Scenes Add button refuses to add because name matches an existing scene

[goddard@…]

The following bug report has been submitted:
Platform:        macOS-26.0.1-arm64-arm-64bit
ChimeraX Version: 1.11.dev202510272355 (2025-10-27 23:55:14 UTC)
Description
When I click on a scene it fills its name in the scene name entry.  Later when I click Add to add a new scene it tries to use the name in the entry field and says scene name already exists.  Not sure what to do in this case but I want to be able to add a new scene after looking over some of my previous scenes without having to clear the name entry field.  Maybe if the name was filled in automatically and the user has not changed it then Add can just assign the next numeric name.

Log:
UCSF ChimeraX version: 1.11.dev202510272355 (2025-10-27)  
© 2016-2025 Regents of the University of California. All rights reserved.  

> set bgColor #ffffff00

Log from Mon Oct 27 17:49:32 2025UCSF 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 https://www.rbvi.ucsf.edu/chimerax/data/slac-workshop-
> oct2025/animations_oct2025.html

Opened https://www.rbvi.ucsf.edu/chimerax/data/slac-workshop-
oct2025/animations_oct2025.html  

> open https://www.rbvi.ucsf.edu/chimerax/tutorials.html

Opened https://www.rbvi.ucsf.edu/chimerax/tutorials.html  

> open 9my3 9my4

9my3 title:  
Structure of Xenopus KCNQ1-CaM in GDN [more info...]  
  
Chain information for 9my3 #1  
---  
Chain | Description | UniProt  
A C E G | Potassium voltage-gated channel subfamily KQT member 1 | KCNQ1_XENLA 66-610  
B D F H | Calmodulin-1 | CALM1_HUMAN 1-149  
  
9my4 title:  
Structure of Xenopus KCNQ1(E150R/R221E)-CaM with the VSD in the intermediate
state [more info...]  
  
Chain information for 9my4 #2  
---  
Chain | Description | UniProt  
A C E G | Potassium voltage-gated channel subfamily KQT member 1 | KCNQ1_XENLA 66-610  
B D F H | Calmodulin-1 | CALM1_HUMAN 1-149  
  

> hide atoms

> show cartoons

> matchmaker #2 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 9my3, chain A (#1) with 9my4, chain A (#2), sequence alignment
score = 2524.3  
RMSD between 284 pruned atom pairs is 0.639 angstroms; (across all 339 pairs:
2.216)  
  

> morph #1, 2

Computed 51 frame morph #3  

> coordset #3 1,51

> hide #!3 models

> show #!1 models

> hide #!1 models

> show #!2 models

> hide #!2 models

> show #!3 models

> changechains #1 C,G,D,H G,C,H,D

Chain IDs of 952 residues changed  

> close #3

> morph #1, 2

Computed 51 frame morph #3  

> coordset #3 1,51

> select #1/B#1/D#1/F#1/H#2/B#2/D#2/F#2/H#3/B#3/D#3/F#3/H

12372 atoms, 12516 bonds, 1644 residues, 3 models selected  

> color (#!3 & sel) yellow

> select #1/A#1/C#1/E#1/G#2/A#2/C#2/E#2/G#3/A#3/C#3/E#3/G

32592 atoms, 33420 bonds, 24 pseudobonds, 4068 residues, 6 models selected  

> color sel skyblue

> ui tool show "Color Actions"

