![[ChimeraX Issue Tracking System]](/trac/ChimeraX/chrome/site/ChimeraX-icon.svg){kind=icon}
Opened 11 months ago
Closed 11 months ago
#16331 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-x86_64-i386-64bit
ChimeraX Version: 1.8rc202405312319 (2024-05-31 23:19:45 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 0x00007ff846b35dc0 (most recent call first):
File "/Applications/ChimeraX-1.8-rc2024.05.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/ui/gui.py", line 307 in event_loop
File "/Applications/ChimeraX-1.8-rc2024.05.31.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-rc2024.05.31.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.surface._surface, 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.core._mac_util, OpenGL_accelerate.numpy_formathandler, OpenGL_accelerate.nones_formathandler, chimerax.mmcif._mmcif, chimerax.mmcif.mmcif, chimerax.atomic._ribbons, chimerax.graphics._graphics, chimerax.pdb._pdbio, PIL._imagingmath, PyQt6.QtOpenGL, PyQt6.QtOpenGLWidgets (total: 53)
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{
"uptime" : 15000,
"procRole" : "Background",
"version" : 2,
"userID" : 501,
"deployVersion" : 210,
"modelCode" : "iMac19,2",
"coalitionID" : 1950,
"osVersion" : {
"train" : "macOS 14.6.1",
"build" : "23G93",
"releaseType" : "User"
},
"captureTime" : "2024-11-19 12:20:42.3513 +0100",
"codeSigningMonitor" : 0,
"incident" : "073F9107-B75D-4E4D-8E08-FAC252018F92",
"pid" : 2700,
"cpuType" : "X86-64",
"roots_installed" : 0,
"bug_type" : "309",
"procLaunch" : "2024-11-19 10:11:55.7384 +0100",
"procStartAbsTime" : 7909200297050,
"procExitAbsTime" : 15635451286756,
"procName" : "ChimeraX",
"procPath" : "\/Applications\/ChimeraX-1.8-rc2024.05.31.app\/Contents\/MacOS\/ChimeraX",
"bundleInfo" : {"CFBundleShortVersionString":"1.8.0","CFBundleVersion":"1.8.0.0","CFBundleIdentifier":"edu.ucsf.cgl.ChimeraX"},
"storeInfo" : {"deviceIdentifierForVendor":"C1EA1B9A-F055-530D-B6B6-85AE9E793405","thirdParty":true},
"parentProc" : "launchd",
"parentPid" : 1,
"coalitionName" : "edu.ucsf.cgl.ChimeraX",
"crashReporterKey" : "7A21E191-6EA9-20C9-CEFB-44DD8B4C9426",
"codeSigningID" : "edu.ucsf.cgl.ChimeraX",
"codeSigningTeamID" : "LWV8X224YF",
"codeSigningFlags" : 570491649,
"codeSigningValidationCategory" : 6,
"codeSigningTrustLevel" : 4294967295,
"sip" : "enabled",
"vmRegionInfo" : "0 is not in any region. Bytes before following region: 4388225024\n REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL\n UNUSED SPACE AT START\n---> \n __TEXT 1058f0000-1058f4000 [ 16K] r-x\/r-x SM=COW \/Applications\/ChimeraX-1.8-rc2024.05.31.app\/Contents\/MacOS\/ChimeraX",
"exception" : {"codes":"0x0000000000000001, 0x0000000000000000","rawCodes":[1,0],"type":"EXC_BAD_ACCESS","signal":"SIGSEGV","subtype":"KERN_INVALID_ADDRESS at 0x0000000000000000"},
"termination" : {"flags":0,"code":11,"namespace":"SIGNAL","indicator":"Segmentation fault: 11","byProc":"ChimeraX","byPid":2700},
"ktriageinfo" : "VM - (arg = 0x3) mach_vm_allocate_kernel failed within call to vm_map_enter\nVM - (arg = 0x3) mach_vm_allocate_kernel failed within call to vm_map_enter\nVM - (arg = 0x3) mach_vm_allocate_kernel failed within call to vm_map_enter\nVM - (arg = 0x3) mach_vm_allocate_kernel failed within call to vm_map_enter\nVM - (arg = 0x3) mach_vm_allocate_kernel failed within call to vm_map_enter\n",
"vmregioninfo" : "0 is not in any region. Bytes before following region: 4388225024\n REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL\n UNUSED SPACE AT START\n---> \n __TEXT 1058f0000-1058f4000 [ 16K] r-x\/r-x SM=COW \/Applications\/ChimeraX-1.8-rc2024.05.31.app\/Contents\/MacOS\/ChimeraX",
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"faultingThread" : 0,
"threads" : 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"CFBundleIdentifier" : "com.apple.CoreFoundation",
