-104648000 [ 16K] r-x\/r-x SM=COW \/Applications\/ChimeraX-1.8.app\/Contents\/MacOS\/ChimeraX",
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"faultingThread" : 0,
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===== Log before crash start =====
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/dudleyja/Downloads/cryosparc_P15_J135_008_volume_map.mrc
Opened cryosparc_P15_J135_008_volume_map.mrc as #1, grid size 768,768,768,
pixel 0.832, shown at step 1, values float32
> select add #1
2 models selected
> select subtract #1
Nothing selected
> volume #1 region 0,0,0,767,767,767 step 4
> open /Users/dudleyja/Downloads/cryosparc_P15_J135_008_volume_map_sharp.mrc
Opened cryosparc_P15_J135_008_volume_map_sharp.mrc as #2, grid size
768,768,768, pixel 0.832, shown at step 1, values float32
> volume #2 region 0,0,0,767,767,767 step 4
> select add #2
3 models selected
> select add #1
6 models selected
> select subtract #2
3 models selected
> hide #!1 target m
> volume #2 change image level -0.02219,0 level 0.04779,0.8 level 0.5148,1
> volume #2 level 0.05616
> set bgColor white
> set bgColor black
> volume #2 level 0.04665
> open /Users/dudleyja/Downloads/cryosparc_P3_J225_class_00_final_volume.mrc
Opened cryosparc_P3_J225_class_00_final_volume.mrc as #3, grid size
256,256,256, pixel 2.34, shown at level 0.146, step 1, values float32
> hide #!2 models
> volume #3 level 0.08971
> close #2
> close #1
> volume #3 level 0.0812
> open /Users/dudleyja/Downloads/cryosparc_P3_J253_004_volume_map.mrc
Opened cryosparc_P3_J253_004_volume_map.mrc as #1, grid size 384,384,384,
pixel 1.56, shown at level 0.0778, step 2, values float32
> close #3
> volume #1 level 0.1156
Drag select of 1 cryosparc_P3_J253_004_volume_map.mrc
> open /Users/dudleyja/Downloads/cryosparc_P3_J253_004_volume_map_sharp.mrc
Opened cryosparc_P3_J253_004_volume_map_sharp.mrc as #2, grid size
384,384,384, pixel 1.56, shown at level 0.188, step 2, values float32
> hide #!1 models
> volume #2 level 0.2278
> open /Users/dudleyja/Downloads/cryosparc_P3_J253_004_volume_mask_refine.mrc
Opened cryosparc_P3_J253_004_volume_mask_refine.mrc as #3, grid size
384,384,384, pixel 1.56, shown at level 1, step 2, values float32
> volume #3 level 1
> hide #!3 models
> select subtract #1
Nothing selected
> show #!1 models
> hide #!2 models
> volume #2 level 0.2999
> volume #1 level 0.1269
> close #1
> close #2
> close #3
> open /Users/dudleyja/Downloads/model_structure.pdb format pdb
No such file/path: /Users/dudleyja/Downloads/model_structure.pdb
> open /Users/dudleyja/Downloads/emd_9216.map
Opened emd_9216.map as #1, grid size 600,600,600, pixel 0.685, shown at level
0.00537, step 4, values float32
> volume #1 level 0.005373
> open /Users/dudleyja/Downloads/cryosparc_P3_J253_004_volume_map.mrc
Opened cryosparc_P3_J253_004_volume_map.mrc as #2, grid size 384,384,384,
pixel 1.56, shown at level 0.0778, step 2, values float32
> select add #2
2 models selected
Drag select of 2 cryosparc_P3_J253_004_volume_map.mrc
> ui mousemode right rotate
> ui mousemode right "rotate selected models"
> ui mousemode right translate
> ui mousemode right select
> select add #1
4 models selected
> select subtract #1
2 models selected
> select subtract #2
Nothing selected
> select add #2
2 models selected
> hide #!1 models
> hide #!2 models
> show #!2 models
> show #!1 models
Drag select of 2 cryosparc_P3_J253_004_volume_map.mrc
> select #2
2 models selected
> select #2
2 models selected
> volume #2 level 0.1421
> select add #2.1
2 models selected
Drag select of 2 cryosparc_P3_J253_004_volume_map.mrc
> ui mousemode right rotate
> ui mousemode right "move picked models"
> ui mousemode right "rotate selected models"
> ui tool show "Fit in Map"
> select add #1.1
3 models selected
> select add #1
4 models selected
> ui tool show "Fit in Map"
> fitmap #1 inMap #2
Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743
points
correlation = 0.2334, correlation about mean = -0.02839, overlap = 8.39
steps = 372, shift = 72.9, angle = 18.2 degrees
Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc
(#2) coordinates:
Matrix rotation and translation
0.94999813 -0.30886874 -0.04586568 94.86339556
0.30784260 0.95102100 -0.02814224 21.86182602
0.05231148 0.01261566 0.99855113 -7.76271711
Axis 0.06512868 -0.15688120 0.98546768
Axis point -18.99879558 311.24090480 0.00000000
Rotation angle (degrees) 18.23425855
Shift along axis -4.90128853
> fitmap #1 inMap #2
Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743
points
correlation = 0.2334, correlation about mean = -0.02841, overlap = 8.39
steps = 48, shift = 0.0212, angle = 0.00824 degrees
Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc
(#2) coordinates:
Matrix rotation and translation
0.95002351 -0.30879252 -0.04585315 94.82782728
0.30777285 0.95104718 -0.02802013 21.86307939
0.05226092 0.01250743 0.99855514 -7.72509047
Axis 0.06477806 -0.15682267 0.98550010
Axis point -19.04197880 311.20191165 0.00000000
Rotation angle (degrees) 18.22917009
Shift along axis -4.89894087
> select subtract #1.1
3 models selected
> select subtract #2.1
2 models selected
> fitmap #1 inMap #2
Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743
points
correlation = 0.2334, correlation about mean = -0.02834, overlap = 8.39
steps = 48, shift = 0.0109, angle = 0.0108 degrees
Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc
(#2) coordinates:
Matrix rotation and translation
0.95002360 -0.30880426 -0.04577217 94.81710725
0.30777674 0.95104090 -0.02819015 21.90110791
0.05223644 0.01269370 0.99855407 -7.74834537
Axis 0.06534525 -0.15664858 0.98549034
Axis point -19.17939689 311.18064917 0.00000000
Rotation angle (degrees) 18.22983526
Shift along axis -4.87084966
> fitmap #1 inMap #2
Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743
points
correlation = 0.2334, correlation about mean = -0.02839, overlap = 8.39
steps = 48, shift = 0.0115, angle = 0.0122 degrees
Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc
(#2) coordinates:
Matrix rotation and translation
0.94997344 -0.30895493 -0.04579640 94.86561919
0.30793412 0.95099384 -0.02805888 21.84005069
0.05222103 0.01255291 0.99855665 -7.72164589
Axis 0.06488062 -0.15659079 0.98553023
Axis point -18.92874915 311.14198102 0.00000000
Rotation angle (degrees) 18.23849932
Shift along axis -4.87492575
Correlation = 0.2634, Correlation about mean = -0.04041, Overlap = 8.08
> fitmap #1 inMap #2
Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743
points
correlation = 0.2334, correlation about mean = -0.02837, overlap = 8.389
steps = 48, shift = 0.0151, angle = 0.019 degrees
Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc
(#2) coordinates:
Matrix rotation and translation
0.95001450 -0.30882171 -0.04584324 94.83063200
0.30778500 0.95103352 -0.02834839 21.92933971
0.05235306 0.01282152 0.99854633 -7.81473725
Axis 0.06579474 -0.15693012 0.98541564
Axis point -19.23451998 311.23024477 0.00000000
Rotation angle (degrees) 18.23205286
Shift along axis -4.90278102
> fitmap #1 inMap #2
Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743
points
correlation = 0.2334, correlation about mean = -0.02839, overlap = 8.39
steps = 76, shift = 0.00831, angle = 0.0135 degrees
Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc
(#2) coordinates:
Matrix rotation and translation
0.95000935 -0.30883842 -0.04583739 94.83702599
0.30781402 0.95103105 -0.02811530 21.87267429
0.05227587 0.01260040 0.99855319 -7.74655049
Axis 0.06506861 -0.15679684 0.98548507
Axis point -19.05935937 311.19243964 0.00000000
Rotation angle (degrees) 18.23212260
Shift along axis -4.89276300
> fitmap #1 inMap #2
Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743
points