> color sel royal blue

> color sel deep sky blue

> color sel dodger blue

> select clear

> set bgColor white

> graphics silhouettes true

> lighting soft

> movie record

> movie encode /Users/goddard/Desktop/movie1.mp4 framerate 25.0

Movie saved to /Users/goddard/Desktop/movie1.mp4  
  

> coordset #3

> coordset #3 bounce true

> help coordset

> coordset #3 bounce true loop 3

> movie record

> coordset #3 bounce true loop 3

> wait 310

> movie encode morph3.mp4

Movie saved to morph3.mp4  
  

> lighting simple

> coordset #3 1,51 bounce true loop 3

> movie record

> coordset #3 1,51 bounce true loop 3

> wait 310

> movie encode morph3.mp4

Movie saved to morph3.mp4  
  
Downloading file trimmed_maps.zip  

> open /Users/goddard/Desktop/trimmed_maps/emdb_48725_trimmed.mrc

Opened emdb_48725_trimmed.mrc as #4, grid size 142,128,166, pixel
0.96,0.96,0.96, shown at level 0.192, step 1, values float32  

> lighting soft

> volume #4 level 0.1445

> volume #4 level 0.1221

> hide #!3 models

> show #!1 models

> hide #!4 models

> color bfactor #1

15004 atoms, 1904 residues, atom bfactor range 63 to 228  

> show #!4 models

> color zone #4 near #1 distance 10

> hide #!1 models

> rock

> stop

> rock angle 90

> stop

> rock angle 90 cycle 600

> stop

> rock angle 90 center #4 cycle 600 frames 600

> movie record

> rock angle 90 center #4 cycle 600 frames 600

> wait 600

> movie encode map_bfactor.mp4

Movie saved to map_bfactor.mp4  
  

> hide #!4 models

> show #!1 models

> show #1 models

> hide #1 cartoons

> select #1/A:217-232

132 atoms, 133 bonds, 16 residues, 1 model selected  

> show sel

> style sel stick

Changed 132 atom styles  

> set bgColor black

> color #1 tan

> color #1 byhetero

> show #!4 models

> ui tool show "Surface Zone"

> surface zone #4 nearAtoms sel distance 10.19

> surface zone #4 nearAtoms sel distance 9.86

> surface zone #4 nearAtoms sel distance 2.56

> surface zone #4 nearAtoms sel distance 2.68

> surface zone #4 nearAtoms sel distance 3.1

> volume zone #4 nearAtoms sel range 3

> volume #4 style mesh

> transparency #4 50

> label sel text "{0.name} {0.number}{0.insertion_code}"

> label sel bgColor black

> set bgColor white

[Repeated 1 time(s)]

> set bgColor black

> hbonds sel reveal true restrict cross interModel false select true

9 hydrogen bonds found  

> select clear

> style #!1 stick

Changed 15004 atom styles  

> hbonds sel reveal true restrict cross interModel false select true

Atom specifier selects no atoms  

> select #1/A:217-232

132 atoms, 133 bonds, 16 residues, 1 model selected  

> hbonds sel reveal true restrict cross interModel false select true

9 hydrogen bonds found  

> label sel

> select clear

> roll y 1 360 center #4

> movie record

> turn y 2 180

> wait 180

> movie encode /Users/goddard/Desktop/movie2.mp4

Movie saved to /Users/goddard/Desktop/movie2.mp4  
  

> movie record

> roll y 1 360 center #4

> wait 360

> movie encode s4_spin.mp4

Movie saved to s4_spin.mp4  
  

> set bgColor white

> graphics silhouettes false

> transparency #4 0

> set bgColor black

> cofr #4

> hide #1,4 models

> show #3 models

> hide #3 atoms

> select #3/A:217-232

128 atoms, 129 bonds, 16 residues, 1 model selected  

> show sel atoms,ribbons

> hide #3 atoms, ribbons

> select #3/A:217-232

128 atoms, 129 bonds, 16 residues, 1 model selected  

> show sel atoms,ribbons

> style sel stick

Changed 128 atom styles  

> color sel byhetero

> label sel bgColor yellow

> select clear

> coordset #3 1,51 bounce true loop 1 pauseFrames 3

> coordset slider #3

> open https://www.rbvi.ucsf.edu/chimerax/data/slac-workshop-
> oct2025/animations_oct2025.html

Opened https://www.rbvi.ucsf.edu/chimerax/data/slac-workshop-
oct2025/animations_oct2025.html  

