![[ChimeraX Issue Tracking System]](/trac/ChimeraX/chrome/site/ChimeraX-icon.svg){kind=icon}
Opened 13 months ago
Closed 13 months ago
#16085 closed defect (duplicate)
Crash in garbage collection
| Reported by: | Owned by: | Eric Pettersen | |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Core | Version: | |
| Keywords: | Cc: | Tom Goddard | |
| Blocked By: | Blocking: | ||
| Notify when closed: | Platform: | all | |
| Project: | ChimeraX |
Description
The following bug report has been submitted:
Platform: macOS-13.6.9-x86_64-i386-64bit
ChimeraX Version: 1.8.dev202401240123 (2024-01-24 01:23:36 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 0x00007ff84aeb67c0 (most recent call first):
Garbage-collecting
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/mouse_modes/mousemodes.py", line 526 in _cursor_position
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/mouse_modes/mousemodes.py", line 483 in mouse_pause_tracking
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/updateloop.py", line 151 in _redraw_timer_callback
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/ui/gui.py", line 276 in event_loop
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py", line 918 in init
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py", line 1069 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.QtWebChannel, PyQt6.QtNetwork, PyQt6.QtWebEngineCore, PyQt6.QtPrintSupport, 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, PyQt6.QtOpenGL, PyQt6.QtOpenGLWidgets, OpenGL_accelerate.errorchecker, OpenGL_accelerate.wrapper, OpenGL_accelerate.formathandler, OpenGL_accelerate.arraydatatype, OpenGL_accelerate.latebind, OpenGL_accelerate.vbo, chimerax.surface._surface, 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, PIL._imagingmath (total: 53)
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{
"uptime" : 180000,
"procRole" : "Foreground",
"version" : 2,
"userID" : 503,
"deployVersion" : 210,
"modelCode" : "iMac18,1",
"coalitionID" : 3571,
"osVersion" : {
"train" : "macOS 13.6.9",
"build" : "22G830",
"releaseType" : "User"
},
"captureTime" : "2024-10-08 13:05:19.1940 -0500",
"incident" : "F505BE0B-BBDF-46BA-AA8A-46B624D53484",
"pid" : 13797,
"cpuType" : "X86-64",
"roots_installed" : 0,
"bug_type" : "309",
"procLaunch" : "2024-09-20 12:24:05.1422 -0500",
"procStartAbsTime" : 28581505688747,
"procExitAbsTime" : 183210275599324,
"procName" : "ChimeraX",
"procPath" : "\/Applications\/ChimeraX_Daily.app\/Contents\/MacOS\/ChimeraX",
"bundleInfo" : {"CFBundleShortVersionString":"1.8.0","CFBundleVersion":"1.8.0.0","CFBundleIdentifier":"edu.ucsf.cgl.ChimeraX"},
"storeInfo" : {"deviceIdentifierForVendor":"7C866D01-A3A4-51A6-B6CA-64C18B8FFF6D","thirdParty":true},
"parentProc" : "launchd",
"parentPid" : 1,
"coalitionName" : "edu.ucsf.cgl.ChimeraX",
"crashReporterKey" : "0FEC3219-7ABA-91C7-FA8E-8E023799E894",
"codeSigningID" : "edu.ucsf.cgl.ChimeraX",
"codeSigningTeamID" : "LWV8X224YF",
"codeSigningFlags" : 570491649,