correlation = 0.2334, correlation about mean = -0.02839, overlap = 8.39
steps = 76, shift = 0.00831, angle = 0.0135 degrees
Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc
(#2) coordinates:
Matrix rotation and translation
0.95000935 -0.30883842 -0.04583739 94.83702599
0.30781402 0.95103105 -0.02811530 21.87267429
0.05227587 0.01260040 0.99855319 -7.74655049
Axis 0.06506861 -0.15679684 0.98548507
Axis point -19.05935937 311.19243964 0.00000000
Rotation angle (degrees) 18.23212260
Shift along axis -4.89276300
> ui mousemode right rotate
> fitmap #1 inMap #2
Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743
points
correlation = 0.2334, correlation about mean = -0.02836, overlap = 8.391
steps = 72, shift = 0.0148, angle = 0.00399 degrees
Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc
(#2) coordinates:
Matrix rotation and translation
0.95000059 -0.30887404 -0.04577898 94.84510346
0.30784980 0.95101912 -0.02812709 21.86075606
0.05222442 0.01262770 0.99855553 -7.73749264
Axis 0.06512529 -0.15660733 0.98551146
Axis point -19.02283263 311.17387696 0.00000000
Rotation angle (degrees) 18.23380256
Shift along axis -4.87212710
> fitmap #1 inMap #2
Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743
points
correlation = 0.2334, correlation about mean = -0.02836, overlap = 8.39
steps = 60, shift = 0.0087, angle = 0.00326 degrees
Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc
(#2) coordinates:
Matrix rotation and translation
0.94999955 -0.30887557 -0.04579004 94.83933704
0.30784828 0.95101796 -0.02818278 21.87241183
0.05225213 0.01267724 0.99855346 -7.75464899
Axis 0.06529209 -0.15666605 0.98549109
Axis point -19.05817180 311.16301428 0.00000000
Rotation angle (degrees) 18.23419300
Shift along axis -4.87654278
> fitmap #1 inMap #2
Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743
points
correlation = 0.2334, correlation about mean = -0.02835, overlap = 8.39
steps = 44, shift = 0.0191, angle = 0.00739 degrees
Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc
(#2) coordinates:
Matrix rotation and translation
0.95002769 -0.30879274 -0.04576492 94.80412546
0.30776110 0.95104359 -0.02827012 21.92125929
0.05225404 0.01277273 0.99855214 -7.77096886
Axis 0.06560092 -0.15666881 0.98547014
Axis point -19.24940513 311.16583370 0.00000000
Rotation angle (degrees) 18.22939077
Shift along axis -4.87319737
> fitmap #1 inMap #2
Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743
points
correlation = 0.2334, correlation about mean = -0.02841, overlap = 8.39
steps = 72, shift = 0.0289, angle = 0.0103 degrees
Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc
(#2) coordinates:
Matrix rotation and translation
0.95000483 -0.30884300 -0.04590010 94.85721461
0.30781509 0.95102917 -0.02816721 21.87161399
0.05235158 0.01263024 0.99854884 -7.78003341
Axis 0.06519585 -0.15700986 0.98544275
Axis point -19.02839805 311.25549141 0.00000000
Rotation angle (degrees) 18.23310650
Shift along axis -4.91653975
> fitmap #1 inMap #2
Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743
points
correlation = 0.2334, correlation about mean = -0.02843, overlap = 8.389
steps = 60, shift = 0.00586, angle = 0.00182 degrees
Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc
(#2) coordinates:
Matrix rotation and translation
0.95001215 -0.30882258 -0.04588614 94.84576536
0.30779391 0.95103551 -0.02818459 21.88224827
0.05234339 0.01265223 0.99854899 -7.78634975
Axis 0.06526315 -0.15698498 0.98544225
Axis point -19.07155098 311.24697178 0.00000000
Rotation angle (degrees) 18.23184232
Shift along axis -4.91824864
> fitmap #1 inMap #2
Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743
points
correlation = 0.2334, correlation about mean = -0.02836, overlap = 8.39
steps = 100, shift = 0.028, angle = 0.00707 degrees
Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc
(#2) coordinates:
Matrix rotation and translation