"size" : 4829181,
"uuid" : "c5e5acb6-9e44-3aa3-bd21-0a5b4a2eee5e",
"path" : "\/System\/Library\/Frameworks\/CoreFoundation.framework\/Versions\/A\/CoreFoundation",
"name" : "CoreFoundation",
"CFBundleVersion" : "2602"
},
{
"source" : "P",
"arch" : "x86_64",
"base" : 140703364276224,
"CFBundleShortVersionString" : "2.1.1",
"CFBundleIdentifier" : "com.apple.HIToolbox",
"size" : 2732020,
"uuid" : "2aa738bf-9f72-3227-8bba-7eae7b9f080b",
"path" : "\/System\/Library\/Frameworks\/Carbon.framework\/Versions\/A\/Frameworks\/HIToolbox.framework\/Versions\/A\/HIToolbox",
"name" : "HIToolbox"
},
{
"source" : "P",
"arch" : "x86_64",
"base" : 140703242903552,
"CFBundleShortVersionString" : "6.9",
"CFBundleIdentifier" : "com.apple.AppKit",
"size" : 21172216,
"uuid" : "d0e19a37-f677-32b5-b3d2-005e60b90f7f",
"path" : "\/System\/Library\/Frameworks\/AppKit.framework\/Versions\/C\/AppKit",
"name" : "AppKit",
"CFBundleVersion" : "2487.70.105"
},
{
"source" : "P",
"arch" : "x86_64",
"base" : 140703181438976,
"size" : 591904,
"uuid" : "18f658dd-20f3-324d-b7ac-8a9c60b574b3",
"path" : "\/usr\/lib\/dyld",
"name" : "dyld"
},
{
"source" : "P",
"arch" : "x86_64",
"base" : 140703184322560,
"size" : 503796,
"uuid" : "69eca28c-bfb7-35bf-ad4f-1bece712d239",
"path" : "\/usr\/lib\/libc++.1.dylib",
"name" : "libc++.1.dylib"
}
],
"sharedCache" : {
"base" : 140703180742656,
"size" : 25769803776,
"uuid" : "b8509d0f-c366-3716-9a03-efa00b40318a"
},
"vmSummary" : "ReadOnly portion of Libraries: Total=1.2G resident=0K(0%) swapped_out_or_unallocated=1.2G(100%)\nWritable regions: Total=1.2G written=0K(0%) resident=0K(0%) swapped_out=0K(0%) unallocated=1.2G(100%)\n\n VIRTUAL REGION \nREGION TYPE SIZE COUNT (non-coalesced) \n=========== ======= ======= \nAccelerate framework 128K 1 \nActivity Tracing 256K 1 \nCG image 256K 19 \nColorSync 248K 30 \nCoreAnimation 672K 92 \nCoreGraphics 16K 3 \nCoreUI image data 3900K 29 \nFoundation 68K 2 \nIOKit 15.5M 2 \nKernel Alloc Once 8K 1 \nMALLOC 890.7M 543 \nMALLOC guard page 32K 8 \nMALLOC_LARGE (reserved) 384K 1 reserved VM address space (unallocated)\nMALLOC_REALLOC (reserved) 108K 1 reserved VM address space (unallocated)\nMach message 16K 2 \nOpenGL GLSL 384K 4 \nSTACK GUARD 108K 27 \nStack 149.2M 28 \nStack Guard 56.0M 1 \nVM_ALLOCATE 201.0M 180 \nVM_ALLOCATE (reserved) 32.0M 1 reserved VM address space (unallocated)\n__CTF 824 1 \n__DATA 44.9M 786 \n__DATA_CONST 64.1M 459 \n__DATA_DIRTY 1841K 229 \n__FONT_DATA 2352 1 \n__GLSLBUILTINS 5174K 1 \n__INFO_FILTER 8 1 \n__LINKEDIT 211.0M 149 \n__OBJC_RO 71.9M 1 \n__OBJC_RW 2201K 2 \n__TEXT 1.0G 793 \ndyld private memory 32K 2 \nmapped file 223.4M 57 \nshared memory 2988K 26 \n=========== ======= ======= \nTOTAL 2.9G 3484 \nTOTAL, minus reserved VM space 2.9G 3484 \n",
"legacyInfo" : {
"threadTriggered" : {
"name" : "CrBrowserMain",
"queue" : "com.apple.main-thread"
}
},
"logWritingSignature" : "fcc63f32cc2fe88f0f5d042cd2b2b7f5f6c50587",
"trialInfo" : {
"rollouts" : [
{
"rolloutId" : "6297d96be2c9387df974efa4",
"factorPackIds" : {
},
"deploymentId" : 240000032
},
{
"rolloutId" : "648a2601f74c42732876cb5b",
"factorPackIds" : {
"SIRI_TEXT_TO_SPEECH" : "672b8260ffcf8c4a41afecbf"
},
"deploymentId" : 240000269
}
],
"experiments" : [
{
"treatmentId" : "45f4e2a5-551b-4bc2-a2dc-19c244dda8f8",
"experimentId" : "6643969b3099cf28e049862f",
"deploymentId" : 400000007
}
]
}
}
===== Log before crash start =====
UCSF ChimeraX version: 1.8rc202405312319 (2024-05-31)
© 2016-2024 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open "/Users/ajserrato/Documents/Labo/Resultados/TRXs y TRX-like
> proteins/TRX-like proteins/ACHTs/Estructuras ACHT2 e interacción con otras
> proteínas/fold_trxf1_cfbp1/fold_trxf1_cfbp1_model_0.cif"
Chain information for fold_trxf1_cfbp1_model_0.cif #1
---
Chain | Description
A | .
