'pip install pyKVFinder' fails with empty error message

[chimerax-bug-report@…]

The following bug report has been submitted:
Platform:        Windows-10-10.0.26100
ChimeraX Version: 1.10.1 (2025-07-24 20:15:27 UTC)
Description
Replace this text with list of actions that caused this problem to occur

Log:
UCSF ChimeraX version: 1.10.1 (2025-07-24)  
© 2016-2025 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> open 7vz4

Summary of feedback from opening 7vz4 fetched from pdb  
---  
note | Fetching compressed mmCIF 7vz4 from http://files.rcsb.org/download/7vz4.cif  
  
7vz4 title:  
Cryo-EM structure of human nucleosome core particle composed of the Widom 601L
DNA sequence [more info...]  
  
Chain information for 7vz4 #1  
---  
Chain | Description | UniProt  
A E | Histone H3.1 | H31_HUMAN 1-135  
B F | Histone H4 | H4_HUMAN 1-102  
C G | Histone H2A type 1-B/E | H2A1B_HUMAN 1-129  
D H | Histone H2B type 1-J | H2B1J_HUMAN 1-125  
I | DNA (145-MER) |   
J | DNA (145-MER) |   
  

> open 32220

'32220' has no suffix  

> open 32220

'32220' has no suffix  

> 32220

Unknown command: 32220  

> open 32220 fromDatabase emdb

Summary of feedback from opening 32220 fetched from emdb  
---  
notes | Fetching compressed map 32220 from ftp://ftp.ebi.ac.uk/pub/databases/emdb/structures/EMD-32220/map/emd_32220.map.gz  
Fetching map header 32220 from
ftp://ftp.ebi.ac.uk/pub/databases/emdb/structures/EMD-32220/header/emd-32220.xml  
  
Opened emdb 32220 as #2, grid size 320,320,320, pixel 0.65, shown at level
5.2, step 2, values float32, fit PDB 7vz4  

> select /I

2970 atoms, 3332 bonds, 145 residues, 1 model selected  

> show sel atoms

> show sel cartoons

[Repeated 4 time(s)]

> hide sel cartoons

> show sel atoms

> hide sel atoms

> show sel cartoons

> select /I/J

5939 atoms, 6662 bonds, 372 pseudobonds, 290 residues, 2 models selected  

> show sel cartoons

> select /I/J

5939 atoms, 6662 bonds, 372 pseudobonds, 290 residues, 2 models selected  

> select /I/J

5939 atoms, 6662 bonds, 372 pseudobonds, 290 residues, 2 models selected  

> hide sel atoms

[Repeated 1 time(s)]

> show sel atoms

> hide sel cartoons

> show sel cartoons

> hide sel cartoons

> select /I/J

5939 atoms, 6662 bonds, 372 pseudobonds, 290 residues, 2 models selected  

> hide sel cartoons

[Repeated 2 time(s)]

> hide sel atoms

> select /I/J

5939 atoms, 6662 bonds, 372 pseudobonds, 290 residues, 2 models selected  

> hide sel atoms

> hide atoms

> select /C/G

1652 atoms, 1672 bonds, 214 residues, 1 model selected  

> show sel atoms

> hide sel atoms

> show sel cartoons

> hide sel cartoons

> set bgColor white

> volume style surface

> volume style mesh

> volume style image

> volume show

> color zone #2 near sel & #1 distance 3.9

> volume style image

> volume style mesh

> volume style surface

> select /I

2970 atoms, 3332 bonds, 145 residues, 1 model selected  

> show sel cartoons

> select /I/J

5939 atoms, 6662 bonds, 372 pseudobonds, 290 residues, 2 models selected  

> show sel cartoons

> select /J

2969 atoms, 3330 bonds, 145 residues, 1 model selected  

> show sel cartoons

[Repeated 1 time(s)]

> select /I/J

5939 atoms, 6662 bonds, 372 pseudobonds, 290 residues, 2 models selected  

> color sel bychain

> rainbow sel

> mlp sel

mlp: no amino acids specified  

> coulombic sel

Using Amber 20 recommended default charges and atom types for standard
residues  
Coulombic values for 7vz4_I SES surface #1.2: minimum, -32.89, mean -14.98,
maximum -4.12  
Coulombic values for 7vz4_J SES surface #1.3: minimum, -30.20, mean -14.99,
maximum -4.03  
To also show corresponding color key, enter the above coulombic command and
add key true  

> color sel byhetero

> show sel cartoons

> coulombic sel

Coulombic values for 7vz4_I SES surface #1.2: minimum, -32.89, mean -14.98,
maximum -4.12  
Coulombic values for 7vz4_J SES surface #1.3: minimum, -30.20, mean -14.99,
maximum -4.03  
To also show corresponding color key, enter the above coulombic command and
add key true  