"codeSigningValidationCategory" : 6,
"codeSigningTrustLevel" : 0,
"wakeTime" : 1686,
"sleepWakeUUID" : "8F0F752F-8D52-4856-AD63-E007B2654042",
"sip" : "enabled",
"vmRegionInfo" : "0xa9 is not in any region. Bytes before following region: 140737486565207\n REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL\n UNUSED SPACE AT START\n---> \n shared memory 7fffffe4b000-7fffffe4c000 [ 4K] r-x\/r-x SM=SHM ",
"exception" : {"codes":"0x0000000000000001, 0x00000000000000a9","rawCodes":[1,169],"type":"EXC_BAD_ACCESS","signal":"SIGSEGV","subtype":"KERN_INVALID_ADDRESS at 0x00000000000000a9"},
"termination" : {"flags":0,"code":11,"namespace":"SIGNAL","indicator":"Segmentation fault: 11","byProc":"ChimeraX","byPid":13797},
"vmregioninfo" : "0xa9 is not in any region. Bytes before following region: 140737486565207\n REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL\n UNUSED SPACE AT START\n---> \n shared memory 7fffffe4b000-7fffffe4c000 [ 4K] r-x\/r-x SM=SHM ",
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"faultingThread" : 0,
"threads" : 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===== Log before crash start =====
Startup Messages
---
warnings | Replacing fetcher for 'pdb_nmr' and format NMRSTAR from NMRSTAR
bundle with that from NMRSTAR bundle
Replacing fetcher for 'pdb_nmr' and format NMRSTAR from NMRSTAR bundle with
that from NMRSTAR bundle
UCSF ChimeraX version: 1.8.dev202401240123 (2024-01-24)
© 2016-2024 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open /Users/Nishya/Downloads/6fah.pdb
6fah.pdb title:
Molecular basis of the flavin-based electron-bifurcating caffeyl-coa reductase
reaction [more info...]
Chain information for 6fah.pdb #1
---
Chain | Description | UniProt
A E | caffeyl-coa reductase-etf complex subunit care | CARE_ACEWD 1-396
B F | caffeyl-coa reductase-etf complex subunit card | CARD_ACEWD 1-262
C D | caffeyl-coa reductase-etf complex subunit carc | CARC_ACEWD 1-379
Non-standard residues in 6fah.pdb #1
---
FAD — flavin-adenine dinucleotide
SF4 — iron/sulfur cluster
SO4 — sulfate ion
> open "/Users/Nishya/Desktop/Peters_03_08_24/oxidized/Oxidized_peak1_bead
> model/7koe.pdb"
7koe.pdb title:
Electron bifurcating flavoprotein fix/etfabcx [more info...]
Chain information for 7koe.pdb #2
---
Chain | Description | UniProt
A E | electron transfer flavoprotein, β subunit | Q9X1L6_THEMA 2-285
B F | electron transfer flavoprotein, α subunit | R4P3F4_THEMA 286-623
C G | electron transfer flavoprotein-quinone oxidoreductase fixc |
R4P168_THEMA 1-438
D H | ferredoxin-like protein | R4NRM2_THEMA 439-530
Non-standard residues in 7koe.pdb #2
---
FAD — flavin-adenine dinucleotide
MQ7 — menaquinone-7
SF4 — iron/sulfur cluster
> view
> toolshed show
> select #1/A#1/E
6001 atoms, 6114 bonds, 17 pseudobonds, 788 residues, 2 models selected
> ui tool show "Show Sequence Viewer"
> sequence chain #1/A #1/E
Alignment identifier is 1
> select clear
> select #1/A:8-396/E:4-396
5863 atoms, 5949 bonds, 782 residues, 1 model selected
