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Opened 18 months ago
Closed 18 months ago
#15232 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: Linux-6.5.0-1022-oem-x86_64-with-glibc2.35
ChimeraX Version: 1.7.1 (2024-01-23 01:58:08 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 0x00007395b8a40b80 (most recent call first):
Garbage-collecting
File "/usr/lib/ucsf-chimerax/lib/python3.11/_weakrefset.py", line 58 in _commit_removals
File "/usr/lib/ucsf-chimerax/lib/python3.11/_weakrefset.py", line 33 in __exit__
File "/usr/lib/ucsf-chimerax/lib/python3.11/_weakrefset.py", line 64 in __iter__
File "/usr/lib/ucsf-chimerax/lib/python3.11/site-packages/chimerax/nucleotides/_data.py", line 519 in
File "/usr/lib/ucsf-chimerax/lib/python3.11/site-packages/chimerax/nucleotides/_data.py", line 519 in rebuild
File "/usr/lib/ucsf-chimerax/lib/python3.11/site-packages/chimerax/core/triggerset.py", line 149 in invoke
File "/usr/lib/ucsf-chimerax/lib/python3.11/site-packages/chimerax/core/triggerset.py", line 248 in _activate
File "/usr/lib/ucsf-chimerax/lib/python3.11/site-packages/chimerax/core/triggerset.py", line 217 in activate
File "/usr/lib/ucsf-chimerax/lib/python3.11/site-packages/chimerax/core/triggerset.py", line 393 in activate_trigger
File "/usr/lib/ucsf-chimerax/lib/python3.11/site-packages/chimerax/core/updateloop.py", line 65 in draw_new_frame
File "/usr/lib/ucsf-chimerax/lib/python3.11/site-packages/chimerax/core/updateloop.py", line 150 in _redraw_timer_callback
File "/usr/lib/ucsf-chimerax/lib/python3.11/site-packages/chimerax/ui/gui.py", line 275 in event_loop
File "/usr/lib/ucsf-chimerax/lib/python3.11/site-packages/chimerax/core/__main__.py", line 918 in init
File "/usr/lib/ucsf-chimerax/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.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.atom_search.ast, chimerax.chem_group._chem_group, chimerax.coulombic._esp, chimerax.mlp._mlp (total: 56)
===== Log before crash start =====
> style stick
Changed 2023 atom styles
> style stick
Changed 2023 atom styles
> hide cartoons
> view
> preset "overall look" "publication 2 (depth-cued)"
Using preset: Overall Look / Publication 2 (Depth-Cued)
Preset expands to these ChimeraX commands:
set bg white
graphics silhouettes f
lighting depthCue t
> style sphere
Changed 2023 atom styles
> style sphere
Changed 2023 atom styles
> style sphere
Changed 2023 atom styles
> style stick
Changed 2023 atom styles
> movie record
> turn y 2 180
> wait 180
> movie encode /home/vishwambhar.bhandare/Desktop/movie4.mp4
Movie saved to /home/vishwambhar.bhandare/Desktop/movie4.mp4
> open /home/vishwambhar.bhandare/.cache/.fr-9bWlvR/6u2w.pdb1 format pdb
No such file/path: /home/vishwambhar.bhandare/.cache/.fr-9bWlvR/6u2w.pdb1
> open /home/vishwambhar.bhandare/.cache/.fr-9bWlvR/6u2w.pdb1 format pdb
No such file/path: /home/vishwambhar.bhandare/.cache/.fr-9bWlvR/6u2w.pdb1
> open /home/vishwambhar.bhandare/.cache/.fr-9bWlvR/6u2w.pdb1 format pdb
No such file/path: /home/vishwambhar.bhandare/.cache/.fr-9bWlvR/6u2w.pdb1
> open /home/vishwambhar.bhandare/.cache/.fr-
> vqkVBF/Final_ER66_pdb_results/Dock_ER66_BHPI.pdb format pdb
Chain information for Dock_ER66_BHPI.pdb #2
---
Chain | Description
A | No description available
Non-standard residues in Dock_ER66_BHPI.pdb #2
---
UNK — (UNK)
> open /home/vishwambhar.bhandare/Downloads/tp1_control.pdb format pdb
No such file/path: /home/vishwambhar.bhandare/Downloads/tp1_control.pdb
> save /home/vishwambhar.bhandare/Desktop/image2.png supersample 3
> open /home/vishwambhar.bhandare/Downloads/tp1_control.pdb format pdb
No such file/path: /home/vishwambhar.bhandare/Downloads/tp1_control.pdb
> open /home/vishwambhar.bhandare/.cache/.fr-
> vqkVBF/Final_ER66_pdb_results/Dock_ER66_BHPI.pdb format pdb
Chain information for Dock_ER66_BHPI.pdb #3
---
Chain | Description
A | No description available
Non-standard residues in Dock_ER66_BHPI.pdb #3
---
UNK — (UNK)
> save /home/vishwambhar.bhandare/Desktop/image3.png supersample 3
> show cartoons
> hide cartoons
> hide atoms
> show cartoons
> hide atoms
> show atoms
> hide cartoons
> show cartoons
> hide atoms
> style stick
Changed 10083 atom styles
> show surfaces
> view
> close session
> color byhetero
> rainbow
> open /home/vishwambhar.bhandare/Desktop/mdinput/r/rat.pdb format pdb
rat.pdb title:
cat_e2 - prepared sera2.pdb [more info...]
