Crash deleting atoms/bonds

[chimerax-bug-report@…]

The following bug report has been submitted:
Platform:        Windows-10-10.0.26100
ChimeraX Version: 1.11.dev202509040038 (2025-09-04 00:38:56 UTC)
Description
Last time you used ChimeraX it crashed.
Please describe steps that led to the crash here.
Windows fatal exception: access violation

Thread 0x00007d94 (most recent call first):
  File "C:\Users\chem-wolf7086\AppData\Local\Programs\ChimeraX 1.11.dev202509040038\bin\Lib\threading.py", line 331 in wait
  File "C:\Users\chem-wolf7086\AppData\Local\Programs\ChimeraX 1.11.dev202509040038\bin\Lib\threading.py", line 629 in wait
  File "C:\Users\chem-wolf7086\AppData\Local\Programs\ChimeraX 1.11.dev202509040038\bin\Lib\threading.py", line 1399 in run
  File "C:\Users\chem-wolf7086\AppData\Local\Programs\ChimeraX 1.11.dev202509040038\bin\Lib\threading.py", line 1045 in _bootstrap_inner
  File "C:\Users\chem-wolf7086\AppData\Local\Programs\ChimeraX 1.11.dev202509040038\bin\Lib\threading.py", line 1002 in _bootstrap

Current thread 0x00007780 (most recent call first):
  File "C:\Users\chem-wolf7086\AppData\Local\Programs\ChimeraX 1.11.dev202509040038\bin\Lib\site-packages\chimerax\ui\gui.py", line 368 in event_loop
  File "C:\Users\chem-wolf7086\AppData\Local\Programs\ChimeraX 1.11.dev202509040038\bin\Lib\site-packages\chimerax\core\__main__.py", line 1064 in init
  File "C:\Users\chem-wolf7086\AppData\Local\Programs\ChimeraX 1.11.dev202509040038\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 =====
UCSF ChimeraX version: 1.11.dev202509040038 (2025-09-04)  
© 2016-2025 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

QDxgiVSyncService: DXGI Factory is no longer Current  

> open 2vsm fromDatabase pdb format mmcif

2vsm title:  
Nipah virus attachment glycoprotein in complex with human cell surface
receptor ephrinB2 [more info...]  
  
Chain information for 2vsm #1  
---  
Chain | Description | UniProt  
A | HEMAGGLUTININ-NEURAMINIDASE | HN_NIPAV 188-602  
B | EPHRIN-B2 | EFNB2_HUMAN 31-168  
  
Non-standard residues in 2vsm #1  
---  
IPA — isopropyl alcohol (2-propanol)  
NAG — 2-acetamido-2-deoxy-beta-D-glucopyranose (N-acetyl-beta-D-glucosamine;
2-acetamido-2-deoxy-beta-D-glucose; 2-acetamido-2-deoxy-D-glucose;
2-acetamido-2-deoxy-glucose; N-ACETYL-D-GLUCOSAMINE)  
  
134 atoms have alternate locations. Control/examine alternate locations with
Altloc Explorer [start tool...] or the altlocs command.  

> open 7ty0 fromDatabase pdb format mmcif

7ty0 title:  
Nipah Virus attachment (G) glycoprotein ectodomain in complex with nAH1.3
neutralizing antibody Fab fragment (local refinement of the stalk region)
[more info...]  
  
