![[ChimeraX Issue Tracking System]](/trac/ChimeraX/chrome/site/ChimeraX-icon.svg){kind=icon}
Opened 9 months ago
Closed 9 months ago
#16927 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-15.3.1-arm64-arm-64bit
ChimeraX Version: 1.9 (2024-12-11 19:11:19 UTC)
Description
Last time you used ChimeraX it crashed.
This is a known crash that we are unable to fix. Here is information that may help you avoid this crash. The Qt window toolkit crashed due to a display configuration change, typically when waking from sleep or when an external display is disconnected or connected. This has only been seen on Mac computers. We hope a newer version of Qt will fix it. We update ChimeraX daily builds whenever a new Qt is released. You can check here https://www.cgl.ucsf.edu/chimerax/docs/troubleshoot.html#macdisplay to see if it has been fixed in a newer ChimeraX.
Fatal Python error: Segmentation fault
Current thread 0x00000001f80a4840 (most recent call first):
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/ui/gui.py", line 330 in event_loop
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py", line 1054 in init
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py", line 1217 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.surface._surface, chimerax.map._map, charset_normalizer.md, requests.packages.charset_normalizer.md, requests.packages.chardet.md, PIL._imaging, kiwisolver._cext, OpenGL_accelerate.errorchecker, OpenGL_accelerate.wrapper, OpenGL_accelerate.formathandler, OpenGL_accelerate.arraydatatype, OpenGL_accelerate.latebind, OpenGL_accelerate.vbo, chimerax.pdb_lib._load_libs, chimerax.core._mac_util, OpenGL_accelerate.numpy_formathandler, OpenGL_accelerate.nones_formathandler, chimerax.pdb._pdbio, chimerax.atomic._ribbons, chimerax.graphics._graphics, chimerax.mmcif._mmcif, chimerax.mmcif.mmcif, psutil._psutil_osx, psutil._psutil_posix, PIL._imagingmath (total: 52)
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{
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"procRole" : "Background",
"version" : 2,
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"modelCode" : "Mac16,6",
"coalitionID" : 2195,
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"build" : "24D70",
"releaseType" : "User"
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"captureTime" : "2025-02-21 17:04:05.4933 +0900",
"codeSigningMonitor" : 2,
"incident" : "5C61143E-6588-4600-948A-7D47D8BABE62",
"pid" : 5325,
"translated" : false,
"cpuType" : "ARM-64",
"roots_installed" : 0,
"bug_type" : "309",
"procLaunch" : "2025-02-21 16:07:11.8085 +0900",
"procStartAbsTime" : 578530872664,
"procExitAbsTime" : 660458570588,
"procName" : "ChimeraX",
"procPath" : "\/Applications\/ChimeraX-1.9.app\/Contents\/MacOS\/ChimeraX",
"bundleInfo" : {"CFBundleShortVersionString":"1.9.0","CFBundleVersion":"1.9.0.0","CFBundleIdentifier":"edu.ucsf.cgl.ChimeraX"},
"storeInfo" : {"deviceIdentifierForVendor":"CFA69DE2-A59A-5FAE-B906-672A2B85CA8D","thirdParty":true},
"parentProc" : "launchd",
"parentPid" : 1,
"coalitionName" : "edu.ucsf.cgl.ChimeraX",
"crashReporterKey" : "F0F130D3-F268-FD30-006B-5793B06DB6B6",
"codeSigningID" : "edu.ucsf.cgl.ChimeraX",
"codeSigningTeamID" : "LWV8X224YF",
"codeSigningFlags" : 570491649,
"codeSigningValidationCategory" : 6,
"codeSigningTrustLevel" : 4294967295,
"instructionByteStream" : {"beforePC":"fyMD1f17v6n9AwCRcuD\/l78DAJH9e8Go\/w9f1sADX9YQKYDSARAA1A==","atPC":"AwEAVH8jA9X9e7+p\/QMAkWfg\/5e\/AwCR\/XvBqP8PX9bAA1\/WcAqA0g=="},
"bootSessionUUID" : "510F0D6A-A042-49FA-A714-9A32BE6AF570",
"wakeTime" : 3983,
"sleepWakeUUID" : "F6A43721-33A2-4A2F-BDCC-C2308279F0AF",
"sip" : "enabled",
"vmRegionInfo" : "0x19c is not in any region. Bytes before following region: 4331060836\n REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL\n UNUSED SPACE AT START\n---> \n __TEXT 10226c000-102270000 [ 16K] r-x\/r-x SM=COW \/Applications\/ChimeraX-1.9.app\/Contents\/MacOS\/ChimeraX",
"exception" : {"codes":"0x0000000000000001, 0x000000000000019c","rawCodes":[1,412],"type":"EXC_BAD_ACCESS","signal":"SIGSEGV","subtype":"KERN_INVALID_ADDRESS at 0x000000000000019c"},
"termination" : {"flags":0,"code":11,"namespace":"SIGNAL","indicator":"Segmentation fault: 11","byProc":"ChimeraX","byPid":5325},