> coulombic sel

Coulombic values for 7vz4_I SES surface #1.2: minimum, -32.89, mean -14.98,
maximum -4.12  
Coulombic values for 7vz4_J SES surface #1.3: minimum, -30.20, mean -14.99,
maximum -4.03  
To also show corresponding color key, enter the above coulombic command and
add key true  

> coulombic sel

Coulombic values for 7vz4_I SES surface #1.2: minimum, -32.89, mean -14.98,
maximum -4.12  
Coulombic values for 7vz4_J SES surface #1.3: minimum, -30.20, mean -14.99,
maximum -4.03  
To also show corresponding color key, enter the above coulombic command and
add key true  

> select /A/E

1566 atoms, 1588 bonds, 190 residues, 1 model selected  

> style sel sphere

Changed 1566 atom styles  

> select /A/E

1566 atoms, 1588 bonds, 190 residues, 1 model selected  

> style sel sphere

Changed 1566 atom styles  

> show sel cartoons

[Repeated 1 time(s)]

> hide sel cartoons

> show sel atoms

[Repeated 1 time(s)]

> select /I/J

5939 atoms, 6662 bonds, 372 pseudobonds, 290 residues, 2 models selected  

> rainbow sel

> lighting flat

[Repeated 1 time(s)]

> lighting full

> lighting shadows false

> nucleotides sel ladder

> select /I/J

5939 atoms, 6662 bonds, 372 pseudobonds, 290 residues, 2 models selected  

> nucleotides sel stubs

> nucleotides sel ladder

> select /I

2970 atoms, 3332 bonds, 145 residues, 1 model selected  

> nucleotides sel ladder

> select /I/J

5939 atoms, 6662 bonds, 372 pseudobonds, 290 residues, 2 models selected  

> view

> view sel

> view orient

> select /I/J

5939 atoms, 6662 bonds, 372 pseudobonds, 290 residues, 2 models selected  

> hide sel cartoons

> show sel cartoons

> save C:\Users\nkwed/Desktop\image1.png supersample 3

> movie record

> turn y 2 180

> wait 180

> movie encode C:\Users\nkwed/Desktop\movie1.mp4

Movie saved to C:\Users\nkwed/Desktop\movie1.mp4  
  

> hide #!2 models

> close #2

> show sel cartoons

> select /I/J

5939 atoms, 6662 bonds, 372 pseudobonds, 290 residues, 2 models selected  

> show sel cartoons

> open 32220 fromDatabase emdb

Opened emdb 32220 as #2, grid size 320,320,320, pixel 0.65, shown at level
5.2, step 2, values float32, fit PDB 7vz4  

> hide #!2 models

> show #!2 models

> hide #!1 models

> show #!1 models

> hide #!2 models

> color #2 #74b24bff models

> show #!2 models

> color #2 #b244a9ff models

> color #2 #b247a9ff models

> color #1 #b233a7ff

> color #1 #6eb1b2ff

> color sel bychain

> select /I/J

5939 atoms, 6662 bonds, 372 pseudobonds, 290 residues, 2 models selected  

> nucleotides sel atoms

> style nucleic & sel stick

Changed 5939 atom styles  

> nucleotides sel ladder

> hide sel surfaces

> hide sel cartoons

[Repeated 1 time(s)]

> show sel cartoons

> hide sel atoms

> nucleotides sel tube/slab shape box

> select /I/J

5939 atoms, 6662 bonds, 372 pseudobonds, 290 residues, 2 models selected  

> show sel atoms

> hide #!2 models

> show #!2 models

> hide #!2 models

> show sel cartoons

> hide sel cartoons

> show sel cartoons

> select /A/E

1566 atoms, 1588 bonds, 190 residues, 1 model selected  

> style sel stick

Changed 1566 atom styles  

> style sel sphere

Changed 1566 atom styles  

> style sel ball

Changed 1566 atom styles  

> color sel bypolymer

> show sel cartoons

> volume #2 style mesh

> volume #2 style image colorMode opaque8 showOutlineBox true orthoplanes xyz
> positionPlanes 159,159,159 imageMode orthoplanes

> volume #2 style surface

> volume #2 level 6.207

> volume #2 level 11.95

> volume #2 level 18.09

> volume #2 style image maximumIntensityProjection true colorMode auto8
> imageMode "full region"

> volume #2 maximumIntensityProjection false imageMode "tilted slab"
> tiltedSlabAxis 0.6862,-0.7094,-0.1608 tiltedSlabOffset -29.42
> tiltedSlabSpacing 0.65 tiltedSlabPlaneCount 32