Chain information for 7ty0 #2  
---  
Chain | Description | UniProt  
A B C D | Glycoprotein G | GLYCP_NIPAV 70-601  
J K | Igh protein | I6L985_MOUSE 1-443  
N O | nAH Fab light chain |   
  
Non-standard residues in 7ty0 #2  
---  
BMA — beta-D-mannopyranose (beta-D-mannose; D-mannose; mannose)  
FUC — alpha-L-fucopyranose (alpha-L-fucose; 6-deoxy-alpha-L-galactopyranose;
L-fucose; fucose)  
NAG — 2-acetamido-2-deoxy-beta-D-glucopyranose (N-acetyl-beta-D-glucosamine;
2-acetamido-2-deoxy-beta-D-glucose; 2-acetamido-2-deoxy-D-glucose;
2-acetamido-2-deoxy-glucose; N-ACETYL-D-GLUCOSAMINE)  
  

> open 7tzx fromDatabase pdb format mmcif

7tzx title:  
The crystal structure of WT CYP199A4 bound to 4-chloromethylbenzoic acid [more
info...]  
  
Chain information for 7tzx #3  
---  
Chain | Description | UniProt  
A | Cytochrome P450 | Q2IU02_RHOP2 0-409  
  
Non-standard residues in 7tzx #3  
---  
CL — chloride ion  
HEM — protoporphyrin IX containing Fe (HEME)  
L3C — 4-(chloromethyl)benzoic acid  
  
41 atoms have alternate locations. Control/examine alternate locations with
Altloc Explorer [start tool...] or the altlocs command.  

> close #3

> open 7txz fromDatabase pdb format mmcif

7txz title:  
Nipah Virus attachment (G) glycoprotein ectodomain in complex with nAH1.3
neutralizing antibody Fab fragment (local refinement of the distal region)
[more info...]  
  
Chain information for 7txz #3  
---  
Chain | Description | UniProt  
A B C D | Glycoprotein G | GLYCP_NIPAV 70-601  
E H | nAH1.3 Fab heavy chain |   
F L | nAH1.3 Fab light chain |   
  
Non-standard residues in 7txz #3  
---  
FUC — alpha-L-fucopyranose (alpha-L-fucose; 6-deoxy-alpha-L-galactopyranose;
L-fucose; fucose)  
NAG — 2-acetamido-2-deoxy-beta-D-glucopyranose (N-acetyl-beta-D-glucosamine;
2-acetamido-2-deoxy-beta-D-glucose; 2-acetamido-2-deoxy-D-glucose;
2-acetamido-2-deoxy-glucose; N-ACETYL-D-GLUCOSAMINE)  
  

> select #2/J#2/K

1361 atoms, 1395 bonds, 9 pseudobonds, 202 residues, 2 models selected  

> delete atoms (#!2 & sel)

> delete bonds (#!2 & sel)

> select #2/N#2/O

1309 atoms, 1342 bonds, 6 pseudobonds, 202 residues, 2 models selected  

> delete atoms (#!2 & sel)

> delete bonds (#!2 & sel)

> select #3/E#3/H

1756 atoms, 1804 bonds, 234 residues, 1 model selected  

> delete atoms sel

> delete bonds sel

> select #3/F#3/L

1640 atoms, 1682 bonds, 221 residues, 1 model selected  

> delete atoms sel

> delete bonds sel

> show cartoons

> hide atoms

> ui tool show "Show Sequence Viewer"