"vmregioninfo" : "0x19c is not in any region. Bytes before following region: 4331060836\n REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL\n UNUSED SPACE AT START\n---> \n __TEXT 10226c000-102270000 [ 16K] r-x\/r-x SM=COW \/Applications\/ChimeraX-1.9.app\/Contents\/MacOS\/ChimeraX",
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"faultingThread" : 0,
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"path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/plugins\/imageformats\/libqtga.dylib",
"name" : "libqtga.dylib"
},
{
"source" : "P",
"arch" : "arm64",
"base" : 13048152064,
"size" : 32768,
"uuid" : "8659aa4e-a5dd-30ef-9dcb-66fb8dff410e",
"path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/plugins\/imageformats\/libqmacjp2.dylib",
"name" : "libqmacjp2.dylib"
},
{
"source" : "P",
"arch" : "arm64e",
"base" : 6417039360,
"size" : 49152,
"uuid" : "3d687e9b-e092-3632-bc1d-74b19d492de0",
"path" : "\/usr\/lib\/libobjc-trampolines.dylib",
"name" : "libobjc-trampolines.dylib"
},
{
"source" : "P",
"arch" : "arm64",
"base" : 6417121280,
"size" : 16384,
"uuid" : "f32b33dd-7a90-33ee-8137-4f8d18ea925d",
"path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/core\/_mac_util.cpython-311-darwin.so",
"name" : "_mac_util.cpython-311-darwin.so"
},
{
"source" : "P",
"arch" : "arm64",
"base" : 13155287040,
"size" : 49152,
"uuid" : "94921430-81c9-39ce-b5ef-78d1a90b407d",
"path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/plugins\/iconengines\/libqsvgicon.dylib",
"name" : "libqsvgicon.dylib"
},
{
"source" : "P",
"arch" : "arm64",
"base" : 14701953024,
"size" : 81920,
"uuid" : "703104dc-b212-3b8d-9c78-4f57b3c9cb18",
"path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/OpenGL_accelerate\/numpy_formathandler.cpython-311-darwin.so",
"name" : "numpy_formathandler.cpython-311-darwin.so"
},
{
"source" : "P",
"arch" : "arm64",
"base" : 14704803840,
"size" : 49152,
"uuid" : "12c53516-421d-3f7a-a81e-95bcfdb8a3ff",
"path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/OpenGL_accelerate\/nones_formathandler.cpython-311-darwin.so",
"name" : "nones_formathandler.cpython-311-darwin.so"
},
{
"source" : "P",
"arch" : "arm64",
"base" : 6144507904,
"size" : 147456,
"uuid" : "1e310bc7-5f96-396b-816d-5b40a3dde12c",
"path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/pdb\/_pdbio.cpython-311-darwin.so",
"name" : "_pdbio.cpython-311-darwin.so"
},
{
"source" : "P",
"arch" : "arm64",
"base" : 6144245760,
"size" : 81920,
"uuid" : "3133c77c-8bf7-32a3-b5db-cbfe2e50ce9d",
"path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/atomic\/_ribbons.cpython-311-darwin.so",
"name" : "_ribbons.cpython-311-darwin.so"
},
{
"source" : "P",
"arch" : "arm64",
"base" : 6144081920,
"size" : 16384,
"uuid" : "de871a78-14f2-3e72-9bde-e4f2c7493f1b",
"path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/graphics\/_graphics.cpython-311-darwin.so",
"name" : "_graphics.cpython-311-darwin.so"
},
{
"source" : "P",
"arch" : "arm64",
"base" : 14405713920,
"size" : 475136,
"uuid" : "0c6e9a11-e483-3d7d-a88f-8ad0507af167",
"path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/mmcif\/mmcif.cpython-311-darwin.so",
"name" : "mmcif.cpython-311-darwin.so"
},
{
"source" : "P",
"arch" : "arm64",
"base" : 14404288512,
"size" : 409600,
"uuid" : "1ab8e5e2-c699-3efb-8f77-d375e3793c8f",
"path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/mmcif\/_mmcif.cpython-311-darwin.so",
"name" : "_mmcif.cpython-311-darwin.so"
},
{
"source" : "P",
"arch" : "arm64",
"base" : 6144802816,
"size" : 32768,
"uuid" : "a55a4181-c446-3fa3-8fd6-27f845527eab",
"path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/psutil\/_psutil_osx.abi3.so",
"name" : "_psutil_osx.abi3.so"
},
{
"source" : "P",
"arch" : "arm64",
"base" : 6145736704,
"size" : 16384,
"uuid" : "a516c5bc-1157-318a-a306-5c9b350e0c09",
"path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/psutil\/_psutil_posix.abi3.so",
"name" : "_psutil_posix.abi3.so"
},
{
"source" : "P",
"arch" : "arm64",
"base" : 13161234432,
"size" : 32768,
"uuid" : "8abbdcef-1901-3d4b-9e6b-a38214b79214",
"path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PIL\/_imagingmath.cpython-311-darwin.so",
"name" : "_imagingmath.cpython-311-darwin.so"
},
{
"source" : "P",
"arch" : "arm64",
"base" : 13200932864,
"size" : 16384,
"uuid" : "c37482c0-7aab-3517-b3ef-3bd2294eab02",
"path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_multiprocessing.cpython-311-darwin.so",
"name" : "_multiprocessing.cpython-311-darwin.so"
