![[ChimeraX Issue Tracking System]](/trac/ChimeraX/chrome/site/ChimeraX-icon.svg){kind=icon}
Opened 14 months ago
Closed 14 months ago
#15802 closed defect (duplicate)
Crash on Mac waking from sleep
| Reported by: | Owned by: | Tom Goddard | |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Window Toolkit | Version: | |
| Keywords: | Cc: | ||
| Blocked By: | Blocking: | ||
| Notify when closed: | Platform: | all | |
| Project: | ChimeraX |
Description
The following bug report has been submitted:
Platform: macOS-14.5-x86_64-i386-64bit
ChimeraX Version: 1.8 (2024-06-10 23:15:52 UTC)
Description
Last time you used ChimeraX it crashed.
Please describe steps that led to the crash here.
Fatal Python error: Segmentation fault
Current thread 0x00007ff84ed11fc0 (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.pdb_lib._load_libs, chimerax.map._map, charset_normalizer.md, PIL._imaging, matplotlib._c_internal_utils, matplotlib._path, kiwisolver._cext, matplotlib._image, lxml._elementpath, lxml.etree, chimerax.surface._surface, OpenGL_accelerate.errorchecker, OpenGL_accelerate.wrapper, OpenGL_accelerate.formathandler, OpenGL_accelerate.arraydatatype, OpenGL_accelerate.latebind, OpenGL_accelerate.vbo, chimerax.core._mac_util, chimerax.pdb._pdbio, chimerax.atomic._ribbons, chimerax.graphics._graphics, chimerax.mmcif._mmcif, chimerax.mmcif.mmcif, OpenGL_accelerate.numpy_formathandler, OpenGL_accelerate.nones_formathandler, PIL._imagingmath, chimerax.alignment_algs._sw, chimerax.dssp._dssp, chimerax.alignment_algs._nw, PyQt6.QtOpenGL, PyQt6.QtOpenGLWidgets (total: 58)
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{
"uptime" : 1800000,
"procRole" : "Background",
"version" : 2,
"userID" : 502,
"deployVersion" : 210,
"modelCode" : "iMac20,1",
"coalitionID" : 1003,
"osVersion" : {
"train" : "macOS 14.5",
"build" : "23F79",
"releaseType" : "User"
},
"captureTime" : "2024-08-21 09:24:41.5459 -0500",
"codeSigningMonitor" : 0,
"incident" : "1033A86A-0C0E-4629-BC78-EFFC2F57A52E",
"pid" : 28481,
"cpuType" : "X86-64",
"roots_installed" : 0,
"bug_type" : "309",
"procLaunch" : "2024-08-20 10:24:12.7124 -0500",
"procStartAbsTime" : 1811178553732977,
"procExitAbsTime" : 1894004558455412,
"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":"768DA260-76C1-5EB4-92DC-36F31D4684AE","thirdParty":true},
"parentProc" : "tcsh",
"parentPid" : 2047,
"coalitionName" : "com.apple.Terminal",
"crashReporterKey" : "D77CBDCE-560E-A76E-6409-11E87F8970FF",
"responsiblePid" : 2042,
"responsibleProc" : "Terminal",
"codeSigningID" : "edu.ucsf.cgl.ChimeraX",
"codeSigningTeamID" : "LWV8X224YF",
"codeSigningFlags" : 570491649,
"codeSigningValidationCategory" : 6,
"codeSigningTrustLevel" : 4294967295,
"bridgeVersion" : {"build":"21P5077","train":"8.5"},
"sip" : "enabled",
"vmRegionInfo" : "0 is not in any region. Bytes before following region: 4369108992\n REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL\n UNUSED SPACE AT START\n---> \n __TEXT 1046b5000-1046b9000 [ 16K] r-x\/r-x SM=COW \/Applications\/ChimeraX-1.8.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":28481},
"vmregioninfo" : "0 is not in any region. Bytes before following region: 4369108992\n REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL\n UNUSED SPACE AT START\n---> \n __TEXT 1046b5000-1046b9000 [ 16K] r-x\/r-x SM=COW \/Applications\/ChimeraX-1.8.app\/Contents\/MacOS\/ChimeraX",
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"faultingThread" : 0,
"threads" : 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"path" : "\/usr\/lib\/system\/libsystem_kernel.dylib",
"name" : "libsystem_kernel.dylib"
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"name" : "SkyLight"
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"path" : "\/usr\/lib\/system\/libdispatch.dylib",