> select #1/A,E:396
18 atoms, 16 bonds, 2 residues, 1 model selected
> select #1/A,E:226-396
2548 atoms, 2584 bonds, 342 residues, 1 model selected
> select #1/A,E:396
18 atoms, 16 bonds, 2 residues, 1 model selected
> select #1/A,E:279-396
1734 atoms, 1760 bonds, 236 residues, 1 model selected
> select #1/A,E:247-248
32 atoms, 30 bonds, 4 residues, 1 model selected
> select #1/A,E:247-396
2230 atoms, 2260 bonds, 300 residues, 1 model selected
> select ::name="SF4"
64 atoms, 96 bonds, 8 residues, 2 models selected
> hide #!2 models
> select add #2
18380 atoms, 18778 bonds, 4 pseudobonds, 2312 residues, 3 models selected
> select subtract #2
32 atoms, 48 bonds, 4 residues, 1 model selected
> select #1/C#1/D
5929 atoms, 6016 bonds, 767 residues, 1 model selected
> hide sel atoms
> show sel cartoons
> hide sel cartoons
> select #1/B#1/F
4046 atoms, 4114 bonds, 526 residues, 1 model selected
> hide sel atoms
> show sel cartoons
> hide sel cartoons
> select #1/A#1/E
6001 atoms, 6114 bonds, 17 pseudobonds, 788 residues, 2 models selected
> hide sel atoms
> hide sel cartoons
> show sel cartoons
> select ::name="SF4"
64 atoms, 96 bonds, 8 residues, 2 models selected
> show sel & #!1 atoms
> select #1/A,E:72
28 atoms, 30 bonds, 2 residues, 1 model selected
> select #1/A,E:72-216
2212 atoms, 2248 bonds, 290 residues, 1 model selected
> select clear
> select #1/A:8-64/E:4-64
865 atoms, 869 bonds, 118 residues, 1 model selected
> select
> #1/A,E:71-74,77-78,81-82,104-110,127-132,159-163,182-187,189-192,199-205,210-215,222-226,244-246,259-265,279-282,305-308,336-339,357-361,374-377
1306 atoms, 1288 bonds, 170 residues, 1 model selected
> select #1/A:8-64/E:4-64
865 atoms, 869 bonds, 118 residues, 1 model selected
> select clear
> select #1/A:8-70/E:4-70
959 atoms, 965 bonds, 130 residues, 1 model selected
> open /Users/Nishya/Downloads/Av_FixABCX_rsr28.pdb
Chain information for Av_FixABCX_rsr28.pdb #3
---
Chain | Description
A E | No description available
B F | No description available
C G | No description available
D H | No description available
> open /Users/Nishya/Downloads/Av_FixABCX_rsr28.pdb
Chain information for Av_FixABCX_rsr28.pdb #4
---
Chain | Description
A E | No description available
B F | No description available
C G | No description available
D H | No description available
> hide #!3 models
> close #3
> close #2
> close #1
> show atoms
> show cartoons
> hide atoms
> view
> select ::name="FAD"
318 atoms, 348 bonds, 6 residues, 1 model selected
> show sel atoms
> select ::name="SF4"
32 atoms, 72 pseudobonds, 4 residues, 2 models selected
> show sel atoms
> select clear
> select ::name="CYS"
240 atoms, 202 bonds, 40 residues, 1 model selected
> show sel atoms
> show sel cartoons
> style sel ball
Changed 240 atom styles
> color sel yellow
> select clear
> open "/Users/Nishya/Desktop/Peters_03_08_24/oxidized/Oxidized_peak1_bead
> model/7koe.pdb"
7koe.pdb title:
Electron bifurcating flavoprotein fix/etfabcx [more info...]