},
{
"source" : "P",
"arch" : "arm64e",
"base" : 6684614656,
"size" : 241656,
"uuid" : "eee9d0d3-dffc-37cb-9ced-b27cd0286d8c",
"path" : "\/usr\/lib\/system\/libsystem_kernel.dylib",
"name" : "libsystem_kernel.dylib"
},
{
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"arch" : "arm64e",
"base" : 6684856320,
"size" : 53248,
"uuid" : "642faf7a-874e-37e6-8aba-2b0cc09a3025",
"path" : "\/usr\/lib\/system\/libsystem_pthread.dylib",
"name" : "libsystem_pthread.dylib"
},
{
"source" : "P",
"arch" : "arm64e",
"base" : 6683389952,
"size" : 532476,
"uuid" : "92699527-645f-3d8d-aed8-1cfb0c034e15",
"path" : "\/usr\/lib\/system\/libsystem_c.dylib",
"name" : "libsystem_c.dylib"
},
{
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"arch" : "arm64e",
"base" : 6685093888,
"size" : 32748,
"uuid" : "984d08b8-f85c-36f5-9e17-5bff7fc779a3",
"path" : "\/usr\/lib\/system\/libsystem_platform.dylib",
"name" : "libsystem_platform.dylib"
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"size" : 21221376,
"uuid" : "b88a44c1-d617-33dc-90ed-b6ab417c428e",
"path" : "\/System\/Library\/Frameworks\/AppKit.framework\/Versions\/C\/AppKit",
"name" : "AppKit",
"CFBundleVersion" : "2575.40.6"
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{
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"arch" : "arm64e",
"base" : 6781562880,
"CFBundleShortVersionString" : "1.600.0",
"CFBundleIdentifier" : "com.apple.SkyLight",
"size" : 5427200,
"uuid" : "f66e0c94-99b5-3fcd-b726-3e3cbca668a3",
"path" : "\/System\/Library\/PrivateFrameworks\/SkyLight.framework\/Versions\/A\/SkyLight",
"name" : "SkyLight"
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"size" : 290816,
"uuid" : "5576e4fd-aad2-3608-8c8f-4eec421236f9",
"path" : "\/usr\/lib\/system\/libdispatch.dylib",
"name" : "libdispatch.dylib"
},
{
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"arch" : "arm64e",
"base" : 6685323264,
"CFBundleShortVersionString" : "6.9",
"CFBundleIdentifier" : "com.apple.CoreFoundation",
"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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"CFBundleIdentifier" : "com.apple.HIToolbox",
"size" : 3178496,
"uuid" : "950f1236-acaf-379d-819f-6c6b0b5deabd",
"path" : "\/System\/Library\/Frameworks\/Carbon.framework\/Versions\/A\/Frameworks\/HIToolbox.framework\/Versions\/A\/HIToolbox",
"name" : "HIToolbox"
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"arch" : "arm64e",
"base" : 6681190400,
"size" : 532288,
"uuid" : "398a133c-9bcb-317f-a064-a40d3cea3c0f",
"path" : "\/usr\/lib\/dyld",
"name" : "dyld"
},
{
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"source" : "A",
"base" : 0,
"uuid" : "00000000-0000-0000-0000-000000000000"
},
{
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"arch" : "arm64e",
"base" : 6704140288,
"CFBundleShortVersionString" : "6.9",
"CFBundleIdentifier" : "com.apple.Foundation",
"size" : 14974976,
"uuid" : "16d282d0-8b48-3e76-8036-fcb45dece518",
"path" : "\/System\/Library\/Frameworks\/Foundation.framework\/Versions\/C\/Foundation",
"name" : "Foundation",
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"sharedCache" : {
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"uuid" : "d272b91e-f9f0-3854-b5b9-508b21c25dcc"
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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=5.0G written=2820K(0%) resident=2820K(0%) swapped_out=0K(0%) unallocated=5.0G(100%)\n\n VIRTUAL REGION \nREGION TYPE SIZE COUNT (non-coalesced) \n=========== ======= ======= \nAccelerate framework 384K 3 \nActivity Tracing 256K 1 \nCG image 848K 41 \nColorSync 656K 33 \nCoreAnimation 2416K 123 \nCoreGraphics 48K 3 \nCoreImage 32K 2 \nCoreUI image data 3328K 47 \nFoundation 48K 2 \nKernel Alloc Once 32K 1 \nMALLOC 4.0G 155 \nMALLOC guard page 288K 18 \nMach message 64K 2 \nOpenGL GLSL 384K 4 \nSTACK GUARD 56.7M 42 \nStack 201.9M 42 \nVM_ALLOCATE 318.9M 226 \nVM_ALLOCATE (reserved) 352.0M 8 reserved VM address space (unallocated)\n__AUTH 5288K 672 \n__AUTH_CONST 70.9M 920 \n__CTF 824 1 \n__DATA 33.2M 1059 \n__DATA_CONST 34.0M 1076 \n__DATA_DIRTY 2763K 342 \n__FONT_DATA 2352 1 \n__GLSLBUILTINS 5174K 1 \n__INFO_FILTER 8 1 \n__LINKEDIT 636.9M 150 \n__OBJC_RW 2374K 1 \n__TEXT 1.3G 1096 \n__TPRO_CONST 272K 2 \ndyld private memory 32K 2 \nmapped file 721.4M 102 \nowned unmapped memory 148.0M 1 \npage table in kernel 2820K 1 \nshared memory 3264K 30 \n=========== ======= ======= \nTOTAL 7.8G 6211 \nTOTAL, minus reserved VM space 7.5G 6211 \n",