> sequence chain #3/D

Alignment identifier is 3/D  

> sequence chain #1/A

Alignment identifier is 1/A  

> sequence chain #1/B

Alignment identifier is 1/B  

> sequence chain #2/A

Alignment identifier is 2/A  

> sequence chain #2/B

Alignment identifier is 2/B  

> sequence chain #2/C

Alignment identifier is 2/C  

> sequence chain #2/D

Alignment identifier is 2/D  

> sequence chain #3/A

Alignment identifier is 3/A  

> sequence chain #3/B

Alignment identifier is 3/B  

> sequence chain #3/C

Alignment identifier is 3/C  

> select clear

> select #3/C:146

6 atoms, 5 bonds, 1 residue, 1 model selected  

> select #3/C:142-146

26 atoms, 25 bonds, 5 residues, 1 model selected  

> select #3/C:133-146

71 atoms, 70 bonds, 14 residues, 1 model selected  

> select #3/C:146

6 atoms, 5 bonds, 1 residue, 1 model selected  

> select #3/C:137-146

51 atoms, 50 bonds, 10 residues, 1 model selected  

> select clear

> select #3/B:219-220

15 atoms, 15 bonds, 2 residues, 1 model selected  

> select #3/B:219-222

31 atoms, 31 bonds, 4 residues, 1 model selected  

> select
> #3/B:159-161,179-180,201-203,215-225,228-237,244-257,263-271,279-287,290-297,314-320,332-336,340-341,347-350,356-358,361-371,407-417,426-430,442-447,450-455,465-471,476-479,512-515,520-526,535-541,544-550,558-568,571-580,591-596

1555 atoms, 1570 bonds, 192 residues, 1 model selected  

> select #3/C

205 atoms, 209 bonds, 34 residues, 1 model selected  

> delete atoms sel

> delete bonds sel

> select #2/D

3422 atoms, 3512 bonds, 4 pseudobonds, 488 residues, 2 models selected  

> select #3/D

212 atoms, 216 bonds, 34 residues, 1 model selected  

> delete atoms sel

> delete bonds sel

> select clear

> select #3/A:131-139

45 atoms, 44 bonds, 9 residues, 1 model selected  

> select #3/A:174-175

10 atoms, 9 bonds, 2 residues, 1 model selected  

> select #3/A:174-211

272 atoms, 275 bonds, 38 residues, 1 model selected  

> select #3/A:211

4 atoms, 3 bonds, 1 residue, 1 model selected  

> select #3/A:209-211

16 atoms, 15 bonds, 3 residues, 1 model selected  

> select #3/A:174

5 atoms, 4 bonds, 1 residue, 1 model selected  

> select #3/A:174

5 atoms, 4 bonds, 1 residue, 1 model selected  

> select #3/A:138

5 atoms, 4 bonds, 1 residue, 1 model selected  

> select #3/A:138-139

10 atoms, 9 bonds, 2 residues, 1 model selected  

> select #3/A:172

11 atoms, 10 bonds, 1 residue, 1 model selected  

> select #3/A:169-172

39 atoms, 39 bonds, 4 residues, 1 model selected  

> select clear

> select #3/A:131-172

282 atoms, 289 bonds, 42 residues, 1 model selected  

> select #3/A:131

5 atoms, 4 bonds, 1 residue, 1 model selected  

> select #3/A:131-171

271 atoms, 278 bonds, 41 residues, 1 model selected  

> delete atoms sel

> delete bonds sel

> select clear

> select #3/B:132-171

271 atoms, 278 bonds, 40 residues, 1 model selected  

> select #3/B:132

5 atoms, 4 bonds, 1 residue, 1 model selected  

> select #3/B:132-164

206 atoms, 209 bonds, 33 residues, 1 model selected  

> select #3/B:163

7 atoms, 7 bonds, 1 residue, 1 model selected  

> select #3/B:162-163

13 atoms, 13 bonds, 2 residues, 1 model selected  

> select #3/B:162-163

13 atoms, 13 bonds, 2 residues, 1 model selected  

> select #3/B:132-163

198 atoms, 201 bonds, 32 residues, 1 model selected  

> delete atoms sel

> delete bonds sel

> select clear

> select #3/A:172-173

18 atoms, 18 bonds, 2 residues, 1 model selected  

> select #3/A:172-173

18 atoms, 18 bonds, 2 residues, 1 model selected  

> select #3/A:208

7 atoms, 7 bonds, 1 residue, 1 model selected  

> select #3/A:205-208

34 atoms, 35 bonds, 4 residues, 1 model selected  

> select clear

> select #3/A:172

11 atoms, 10 bonds, 1 residue, 1 model selected  

> select #3/A:172

11 atoms, 10 bonds, 1 residue, 1 model selected  

> delete atoms sel

> delete bonds sel


===== Log before crash end =====

Log:
UCSF ChimeraX version: 1.11.dev202509040038 (2025-09-04)  
© 2016-2025 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  