Chain information for 7koe.pdb #1
---
Chain | Description | UniProt
A E | electron transfer flavoprotein, β subunit | Q9X1L6_THEMA 2-285
B F | electron transfer flavoprotein, α subunit | R4P3F4_THEMA 286-623
C G | electron transfer flavoprotein-quinone oxidoreductase fixc |
R4P168_THEMA 1-438
D H | ferredoxin-like protein | R4NRM2_THEMA 439-530
Non-standard residues in 7koe.pdb #1
---
FAD — flavin-adenine dinucleotide
MQ7 — menaquinone-7
SF4 — iron/sulfur cluster
> hide #!4 models
> show #!1 cartoons
> show #!1 atoms
> select add #1
18348 atoms, 18730 bonds, 4 pseudobonds, 2308 residues, 2 models selected
> show sel cartoons
> show sel atoms
> show sel cartoons
> hide sel atoms
> select ::name="SF4"
64 atoms, 48 bonds, 72 pseudobonds, 8 residues, 3 models selected
> show sel & #!1 atoms
> select ::name="CYS"
444 atoms, 374 bonds, 74 residues, 2 models selected
> show sel & #!1 atoms
> style (#!1 & sel) ball
Changed 204 atom styles
> color (#!1 & sel) yellow
> hide #!1 models
> show #!4 models
> show #!1 models
> hide #!1 models
> hide #!4 models
> show #!1 models
> select clear
> view
> select ::name="FAD"
636 atoms, 696 bonds, 12 residues, 2 models selected
> show sel & #!1 atoms
> select clear
Drag select of 51 atoms, 119 residues, 55 bonds
> style sel ball
Changed 909 atom styles
> show sel target ab
> view sel
> color sel byelement
> ui tool show "Color Actions"
> color sel byhetero
> color sel byelement
> color sel bynucleotide
> select clear
> select ::name="FAD"
636 atoms, 696 bonds, 12 residues, 2 models selected
> color (#!1 & sel) yellow
> color (#!1 & sel) byhetero
> select clear
Drag select of 74 atoms, 259 residues, 73 bonds
===== Log before crash end =====
Log:
Startup Messages
---
warnings | Replacing fetcher for 'pdb_nmr' and format NMRSTAR from NMRSTAR
bundle with that from NMRSTAR bundle
Replacing fetcher for 'pdb_nmr' and format NMRSTAR from NMRSTAR bundle with
that from NMRSTAR bundle
You can double click a model's Name or ID in the model panel to edit those
fields
UCSF ChimeraX version: 1.8.dev202401240123 (2024-01-24)
© 2016-2024 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
OpenGL version: 4.1 INTEL-20.7.2
OpenGL renderer: Intel(R) Iris(TM) Plus Graphics 640
OpenGL vendor: Intel Inc.
Python: 3.11.2
Locale: UTF-8
Qt version: PyQt6 6.3.1, Qt 6.3.1
Qt runtime version: 6.3.2
Qt platform: cocoa
Hardware:
Hardware Overview:
Model Name: iMac
Model Identifier: iMac18,1
Processor Name: Dual-Core Intel Core i5
Processor Speed: 2.3 GHz
Number of Processors: 1
Total Number of Cores: 2
L2 Cache (per Core): 256 KB
L3 Cache: 4 MB
Hyper-Threading Technology: Enabled
Memory: 8 GB
System Firmware Version: 529.140.2.0.0
OS Loader Version: 577.140.2~22
SMC Version (system): 2.39f40
Software:
System Software Overview:
System Version: macOS 13.6.9 (22G830)