"legacyInfo" : {
"threadTriggered" : {
"name" : "CrBrowserMain",
"queue" : "com.apple.main-thread"
}
},
"logWritingSignature" : "3dfc49e3079845ec73cecc07a489e6ec2c2e904f",
"trialInfo" : {
"rollouts" : [
{
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"factorPackIds" : {
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},
{
"rolloutId" : "652eff3d1bce5442b8d753c9",
"factorPackIds" : {
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}
===== Log before crash start =====
Startup Messages
---
note | available bundle cache has not been initialized yet
UCSF ChimeraX version: 1.9 (2024-12-11)
© 2016-2024 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open "/Users/uozumilab2/Library/CloudStorage/GoogleDrive-
> yuki.muraoka.d4@tohoku.ac.jp/共有ドライブ/01_魚住研 (科学論文・work)/論文・ファイル交換用/2025_cryo-
> EM_KAT1/cryoSPARC/KAT1_apo_0.806pixel/KAT1_apo_0.806pixel_coot/chainABCD/KAT1_AF3_chainABCD_fit
> to apo-tetramer-coot_ver3.pdb"
Chain information for KAT1_AF3_chainABCD_fit to apo-tetramer-coot_ver3.pdb #1
---
Chain | Description
A B C D | No description available
Computing secondary structure
> open "/Users/uozumilab2/Library/CloudStorage/GoogleDrive-
> yuki.muraoka.d4@tohoku.ac.jp/共有ドライブ/01_魚住研 (科学論文・work)/論文・ファイル交換用/2025_cryo-
> EM_KAT1/cryoSPARC/KAT1_apo_0.806pixel/KAT1_apo_0.806pixel_raw
> data/cryosparc_P76_J127_015_volume_map_sharp.mrc"
Opened cryosparc_P76_J127_015_volume_map_sharp.mrc as #2, grid size
448,448,448, pixel 0.806, shown at level 0.0554, step 2, values float32
> open "/Users/uozumilab2/Library/CloudStorage/GoogleDrive-
> yuki.muraoka.d4@tohoku.ac.jp/共有ドライブ/01_魚住研 (科学論文・work)/論文・ファイル交換用/2025_cryo-
> EM_KAT1/cryoSPARC/KAT1_Na2S4_0.806pixel/coot/KAT1_Na2S4_chainABCD_coot/KAT1_AF3_chainABCD_fit
> to Na2S4-tetramer-coot_ver5-1_Nter.pdb"
Chain information for KAT1_AF3_chainABCD_fit to Na2S4-tetramer-
coot_ver5-1_Nter.pdb #3
---
Chain | Description
A B C D | No description available
E F G H | No description available
> open "/Users/uozumilab2/Library/CloudStorage/GoogleDrive-
> yuki.muraoka.d4@tohoku.ac.jp/共有ドライブ/01_魚住研 (科学論文・work)/論文・ファイル交換用/2025_cryo-
> EM_KAT1/cryoSPARC/KAT1_Na2S4_0.806pixel/raw
> data/cryosparc_P75_J499_010_volume_map_sharp.mrc"
Opened cryosparc_P75_J499_010_volume_map_sharp.mrc as #4, grid size
448,448,448, pixel 0.806, shown at level 0.0452, step 2, values float32
> surface dust #2 size 8.06
> surface dust #4 size 8.06
> volume #2 step 1
> volume #4 step 1
> lighting full
> lighting shadows false
> color #2 white models
> color #2 #ffffff80 models
> color #4 white models
> color #4 #ffffff80 models
> volume #2 level 0.099
> volume #4 level 0.099
> hide #1 models
> hide #!4 models
> hide #!2 models
> show #1 models
> hide #3 models
> hide #1 models
> show #3 models
> select add #3
15120 atoms, 15556 bonds, 1832 residues, 1 model selected
> show sel cartoons
Computing secondary structure
> style sel stick
Changed 15120 atom styles
> hide sel atoms
> set bgColor white
> color #3 #ffd479ff
> color #3 #fffb00ff
> color #3 #ff9300ff
> color #3 #ff7e79ff
> color #3 #ff9300ff
> color #3 #ffd479ff
> color #3 #fffc79ff
> color #3 #ff9300ff
> color #3 #ff2600ff
> color #3 #ff7e79ff
> color #3 #ff9300ff
> select subtract #3
Nothing selected
> select add #3
15120 atoms, 15556 bonds, 1832 residues, 1 model selected
> color sel byhetero
> select subtract #3
Nothing selected
> hide #3 models
> show #1 models
> select add #1
14948 atoms, 15384 bonds, 1812 residues, 1 model selected
> color #3 #73fdffff
> color #3 #ff9300ff
> show #3 models
> hide #3 models
> color #1 #73fcd6ff
> color #1 #73fdffff
> color #1 #00fdffff
> color #1 #73fdffff
> color sel byhetero
> select subtract #1
Nothing selected
> show #!2 models
> ui tool show "Show Sequence Viewer"
> sequence chain #1/A #1/B #1/C #1/D #3/A #3/B #3/C #3/D
Alignment identifier is 1
> select #1/A-D:338 #3/A-D:338
48 atoms, 40 bonds, 8 residues, 2 models selected
> select #1/A-D:338 #3/A-D:338
48 atoms, 40 bonds, 8 residues, 2 models selected
1 [ID: 1] region 8 chains [292] RMSD: 10.640
> show sel & #1 atoms
> select #1/A-D:173 #3/A-D:173
112 atoms, 120 bonds, 8 residues, 2 models selected
> select #1/A-D:173-174 #3/A-D:173-174
200 atoms, 208 bonds, 16 residues, 2 models selected