Chain information for rat.pdb #1
---
Chain | Description
? | No description available
Non-standard residues in rat.pdb #1
---
EST — (EST)
SR2 — (SR2)
> rainbow
> color bypolymer
> color bychain
> color bypolymer
> color byhetero
> rainbow
> color bfactor
2023 atoms, 249 residues, atom bfactor range 0 to 0
> coulombic
Using Amber 20 recommended default charges and atom types for standard
residues
Coulombic values for rat.pdb_ SES surface #1.1: minimum, -19.65, mean -2.21,
maximum 11.09
To also show corresponding color key, enter the above coulombic command and
add key true
> view
> mlp
Map values for surface "rat.pdb_ SES surface": minimum -27.44, mean -3.414,
maximum 25.65
To also show corresponding color key, enter the above mlp command and add key
true
> color bfactor
2023 atoms, 249 residues, 1 surfaces, atom bfactor range 0 to 0
> color bynucleotide
> hbonds reveal true
234 hydrogen bonds found
> hbonds reveal true
234 hydrogen bonds found
> hbonds reveal true
234 hydrogen bonds found
> hbonds reveal true
234 hydrogen bonds found
> hide surfaces
> hbonds reveal true
234 hydrogen bonds found
> ~hbonds
Missing or invalid "chains" argument: only initial part "#1" of atom specifier
valid
Missing or invalid "chains" argument: only initial part "#1" of atom specifier
valid
Missing or invalid "chains" argument: only initial part "#1" of atom specifier
valid
Missing or invalid "chains" argument: only initial part "#1" of atom specifier
valid
> hbonds reveal true
234 hydrogen bonds found
> ~hbonds
Missing or invalid "chains" argument: only initial part "#1" of atom specifier
valid
Missing or invalid "chains" argument: only initial part "#1" of atom specifier
valid
Missing or invalid "chains" argument: only initial part "#1" of atom specifier
valid
Missing or invalid "chains" argument: only initial part "#1" of atom specifier
valid
Missing or invalid "chains" argument: only initial part "#1" of atom specifier
valid
Missing or invalid "chains" argument: only initial part "#1" of atom specifier
valid
> interfaces ~solvent
0 buried areas:
> interfaces ~solvent
0 buried areas:
> select ::name="SR2"
30 atoms, 33 bonds, 1 residue, 1 model selected
> interfaces select & ~solvent
Missing or invalid "atoms" argument: invalid atoms specifier
> interfaces select & ~solvent
Missing or invalid "atoms" argument: invalid atoms specifier
> interfaces select & ~solvent
Missing or invalid "atoms" argument: invalid atoms specifier
> color #1 #dc8addff
> color #1 white
> interfaces select & ~solvent
Missing or invalid "atoms" argument: invalid atoms specifier
> log metadata #1
Metadata for rat.pdb #1
---
Title | cat_e2 - prepared sera2.pdb
Non-standard residues | EST — (EST)
SR2 — (SR2)
> log chains #1
Chain information for rat.pdb #1
---
Chain | Description
? | No description available
> log metadata #1
Metadata for rat.pdb #1
---
Title | cat_e2 - prepared sera2.pdb
Non-standard residues | EST — (EST)
SR2 — (SR2)
> log chains #1
Chain information for rat.pdb #1
---
Chain | Description
? | No description available
> log metadata #1
Metadata for rat.pdb #1
---
Title | cat_e2 - prepared sera2.pdb
Non-standard residues | EST — (EST)
SR2 — (SR2)
> log chains #1
Chain information for rat.pdb #1
