The following bug report has been submitted:
Platform: Windows-10-10.0.22631
ChimeraX Version: 1.11.dev202508202216 (2025-08-20 22:16:28 UTC)
Description
Last time you used ChimeraX it crashed.
Please describe steps that led to the crash here.
Windows fatal exception: access violation
Thread 0x00005e9c (most recent call first):
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\threading.py", line 331 in wait
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\threading.py", line 629 in wait
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\threading.py", line 1399 in run
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\threading.py", line 1045 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\threading.py", line 1002 in _bootstrap
Thread 0x00003650 (most recent call first):
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\multiprocessing\pool.py", line 579 in _handle_results
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\threading.py", line 982 in run
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\threading.py", line 1045 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\threading.py", line 1002 in _bootstrap
Thread 0x000020d8 (most recent call first):
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\multiprocessing\pool.py", line 531 in _handle_tasks
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\threading.py", line 982 in run
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\threading.py", line 1045 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\threading.py", line 1002 in _bootstrap
Thread 0x00002a88 (most recent call first):
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\multiprocessing\connection.py", line 828 in _exhaustive_wait
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\multiprocessing\connection.py", line 896 in wait
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\multiprocessing\pool.py", line 502 in _wait_for_updates
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\multiprocessing\pool.py", line 522 in _handle_workers
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\threading.py", line 982 in run
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\threading.py", line 1045 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\threading.py", line 1002 in _bootstrap
Thread 0x000008bc (most recent call first):
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\threading.py", line 982 in run
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\threading.py", line 1045 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\threading.py", line 1002 in _bootstrap
Thread 0x00002fe8 (most recent call first):
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\threading.py", line 982 in run
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\threading.py", line 1045 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\threading.py", line 1002 in _bootstrap
Thread 0x00000e40 (most recent call first):
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\threading.py", line 982 in run
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\threading.py", line 1045 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\threading.py", line 1002 in _bootstrap
Thread 0x00003ebc (most recent call first):
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\threading.py", line 982 in run
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\threading.py", line 1045 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\threading.py", line 1002 in _bootstrap
Thread 0x00005a68 (most recent call first):
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\threading.py", line 982 in run
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\threading.py", line 1045 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\threading.py", line 1002 in _bootstrap
Thread 0x00005504 (most recent call first):
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\threading.py", line 982 in run
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\threading.py", line 1045 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\threading.py", line 1002 in _bootstrap