1 [ID: 1] region 8 chains [127-128] RMSD: 13.490
> select #1/A-D:143-144 #3/A-D:143-144
96 atoms, 88 bonds, 16 residues, 2 models selected
> select #1/A-D:143-144 #3/A-D:143-144
96 atoms, 88 bonds, 16 residues, 2 models selected
1 [ID: 1] region 8 chains [97-98] RMSD: 15.084
> select #1/A-D:129 #3/A-D:129
64 atoms, 56 bonds, 8 residues, 2 models selected
> select #1/A-D:129-130 #3/A-D:129-130
104 atoms, 96 bonds, 16 residues, 2 models selected
1 [ID: 1] region 8 chains [83-84] RMSD: 16.704
> select #1/A-D:99-100 #3/A-D:99-100
96 atoms, 88 bonds, 16 residues, 2 models selected
> select #1/A-D:99-101 #3/A-D:99-101
184 atoms, 184 bonds, 24 residues, 2 models selected
1 [ID: 1] region 8 chains [53-55] RMSD: 16.576
> select #1/A-D:154 #3/A-D:154
64 atoms, 56 bonds, 8 residues, 2 models selected
> select #1/A-D:153-154 #3/A-D:153-154
128 atoms, 120 bonds, 16 residues, 2 models selected
1 [ID: 1] region 8 chains [107-108] RMSD: 16.980
> hide #!2 models
> select #1/A-D:204-205 #3/A-D:204-205
112 atoms, 104 bonds, 16 residues, 2 models selected
> select #1/A-D:204-205 #3/A-D:204-205
112 atoms, 104 bonds, 16 residues, 2 models selected
1 [ID: 1] region 8 chains [158-159] RMSD: 8.435
> select #1/A-D:204 #3/A-D:204
56 atoms, 48 bonds, 8 residues, 2 models selected
> select #1/A-D:204-205 #3/A-D:204-205
112 atoms, 104 bonds, 16 residues, 2 models selected
1 [ID: 1] region 8 chains [158-159] RMSD: 8.435
> select #1/A-D:185-186 #3/A-D:185-186
136 atoms, 128 bonds, 16 residues, 2 models selected
> select #1/A-D:185-186 #3/A-D:185-186
136 atoms, 128 bonds, 16 residues, 2 models selected
1 [ID: 1] region 8 chains [139-140] RMSD: 10.059
> select #1/A-D:178 #3/A-D:178
56 atoms, 48 bonds, 8 residues, 2 models selected
> select #1/A-D:196 #3/A-D:196
64 atoms, 56 bonds, 8 residues, 2 models selected
> select #1/A-D:196 #3/A-D:196
64 atoms, 56 bonds, 8 residues, 2 models selected
1 [ID: 1] region 8 chains [150] RMSD: 9.673
> select #1/A-D:189 #3/A-D:189
64 atoms, 56 bonds, 8 residues, 2 models selected
> select #1/A-D:189 #3/A-D:189
64 atoms, 56 bonds, 8 residues, 2 models selected
1 [ID: 1] region 8 chains [143] RMSD: 10.267
> show sel & #1 atoms
> show #!2 models
> select add #1
14980 atoms, 15412 bonds, 1816 residues, 2 models selected
> select subtract #1
32 atoms, 28 bonds, 4 residues, 1 model selected
> volume #4 level 0.111
> volume #2 level 0.111
> volume #2 level 0.08748
> volume #2 level 0.111
> volume #2 level 0.099
> graphics silhouettes true
> view sel
No displayed objects specified.
> ui tool show "Side View"
> save /Users/uozumilab2/Desktop/image1.png supersample 3
> hide #1 models
> hide #!2 models
> show #3 models
> show #!4 models
> show sel atoms
> select #1/A-D:338-339 #3/A-D:338-339
112 atoms, 104 bonds, 16 residues, 2 models selected
> select #1/A-D:338-339 #3/A-D:338-339
112 atoms, 104 bonds, 16 residues, 2 models selected
1 [ID: 1] region 8 chains [292-293] RMSD: 10.816
> select #1/A-D:338 #3/A-D:338
48 atoms, 40 bonds, 8 residues, 2 models selected
> select #1/A-D:338 #3/A-D:338
48 atoms, 40 bonds, 8 residues, 2 models selected
1 [ID: 1] region 8 chains [292] RMSD: 10.640
> show sel & #3 atoms
> color sel & #3 byhetero
> select add #3
15144 atoms, 15576 bonds, 1836 residues, 2 models selected
> select subtract #3
24 atoms, 20 bonds, 4 residues, 1 model selected
> volume #4 level 0.099
> ui tool show "Side View"
> select #1/A-D:189 #3/A-D:189
64 atoms, 56 bonds, 8 residues, 2 models selected
> select #1/A-D:189 #3/A-D:189
64 atoms, 56 bonds, 8 residues, 2 models selected
1 [ID: 1] region 8 chains [143] RMSD: 10.267
> select #1/A-D:202-203 #3/A-D:202-203
112 atoms, 104 bonds, 16 residues, 2 models selected
> select #1/A-D:202-203 #3/A-D:202-203
112 atoms, 104 bonds, 16 residues, 2 models selected
1 [ID: 1] region 8 chains [156-157] RMSD: 9.163
> select #1/A-D:202 #3/A-D:202
64 atoms, 56 bonds, 8 residues, 2 models selected
> select #1/A-D:202 #3/A-D:202
64 atoms, 56 bonds, 8 residues, 2 models selected
1 [ID: 1] region 8 chains [156] RMSD: 8.856
> select #1/A-D:201 #3/A-D:201
64 atoms, 56 bonds, 8 residues, 2 models selected
> select #1/A-D:199-201 #3/A-D:199-201
192 atoms, 184 bonds, 24 residues, 2 models selected
1 [ID: 1] region 8 chains [153-155] RMSD: 8.994
> select #1/A-D:343-344 #3/A-D:343-344
128 atoms, 120 bonds, 16 residues, 2 models selected
> select #1/A-D:343-345 #3/A-D:343-345