OpenGL version: 3.3.0 - Build 31.0.101.5085
OpenGL renderer: Intel(R) UHD Graphics 770
OpenGL vendor: Intel

Python: 3.11.9
Locale: en_GB.cp1252
Qt version: PyQt6 6.9.1, Qt 6.9.0
Qt runtime version: 6.9.1
Qt platform: windows

Manufacturer: Dell Inc.
Model: OptiPlex SFF Plus 7010
OS: Microsoft Windows 11 Enterprise (Build 26100)
Memory: 16,853,479,424
MaxProcessMemory: 137,438,953,344
CPU: 20 13th Gen Intel(R) Core(TM) i5-13500
OSLanguage: en-GB

Installed Packages:
    alabaster: 1.0.0
    appdirs: 1.4.4
    asttokens: 3.0.0
    babel: 2.17.0
    beautifulsoup4: 4.13.5
    blockdiag: 3.0.0
    blosc2: 3.7.2
    build: 1.3.0
    certifi: 2025.8.3
    cftime: 1.6.4.post1
    charset-normalizer: 3.4.3
    ChimeraX-AddCharge: 1.5.20
    ChimeraX-AddH: 2.2.7
    ChimeraX-AlignmentAlgorithms: 2.0.2
    ChimeraX-AlignmentHdrs: 3.6.1
    ChimeraX-AlignmentMatrices: 2.1
    ChimeraX-Alignments: 3.0.2
    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: 1.60.16
    ChimeraX-AtomicLibrary: 14.1.23
    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.dev202509040038
    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: 1.2
    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: 1.3.1
    ChimeraX-PubChem: 2.2
    ChimeraX-ReadPbonds: 1.0.1
    ChimeraX-Registration: 1.1.2
    ChimeraX-RemoteControl: 1.0
    ChimeraX-RenderByAttr: 1.6.5
    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: 1.3.2
    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: 1.1.5
    ChimeraX-Zone: 1.0.1
    colorama: 0.4.6
    comm: 0.2.3
    comtypes: 1.4.11
    contourpy: 1.3.3
    coverage: 7.10.6
    cxservices: 1.2.3
    cycler: 0.12.1
    Cython: 3.1.3
    debugpy: 1.8.16
    decorator: 5.2.1
    docutils: 0.21.2
    executing: 2.2.1
    filelock: 3.19.1
    fonttools: 4.59.2
    funcparserlib: 2.0.0a0
    glfw: 2.9.0
    grako: 3.16.5
    h5py: 3.14.0
    html2text: 2025.4.15
    idna: 3.10
    ihm: 2.2
    imagecodecs: 2024.6.1
    imagesize: 1.4.1
    iniconfig: 2.1.0
    ipykernel: 6.30.1
    ipython: 9.5.0
    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: 6.0.1
    lz4: 4.3.2
    Markdown: 3.8.2
    MarkupSafe: 3.0.2
    matplotlib: 3.10.5
    matplotlib-inline: 0.1.7
    msgpack: 1.1.1
    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: 11.3.0
    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: 3.0.1
    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
    PyQt6-commercial: 6.9.1
    PyQt6-Qt6: 6.9.1
    PyQt6-WebEngine-commercial: 6.9.0
    PyQt6-WebEngine-Qt6: 6.9.1
    PyQt6_sip: 13.10.2
    pytest: 8.4.1
    pytest-cov: 6.2.1
    python-dateutil: 2.9.0.post0
    pytz: 2025.2
    pywin32: 311
    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
    six: 1.17.0
    snowballstemmer: 3.0.1
    sortedcontainers: 2.4.0
    soupsieve: 2.8
    Sphinx: 8.2.3
    sphinx-autodoc-typehints: 3.2.0
    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: 0.7.6
    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

[Eric Pettersen]

The same structures/commands worked for me.