0.95002011 -0.30881612 -0.04576466 94.80419578
0.30779000 0.95103735 -0.02816524 21.88538424
0.05222178 0.01267164 0.99855511 -7.74196988
Axis 0.06526829 -0.15660859 0.98550180
Axis point -19.13512897 311.11844152 0.00000000
Rotation angle (degrees) 18.23038451
Shift along axis -4.86945674
> fitmap #1 inMap #2
Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743
points
correlation = 0.2334, correlation about mean = -0.0284, overlap = 8.389
steps = 40, shift = 0.0167, angle = 0.00657 degrees
Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc
(#2) coordinates:
Matrix rotation and translation
0.95002824 -0.30877699 -0.04585965 94.82093647
0.30774710 0.95104980 -0.02821350 21.90756713
0.05232649 0.01269045 0.99854939 -7.78121266
Axis 0.06538019 -0.15693909 0.98544181
Axis point -19.18073547 311.22859906 0.00000000
Rotation angle (degrees) 18.22902298
Shift along axis -4.90667493
> fitmap #1 inMap #2
Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743
points
correlation = 0.2334, correlation about mean = -0.0284, overlap = 8.389
steps = 48, shift = 0.017, angle = 0.00657 degrees
Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc
(#2) coordinates:
Matrix rotation and translation
0.95006222 -0.30866967 -0.04587821 94.80156017
0.30764031 0.95108485 -0.02819660 21.93535889
0.05233750 0.01267454 0.99854902 -7.78133552
Axis 0.06534953 -0.15703868 0.98542797
Axis point -19.29598644 311.29236053 0.00000000
Rotation angle (degrees) 18.22273431
Shift along axis -4.91740852
> fitmap #1 inMap #2
Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743
points
correlation = 0.2334, correlation about mean = -0.02836, overlap = 8.39
steps = 44, shift = 0.0214, angle = 0.00901 degrees
Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc
(#2) coordinates:
Matrix rotation and translation
0.95001461 -0.30881857 -0.04586207 94.83486520
0.30778931 0.95103649 -0.02820172 21.89607635
0.05232571 0.01267619 0.99854962 -7.76951307
Axis 0.06533009 -0.15692136 0.98544795
Axis point -19.13363525 311.22214806 0.00000000
Rotation angle (degrees) 18.23146970
Shift along axis -4.89684297
> fitmap #1 inMap #2
Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743
points
correlation = 0.2334, correlation about mean = -0.02835, overlap = 8.391
steps = 48, shift = 0.0239, angle = 0.0113 degrees
Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc
(#2) coordinates:
Matrix rotation and translation
0.94997278 -0.30896232 -0.04576018 94.85965389
0.30793822 0.95099039 -0.02813072 21.83702936
0.05220882 0.01263211 0.99855629 -7.73067706
Axis 0.06512052 -0.15651002 0.98552723
Axis point -18.92865063 311.11572003 0.00000000
Rotation angle (degrees) 18.23890863
Shift along axis -4.85919634
> fitmap #1 inMap #2
Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743
points
correlation = 0.2334, correlation about mean = -0.02839, overlap = 8.39
steps = 104, shift = 0.0196, angle = 0.00884 degrees
Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc
(#2) coordinates:
Matrix rotation and translation
0.94999785 -0.30886798 -0.04587651 94.86485371
0.30784112 0.95102115 -0.02815333 21.86593868
0.05232519 0.01262293 0.99855032 -7.76828989
Axis 0.06515771 -0.15691970 0.98545963
Axis point -19.00838052 311.24928091 0.00000000
Rotation angle (degrees) 18.23434408
Shift along axis -4.90535571
> fitmap #1 inMap #2
Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743
points
correlation = 0.2334, correlation about mean = -0.0284, overlap = 8.39
steps = 76, shift = 0.00803, angle = 0.0037 degrees
Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc
(#2) coordinates:
Matrix rotation and translation
0.95001110 -0.30882378 -0.04589970 94.85131432
0.30779466 0.95103511 -0.02818993 21.88420534
0.05235795 0.01265307 0.99854822 -7.78448965
Axis 0.06527231 -0.15702822 0.98543476
Axis point -19.07499452 311.26410268 0.00000000