> volume #2 style surface

> volume #2 change image level -0.02849,0 level 1.98,0.8 level 37.57,1

> volume #2 level 16.88

> volume #2 level 10.64

> volume #2 level 4.999

> hide #!2 models

> show #!2 models

> hide #!2 models

> show #!2 models

> ui tool show H-Bonds

> hbonds reveal true

1328 hydrogen bonds found  

> hbonds reveal true

1328 hydrogen bonds found  

> hbonds reveal true

1328 hydrogen bonds found  

> lighting simple

> lighting soft

> view

> view sel

> view

> select add #1

11843 atoms, 12644 bonds, 1330 pseudobonds, 1036 residues, 3 models selected  

> select subtract #1

2 models selected  

> select add #1

11843 atoms, 12644 bonds, 1330 pseudobonds, 1036 residues, 3 models selected  

> select subtract #1

2 models selected  

> open 8jlb

Summary of feedback from opening 8jlb fetched from pdb  
---  
note | Fetching compressed mmCIF 8jlb from http://files.rcsb.org/download/8jlb.cif  
  
8jlb title:  
Cryo-EM structure of the 145 bp human nucleosome containing H3.2 C110A mutant
[more info...]  
  
Chain information for 8jlb #3  
---  
Chain | Description | UniProt  
A E | Histone H3.2 | H32_HUMAN 1-135  
B F | Histone H4 | H4_HUMAN 0-102  
C G | Histone H2A type 1-B/E | H2A1B_HUMAN 0-129  
D H | Histone H2B type 1-J | H2B1J_HUMAN 0-125  
I | DNA (145-MER) |   
J | DNA (145-MER) |   
  

> hide #!1 models

> hide #!2 models

> ui tool show H-Bonds

> ui tool show Matchmaker

> matchmaker #!3 to #1

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 7vz4, chain C (#1) with 8jlb, chain C (#3), sequence alignment
score = 626.6  
RMSD between 107 pruned atom pairs is 0.202 angstroms; (across all 107 pairs:
0.202)  
  

> show #!1 models

> ui mousemode right "move picked models"

[Repeated 1 time(s)]

> show cartoons

> select add #1

11843 atoms, 12644 bonds, 1328 pseudobonds, 1036 residues, 2 models selected  

> select add #3

23687 atoms, 25289 bonds, 1697 pseudobonds, 2072 residues, 6 models selected  

> show sel cartoons

> select #1/I#1/J#3/I#3/J

11881 atoms, 13327 bonds, 793 pseudobonds, 580 residues, 4 models selected  

> rainbow sel

> view matrix models
> #3,0.98231,0.15142,0.1102,-5.5623,-0.18702,0.76249,0.61938,-10.631,0.0097608,-0.62903,0.77732,77.392

> color sel bychain

[Repeated 1 time(s)]

> select add #2

11881 atoms, 13327 bonds, 793 pseudobonds, 580 residues, 9 models selected  

> select add #1

17785 atoms, 19309 bonds, 1697 pseudobonds, 1326 residues, 9 models selected  

> select subtract #1

5942 atoms, 6665 bonds, 369 pseudobonds, 290 residues, 7 models selected  

> select add #2

5942 atoms, 6665 bonds, 369 pseudobonds, 290 residues, 5 models selected  

> select add #2

5942 atoms, 6665 bonds, 369 pseudobonds, 290 residues, 5 models selected  

> ui tool show "Find Cavities"

pyKVFinder module not installed; fetching from PyPi repository...  
'pip install pyKVFinder' failed. Error from pip:  
Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.10.1\bin\Lib\site-
packages\chimerax\kvfinder\\__init__.py", line 48, in check_pyKVFinder  
import pyKVFinder  
ModuleNotFoundError: No module named 'pyKVFinder'  
  
During handling of the above exception, another exception occurred:  
  
Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.10.1\bin\Lib\site-
packages\chimerax\core\toolshed\info.py", line 571, in start_tool  
ti = api._api_caller.start_tool(api, session, self, tool_info)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Program Files\ChimeraX 1.10.1\bin\Lib\site-
packages\chimerax\core\toolshed\\__init__.py", line 1399, in start_tool  
return cls._get_func(api, "start_tool")(session, ti.name)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Program Files\ChimeraX 1.10.1\bin\Lib\site-
packages\chimerax\kvfinder\\__init__.py", line 42, in start_tool  
check_pyKVFinder(session.logger)  
File "C:\Program Files\ChimeraX 1.10.1\bin\Lib\site-
packages\chimerax\kvfinder\\__init__.py", line 54, in check_pyKVFinder  
run(logger.session, pip_cmd, log=False)  
File "C:\Program Files\ChimeraX 1.10.1\bin\Lib\site-
packages\chimerax\core\commands\run.py", line 49, in run  
results = command.run(text, log=log, return_json=return_json)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Program Files\ChimeraX 1.10.1\bin\Lib\site-
packages\chimerax\core\commands\cli.py", line 3221, in run  
result = ci.function(session, **kw_args)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Program Files\ChimeraX 1.10.1\bin\Lib\site-
packages\chimerax\core\commands\pip.py", line 88, in pip  
run_logged_pip(pip_cmd, session.logger)  
File "C:\Program Files\ChimeraX 1.10.1\bin\Lib\site-
packages\chimerax\core\python_utils.py", line 143, in run_logged_pip  
raise RuntimeError(s)  
RuntimeError  
  
During handling of the above exception, another exception occurred:  
  
Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.10.1\bin\Lib\site-
packages\chimerax\ui\gui.py", line 1891, in <lambda>  
run(ses, "ui tool show %s" % StringArg.unparse(tool_name)))  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Program Files\ChimeraX 1.10.1\bin\Lib\site-
packages\chimerax\core\commands\run.py", line 49, in run  
results = command.run(text, log=log, return_json=return_json)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Program Files\ChimeraX 1.10.1\bin\Lib\site-
packages\chimerax\core\commands\cli.py", line 3221, in run  
result = ci.function(session, **kw_args)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Program Files\ChimeraX 1.10.1\bin\Lib\site-
packages\chimerax\ui\cmd.py", line 219, in ui_tool_show  
return bi.start_tool(session, name)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Program Files\ChimeraX 1.10.1\bin\Lib\site-
packages\chimerax\core\toolshed\info.py", line 578, in start_tool  
raise ToolshedError(  
chimerax.core.toolshed.ToolshedError: start_tool() failed for tool Find
Cavities in bundle ChimeraX-KVFinder:  
  
  
chimerax.core.toolshed.ToolshedError: start_tool() failed for tool Find
Cavities in bundle ChimeraX-KVFinder:  
  
  
File "C:\Program Files\ChimeraX 1.10.1\bin\Lib\site-
packages\chimerax\core\toolshed\info.py", line 578, in start_tool  
raise ToolshedError(  
  
See log for complete Python traceback.  
  

> select add #1

17785 atoms, 19309 bonds, 1697 pseudobonds, 1326 residues, 7 models selected  




OpenGL version: 3.3.0 - Build 32.0.101.6647
OpenGL renderer: Intel(R) Iris(R) Xe Graphics
OpenGL vendor: Intel

Python: 3.11.4
Locale: en_US.cp1252
Qt version: PyQt6 6.8.1, Qt 6.8.2
Qt runtime version: 6.8.2
Qt platform: windows

Manufacturer: LENOVO
Model: 20TD00F7ZA
OS: Microsoft Windows 11 Pro (Build 26100)
Memory: 16,863,318,016
MaxProcessMemory: 137,438,953,344
CPU: 8 11th Gen Intel(R) Core(TM) i7-1165G7 @ 2.80GHz
OSLanguage: en-US