"name" : "libdispatch.dylib"
},
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"path" : "\/usr\/lib\/dyld",
"name" : "dyld"
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"name" : "libc++.1.dylib"
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"sharedCache" : {
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"size" : 25769803776,
"uuid" : "b48cfc6b-b7ed-3343-97fb-f5187dc04df8"
},
"vmSummary" : "ReadOnly portion of Libraries: Total=1.2G resident=0K(0%) swapped_out_or_unallocated=1.2G(100%)\nWritable regions: Total=7.0G written=0K(0%) resident=0K(0%) swapped_out=0K(0%) unallocated=7.0G(100%)\n\n VIRTUAL REGION \nREGION TYPE SIZE COUNT (non-coalesced) \n=========== ======= ======= \nAccelerate framework 128K 1 \nActivity Tracing 256K 1 \nCG image 288K 27 \nColorSync 248K 30 \nCoreAnimation 800K 99 \nCoreGraphics 16K 3 \nCoreUI image data 4692K 33 \nFoundation 36K 2 \nIOKit 15.5M 2 \nKernel Alloc Once 8K 1 \nMALLOC 6.3G 160 \nMALLOC guard page 48K 12 \nMach message 24K 5 \nOpenGL GLSL 384K 4 \nSTACK GUARD 200K 50 \nStack 160.9M 51 \nStack Guard 56.0M 1 \nVM_ALLOCATE 309.5M 311 \nVM_ALLOCATE (reserved) 192.0M 1 reserved VM address space (unallocated)\n__CTF 824 1 \n__DATA 45.2M 797 \n__DATA_CONST 64.2M 460 \n__DATA_DIRTY 1842K 230 \n__FONT_DATA 2352 1 \n__GLSLBUILTINS 5174K 1 \n__INFO_FILTER 8 1 \n__LINKEDIT 212.2M 155 \n__OBJC_RO 71.8M 1 \n__OBJC_RW 2200K 2 \n__TEXT 1.0G 800 \ndyld private memory 292K 4 \nmapped file 511.6M 70 \nshared memory 3116K 28 \n=========== ======= ======= \nTOTAL 9.0G 3345 \nTOTAL, minus reserved VM space 8.8G 3345 \n",
"legacyInfo" : {
"threadTriggered" : {
"name" : "CrBrowserMain",
"queue" : "com.apple.main-thread"
}
},
"logWritingSignature" : "9b32d37eed40f7db94dcf0c0e7f64901f98a5d9d",
"trialInfo" : {
"rollouts" : [
{
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"factorPackIds" : {
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},
"deploymentId" : 240000131
},
{
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"factorPackIds" : {
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},
"deploymentId" : 240000001
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],
"experiments" : [
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"experimentId" : "6639bc6ba73d460582162323",
"deploymentId" : 400000006
},
{
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"experimentId" : "6643969b3099cf28e049862f",
"deploymentId" : 400000007
}
]
}
}
===== Log before crash start =====
> hide atoms
> show :695,651,653,702,662
> style ball
Changed 2444 atom styles
> showmet
Changed 2444 atom styles
> hide atoms
> show :685-714 atoms
> show :685-714,677 atoms
> distance /A:677@CD1 /A:708@CE
> show :666-685 atoms
> show :633-665 atoms
> hide atoms
> show :633-714 :ile,leu,val,met,ala,thr target a
> showmet
Changed 2444 atom styles
> hide atoms
> showmet
Changed 2444 atom styles
> hide #1:start-633 atoms
> distance /A:747@CD1 /A:750@CG2
> distance /A:746@CG1 /A:747@CD1
> distance /A:750@CG2 /A:721@CD2
> ~distance /A:750@CG2 /A:721@CD2
> distance /A:750@CG1 /A:721@CD2
> ~distance /A:750@CG1 /A:721@CD2
> distance /A:718@CD1 /A:750@CG1
> distance /A:718@CD2 /A:750@CG1
> ~distance /A:718@CD2 /A:750@CG1
> ~distance /A:718@CD1 /A:750@CG1
> distance /A:750@CG2 /A:718@CD2
> ~distance /A:750@CG2 /A:718@CD2
> label : 717
> show : TRP
> color : TRP pink target a
> color : TRP purple target a
> distance /A:684@CG2 /A:680@CE3
> distance /A:684@CG2 /A:680@CZ2
> ~distance /A:677@CD1 /A:708@CE
> ~distance /A:684@CG2 /A:680@CZ2
> ~distance /A:684@CG2 /A:680@CE3
> distance /A:680@NE1 /A:684@CG2
> distance /A:677@CG2 /A:677@CD1
> ~distance /A:677@CG2 /A:677@CD1
> distance /A:677@CD1 /A:655@NE1
> distance /A:726@NE1 /A:677@CD1
> distance /A:673@NE1 /A:657@CB