Rotation angle (degrees) 18.23204561
Shift along axis -4.91637988
> fitmap #1 inMap #2
Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743
points
correlation = 0.2334, correlation about mean = -0.02835, overlap = 8.392
steps = 84, shift = 0.0311, angle = 0.0164 degrees
Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc
(#2) coordinates:
Matrix rotation and translation
0.94996576 -0.30898267 -0.04576856 94.87046851
0.30796505 0.95098540 -0.02800518 21.79889066
0.05217835 0.01250885 0.99855944 -7.69578142
Axis 0.06472027 -0.15646802 0.98556027
Axis point -18.80269305 311.10318639 0.00000000
Rotation angle (degrees) 18.23971944
Shift along axis -4.85544335
> fitmap #1 inMap #2
Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743
points
correlation = 0.2334, correlation about mean = -0.02839, overlap = 8.39
steps = 48, shift = 0.0233, angle = 0.0124 degrees
Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc
(#2) coordinates:
Matrix rotation and translation
0.95000031 -0.30887502 -0.04577799 94.83780914
0.30784779 0.95101807 -0.02818436 21.86935951
0.05224114 0.01268250 0.99855396 -7.76109669
Axis 0.06530344 -0.15663028 0.98549602
Axis point -19.04765802 311.15793342 0.00000000
Rotation angle (degrees) 18.23406682
Shift along axis -4.88069828
Correlation = 0.2635, Correlation about mean = -0.04038, Overlap = 8.081
> fitmap #1 inMap #2
Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743
points
correlation = 0.2334, correlation about mean = -0.02836, overlap = 8.39
steps = 48, shift = 0.0241, angle = 0.00515 degrees
Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc
(#2) coordinates:
Matrix rotation and translation
0.95002710 -0.30879734 -0.04574615 94.79514114
0.30776970 0.95104293 -0.02819863 21.89856840
0.05221422 0.01271018 0.99855502 -7.74859728
Axis 0.06538720 -0.15657641 0.98549903
Axis point -19.18699570 311.11727112 0.00000000
Rotation angle (degrees) 18.22924170
Shift along axis -4.86664588
Correlation = 0.2634, Correlation about mean = -0.0404, Overlap = 8.08
> fitmap #1 inMap #2
Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743
points
correlation = 0.2334, correlation about mean = -0.02839, overlap = 8.39
steps = 84, shift = 0.028, angle = 0.00917 degrees
Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc
(#2) coordinates:
Matrix rotation and translation
0.94999754 -0.30886827 -0.04588109 94.86519419
0.30784082 0.95102095 -0.02816355 21.86972134
0.05233271 0.01263123 0.99854982 -7.77110480
Axis 0.06518698 -0.15693827 0.98545474
Axis point -19.01919066 311.25252170 0.00000000
Rotation angle (degrees) 18.23443748
Shift along axis -4.90629247
Correlation = 0.2634, Correlation about mean = -0.04038, Overlap = 8.081
> fitmap #1 inMap #2
Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743
points
correlation = 0.2334, correlation about mean = -0.02836, overlap = 8.39
steps = 100, shift = 0.0235, angle = 0.00765 degrees
Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc
(#2) coordinates:
Matrix rotation and translation
0.95002916 -0.30878563 -0.04578244 94.80728517
0.30775869 0.95104716 -0.02817602 21.89806351
0.05224161 0.01267810 0.99855399 -7.74881803
Axis 0.06530146 -0.15668219 0.98548791
Axis point -19.17577251 311.16716385 0.00000000
Rotation angle (degrees) 18.22875907
Shift along axis -4.87634899
Correlation = 0.2634, Correlation about mean = -0.0404, Overlap = 8.08
> fitmap #1 inMap #2
Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743
points
correlation = 0.2334, correlation about mean = -0.02836, overlap = 8.393
steps = 64, shift = 0.0452, angle = 0.0236 degrees
Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc
(#2) coordinates:
Matrix rotation and translation
0.94992851 -0.30910052 -0.04574585 94.89533611
0.30808628 0.95094781 -0.02794848 21.75808946
0.05214081 0.01245539 0.99856207 -7.67420373
Axis 0.06452172 -0.15631705 0.98559724