160 atoms, 152 bonds, 24 residues, 2 models selected
1 [ID: 1] region 8 chains [297-299] RMSD: 9.834
> select #1/A-D:243 #3/A-D:243
64 atoms, 56 bonds, 8 residues, 2 models selected
> select #1/A-D:243-244 #3/A-D:243-244
176 atoms, 184 bonds, 16 residues, 2 models selected
1 [ID: 1] region 8 chains [197-198] RMSD: 10.218
> select #1/A-D:365 #3/A-D:365
64 atoms, 56 bonds, 8 residues, 2 models selected
> select #1/A-D:365-477 #3/A-D:365-477
7344 atoms, 7536 bonds, 904 residues, 2 models selected
1 [ID: 1] region 8 chains [319-431] RMSD: 13.181
> select #1/A-D:321 #3/A-D:321
48 atoms, 40 bonds, 8 residues, 2 models selected
> select #1/A-D:320-321 #3/A-D:320-321
88 atoms, 80 bonds, 16 residues, 2 models selected
1 [ID: 1] region 8 chains [274-275] RMSD: 12.270
> select #1/A-D:188 #3/A-D:188
64 atoms, 56 bonds, 8 residues, 2 models selected
> select #1/A-D:188-247 #3/A-D:188-247
4104 atoms, 4256 bonds, 480 residues, 2 models selected
1 [ID: 1] region 8 chains [142-201] RMSD: 9.094
> select #1/A-D:196-197 #3/A-D:196-197
152 atoms, 144 bonds, 16 residues, 2 models selected
> select #1/A-D:196-197 #3/A-D:196-197
152 atoms, 144 bonds, 16 residues, 2 models selected
1 [ID: 1] region 8 chains [150-151] RMSD: 9.099
> select #1/A-D:209 #3/A-D:209
64 atoms, 56 bonds, 8 residues, 2 models selected
> select #1/A-D:209 #3/A-D:209
64 atoms, 56 bonds, 8 residues, 2 models selected
1 [ID: 1] region 8 chains [163] RMSD: 8.162
> select #1/A-D:219 #3/A-D:219
64 atoms, 56 bonds, 8 residues, 2 models selected
> select #1/A-D:219 #3/A-D:219
64 atoms, 56 bonds, 8 residues, 2 models selected
1 [ID: 1] region 8 chains [173] RMSD: 9.129
> select #1/A-D:231 #3/A-D:231
64 atoms, 56 bonds, 8 residues, 2 models selected
> select #1/A-D:231 #3/A-D:231
64 atoms, 56 bonds, 8 residues, 2 models selected
1 [ID: 1] region 8 chains [185] RMSD: 7.863
> select #1/A-D:196 #3/A-D:196
64 atoms, 56 bonds, 8 residues, 2 models selected
> select #1/A-D:196 #3/A-D:196
64 atoms, 56 bonds, 8 residues, 2 models selected
1 [ID: 1] region 8 chains [150] RMSD: 9.673
> select #1/A-D:189 #3/A-D:189
64 atoms, 56 bonds, 8 residues, 2 models selected
> select #1/A-D:189 #3/A-D:189
64 atoms, 56 bonds, 8 residues, 2 models selected
1 [ID: 1] region 8 chains [143] RMSD: 10.267
> select add #3
15152 atoms, 15584 bonds, 1836 residues, 2 models selected
> select subtract #3
32 atoms, 28 bonds, 4 residues, 1 model selected
> save /Users/uozumilab2/Desktop/image2.png supersample 3
> hide #3 models
> hide #!4 models
> show #!2 models
> show #!4 models
> hide #!4 models
> show #!4 models
> transparency 0
> hide #!2 models
> show #!2 models
> hide #!4 models
> color #2 #73fdffff models
> hide #!2 models
> show #!4 models
> color #4 #ff7e79ff models
> color #4 #ff9300ff models
> view orient
Mismatch between Cocoa 'v' and Carbon '\x0' for virtual key 9 with
QFlags(NoModifier)
Mismatch between Cocoa 'V' and Carbon '\x0' for virtual key 9 with
QFlags(ShiftModifier)
Mismatch between Cocoa 'v' and Carbon '\x0' for virtual key 9 with
QFlags(ControlModifier)
Mismatch between Cocoa 'v' and Carbon '\x0' for virtual key 9 with
QFlags(ShiftModifier|ControlModifier)
Mismatch between Cocoa '\u221a' and Carbon '\x0' for virtual key 9 with
QFlags(AltModifier)
Mismatch between Cocoa '\u25ca' and Carbon '\x0' for virtual key 9 with
QFlags(ShiftModifier|AltModifier)
Mismatch between Cocoa '\u221a' and Carbon '\x0' for virtual key 9 with
QFlags(ControlModifier|AltModifier)
Mismatch between Cocoa '\u25ca' and Carbon '\x0' for virtual key 9 with
QFlags(ShiftModifier|ControlModifier|AltModifier)
Mismatch between Cocoa '\x16' and Carbon '\x0' for virtual key 9 with
QFlags(MetaModifier)
Mismatch between Cocoa '\x16' and Carbon '\x0' for virtual key 9 with
QFlags(ShiftModifier|MetaModifier)
Mismatch between Cocoa '\x16' and Carbon '\x0' for virtual key 9 with
QFlags(ControlModifier|MetaModifier)
Mismatch between Cocoa '\x16' and Carbon '\x0' for virtual key 9 with
QFlags(ShiftModifier|ControlModifier|MetaModifier)
Mismatch between Cocoa '\x16' and Carbon '\x0' for virtual key 9 with
QFlags(AltModifier|MetaModifier)
Mismatch between Cocoa '\x16' and Carbon '\x0' for virtual key 9 with
QFlags(ShiftModifier|AltModifier|MetaModifier)
Mismatch between Cocoa '\x16' and Carbon '\x0' for virtual key 9 with
QFlags(ControlModifier|AltModifier|MetaModifier)
Mismatch between Cocoa '\x16' and Carbon '\x0' for virtual key 9 with