Installed Packages:
    alabaster: 1.0.0
    appdirs: 1.4.4
    asttokens: 3.0.0
    babel: 2.17.0
    beautifulsoup4: 4.13.3
    blockdiag: 3.0.0
    blosc2: 3.6.1
    build: 1.2.2.post1
    certifi: 2025.7.14
    cftime: 1.6.4.post1
    charset-normalizer: 3.4.2
    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: 2.20.2
    ChimeraX-AlphaFold: 1.0.1
    ChimeraX-AltlocExplorer: 1.1.2
    ChimeraX-AmberInfo: 1.0
    ChimeraX-Aniso: 1.1.4
    ChimeraX-Arrays: 1.1
    ChimeraX-Atomic: 1.60.7
    ChimeraX-AtomicLibrary: 14.1.19
    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: 1.0
    ChimeraX-BondRot: 2.0.4
    ChimeraX-BugReporter: 1.0.2
    ChimeraX-BuildStructure: 2.13.1
    ChimeraX-Bumps: 1.0
    ChimeraX-BundleBuilder: 1.5.1
    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
    ChimeraX-ConnectStructure: 2.0.1
    ChimeraX-Contacts: 1.0.1
    ChimeraX-Core: 1.10.1
    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: 2.5.1
    ChimeraX-Help: 1.3
    ChimeraX-HKCage: 1.3
    ChimeraX-IHM: 1.1
    ChimeraX-ImageFormats: 1.2
    ChimeraX-IMOD: 1.0
    ChimeraX-IO: 1.0.3
    ChimeraX-ItemsInspection: 1.0.1
    ChimeraX-IUPAC: 1.0
    ChimeraX-KVFinder: 1.6.2
    ChimeraX-Label: 1.1.14
    ChimeraX-ListInfo: 1.2.2
    ChimeraX-Log: 1.2
    ChimeraX-LookingGlass: 1.1
    ChimeraX-Maestro: 1.9.1
    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: 2.10.1
    ChimeraX-MedicalToolbar: 1.1
    ChimeraX-Meeting: 1.0.1
    ChimeraX-MLP: 1.1.1
    ChimeraX-mmCIF: 2.16
    ChimeraX-MMTF: 2.2
    ChimeraX-ModelArchive: 1.0
    ChimeraX-Modeller: 1.5.19
    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
    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: 1.14.1
    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: 1.1.3
    ChimeraX-PubChem: 2.2
    ChimeraX-ReadPbonds: 1.0.1
    ChimeraX-Registration: 1.1.2
    ChimeraX-RemoteControl: 1.0
    ChimeraX-RenderByAttr: 1.6.3
    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: 1.5.1
    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: 2.17.1
    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: 1.45.2
    ChimeraX-Umap: 1.0
    ChimeraX-uniprot: 2.3.1
    ChimeraX-UnitCell: 1.0.1
    ChimeraX-ViewDockX: 1.4.4
    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: 0.2.2
    comtypes: 1.4.10
    contourpy: 1.3.2
    coverage: 7.10.0
    cxservices: 1.2.3
    cycler: 0.12.1
    Cython: 3.0.12
    debugpy: 1.8.15
    decorator: 5.2.1
    docutils: 0.21.2
    executing: 2.2.0
    filelock: 3.18.0
    fonttools: 4.59.0
    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: 6.29.5
    ipython: 8.26.0
    ipywidgets: 8.1.7
    jedi: 0.19.1
    Jinja2: 3.1.6
    jupyter_client: 8.6.3
    jupyter_core: 5.8.1
    jupyterlab_widgets: 3.0.15
    kiwisolver: 1.4.8
    line_profiler: 4.2.0
    lxml: 5.3.1
    lz4: 4.3.2
    MarkupSafe: 3.0.2
    matplotlib: 3.10.1
    matplotlib-inline: 0.1.7
    msgpack: 1.1.0
    narwhals: 2.1.1
    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: 2.2.6
    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: 24.2
    ParmEd: 4.2.2
    parso: 0.8.4
    pep517: 0.13.1
    pickleshare: 0.7.5
    pillow: 10.4.0
    pip: 25.0.1
    pkginfo: 1.11.1
    platformdirs: 4.3.8
    plotly: 6.0.1
    pluggy: 1.6.0
    prompt_toolkit: 3.0.51
    psutil: 7.0.0
    pure_eval: 0.2.3
    py-cpuinfo: 9.0.0
    pycollada: 0.8
    pydicom: 2.4.4
    Pygments: 2.18.0
    pynmrstar: 3.3.5
    pynrrd: 1.0.0
    PyOpenGL: 3.1.9
    PyOpenGL-accelerate: 3.1.9
    pyopenxr: 1.1.4501
    pyparsing: 3.2.3
    pyproject_hooks: 1.2.0
    PyQt6-commercial: 6.8.1
    PyQt6-Qt6: 6.8.2
    PyQt6-WebEngine-commercial: 6.8.0
    PyQt6-WebEngine-Qt6: 6.8.2
    PyQt6_sip: 13.10.0
    pytest: 8.4.1
    pytest-cov: 6.2.1
    python-dateutil: 2.9.0.post0
    pytz: 2025.2
    pywin32: 310
    pyzmq: 27.0.0
    qtconsole: 5.5.2
    QtPy: 2.4.3
    qtshim: 1.1
    RandomWords: 0.4.0
    requests: 2.32.3
    roman-numerals-py: 3.1.0
    scipy: 1.14.0
    setuptools: 78.1.0
    sfftk-rw: 0.8.1
    six: 1.16.0
    snowballstemmer: 3.0.1
    sortedcontainers: 2.4.0
    soupsieve: 2.7
    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: 0.7.1
    tables: 3.10.2
    tcia_utils: 1.5.1
    tifffile: 2025.3.13
    tinyarray: 1.2.4
    tomlkit: 0.13.2
    tornado: 6.5.1
    traitlets: 5.14.3
    typing_extensions: 4.14.1
    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