B C D E | .
> hide atoms
> show cartoons
> lighting flat
> graphics silhouettes false
> lighting flat
> ui tool show "AlphaFold Error Plot"
> alphafold pae #1 file "/Users/ajserrato/Documents/Labo/Resultados/TRXs y
> TRX-like proteins/TRX-like proteins/ACHTs/Estructuras ACHT2 e interacción
> con otras proteínas/fold_trxf1_cfbp1/fold_trxf1_cfbp1_full_data_0.json"
> color bfactor #1 palette alphafold
11889 atoms, 1553 residues, atom bfactor range 15 to 98.1
> alphafold contacts /A toAtoms /B distance 8
Found 224 residue or atom pairs within distance 8
> hide #!1 models
> show #!1 models
> hide #!1 models
> hide #1.1 models
> show #!1 models
> save /Users/ajserrato/Desktop/image5.png supersample 3
> show #1.1 models
> save /Users/ajserrato/Desktop/image6.png supersample 3
> open "/Users/ajserrato/Documents/Labo/Resultados/TRXs y TRX-like
> proteins/TRX-like proteins/ACHTs/Estructuras ACHT2 e interacción con otras
> proteínas/fold_cfbp1_acht2a/fold_cfbp1_acht2a_model_0.cif"
Chain information for fold_cfbp1_acht2a_model_0.cif #2
---
Chain | Description
A B C D | .
E | .
> hide atoms
> show cartoons
> hide #!1 models
> close #1
> ui tool show "AlphaFold Error Plot"
> alphafold pae #2 file "/Users/ajserrato/Documents/Labo/Resultados/TRXs y
> TRX-like proteins/TRX-like proteins/ACHTs/Estructuras ACHT2 e interacción
> con otras proteínas/fold_cfbp1_acht2a/fold_cfbp1_acht2a_full_data_0.json"
> color bfactor #2 palette alphafold
12162 atoms, 1589 residues, atom bfactor range 16.5 to 98
> alphafold contacts /A toAtoms /E distance 8
Found 220 residue or atom pairs within distance 8
> select clear
> hide #!2 models
> show #!2 models
> hide #2.1 models
> show #2.1 models
> hide #2.1 models
> save /Users/ajserrato/Desktop/image7.png supersample 3
> show #2.1 models
> save /Users/ajserrato/Desktop/image8.png supersample 3
> open "/Users/ajserrato/Documents/Labo/Resultados/TRXs y TRX-like
> proteins/TRX-like proteins/ACHTs/Estructuras ACHT2 e interacción con otras
> proteínas/cfbp1_acht2b/fold_cfbp1_acht2b_model_0.cif"
Chain information for fold_cfbp1_acht2b_model_0.cif #1
---
Chain | Description
A B C D | .
E | .