Axis point -18.64481143 311.03578771 0.00000000
Rotation angle (degrees) 18.24632828
Shift along axis -4.84202440
> select subtract #2
1 model selected
Drag select of 1 emd_9216.map
> ui tool show "Fit in Map"
> volume #2 step 1
> volume #2 step 4
> volume #2 level 0.08807
> volume #2 step 1
> volume #2 level 0.3006
> volume #2 step 2
> volume #2 level 0.1153
> volume #2 level 0.1493
> close #1
> close #2
> open /Users/dudleyja/Downloads/emd_9216.map
Opened emd_9216.map as #1, grid size 600,600,600, pixel 0.685, shown at level
0.00537, step 4, values float32
> open /Users/dudleyja/Downloads/cryosparc_P3_J253_004_volume_map.mrc
Opened cryosparc_P3_J253_004_volume_map.mrc as #2, grid size 384,384,384,
pixel 1.56, shown at level 0.0778, step 2, values float32
> volume #2 level 0.1269
> fitmap #1 inMap #2
Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743
points
correlation = 0.2334, correlation about mean = -0.02839, overlap = 8.39
steps = 372, shift = 72.9, angle = 18.2 degrees
Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc
(#2) coordinates:
Matrix rotation and translation
0.94999813 -0.30886874 -0.04586568 94.86339556
0.30784260 0.95102100 -0.02814224 21.86182602
0.05231148 0.01261566 0.99855113 -7.76271711
Axis 0.06512868 -0.15688120 0.98546768
Axis point -18.99879558 311.24090480 0.00000000
Rotation angle (degrees) 18.23425855
Shift along axis -4.90128853
> toolshed show
> selectz
Unknown command: selectz
> select
4 models selected
> select emd_9216
Expected an objects specifier or a keyword
> select add #2
4 models selected
> fitmap #1 inMap #2
Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743
points
correlation = 0.2334, correlation about mean = -0.02841, overlap = 8.39
steps = 48, shift = 0.0212, angle = 0.00824 degrees
Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc
(#2) coordinates:
Matrix rotation and translation
0.95002351 -0.30879252 -0.04585315 94.82782728
0.30777285 0.95104718 -0.02802013 21.86307939
0.05226092 0.01250743 0.99855514 -7.72509047
Axis 0.06477806 -0.15682267 0.98550010
Axis point -19.04197880 311.20191165 0.00000000
Rotation angle (degrees) 18.22917009
Shift along axis -4.89894087
Drag select of 2 cryosparc_P3_J253_004_volume_map.mrc
> ui windowfill toggle
> fitmap #1 inMap #2
Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743
points
correlation = 0.2334, correlation about mean = -0.02834, overlap = 8.39
steps = 48, shift = 0.0109, angle = 0.0108 degrees
Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc
(#2) coordinates:
Matrix rotation and translation
0.95002360 -0.30880426 -0.04577217 94.81710725
0.30777674 0.95104090 -0.02819015 21.90110791
0.05223644 0.01269370 0.99855407 -7.74834537
Axis 0.06534525 -0.15664858 0.98549034
Axis point -19.17939689 311.18064917 0.00000000
Rotation angle (degrees) 18.22983526
Shift along axis -4.87084966
> select #1
2 models selected
> activate #1
Unknown command: activate #1
> select #2
2 models selected
> invert sel
Unknown command: invert sel
> select add #1
4 models selected
> select subtract #1
2 models selected
> select subtract #2
Nothing selected
> fitmap #1 inMap #2
Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743
points
correlation = 0.2334, correlation about mean = -0.02839, overlap = 8.39
steps = 48, shift = 0.0115, angle = 0.0122 degrees
Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc
(#2) coordinates:
Matrix rotation and translation
0.94997344 -0.30895493 -0.04579640 94.86561919
0.30793412 0.95099384 -0.02805888 21.84005069
0.05222103 0.01255291 0.99855665 -7.72164589
Axis 0.06488062 -0.15659079 0.98553023
Axis point -18.92874915 311.14198102 0.00000000
Rotation angle (degrees) 18.23849932
Shift along axis -4.87492575
> fitmap #1 inMap #2
Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743
points
correlation = 0.2334, correlation about mean = -0.02837, overlap = 8.389