Kernel Version: Darwin 22.6.0
Time since boot: 19 days, 10 hours, 4 minutes
Graphics/Displays:
Intel Iris Plus Graphics 640:
Chipset Model: Intel Iris Plus Graphics 640
Type: GPU
Bus: Built-In
VRAM (Dynamic, Max): 1536 MB
Vendor: Intel
Device ID: 0x5926
Revision ID: 0x0006
Metal Support: Metal 3
Displays:
iMac:
Display Type: LCD
Resolution: 1920 x 1080 (1080p FHD - Full High Definition)
UI Looks like: 1920 x 1080
Framebuffer Depth: 24-Bit Color (ARGB8888)
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: 0.1.3
asttokens: 2.4.1
Babel: 2.14.0
backcall: 0.2.0
beautifulsoup4: 4.11.2
blockdiag: 3.0.0
blosc2: 2.0.0
build: 0.10.0
certifi: 2022.12.7
cftime: 1.6.3
charset-normalizer: 3.3.2
ChimeraX-AddCharge: 1.5.15
ChimeraX-AddH: 2.2.5
ChimeraX-AlignmentAlgorithms: 2.0.1
ChimeraX-AlignmentHdrs: 3.4.3
ChimeraX-AlignmentMatrices: 2.1
ChimeraX-Alignments: 2.12.3
ChimeraX-AlphaFold: 1.0
ChimeraX-AltlocExplorer: 1.1.1
ChimeraX-AmberInfo: 1.0
ChimeraX-Arrays: 1.1
ChimeraX-Atomic: 1.52
ChimeraX-AtomicLibrary: 12.1.7
ChimeraX-AtomSearch: 2.0.1
ChimeraX-AxesPlanes: 2.4
ChimeraX-BasicActions: 1.1.2
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 2.1.2
ChimeraX-BondRot: 2.0.4
ChimeraX-BugReporter: 1.0.1
ChimeraX-BuildStructure: 2.11
ChimeraX-Bumps: 1.0
ChimeraX-BundleBuilder: 1.2.2
ChimeraX-ButtonPanel: 1.0.1
ChimeraX-CageBuilder: 1.0.1
ChimeraX-CellPack: 1.0
ChimeraX-Centroids: 1.4
ChimeraX-ChangeChains: 1.1
ChimeraX-CheckWaters: 1.3.2
ChimeraX-ChemGroup: 2.0.1
ChimeraX-Clashes: 2.2.4
ChimeraX-ColorActions: 1.0.3
ChimeraX-ColorGlobe: 1.0
ChimeraX-ColorKey: 1.5.5
ChimeraX-CommandLine: 1.2.5
ChimeraX-ConnectStructure: 2.0.1
ChimeraX-Contacts: 1.0.1
ChimeraX-Core: 1.8.dev202401240123
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
ChimeraX-DistMonitor: 1.4
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: 1.1.9
ChimeraX-ListInfo: 1.2.2
ChimeraX-Log: 1.1.6
ChimeraX-LookingGlass: 1.1
ChimeraX-Maestro: 1.9.1
ChimeraX-Map: 1.1.4
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: 2.1.2
ChimeraX-MCopy: 1.0
ChimeraX-MDcrds: 2.6.2
ChimeraX-MedicalToolbar: 1.0.2
ChimeraX-Meeting: 1.0.1
ChimeraX-MLP: 1.1.1
ChimeraX-mmCIF: 2.12.2
ChimeraX-MMTF: 2.2
ChimeraX-Modeller: 1.5.15
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: 1.1
ChimeraX-NMRSTAR: 1.0.1
ChimeraX-NRRD: 1.1
ChimeraX-Nucleotides: 2.0.3
ChimeraX-OpenCommand: 1.13.1
ChimeraX-PDB: 2.7.3
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
ChimeraX-PubChem: 2.1
ChimeraX-ReadPbonds: 1.0.1
ChimeraX-Registration: 1.1.2
ChimeraX-RemoteControl: 1.0
ChimeraX-RenderByAttr: 1.2.1
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-SelInspector: 1.0
ChimeraX-SeqView: 2.11.1
ChimeraX-Shape: 1.0.1
ChimeraX-Shell: 1.0.1
ChimeraX-Shortcuts: 1.1.1
ChimeraX-ShowSequences: 1.0.2
ChimeraX-SideView: 1.0.1
ChimeraX-Smiles: 2.1.2