> distance /A:673@NE1 /A:701@CD1
> ~distance /A:673@NE1 /A:657@CB
> ~distance /A:673@NE1 /A:701@CD1
> distance /A:677@CD1 /A:673@NE1
> ~distance /A:677@CD1 /A:655@NE1
> distance /A:655@NE1 /A:677@CD1
> distance /A:673@CD1 /A:657@CB
> color : 680 lightpurple target a
Expected a color or one of 'byatom', 'bychain', 'byelement', 'byhetero',
'byidentity', 'bymodel', 'bynucleotide', 'bypolymer', 'fromatoms',
'fromcartoons', 'fromribbons', or 'random' or a keyword
> color : 680 byelement target a
> color : 680 beige target a
> color : 680 byelement target a
> ~distance /A:726@NE1 /A:677@CD1
> distance /A:726@NE1 /A:722@CE
> ~distance /A:726@NE1 /A:722@CE
> distance /A:708@CE /A:726@NE1
> ~distance /A:708@CE /A:726@NE1
> distance /A:726@NE1 /A:722@CE
> distance /A:708@CE /A:726@NE1
> ~distance /A:655@NE1 /A:677@CD1
> distance /A:655@NE1 /A:708@CE
> ~distance /A:655@NE1 /A:708@CE
> distance /A:680@NE1 /A:722@CE
> distance /A:655@CD1 /A:678@CD1
> color : 655 byelement target a
> ~distance /A:673@CD1 /A:657@CB
> distance /A:673@CD1 /A:656@CA
> ~distance /A:673@CD1 /A:656@CA
> distance /A:673@NE1 /A:656@CA
> ~distance /A:673@NE1 /A:656@CA
> distance /A:673@NE1 /A:726@NE1
> ~distance /A:673@NE1 /A:726@NE1
> ~distance /A:677@CD1 /A:673@NE1
> distance /A:673@NE1 /A:677@CG2
> distance /A:677@CD1 /A:673@NE1
> distance /A:677@CD1 /A:726@NE1
> ~distance /A:677@CD1 /A:726@NE1
> ~distance /A:677@CD1 /A:673@NE1
> ~distance /A:673@NE1 /A:677@CG2
> ~distance /A:655@CD1 /A:678@CD1
> distance /A:677@CD1 /A:655@NE1
> ~distance /A:677@CD1 /A:655@NE1
> ~distance /A:708@CE /A:726@NE1
> ~distance /A:726@NE1 /A:722@CE
> ~distance /A:680@NE1 /A:722@CE
> distance /A:673@NE1 /A:657@CB
> distance /A:677@CD1 /A:673@NE1
> distance /A:726@NE1 /A:677@CD1
> distance /A:673@NE1 /A:702@CD2
> distance /A:726@NE1 /A:673@CD1
r #2:685-714 pink target c
> showmet2
Changed 2444 atom styles
> hide #2 models
> distance #1.1/A:677@CD1 #1.1/A:708@CE
> show #2 models
> color #2:666-684 pink target c
> hide #2 models
> show #2 models
> hide #3.1 models
> show #3.1 models
> hide #2 models
> show #1.1 : TRP
> show #2 models
> hide #2 models
> show #2 models
> hide :start-633 atoms
> hide #2 models
> show #2 models
> hide #!1 models
> hide :start-633 atoms
> show : TRP
> show #!1 models
> matchmaker #3 to #1.1:633-714
No molecules/chains to match specified
> matchmaker #2 to #1.1:633-714
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker final.pdb, chain A (#1.1) with 6jpj.pdb, chain A (#2), sequence
alignment score = 393.4
RMSD between 41 pruned atom pairs is 1.207 angstroms; (across all 82 pairs:
7.440)
> hide :start-632
> hide :start-632 cartoons
> hide #!1 models
> show #!1 models
> hide #2 models
> show #2 models
> hide #!1 models
> show #!1 models
> hide #2 models
> show #2 models
> hide #!1 models
> distance #2/A:677@CD1 #2/A:708@CE
> show #!1 models
> matchmaker #2:633-714 to #1.1:633-714
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker final.pdb, chain A (#1.1) with 6jpj.pdb, chain A (#2), sequence
alignment score = 393.4
RMSD between 41 pruned atom pairs is 1.207 angstroms; (across all 82 pairs:
7.440)
> matchmaker #2 to #1.1:start-632
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker final.pdb, chain A (#1.1) with 6jpj.pdb, chain A (#2), sequence
alignment score = 854
RMSD between 109 pruned atom pairs is 1.274 angstroms; (across all 179 pairs:
8.031)
> matchmaker #2:633-714 to #1.1:633-714
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker final.pdb, chain A (#1.1) with 6jpj.pdb, chain A (#2), sequence
alignment score = 393.4
RMSD between 41 pruned atom pairs is 1.207 angstroms; (across all 82 pairs:
7.440)
> hide #!1 models
> show #!1 models
> hide #2 models
> show #2 models
> hide #!1 models
> show #!1 models
> hide #2 models
> show #2 models