---
Chain | Description
? | No description available
> log metadata #1
Metadata for rat.pdb #1
---
Title | cat_e2 - prepared sera2.pdb
Non-standard residues | EST — (EST)
SR2 — (SR2)
> log chains #1
Chain information for rat.pdb #1
---
Chain | Description
? | No description available
> log metadata #1
Metadata for rat.pdb #1
---
Title | cat_e2 - prepared sera2.pdb
Non-standard residues | EST — (EST)
SR2 — (SR2)
> log chains #1
Chain information for rat.pdb #1
---
Chain | Description
? | No description available
> log metadata #1
Metadata for rat.pdb #1
---
Title | cat_e2 - prepared sera2.pdb
Non-standard residues | EST — (EST)
SR2 — (SR2)
> log chains #1
Chain information for rat.pdb #1
---
Chain | Description
? | No description available
> log metadata #1
Metadata for rat.pdb #1
---
Title | cat_e2 - prepared sera2.pdb
Non-standard residues | EST — (EST)
SR2 — (SR2)
> log chains #1
Chain information for rat.pdb #1
---
Chain | Description
? | No description available
> nucleotides sel atoms
> style nucleic & sel stick
Changed 0 atom styles
> nucleotides sel atoms
> style nucleic & sel stick
Changed 0 atom styles
> nucleotides sel atoms
> style nucleic & sel stick
Changed 0 atom styles
> close session
> open 3kz8 fromDatabase pdb format mmcif
Summary of feedback from opening 3kz8 fetched from pdb
---
notes | Fetching compressed mmCIF 3kz8 from
http://files.rcsb.org/download/3kz8.cif
Fetching CCD ZN from
https://files.wwpdb.org/pub/pdb/refdata/chem_comp/N/ZN/ZN.cif
Fetching CCD IOD from
https://files.wwpdb.org/pub/pdb/refdata/chem_comp/D/IOD/IOD.cif
3kz8 title:
Diversity in DNA recognition by p53 revealed by crystal structures with
Hoogsteen base pairs (p53-DNA complex 3) [more info...]
Chain information for 3kz8 #1
---
Chain | Description | UniProt
A B | Cellular tumor antigen p53 | P53_HUMAN 94-293
C | DNA
(5'-D(*TP*GP*GP*GP*CP*AP*TP*GP*CP*CP*CP*GP*GP*GP*CP*AP*TP*GP*CP*CP*C)-3') |
Non-standard residues in 3kz8 #1
---
IOD — iodide ion
ZN — zinc ion
3kz8 mmCIF Assemblies
---
1| author_defined_assembly
> nucleotides atoms
> style nucleic stick
Changed 410 atom styles
> nucleotides atoms
> style nucleic stick
Changed 410 atom styles
> nucleotides atoms
> style nucleic stick
Changed 410 atom styles
> nucleotides fill
> style nucleic stick
Changed 410 atom styles
> nucleotides fill
> style nucleic stick
Changed 410 atom styles
> nucleotides slab
> style nucleic stick
Changed 410 atom styles
> nucleotides tube/slab shape box
> nucleotides slab
> style nucleic stick
Changed 410 atom styles
> nucleotides tube/slab shape ellipsoid
> nucleotides tube/slab shape box
> nucleotides tube/slab shape ellipsoid
===== Log before crash end =====
Log:
Startup Messages
---
warning | Replacing fetcher for 'pdb_nmr' and format NMRSTAR from NMRSTAR
bundle with that from NMRSTAR bundle
UCSF ChimeraX version: 1.7.1 (2024-01-23)
© 2016-2023 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
OpenGL version: 4.6 (Core Profile) Mesa 23.2.1-1ubuntu3.1~22.04.2
OpenGL renderer: Mesa Intel(R) Graphics (RPL-U)
OpenGL vendor: Intel
Python: 3.11.2
Locale: en_IN.ISO8859-1
Qt version: PyQt6 6.3.1, Qt 6.3.1
Qt runtime version: 6.3.2
Qt platform: xcb
XDG_SESSION_TYPE=wayland