steps = 48, shift = 0.0151, angle = 0.019 degrees
Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc
(#2) coordinates:
Matrix rotation and translation
0.95001450 -0.30882171 -0.04584324 94.83063200
0.30778500 0.95103352 -0.02834839 21.92933971
0.05235306 0.01282152 0.99854633 -7.81473725
Axis 0.06579474 -0.15693012 0.98541564
Axis point -19.23451998 311.23024477 0.00000000
Rotation angle (degrees) 18.23205286
Shift along axis -4.90278102
> select add #2
2 models selected
> ui mousemode right translate
> ui mousemode right zoom
> ui mousemode right "translate selected models"
> ui mousemode right translate
> ui mousemode right select
> ui mousemode right zoom
> ui mousemode right translate
> ui mousemode right rotate
> ui mousemode right "translate selected models"
> ui mousemode right "rotate selected models"
> set bgColor gray
> set bgColor #80808000
> set bgColor white
> set bgColor #ffffff00
> set bgColor black
> set bgColor transparent
> lighting simple
> lighting soft
> lighting full
> lighting flat
> lighting shadows true intensity 0.5
> graphics silhouettes false
> lighting simple
> select subtract #2
Nothing selected
> view
> view orient
> ui tool show "Side View"
> ui mousemode right rotate
> ui mousemode right translate
> ui mousemode right zoom
> ui mousemode right "translate selected models"
> ui mousemode right "rotate selected models"
> ui mousemode right "move picked models"
> ui mousemode right "translate selected atoms"
> ui mousemode right pivot
> ui mousemode right distance
> ui mousemode right translate
> ui mousemode right zoom
> ui mousemode right distance
> ui mousemode right translate
> fitmap #1 inMap #2
Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743
points
correlation = 0.2334, correlation about mean = -0.02839, overlap = 8.39
steps = 76, shift = 0.00831, angle = 0.0135 degrees
Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc
(#2) coordinates:
Matrix rotation and translation
0.95000935 -0.30883842 -0.04583739 94.83702599
0.30781402 0.95103105 -0.02811530 21.87267429
0.05227587 0.01260040 0.99855319 -7.74655049
Axis 0.06506861 -0.15679684 0.98548507
Axis point -19.05935937 311.19243964 0.00000000
Rotation angle (degrees) 18.23212260
Shift along axis -4.89276300
> deactivate #2
Unknown command: deactivate #2
> deactivate #1
Unknown command: deactivate #1
> deactivate
Unknown command: deactivate
> deactivate #2
Unknown command: deactivate #2
> select add #2
2 models selected
> activate only
Unknown command: activate only
> select add #1
4 models selected
> select subtract #1
2 models selected
> select subtract #2
Nothing selected
> select add #2
2 models selected
> select subtract #2
Nothing selected
> select add #2
2 models selected
> select subtract #2
Nothing selected
> select add #1
2 models selected
> select subtract #1
Nothing selected
> select add #1
2 models selected
> select subtract #1
Nothing selected
> select add #2
2 models selected
> select subtract #2
Nothing selected
> select add #1
2 models selected
> split #1 #2
> select add #2
4 models selected
> select subtract #2
2 models selected
> select subtract #1
Nothing selected
> select add #2
2 models selected
> select subtract #2
Nothing selected
> select add #1
2 models selected
> select subtract #1
Nothing selected
> select add #2
2 models selected
> select add #1
4 models selected
> select subtract #1
2 models selected
> select subtract #2
Nothing selected
> unsplit #1 #2
Unknown command: unsplit #1 #2
> close #1
> close #2
> open /Users/dudleyja/Downloads/emd_9216.map
Opened emd_9216.map as #1, grid size 600,600,600, pixel 0.685, shown at level
0.00537, step 4, values float32
> open /Users/dudleyja/Downloads/cryosparc_P3_J253_004_volume_map.mrc
Opened cryosparc_P3_J253_004_volume_map.mrc as #2, grid size 384,384,384,
pixel 1.56, shown at level 0.0778, step 2, values float32
> volume #2 level 0.1103