> hide #!1 models
> distance #2/A:729@CB #2/A:735@CG2
> ~distance #2/A:729@CB #2/A:735@CG2
> show #!1 models
> hide #2 models
===== Log before crash end =====
Log:
> alias dd distance delete
> alias rd ui mousemode right distance
> alias rs ui mousemode right select
> alias nmr1 hide #1.2-20 models
> alias slall label sel text
> "{0.label_one_letter_code}{0.number}{0.insertion_code}"
> alias lmearo label #1:thr,met,ala,leu,val,ile,phe,tyr text
> "{0.label_one_letter_code}{0.number}{0.insertion_code}"
> alias showbb show #1@N,C,CA,O,H; cartoon #1 suppress false; transparency #1
> 50 target c; hide #1:hoh
> alias hidebb hide #1@N,C,CA,O,H target a; transparency $1 0 target c
> alias sdist ui tool show Distances
> alias showmet show #1:ile,leu,val,met,ala,thr target a; hide H; color #1:ile
> paleturquoise target a; color #1:leu lightsalmon target a; color #1:val
> khaki target a; color #1:met thistle target a; color #1:ala yellowgreen
> target ab; color #1:thr aquamarine target a;color byhetero target a ; style
> #1 ball
> alias showmet2 show #2:ile,leu,val,met,ala,thr target a; hide H; color
> #2:ile paleturquoise target a; color #2:leu lightsalmon target a; color
> #2:val khaki target a; color #2:met thistle target a; color #2:ala
> yellowgreen target ab; color #2:thr aquamarine target a;color byhetero
> target a ; style #2 ball
> alias showmet3 show #3:ile,leu,val,met,ala,thr target a; hide H; color
> #3:ile paleturquoise target a; color #3:leu lightsalmon target a; color
> #3:val khaki target a; color #3:met thistle target a; color #3:ala
> yellowgreen target ab; color #3:thr aquamarine target a;color byhetero
> target a ; style #3 ball
> alias showaro show #1:phe,tyr,his,trp target ab; hide H; color #1:phe plum
> target a; color #1:tyr lightpink target a; color byhetero target a
> ui mousemode right distance
> alias fgfr1_brake show #1: 546,562,638
> alias fgfr2_brake show #1: 549,565,641
> alias fgfr3_brake show #1: 540,556,632
> alias fgfr4_brake show #1: 535,551,627
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 6jpj.pdb
No such file/path: 6jpj.pdb
OpenGL version: 4.1 ATI-5.5.17
OpenGL renderer: AMD Radeon Pro 5300 OpenGL Engine
OpenGL vendor: ATI Technologies Inc.
Python: 3.11.4
Locale: en_US.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: iMac20,1
Processor Name: 10-Core Intel Core i9
Processor Speed: 3.6 GHz
Number of Processors: 1
Total Number of Cores: 10
L2 Cache (per Core): 256 KB
L3 Cache: 20 MB
Hyper-Threading Technology: Enabled
Memory: 32 GB
System Firmware Version: 2022.100.22.0.0 (iBridge: 21.16.5077.0.0,0)
OS Loader Version: 580~2215
Software:
System Software Overview:
System Version: macOS 14.5 (23F79)
Kernel Version: Darwin 23.5.0
Time since boot: 21 days, 22 hours, 16 minutes
Graphics/Displays:
AMD Radeon Pro 5300:
Chipset Model: AMD Radeon Pro 5300
Type: GPU
Bus: PCIe
PCIe Lane Width: x16
VRAM (Total): 4 GB
Vendor: AMD (0x1002)
Device ID: 0x7340
Revision ID: 0x0047
ROM Revision: 113-D3220I-231
VBIOS Version: 113-D322A1XL-012
Option ROM Version: 113-D322A1XL-012
EFI Driver Version: 01.01.231
Metal Support: Metal 3
Displays:
iMac:
Display Type: Built-In Retina LCD
Resolution: Retina 5K (5120 x 2880)
Framebuffer Depth: 30-Bit Color (ARGB2101010)
Main Display: Yes
Mirror: Off
Online: Yes
Automatically Adjust Brightness: Yes
Connection Type: Internal
LG Ultra HD:
Resolution: 6720 x 3780
UI Looks like: 3360 x 1890 @ 60.00Hz
Framebuffer Depth: 30-Bit Color (ARGB2101010)
Mirror: Off
Online: Yes
Rotation: Supported
Connection Type: Thunderbolt/DisplayPort
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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Crash in Qt 6.6 in displayConfigFinalizedProc on Intel Mac with AMD graphics. Probably from plugging in or unplugging a display.