> open https://www.rbvi.ucsf.edu/chimerax/data/slac-workshop-
> oct2025/animations_oct2025.html

Opened https://www.rbvi.ucsf.edu/chimerax/data/slac-workshop-
oct2025/animations_oct2025.html  

> coordset #3 1,51 bounce true loop 1 pauseFrames 3

> movie record

> coordset #3 1,51 bounce true loop 1 pauseFrames 3

> wait 310

> movie encode s4_morph.mp4

Movie saved to s4_morph.mp4  
  

> movie record

> coordset #3 1,51 bounce true loop 1 pauseFrames 3

> wait 310

> movie encode s4_morph.mp4

Movie saved to s4_morph.mp4  
  

> show #!1 models

> hide #!3 models

> select clear

Drag select of 169 atoms, 165 bonds  

> label sel bgColor yellow

> set bgColor white

> set bgColor black

> label sel bgColor yellow

> label sel text "{0.name} {0.number}{0.insertion_code}"

> show #1.2 models

> show #1.3 models

> show #1.1 models

> show #!4 models

> show #4.1 models

> transparency #4 50

> select clear

> show #!3 models

> hide #!3 models

> ribbon #1:217-232

> hide #1 ribbons

> ribbon #1/A:217-232

> show #!3 models

> color #3 tan

> color #3 byhetero

> hide #!1 models

> show #!1 models

> hide #!3 models

> show #!3 models

> hide #!1 models

> show #!1 models

> set bgColor white

[Repeated 1 time(s)]

> transparency #4 0

> volume #4 color #b2ebb2

> volume #4 color #b2aeb2

> volume #4 color #b280b2

> volume #4 color #8080b2

> volume #4 color grey

> hide #!1 models

> show #!2 models

> hide #!3 models

> color #2 tan

> hide #2 ribbons

> select #2/A:217-232

130 atoms, 131 bonds, 16 residues, 1 model selected  

> show sel

> style sel stick

Changed 130 atom styles  

> style #2 stick

Changed 14992 atom styles  

> color sel byhetero

> label sel bgColor yellow

> hbonds sel reveal true restrict cross interModel false select true

3 hydrogen bonds found  

> label sel bgColor yellow

> ribbon #2/A:217-232

> hide #4.1 models

> open /Users/goddard/Desktop/trimmed_maps/emdb_48726_trimmed.mrc

Opened emdb_48726_trimmed.mrc as #5, grid size 139,139,174, pixel
0.96,0.96,0.96, shown at level 0.237, step 1, values float32  

> view position #5 sameAsModels #2

> volume zone #5 nearAtoms #2/A:217-232 range 3

> volume #5 level 0.1348

> volume #5 style mesh

> color #5 gray

> select clear

> hide #!4 models

> show #!4 models

> hide #!5 models

> show #4.1 models

> show #!5 models

> hide #!4 models

> show #!1 models

> hide #!2 models

> show #!4 models

> hide #!5 models

> save s4_fancy2.cxs includeMaps true

——— End of log from Mon Oct 27 17:49:32 2025 ———

> view name session-start

opened ChimeraX session  

> ui tool show Scenes

> scenes save ""

> hide #!1 models

> show #!3 models

> scenes save ""

> scenes restore 1

> scenes restore 2

> hide #!4 models

> scenes restore 1

> scenes restore 2




OpenGL version: 4.1 Metal - 90.5
OpenGL renderer: Apple M2 Ultra
OpenGL vendor: Apple

Python: 3.11.9
Locale: en_US.UTF-8
Qt version: PyQt6 6.9.1, Qt 6.9.0
Qt runtime version: 6.9.2
Qt platform: cocoa
Hardware:

    Hardware Overview:

      Model Name: Mac Studio
      Model Identifier: Mac14,14
      Model Number: Z1800003VLL/A
      Chip: Apple M2 Ultra
      Total Number of Cores: 24 (16 performance and 8 efficiency)
      Memory: 64 GB
      System Firmware Version: 13822.1.2
      OS Loader Version: 13822.1.2

Software:

    System Software Overview:

      System Version: macOS 26.0.1 (25A362)
      Kernel Version: Darwin 25.0.0
      Time since boot: 6 days, 22 hours, 31 minutes

Graphics/Displays:

    Apple M2 Ultra:

      Chipset Model: Apple M2 Ultra
      Type: GPU
      Bus: Built-In
      Total Number of Cores: 60
      Vendor: Apple (0x106b)
      Metal Support: Metal 4
      Displays:
        PHL 278B1:
          Resolution: 3840 x 2160 (2160p/4K UHD 1 - Ultra High Definition)
          UI Looks like: 1920 x 1080 @ 60.00Hz
          Main Display: Yes
          Mirror: Off
          Online: Yes
          Rotation: Supported


Installed Packages:
    aiohappyeyeballs: 2.6.1
    aiohttp: 3.13.1
    aiosignal: 1.4.0
    alabaster: 1.0.0
    annotated-types: 0.7.0
    anyio: 4.11.0
    appdirs: 1.4.4
    appnope: 0.1.4
    asttokens: 3.0.0
    attrs: 25.4.0
    babel: 2.17.0
    beautifulsoup4: 4.13.5
    blockdiag: 3.0.0
    blosc2: 3.10.2
    build: 1.3.0
    certifi: 2025.7.14
    cftime: 1.6.5
    charset-normalizer: 3.4.4
    ChimeraX-AddCharge: 1.5.20
    ChimeraX-AddH: 2.2.8
    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-Animations: 1.0
    ChimeraX-Aniso: 1.3.2
    ChimeraX-Arrays: 1.1
    ChimeraX-Atomic: 1.60.19
    ChimeraX-AtomicLibrary: 14.2.1
    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-clix: 0.2.4
    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.dev202510272355
    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: 1.7.2
    ChimeraX-Label: 1.2
    ChimeraX-ListInfo: 1.2.2
    ChimeraX-Log: 1.2.1
    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-MCPServer: 0.1.0
    ChimeraX-MDcrds: 2.17.1
    ChimeraX-MedicalToolbar: 1.1
    ChimeraX-Meeting: 1.0.1
    ChimeraX-Minimize: 1.3.1
    ChimeraX-MLP: 1.1.1
    ChimeraX-mmCIF: 2.16
    ChimeraX-MMTF: 2.2
    ChimeraX-ModelArchive: 1.0
    ChimeraX-Modeller: 1.5.22
    ChimeraX-ModelPanel: 1.6
    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: 2.7.11
    ChimeraX-PDBBio: 1.0.1
    ChimeraX-PDBLibrary: 1.0.5
    ChimeraX-PDBMatrices: 1.0
    ChimeraX-PhenixUI: 1.3.9
    ChimeraX-PickBlobs: 1.0.1
    ChimeraX-Positions: 1.0
    ChimeraX-PresetMgr: 1.1.4
    ChimeraX-ProfileGrids: 1.4
    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: 1.3.2
    ChimeraX-RNALayout: 1.0
    ChimeraX-RotamerLibMgr: 4.0
    ChimeraX-RotamerLibsDunbrack: 2.0
    ChimeraX-RotamerLibsDynameomics: 2.0
    ChimeraX-RotamerLibsRichardson: 2.0