ChimeraX-SmoothLines: 1.0
ChimeraX-SpaceNavigator: 1.0
ChimeraX-StdCommands: 1.15
ChimeraX-STL: 1.0.1
ChimeraX-Storm: 1.0
ChimeraX-StructMeasure: 1.1.2
ChimeraX-Struts: 1.0.1
ChimeraX-Surface: 1.0.1
ChimeraX-SwapAA: 2.0.1
ChimeraX-SwapRes: 2.2.2
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: 1.33.5
ChimeraX-uniprot: 2.3
ChimeraX-UnitCell: 1.0.1
ChimeraX-ViewDockX: 1.3.2
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: 1.1.3
ChimeraX-Zone: 1.0.1
colorama: 0.4.6
comm: 0.2.1
contourpy: 1.2.0
cxservices: 1.2.2
cycler: 0.12.1
Cython: 0.29.33
debugpy: 1.8.0
decorator: 5.1.1
docutils: 0.19
executing: 2.0.1
filelock: 3.9.0
fonttools: 4.47.2
funcparserlib: 2.0.0a0
glfw: 2.6.4
grako: 3.16.5
h5py: 3.10.0
html2text: 2020.1.16
idna: 3.6
ihm: 0.43
imagecodecs: 2024.1.1
imagesize: 1.4.1
ipykernel: 6.23.2
ipython: 8.14.0
ipython-genutils: 0.2.0
ipywidgets: 8.1.1
jedi: 0.18.2
Jinja2: 3.1.3
jupyter-client: 8.2.0
jupyter-core: 5.7.1
jupyterlab-widgets: 3.0.9
kiwisolver: 1.4.5
line-profiler: 4.0.2
lxml: 4.9.2
lz4: 4.3.3
MarkupSafe: 2.1.4
matplotlib: 3.8.2
matplotlib-inline: 0.1.6
msgpack: 1.0.7
ndindex: 1.7
nest-asyncio: 1.6.0
netCDF4: 1.6.5
networkx: 3.2.1
nibabel: 5.0.1
nptyping: 2.5.0
numexpr: 2.8.8
numpy: 1.26.3
openvr: 1.26.701
packaging: 21.3
ParmEd: 3.4.3
parso: 0.8.3
pep517: 0.13.0
pexpect: 4.9.0
pickleshare: 0.7.5
pillow: 10.2.0
pip: 23.0
pkginfo: 1.9.6
platformdirs: 4.1.0
prompt-toolkit: 3.0.43
psutil: 5.9.7
ptyprocess: 0.7.0
pure-eval: 0.2.2
py-cpuinfo: 9.0.0
pycollada: 0.8
pydicom: 2.3.0
Pygments: 2.16.1
pynmrstar: 3.3.2
pynrrd: 1.0.0
PyOpenGL: 3.1.7
PyOpenGL-accelerate: 3.1.7
pyopenxr: 1.0.3301
pyparsing: 3.1.1
pyproject-hooks: 1.0.0
PyQt6-commercial: 6.3.1
PyQt6-Qt6: 6.3.2
PyQt6-sip: 13.6.0
PyQt6-WebEngine-commercial: 6.3.1
PyQt6-WebEngine-Qt6: 6.3.2
python-dateutil: 2.8.2
pytz: 2023.3.post1
pyzmq: 25.1.2
qtconsole: 5.4.3
QtPy: 2.4.1
RandomWords: 0.4.0
requests: 2.31.0
scipy: 1.11.4
setuptools: 67.4.0
setuptools-scm: 7.0.5
sfftk-rw: 0.8.1
six: 1.16.0
snowballstemmer: 2.2.0
sortedcontainers: 2.4.0
soupsieve: 2.5
sphinx: 6.1.3
sphinx-autodoc-typehints: 1.22
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: 0.5.0
tables: 3.8.0
tcia-utils: 1.5.1
tifffile: 2023.12.9
tinyarray: 1.2.4
tomli: 2.0.1
tornado: 6.4
traitlets: 5.9.0
typing-extensions: 4.9.0
tzdata: 2023.4
urllib3: 2.1.0
wcwidth: 0.2.13
webcolors: 1.12
wheel: 0.38.4
wheel-filename: 1.4.1
widgetsnbextension: 4.0.9
Change History (2)
comment:1 by , 13 months ago
| Cc: | added |
|---|---|
| Component: | Unassigned → Core |
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → accepted |
| Summary: | ChimeraX bug report submission → Crash in garbage collection |
comment:2 by , 13 months ago
| Resolution: | → duplicate |
|---|---|
| Status: | accepted → closed |
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