> hide atoms
> show cartoons
> close #2
> ui tool show "AlphaFold Error Plot"
> alphafold pae #1 file "/Users/ajserrato/Documents/Labo/Resultados/TRXs y
> TRX-like proteins/TRX-like proteins/ACHTs/Estructuras ACHT2 e interacción
> con otras proteínas/cfbp1_acht2b/fold_cfbp1_acht2b_full_data_0.json"
> color bfactor #1 palette alphafold
12200 atoms, 1590 residues, atom bfactor range 17.2 to 97.9
> alphafold contacts /A toAtoms /E distance 8
Found 232 residue or atom pairs within distance 8
> hide #1.1 models
> save /Users/ajserrato/Desktop/image9.png supersample 3
> show #1.1 models
> hide #1.1 models
> show #1.1 models
> save /Users/ajserrato/Desktop/image10.png supersample 3
> open "/Users/ajserrato/Documents/Labo/Resultados/TRXs y TRX-like
> proteins/TRX-like proteins/ACHTs/Estructuras ACHT2 e interacción con otras
> proteínas/fold_trxm2_cfbp1/fold_trxm2_cfbp1_model_0.cif"
Chain information for fold_trxm2_cfbp1_model_0.cif #2
---
Chain | Description
A | .
B C D E | .
> hide atoms
> show cartoons
> close #1
> select clear
> select ::name="CYS"
186 atoms, 155 bonds, 31 residues, 1 model selected
> style sel sphere
Changed 186 atom styles
> show sel atoms
> hide sel atoms
> ui tool show "AlphaFold Error Plot"
> alphafold pae #2 file "/Users/ajserrato/Documents/Labo/Resultados/TRXs y
> TRX-like proteins/TRX-like proteins/ACHTs/Estructuras ACHT2 e interacción
> con otras proteínas/fold_trxm2_cfbp1/fold_trxm2_cfbp1_full_data_0.json"
> color bfactor #2 palette alphafold
11836 atoms, 1546 residues, atom bfactor range 15.2 to 97.9
> alphafold contacts /A toAtoms /E distance 8
Found 0 residue or atom pairs within distance 8
> alphafold contacts /C toAtoms /A distance 8
Found 181 residue or atom pairs within distance 8
> set bgColor white
> hide #!2 models
> show #!2 models
> key red:low orange: yellow: cornflowerblue: blue:high
> hide #1 models
> hide #!2 models
> show #!2 models
> hide #2.1 models
> save /Users/ajserrato/Desktop/image3.png supersample 3
> select clear
> save /Users/ajserrato/Desktop/image4.png supersample 3
> show #2.1 models
> undo
> show #1 models
> hide #1 models
> show #2.1 models
> hide #2.1 models
> save /Users/ajserrato/Desktop/image5.png supersample 3
> show #2.1 models
> save /Users/ajserrato/Desktop/image6.png supersample 3
> open "/Users/ajserrato/Documents/Labo/Resultados/TRXs y TRX-like
> proteins/TRX-like proteins/ACHTs/Estructuras ACHT2 e interacción con otras
> proteínas/fold_trxf1_cfbp1/fold_trxf1_cfbp1_model_0.cif"
Chain information for fold_trxf1_cfbp1_model_0.cif #3
---
Chain | Description
A | .
B C D E | .
> hide atoms
> show cartoons
> close #2
> ui tool show "AlphaFold Error Plot"
> alphafold pae #3 file "/Users/ajserrato/Documents/Labo/Resultados/TRXs y
> TRX-like proteins/TRX-like proteins/ACHTs/Estructuras ACHT2 e interacción
> con otras proteínas/fold_trxf1_cfbp1/fold_trxf1_cfbp1_full_data_0.json"
> color bfactor #3 palette alphafold
11889 atoms, 1553 residues, atom bfactor range 15 to 98.1
> alphafold contacts /B toAtoms /A distance 8
Found 224 residue or atom pairs within distance 8
> hide #!3 models
> show #!3 models
> hide #3.1 models
> save /Users/ajserrato/Desktop/image7.png supersample 3
> show #3.1 models
> save /Users/ajserrato/Desktop/image8.png supersample 3
> open "/Users/ajserrato/Documents/Labo/Resultados/TRXs y TRX-like
> proteins/TRX-like proteins/ACHTs/Estructuras ACHT2 e interacción con otras
> proteínas/cfbp1_acht2a/fold_cfbp1_acht2a_model_0.cif"
Chain information for fold_cfbp1_acht2a_model_0.cif #2
---
Chain | Description
A B C D | .
E | .