Thread 0x00001824 (most recent call first):
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\threading.py", line 982 in run
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\threading.py", line 1045 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\threading.py", line 1002 in _bootstrap
Thread 0x0000193c (most recent call first):
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\threading.py", line 982 in run
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\threading.py", line 1045 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\threading.py", line 1002 in _bootstrap
Thread 0x000034bc (most recent call first):
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\threading.py", line 982 in run
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\threading.py", line 1045 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\threading.py", line 1002 in _bootstrap
Thread 0x00003af0 (most recent call first):
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\threading.py", line 982 in run
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\threading.py", line 1045 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\threading.py", line 1002 in _bootstrap
Thread 0x00001cd0 (most recent call first):
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\threading.py", line 982 in run
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\threading.py", line 1045 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\threading.py", line 1002 in _bootstrap
Thread 0x00003474 (most recent call first):
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\threading.py", line 982 in run
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\threading.py", line 1045 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\threading.py", line 1002 in _bootstrap
Current thread 0x00005e3c (most recent call first):
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\site-packages\chimerax\ui\gui.py", line 368 in event_loop
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\site-packages\chimerax\core\__main__.py", line 1064 in init
File "C:\Program Files\ChimeraX 1.11.dev202508202216\bin\Lib\site-packages\chimerax\core\__main__.py", line 1229 in
File "", line 88 in _run_code
File "", line 198 in _run_module_as_main
===== Log before crash start =====
Startup Messages
---
note | available bundle cache has not been initialized yet
You can double click a model's Name or ID in the model panel to edit those
fields
UCSF ChimeraX version: 1.11.dev202508202216 (2025-08-20)
© 2016-2025 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
Unrecognized file suffix '.lst'
Chain information for 2R3J #1
---
Chain | Description
A | No description available
Opened 2R3J_protein.mol2 containing 1 structure (4678 atoms, 4739 bonds)
Unrecognized file suffix '.lst'
Unrecognized file suffix '.log'
> close
Chain information for 2R3J #1
---
Chain | Description
A | No description available
Opened 2R3J_protein.mol2 containing 1 structure (4678 atoms, 4739 bonds)
> color byhetero
> color bychain
> color bypolymer
> rainbow
> coulombic
Coulombic values for 2R3J_A SES surface #1.2: minimum, 4.92, mean 15.59,
maximum 54.45
To also show corresponding color key, enter the above coulombic command and
add key true
> coulombic
Coulombic values for 2R3J_A SES surface #1.2: minimum, 4.92, mean 15.59,
maximum 54.45
To also show corresponding color key, enter the above coulombic command and
add key true
> mlp
Map values for surface "2R3J_A SES surface": minimum -29.77, mean -2.362,
maximum 127.1
To also show corresponding color key, enter the above mlp command and add key
true
> rainbow
> mlp
Map values for surface "2R3J_A SES surface": minimum -29.77, mean 3.911e+07,
maximum 1.216e+10
To also show corresponding color key, enter the above mlp command and add key
true
> color bfactor
4678 atoms, 283 residues, 1 surfaces, atom bfactor range 0 to 0
> color bynucleotide
> hbonds reveal true
Skipping possible acceptor with bad geometry: /A THR 231 O