DESKTOP_SESSION=ubuntu
XDG_SESSION_DESKTOP=ubuntu
XDG_CURRENT_DESKTOP=ubuntu:GNOME
WAYLAND_DISPLAY=wayland-0
GNOME_SETUP_DISPLAY=:1
DISPLAY=:0
Manufacturer: LENOVO
Model: 21JN004GIG
OS: Ubuntu 22.04 Jammy Jellyfish
Architecture: 64bit ELF
Virtual Machine: none
CPU: 12 13th Gen Intel(R) Core(TM) i5-1335U
Cache Size: 12288 KB
Memory:
total used free shared buff/cache available
Mem: 38Gi 7.6Gi 13Gi 1.6Gi 17Gi 29Gi
Swap: 0B 0B 0B
Graphics:
00:02.0 VGA compatible controller [0300]: Intel Corporation Device [8086:a7a1] (rev 04)
Subsystem: Lenovo Device [17aa:50d1]
Kernel driver in use: i915
Installed Packages:
alabaster: 0.7.16
appdirs: 1.4.4
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: 2023.11.17
cftime: 1.6.3
charset-normalizer: 3.3.2
ChimeraX-AddCharge: 1.5.13
ChimeraX-AddH: 2.2.5
ChimeraX-AlignmentAlgorithms: 2.0.1
ChimeraX-AlignmentHdrs: 3.4.1
ChimeraX-AlignmentMatrices: 2.1
ChimeraX-Alignments: 2.12.2
ChimeraX-AlphaFold: 1.0
ChimeraX-AltlocExplorer: 1.1.1
ChimeraX-AmberInfo: 1.0
ChimeraX-Arrays: 1.1
ChimeraX-Atomic: 1.49.1
ChimeraX-AtomicLibrary: 12.1.5
ChimeraX-AtomSearch: 2.0.1
ChimeraX-AxesPlanes: 2.3.2
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: 2.10.5
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: 1.3.2
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: 1.7.1
ChimeraX-CoreFormats: 1.2
ChimeraX-coulombic: 1.4.2
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: 1.1.8
ChimeraX-LinuxSupport: 1.0.1
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: 2.6.1
ChimeraX-MedicalToolbar: 1.0.2
ChimeraX-Meeting: 1.0.1
ChimeraX-MLP: 1.1.1
ChimeraX-mmCIF: 2.12.1
ChimeraX-MMTF: 2.2
ChimeraX-Modeller: 1.5.14
ChimeraX-ModelPanel: 1.4
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-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: 1.1
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
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: 1.12.4
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: 1.33.3
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
distro: 1.7.0
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: 0.38
imagecodecs: 2023.9.18
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: 3.1.2
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: 4.3.2
MarkupSafe: 2.1.4
matplotlib: 3.7.2
matplotlib-inline: 0.1.6
msgpack: 1.0.4
nest-asyncio: 1.6.0
netCDF4: 1.6.2
networkx: 3.1
nibabel: 5.0.1
nptyping: 2.5.0
numexpr: 2.8.8
numpy: 1.25.1
openvr: 1.23.701
packaging: 23.2
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: 5.9.5
ptyprocess: 0.7.0
pure-eval: 0.2.2
py-cpuinfo: 9.0.0
pycollada: 0.7.2
pydicom: 2.3.0
Pygments: 2.16.1
pynrrd: 1.0.0
PyOpenGL: 3.1.7
PyOpenGL-accelerate: 3.1.7
pyopenxr: 1.0.2801
pyparsing: 3.0.9
pyproject-hooks: 1.0.0
PyQt6-commercial: 6.3.1
PyQt6-Qt6: 6.3.2
PyQt6-sip: 13.4.0
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: 1.11.1
setuptools: 67.4.0
sfftk-rw: 0.7.3
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: 2023.7.18
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 , 18 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 , 18 months ago
| Resolution: | → duplicate |
|---|---|
| Status: | accepted → closed |
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