> hide atoms
> show cartoons
> close #3
Drag select of 4 residues
> select clear
> ui tool show "AlphaFold Error Plot"
> alphafold pae #2 file "/Users/ajserrato/Documents/Labo/Resultados/TRXs y
> TRX-like proteins/TRX-like proteins/ACHTs/Estructuras ACHT2 e interacción
> con otras proteínas/cfbp1_acht2a/fold_cfbp1_acht2a_full_data_0.json"
> color bfactor #2 palette alphafold
12162 atoms, 1589 residues, atom bfactor range 16.5 to 98
> alphafold contacts /E toAtoms /A distance 8
Found 220 residue or atom pairs within distance 8
> hide #2.1 models
> save /Users/ajserrato/Desktop/image9.png supersample 3
> show #2.1 models
> save /Users/ajserrato/Desktop/image10.png supersample 3
> open "/Users/ajserrato/Documents/Labo/Resultados/TRXs y TRX-like
> proteins/TRX-like proteins/ACHTs/Estructuras ACHT2 e interacción con otras
> proteínas/cfbp1_acht2b/fold_cfbp1_acht2b_model_0.cif"
Chain information for fold_cfbp1_acht2b_model_0.cif #3
---
Chain | Description
A B C D | .
E | .
> hide atoms
> show cartoons
> close #2
> ui tool show "AlphaFold Error Plot"
> alphafold pae #3 file "/Users/ajserrato/Documents/Labo/Resultados/TRXs y
> TRX-like proteins/TRX-like proteins/ACHTs/Estructuras ACHT2 e interacción
> con otras proteínas/cfbp1_acht2b/fold_cfbp1_acht2b_full_data_0.json"
> color bfactor #3 palette alphafold
12200 atoms, 1590 residues, atom bfactor range 17.2 to 97.9
> alphafold contacts /E toAtoms /A distance 8
Found 232 residue or atom pairs within distance 8
> hide #3.1 models
> save /Users/ajserrato/Desktop/image11.png supersample 3
> show #3.1 models
> save /Users/ajserrato/Desktop/image12.png supersample 3
> show #1 models
> hide #3.1 models
> save /Users/ajserrato/Desktop/image13.png supersample 3
===== Log before crash end =====
Log:
UCSF ChimeraX version: 1.8rc202405312319 (2024-05-31)
© 2016-2024 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open "/Users/ajserrato/Documents/Labo/Resultados/TRXs y TRX-like
> proteins/TRX-like proteins/ACHTs/Estructuras ACHT2 e interacción con otras
> proteínas/trxf1/fold_trxf1_model_0.cif"
Chain information for fold_trxf1_model_0.cif #1
---
Chain | Description
A | .
OpenGL version: 4.1 ATI-5.5.17
OpenGL renderer: AMD Radeon Pro 555X OpenGL Engine
OpenGL vendor: ATI Technologies Inc.
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: iMac
Model Identifier: iMac19,2
Processor Name: Quad-Core Intel Core i3
Processor Speed: 3,6 GHz
Number of Processors: 1
Total Number of Cores: 4
L2 Cache (per Core): 256 KB
L3 Cache: 6 MB
Memory: 8 GB
System Firmware Version: 2022.100.22.0.0
OS Loader Version: 580.140.1~8
SMC Version (system): 2.47f3
Software:
System Software Overview:
System Version: macOS 14.6.1 (23G93)
Kernel Version: Darwin 23.6.0
Time since boot: 4 horas y 35 minutos
Graphics/Displays:
Radeon Pro 555X:
Chipset Model: Radeon Pro 555X
Type: GPU
Bus: PCIe
PCIe Lane Width: x8
VRAM (Total): 2 GB
Vendor: AMD (0x1002)
Device ID: 0x67ef
Revision ID: 0x00e3
ROM Revision: 113-C981AA-042
VBIOS Version: 113-C9819A14GP-003
EFI Driver Version: 01.B1.042
Metal Support: Metal 2
Displays:
iMac:
Display Type: Built-In Retina LCD
Resolution: 4096 x 2304 Retina
Framebuffer Depth: 30-Bit Color (ARGB2101010)
Main Display: Yes
Mirror: Off
Online: Yes
Automatically Adjust Brightness: Yes
Connection Type: Internal
HP L1740:
Resolution: 1280 x 1024 (SXGA - Super eXtended Graphics Array)
UI Looks like: 1280 x 1024 @ 60.00Hz
Framebuffer Depth: 30-Bit Color (ARGB2101010)
Display Serial Number: CND6450VZC
Mirror: Off
Online: Yes
Rotation: Supported
Connection Type: Analog VGA or Analog Over DVI-I
Adapter Firmware Version: 1,00
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: 1.6.3
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
ChimeraX-AtomicLibrary: 14.0.5
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: 1.8rc202405312319
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: 1.5.16
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: 1.13.4
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: 3.0.45
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
traitlets: 5.14.2
typing-extensions: 4.12.1
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 , 11 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 , 11 months ago
| Resolution: | → duplicate |
|---|---|
| Status: | assigned → closed |
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