Wrong number of grandchild atoms for phi/psi acceptor /A THR 231 O
Skipping possible acceptor with bad geometry: /A GLN 211 O
Wrong number of grandchild atoms for phi/psi acceptor /A GLN 211 O
Skipping possible acceptor with bad geometry: /A ALA 31 O
Wrong number of grandchild atoms for phi/psi acceptor /A ALA 31 O
Skipping possible acceptor with bad geometry: /A GLN 211 O
Wrong number of grandchild atoms for phi/psi acceptor /A GLN 211 O
Skipping possible acceptor with bad geometry: /A GLY 114 O
Wrong number of grandchild atoms for phi/psi acceptor /A GLY 114 O
Skipping possible acceptor with bad geometry: /A ARG 199 O
Wrong number of grandchild atoms for phi/psi acceptor /A ARG 199 O
Skipping possible acceptor with bad geometry: /A THR 231 O
Wrong number of grandchild atoms for phi/psi acceptor /A THR 231 O
Skipping possible acceptor with bad geometry: /A ALA 31 O
Wrong number of grandchild atoms for phi/psi acceptor /A ALA 31 O
Skipping possible acceptor with bad geometry: /A GLY 114 O
Wrong number of grandchild atoms for phi/psi acceptor /A GLY 114 O
Skipping possible acceptor with bad geometry: /A ARG 199 O
Wrong number of grandchild atoms for phi/psi acceptor /A ARG 199 O
Skipping possible acceptor with bad geometry: /A GLN 211 O
Wrong number of grandchild atoms for phi/psi acceptor /A GLN 211 O
Skipping possible acceptor with bad geometry: /A THR 231 O
Wrong number of grandchild atoms for phi/psi acceptor /A THR 231 O
Skipped 28 atom(s) with bad connectivities; see log for details
The following atoms were skipped as donors/acceptors due to missing heavy-atom
bond partners: /A ARG 36 N; /A ALA 151 N
222 hydrogen bonds found
> sequence chain #1/A
Alignment identifier is 1/A
> interfaces ~solvent
0 buried areas:
Chain information for 2R3J #2
---
Chain | Description
A | No description available
Opened 2R3J_protein.mol2 containing 1 structure (4678 atoms, 4739 bonds)
===== Log before crash end =====
Log:
Startup Messages
---
note | available bundle cache has not been initialized yet
UCSF ChimeraX version: 1.11.dev202508202216 (2025-08-20)
© 2016-2025 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
OpenGL version: 3.3.0 NVIDIA 561.19
OpenGL renderer: NVIDIA GeForce RTX 3050 6GB Laptop GPU/PCIe/SSE2
OpenGL vendor: NVIDIA Corporation
Python: 3.11.9
Locale: en_US.cp1252
Qt version: PySide6 6.9.1, Qt 6.9.1
Qt runtime version: 6.9.1
Qt platform: windows
Manufacturer: HP
Model: Victus by HP Gaming Laptop 15-fa1xxx
OS: Microsoft Windows 11 Home (Build 22631)
Memory: 8,212,992,000
MaxProcessMemory: 137,438,953,344
CPU: 12 13th Gen Intel(R) Core(TM) i5-13420H
OSLanguage: en-US
Installed Packages:
alabaster: 1.0.0
appdirs: 1.4.4
asttokens: 3.0.0
babel: 2.17.0
beautifulsoup4: 4.13.4
blockdiag: 3.0.0
blosc2: 3.7.2
build: 1.2.2.post1
certifi: 2025.8.3
cftime: 1.6.4.post1
charset-normalizer: 3.4.3
ChimeraX-AddCharge: 1.5.19
ChimeraX-AddH: 2.2.7
ChimeraX-AlignmentAlgorithms: 2.0.2
ChimeraX-AlignmentHdrs: 3.6.1
ChimeraX-AlignmentMatrices: 2.1
ChimeraX-Alignments: 3.0.1
ChimeraX-AlphaFold: 1.0.1
ChimeraX-AltlocExplorer: 1.1.2
ChimeraX-AmberInfo: 1.0
ChimeraX-Aniso: 1.3.2
ChimeraX-Arrays: 1.1
ChimeraX-Atomic: 1.60.13
ChimeraX-AtomicLibrary: 14.1.22
ChimeraX-AtomSearch: 2.0.1
ChimeraX-AxesPlanes: 2.4
ChimeraX-BasicActions: 1.1.3
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 3.0.0
ChimeraX-Boltz: 1.1
ChimeraX-BondRot: 2.0.4
ChimeraX-BugReporter: 1.0.2
ChimeraX-BuildStructure: 2.13.1
ChimeraX-Bumps: 1.0
ChimeraX-BundleBuilder: 1.6.0
ChimeraX-ButtonPanel: 1.0.1
ChimeraX-CageBuilder: 1.0.1
ChimeraX-CellPack: 1.0
ChimeraX-Centroids: 1.4
ChimeraX-ChangeChains: 1.1
ChimeraX-CheckWaters: 1.5
ChimeraX-ChemGroup: 2.0.2
ChimeraX-Clashes: 2.3
ChimeraX-ColorActions: 1.0.5
ChimeraX-ColorGlobe: 1.0
ChimeraX-ColorKey: 1.5.8
ChimeraX-CommandLine: 1.3.0
ChimeraX-ConnectStructure: 2.0.1
ChimeraX-Contacts: 1.0.1
ChimeraX-Core: 1.11.dev202508202216
ChimeraX-CoreFormats: 1.2
ChimeraX-coulombic: 1.4.5
ChimeraX-Crosslinks: 1.0
ChimeraX-Crystal: 1.0
ChimeraX-CrystalContacts: 1.0.1
ChimeraX-DataFormats: 1.2.4
ChimeraX-Dicom: 1.2.7
ChimeraX-DistMonitor: 1.4.2