QFlags(ShiftModifier|ControlModifier|AltModifier|MetaModifier)
Mismatch between Cocoa '\xd' and Carbon '\x0' for virtual key 36 with
QFlags(NoModifier)
Mismatch between Cocoa '\xd' and Carbon '\x0' for virtual key 36 with
QFlags(ShiftModifier)
Mismatch between Cocoa '\xd' and Carbon '\x0' for virtual key 36 with
QFlags(ControlModifier)
Mismatch between Cocoa '\xd' and Carbon '\x0' for virtual key 36 with
QFlags(ShiftModifier|ControlModifier)
Mismatch between Cocoa '\xd' and Carbon '\x0' for virtual key 36 with
QFlags(AltModifier)
Mismatch between Cocoa '\xd' and Carbon '\x0' for virtual key 36 with
QFlags(ShiftModifier|AltModifier)
Mismatch between Cocoa '\xd' and Carbon '\x0' for virtual key 36 with
QFlags(ControlModifier|AltModifier)
Mismatch between Cocoa '\xd' and Carbon '\x0' for virtual key 36 with
QFlags(ShiftModifier|ControlModifier|AltModifier)
Mismatch between Cocoa '\xd' and Carbon '\x0' for virtual key 36 with
QFlags(MetaModifier)
Mismatch between Cocoa '\xd' and Carbon '\x0' for virtual key 36 with
QFlags(ShiftModifier|MetaModifier)
Mismatch between Cocoa '\xd' and Carbon '\x0' for virtual key 36 with
QFlags(ControlModifier|MetaModifier)
Mismatch between Cocoa '\xd' and Carbon '\x0' for virtual key 36 with
QFlags(ShiftModifier|ControlModifier|MetaModifier)
Mismatch between Cocoa '\xd' and Carbon '\x0' for virtual key 36 with
QFlags(AltModifier|MetaModifier)
Mismatch between Cocoa '\xd' and Carbon '\x0' for virtual key 36 with
QFlags(ShiftModifier|AltModifier|MetaModifier)
Mismatch between Cocoa '\xd' and Carbon '\x0' for virtual key 36 with
QFlags(ControlModifier|AltModifier|MetaModifier)
Mismatch between Cocoa '\xd' and Carbon '\x0' for virtual key 36 with
QFlags(ShiftModifier|ControlModifier|AltModifier|MetaModifier)
> turn x 90
> turn y 90
> turn y 10
> save /Users/uozumilab2/Desktop/image3.png supersample 3
> hide #!4 models
> show #1 models
> hide #1 models
> show #!2 models
> save /Users/uozumilab2/Desktop/image4.png supersample 3
===== Log before crash end =====
Log:
Startup Messages
---
note | available bundle cache has not been initialized yet
UCSF ChimeraX version: 1.9 (2024-12-11)
© 2016-2024 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
OpenGL version: 4.1 Metal - 89.3
OpenGL renderer: Apple M4 Max
OpenGL vendor: Apple
Python: 3.11.4
Locale: UTF-8
Qt version: PyQt6 6.7.1, Qt 6.7.1
Qt runtime version: 6.7.3
Qt platform: cocoa
Hardware:
Hardware Overview:
Model Name: MacBook Pro
Model Identifier: Mac16,6
Model Number: MX2G3J/A
Chip: Apple M4 Max
Total Number of Cores: 14 (10 performance and 4 efficiency)
Memory: 36 GB
System Firmware Version: 11881.81.4
OS Loader Version: 11881.81.4
Software:
System Software Overview:
System Version: macOS 15.3.1 (24D70)
Kernel Version: Darwin 24.3.0
Time since boot: 11時間 12分
Graphics/Displays:
Apple M4 Max:
Chipset Model: Apple M4 Max
Type: GPU
Bus: Built-In
Total Number of Cores: 32
Vendor: Apple (0x106b)
Metal Support: Metal 3
Displays:
EX-LDH271D:
Resolution: 1920 x 1080 (1080p FHD - Full High Definition)
UI Looks like: 1920 x 1080 @ 60.00Hz
Main Display: Yes
Mirror: On
Mirror Status: Master Mirror
Online: Yes
Rotation: Supported
Color LCD:
Display Type: Built-in Liquid Retina XDR Display
Resolution: 3024 x 1964 Retina
Mirror: On
Mirror Status: Hardware Mirror
Online: Yes
Automatically Adjust Brightness: Yes
Connection Type: Internal
Installed Packages:
alabaster: 1.0.0
anyio: 4.7.0
appdirs: 1.4.4
appnope: 0.1.4
asttokens: 3.0.0
auditwheel: 6.1.0
babel: 2.16.0
beautifulsoup4: 4.12.3
blockdiag: 3.0.0
blosc2: 3.0.0
build: 1.2.1
certifi: 2023.11.17
cftime: 1.6.4.post1
charset-normalizer: 3.4.0
ChimeraX-AddCharge: 1.5.18
ChimeraX-AddH: 2.2.6
ChimeraX-AlignmentAlgorithms: 2.0.2
ChimeraX-AlignmentHdrs: 3.5
ChimeraX-AlignmentMatrices: 2.1
ChimeraX-Alignments: 2.16.1
ChimeraX-AlphaFold: 1.0.1
ChimeraX-AltlocExplorer: 1.1.2
ChimeraX-AmberInfo: 1.0
ChimeraX-Arrays: 1.1
ChimeraX-Atomic: 1.58.8
ChimeraX-AtomicLibrary: 14.1.11
ChimeraX-AtomSearch: 2.0.1
ChimeraX-AxesPlanes: 2.4
ChimeraX-BasicActions: 1.1.2
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 3.0.0
ChimeraX-BondRot: 2.0.4
ChimeraX-BugReporter: 1.0.1
ChimeraX-BuildStructure: 2.13.1
ChimeraX-Bumps: 1.0
ChimeraX-BundleBuilder: 1.4.0
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: 2.3
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: 1.9