> select add #2
2 models selected
Drag select of 2 cryosparc_P3_J253_004_volume_map.mrc
> fitmap #1 inMap #2
Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743
points
correlation = 0.2334, correlation about mean = -0.02839, overlap = 8.39
steps = 372, shift = 72.9, angle = 18.2 degrees
Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc
(#2) coordinates:
Matrix rotation and translation
0.94999813 -0.30886874 -0.04586568 94.86339556
0.30784260 0.95102100 -0.02814224 21.86182602
0.05231148 0.01261566 0.99855113 -7.76271711
Axis 0.06512868 -0.15688120 0.98546768
Axis point -18.99879558 311.24090480 0.00000000
Rotation angle (degrees) 18.23425855
Shift along axis -4.90128853
> undo
> hide #1.1 models
> show #1.1 models
> hide #!1 models
> show #!1 models
> hide #!2 models
> show #!2 models
> hide #2.1 models
> show #2.1 models
Drag select of 2 cryosparc_P3_J253_004_volume_map.mrc
> select subtract #2
Nothing selected
> select subtract #2.1
Nothing selected
> select add #1
2 models selected
> ui mousemode right "rotate selected models"
> view matrix models
> #1,-0.060742,-0.90317,-0.42496,474.03,0.29903,-0.42266,0.85553,113.83,-0.95231,-0.07511,0.29575,336.53
> ui mousemode right "translate selected models"
> view matrix models
> #1,-0.060742,-0.90317,-0.42496,584.06,0.29903,-0.42266,0.85553,103.55,-0.95231,-0.07511,0.29575,439.81
> view matrix models
> #1,-0.060742,-0.90317,-0.42496,594.86,0.29903,-0.42266,0.85553,157.6,-0.95231,-0.07511,0.29575,436.26
> ui mousemode right "rotate selected models"
> view matrix models
> #1,0.26734,0.25447,-0.92939,409.7,-0.38803,-0.85441,-0.34556,604.16,-0.88202,0.45302,-0.12968,404.87
> fitmap #1 inMap #2
Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743
points
correlation = 0.4741, correlation about mean = 0.1148, overlap = 22.86
steps = 208, shift = 39.8, angle = 8.99 degrees
Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc
(#2) coordinates:
Matrix rotation and translation
0.18902660 0.14197864 -0.97165375 430.92590045
-0.36350032 -0.90908427 -0.20355171 609.31406651
-0.91221514 0.39167314 -0.12023182 417.45303130
Axis 0.76003280 -0.07589618 -0.64543777
Axis point -0.00000000 269.14288635 473.56867599
Rotation angle (degrees) 156.94725249
Shift along axis 11.83325621
> view matrix models
> #1,-0.021314,-0.65719,-0.75343,580.96,0.069305,0.75081,-0.65687,298.47,0.99737,-0.066216,0.029543,112.98
> fitmap #1 inMap #2
Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743
points
correlation = 0.8483, correlation about mean = 0.4534, overlap = 75.42
steps = 272, shift = 39.4, angle = 25.6 degrees
Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc
(#2) coordinates:
Matrix rotation and translation
-0.16161724 -0.89491524 -0.41594060 606.54494749
-0.04533003 0.42776881 -0.90275081 405.19784616
0.98581188 -0.12704549 -0.10970135 163.52245989
Axis 0.42776267 -0.77299635 0.46850373
Axis point 352.35019193 0.00000000 450.72248472
Rotation angle (degrees) 114.94669460
Shift along axis 22.85171176
> volume #2 level 0.1014
===== Log before crash end =====
Log:
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 M2 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: Mac14,9
Model Number: Z17G002HSLL/A
Chip: Apple M2 Pro
Total Number of Cores: 10 (6 performance and 4 efficiency)
Memory: 16 GB
System Firmware Version: 10151.140.19
OS Loader Version: 10151.140.19
Software:
System Software Overview:
System Version: macOS 14.6.1 (23G93)
Kernel Version: Darwin 23.6.0
Time since boot: 7 days, 7 hours, 46 minutes
Graphics/Displays:
Apple M2 Pro:
Chipset Model: Apple M2 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: 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
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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Mac Qt 6.6 crash in _NSViewHierarchyDidChangeBackingProperties.