ChimeraX-DockPrep: 1.1.4
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: 2.5.3
ChimeraX-Help: 1.3
ChimeraX-HKCage: 1.3
ChimeraX-IHM: 1.1
ChimeraX-ImageFormats: 1.2
ChimeraX-IMOD: 1.0
ChimeraX-IO: 1.0.4
ChimeraX-ItemsInspection: 1.0.1
ChimeraX-IUPAC: 1.0
ChimeraX-KVFinder: 1.7.1
ChimeraX-Label: 1.1.14
ChimeraX-ListInfo: 1.2.2
ChimeraX-Log: 1.2
ChimeraX-LookingGlass: 1.1
ChimeraX-Maestro: 1.9.2
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: 2.2.2
ChimeraX-MCopy: 1.0
ChimeraX-MDcrds: 2.17.1
ChimeraX-MedicalToolbar: 1.1
ChimeraX-Meeting: 1.0.1
ChimeraX-Minimize: 1.2
ChimeraX-MLP: 1.1.1
ChimeraX-mmCIF: 2.16
ChimeraX-MMTF: 2.2
ChimeraX-ModelArchive: 1.0
ChimeraX-Modeller: 1.5.22
ChimeraX-ModelPanel: 1.5.1
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: 1.0.1
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: 1.15.1
ChimeraX-OrthoPick: 1.0.1
ChimeraX-PDB: 2.7.10
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: 1.1.3
ChimeraX-ProfileGrids: 1.3
ChimeraX-PubChem: 2.2
ChimeraX-ReadPbonds: 1.0.1
ChimeraX-Registration: 1.1.2
ChimeraX-RemoteControl: 1.0
ChimeraX-RenderByAttr: 1.6.4
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: 1.5.2
ChimeraX-Scenes: 0.2.1
ChimeraX-SchemeMgr: 1.0
ChimeraX-SDF: 2.0.3
ChimeraX-Segger: 1.0
ChimeraX-Segment: 1.0.1
ChimeraX-Segmentations: 3.5.7
ChimeraX-SelInspector: 1.0
ChimeraX-SeqView: 2.17.2
ChimeraX-Shape: 1.1
ChimeraX-Shell: 1.0.1
ChimeraX-Shortcuts: 1.2.1
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: 1.19.1
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: 2.5.2
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: 1.48.2
ChimeraX-Umap: 1.0
ChimeraX-uniprot: 2.3.1
ChimeraX-UnitCell: 1.0.1
ChimeraX-ViewDock: 1.3
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: 1.1.5
ChimeraX-Zone: 1.0.1
colorama: 0.4.6
comm: 0.2.3
comtypes: 1.4.11
contourpy: 1.3.3
coverage: 7.10.5
cxservices: 1.2.3
cycler: 0.12.1
Cython: 3.1.2
debugpy: 1.8.16
decorator: 5.2.1
docutils: 0.21.2
executing: 2.2.0
filelock: 3.18.0
fonttools: 4.59.2
funcparserlib: 2.0.0a0
glfw: 2.9.0
grako: 3.16.5
h5py: 3.14.0
html2text: 2024.2.26
idna: 3.10
ihm: 2.2
imagecodecs: 2024.6.1
imagesize: 1.4.1
iniconfig: 2.1.0
ipykernel: 6.30.1
ipython: 9.4.0
ipython_pygments_lexers: 1.1.1
ipywidgets: 8.1.7
jedi: 0.19.2
Jinja2: 3.1.6
jupyter_client: 8.6.3
jupyter_core: 5.8.1
jupyterlab_widgets: 3.0.15
kiwisolver: 1.4.9
line_profiler: 5.0.0
lxml: 5.3.1
lz4: 4.3.2
Markdown: 3.8.2
MarkupSafe: 3.0.2
matplotlib: 3.10.1
matplotlib-inline: 0.1.7
msgpack: 1.1.0
ndindex: 1.10.0
nest-asyncio: 1.6.0
netCDF4: 1.6.5
networkx: 3.3
nibabel: 5.2.0
nptyping: 2.5.0
numexpr: 2.11.0
numpy: 1.26.4
nvidia-nvjitlink-cu12: 12.9.86
OpenMM: 8.2.0
OpenMM-CUDA-12: 8.2.0
openvr: 1.26.701
packaging: 25.0
ParmEd: 4.2.2
parso: 0.8.5
pep517: 0.13.1
pickleshare: 0.7.5
pillow: 10.4.0
pip: 25.2
pkginfo: 1.12.1.2
platformdirs: 4.4.0
pluggy: 1.6.0
prompt_toolkit: 3.0.52
psutil: 7.0.0
pure_eval: 0.2.3
py-cpuinfo: 9.0.0
pybind11: 3.0.0
pycollada: 0.8
pydicom: 2.4.4
Pygments: 2.18.0
pynmrstar: 3.3.5
pynrrd: 1.0.0
PyOpenGL: 3.1.10
PyOpenGL-accelerate: 3.1.10
pyopenxr: 1.1.4501
pyparsing: 3.2.3
pyproject_hooks: 1.2.0
PySide6: 6.9.1
PySide6_Addons: 6.9.1
PySide6_Essentials: 6.9.1
pytest: 8.4.1
pytest-cov: 6.2.1
python-dateutil: 2.9.0.post0
pytz: 2025.2
pywin32: 310
pyzmq: 27.0.2
qtconsole: 5.6.1
QtPy: 2.4.3
qtshim: 1.2
RandomWords: 0.4.0
requests: 2.32.4
roman-numerals-py: 3.1.0
scipy: 1.14.0
setuptools: 80.9.0
sfftk-rw: 0.8.1
shiboken6: 6.9.1
six: 1.17.0
snowballstemmer: 3.0.1
sortedcontainers: 2.4.0
soupsieve: 2.8
Sphinx: 8.2.3
sphinx-autodoc-typehints: 3.1.0
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: 0.7.5
tables: 3.10.2
tcia_utils: 1.5.1
tifffile: 2025.3.13
tinyarray: 1.2.5
tornado: 6.5.2
traitlets: 5.14.3
typing_extensions: 4.15.0
tzdata: 2025.2
urllib3: 2.5.0
wcwidth: 0.2.13
webcolors: 24.11.1
wheel: 0.45.1
wheel-filename: 1.4.2
widgetsnbextension: 4.0.14
WMI: 1.5.1
![[ChimeraX Issue Tracking System]](/trac/ChimeraX/chrome/site/ChimeraX-icon.svg){kind=icon}
Why are there no "open" commands in the log?