ChimeraX-CoreFormats: 1.2
ChimeraX-coulombic: 1.4.4
ChimeraX-Crosslinks: 1.0
ChimeraX-Crystal: 1.0
ChimeraX-CrystalContacts: 1.0.1
ChimeraX-DataFormats: 1.2.3
ChimeraX-Dicom: 1.2.6
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: 1.4.1
ChimeraX-Hbonds: 2.5
ChimeraX-Help: 1.3
ChimeraX-HKCage: 1.3
ChimeraX-IHM: 1.1
ChimeraX-ImageFormats: 1.2
ChimeraX-IMOD: 1.0
ChimeraX-IO: 1.0.3
ChimeraX-ItemsInspection: 1.0.1
ChimeraX-IUPAC: 1.0
ChimeraX-KVFinder: 1.2.1
ChimeraX-Label: 1.1.14
ChimeraX-ListInfo: 1.2.2
ChimeraX-Log: 1.2
ChimeraX-LookingGlass: 1.1
ChimeraX-Maestro: 1.9.1
ChimeraX-Map: 1.3
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: 2.1.6
ChimeraX-MCopy: 1.0
ChimeraX-MDcrds: 2.7.2
ChimeraX-MedicalToolbar: 1.1
ChimeraX-Meeting: 1.0.1
ChimeraX-MLP: 1.1.1
ChimeraX-mmCIF: 2.14.2
ChimeraX-MMTF: 2.2
ChimeraX-ModelArchive: 1.0
ChimeraX-Modeller: 1.5.18
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-MutationScores: 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: 1.14
ChimeraX-OrthoPick: 1.0.1
ChimeraX-PDB: 2.7.6
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: 1.1.2
ChimeraX-PubChem: 2.2
ChimeraX-ReadPbonds: 1.0.1
ChimeraX-Registration: 1.1.2
ChimeraX-RemoteControl: 1.0
ChimeraX-RenderByAttr: 1.6.2
ChimeraX-RenumberResidues: 1.1
ChimeraX-ResidueFit: 1.0.1
ChimeraX-RestServer: 1.3.1
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: 3.5.6
ChimeraX-SelInspector: 1.0
ChimeraX-SeqView: 2.14
ChimeraX-Shape: 1.0.1
ChimeraX-Shell: 1.0.1
ChimeraX-Shortcuts: 1.2.0
ChimeraX-ShowSequences: 1.0.3
ChimeraX-SideView: 1.0.1
ChimeraX-SimilarStructures: 1.0.1
ChimeraX-Smiles: 2.1.2
ChimeraX-SmoothLines: 1.0
ChimeraX-SpaceNavigator: 1.0
ChimeraX-StdCommands: 1.18.1
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: 1.2.3
ChimeraX-ToolshedUtils: 1.2.4
ChimeraX-Topography: 1.0
ChimeraX-ToQuest: 1.0
ChimeraX-Tug: 1.0.1
ChimeraX-UI: 1.41
ChimeraX-Umap: 1.0
ChimeraX-uniprot: 2.3.1
ChimeraX-UnitCell: 1.0.1
ChimeraX-ViewDockX: 1.4.4
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: 1.3.1
cxservices: 1.2.3
cycler: 0.12.1
Cython: 3.0.10
debugpy: 1.8.9
decorator: 5.1.1
docutils: 0.21.2
executing: 2.1.0
filelock: 3.15.4
fonttools: 4.55.3
funcparserlib: 2.0.0a0
glfw: 2.8.0
grako: 3.16.5
h11: 0.14.0
h5py: 3.12.1
html2text: 2024.2.26
httpcore: 1.0.7
httpx: 0.28.1
idna: 3.10
ihm: 1.3
imagecodecs: 2024.6.1
imagesize: 1.4.1
ipykernel: 6.29.5
ipython: 8.26.0
ipywidgets: 8.1.5
jedi: 0.19.1
Jinja2: 3.1.4
jupyter_client: 8.6.2
jupyter_core: 5.7.2
jupyterlab_widgets: 3.0.13
kiwisolver: 1.4.7
line_profiler: 4.1.3
lxml: 5.2.2
lz4: 4.3.3
MarkupSafe: 3.0.2
matplotlib: 3.9.2
matplotlib-inline: 0.1.7
msgpack: 1.0.8
ndindex: 1.9.2
nest-asyncio: 1.6.0
netCDF4: 1.6.5
networkx: 3.3
nibabel: 5.2.0
nptyping: 2.5.0
numexpr: 2.10.2
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: 10.4.0
pip: 24.2
pkginfo: 1.11.1
platformdirs: 4.3.6
prompt_toolkit: 3.0.48
psutil: 6.0.0
ptyprocess: 0.7.0
pure_eval: 0.2.3
py-cpuinfo: 9.0.0
pycollada: 0.8
pydicom: 2.4.4
pyelftools: 0.31
Pygments: 2.18.0
pynmrstar: 3.3.4
pynrrd: 1.0.0
PyOpenGL: 3.1.7
PyOpenGL-accelerate: 3.1.7
pyopenxr: 1.0.3401
pyparsing: 3.2.0
pyproject_hooks: 1.2.0
PyQt6-commercial: 6.7.1
PyQt6-Qt6: 6.7.3
PyQt6-WebEngine-commercial: 6.7.0
PyQt6-WebEngine-Qt6: 6.7.3
PyQt6-WebEngineSubwheel-Qt6: 6.7.3
PyQt6_sip: 13.8.0
python-dateutil: 2.9.0.post0
pytz: 2024.2
pyzmq: 26.2.0
qtconsole: 5.5.2
QtPy: 2.4.2
qtshim: 1.0
RandomWords: 0.4.0
requests: 2.32.3
scipy: 1.14.0
setuptools: 72.1.0
sfftk-rw: 0.8.1
six: 1.16.0
sniffio: 1.3.1
snowballstemmer: 2.2.0
sortedcontainers: 2.4.0
soupsieve: 2.6
Sphinx: 8.0.2
sphinx-autodoc-typehints: 2.2.3
sphinxcontrib-applehelp: 2.0.0
sphinxcontrib-blockdiag: 3.0.0
sphinxcontrib-devhelp: 2.0.0
sphinxcontrib-htmlhelp: 2.1.0
sphinxcontrib-jsmath: 1.0.1
sphinxcontrib-qthelp: 2.0.0
sphinxcontrib-serializinghtml: 2.0.0
stack-data: 0.6.3
superqt: 0.6.3
tables: 3.10.1
tcia_utils: 1.5.1
tifffile: 2024.7.24
tinyarray: 1.2.4
tornado: 6.4.2
traitlets: 5.14.3
typing_extensions: 4.12.2
tzdata: 2024.2
urllib3: 2.2.3
wcwidth: 0.2.13
webcolors: 24.6.0
wheel: 0.43.0
wheel-filename: 1.4.1
widgetsnbextension: 4.0.13
Change History (2)
comment:1 by , 9 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 , 9 months ago
| Resolution: | → duplicate |
|---|---|
| Status: | assigned → closed |
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