    ChimeraX-SaveCommand: 1.5.2
    ChimeraX-Scenes: 0.2.5
    ChimeraX-SchemeMgr: 1.0
    ChimeraX-SDF: 2.0.3
    ChimeraX-Segger: 1.0
    ChimeraX-Segment: 1.0.1
    ChimeraX-Segmentations: 3.5.10
    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: 1.48.4
    ChimeraX-Umap: 1.0
    ChimeraX-uniprot: 2.3.1
    ChimeraX-UnitCell: 1.0.1
    ChimeraX-ViewDock: 1.5.1
    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
    click: 8.3.0
    colorama: 0.4.6
    comm: 0.2.3
    contourpy: 1.3.3
    coverage: 7.11.0
    cxservices: 1.2.3
    cycler: 0.12.1
    Cython: 3.1.4
    debugpy: 1.8.17
    decorator: 5.2.1
    docutils: 0.21.2
    executing: 2.2.1
    filelock: 3.19.1
    fonttools: 4.60.1
    frozenlist: 1.8.0
    funcparserlib: 2.0.0a0
    glfw: 2.10.0
    grako: 3.16.5
    h11: 0.16.0
    h5py: 3.15.1
    html2text: 2025.4.15
    httpcore: 1.0.9
    httpx: 0.28.1
    httpx-sse: 0.4.3
    idna: 3.11
    ihm: 2.2
    imagecodecs: 2024.6.1
    imagesize: 1.4.1
    iniconfig: 2.3.0
    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
    joblib: 1.5.0
    jsonschema: 4.25.1
    jsonschema-specifications: 2025.9.1
    jupyter_client: 8.6.3
    jupyter_core: 5.9.1
    jupyterlab_widgets: 3.0.15
    kiwisolver: 1.4.9
    line_profiler: 5.0.0
    llvmlite: 0.44.0
    lxml: 6.0.2
    lz4: 4.3.2
    Markdown: 3.8.2
    MarkupSafe: 3.0.3
    matplotlib: 3.10.3
    matplotlib: 3.10.5
    matplotlib-inline: 0.2.1
    mcp: 1.18.0
    msgpack: 1.1.1
    multidict: 6.7.0
    narwhals: 2.6.0
    ndindex: 1.10.0
    nest-asyncio: 1.6.0
    netCDF4: 1.6.5
    networkx: 3.3
    nibabel: 5.2.0
    nptyping: 2.5.0
    numba: 0.61.2
    numexpr: 2.14.1
    numpy: 2.2.6
    numpy: 1.26.4
    OpenMM: 8.2.0
    openvr: 1.26.701
    packaging: 25.0
    ParmEd: 4.2.2
    parso: 0.8.5
    pep517: 0.13.1
    pexpect: 4.9.0
    pickleshare: 0.7.5
    pillow: 11.3.0
    pip: 25.2
    pkginfo: 1.12.1.2
    platformdirs: 4.5.0
    plotly: 6.3.1
    pluggy: 1.6.0
    prompt_toolkit: 3.0.52
    propcache: 0.4.1
    psutil: 7.0.0
    ptyprocess: 0.7.0
    pure_eval: 0.2.3
    py-cpuinfo: 9.0.0
    pybind11: 3.0.1
    pycollada: 0.8
    pydantic: 2.12.3
    pydantic-settings: 2.11.0
    pydantic_core: 2.41.4
    pydicom: 2.4.4
    Pygments: 2.18.0
    pyKVFinder: 0.8.3
    pynmrstar: 3.3.6
    pynndescent: 0.5.13
    pynrrd: 1.0.0
    PyOpenGL: 3.1.10
    PyOpenGL-accelerate: 3.1.10
    pyopenxr: 1.1.4501
    pyparsing: 3.2.5
    pyproject_hooks: 1.2.0
    PyQt6-commercial: 6.9.1
    PyQt6-Qt6: 6.9.2
    PyQt6-WebEngine-commercial: 6.9.0
    PyQt6-WebEngine-Qt6: 6.9.2
    PyQt6_sip: 13.10.2
    pytest: 8.4.2
    pytest-cov: 7.0.0
    python-dateutil: 2.9.0.post0
    python-dotenv: 1.2.1
    python-multipart: 0.0.20
    pytz: 2025.2
    pyzmq: 27.1.0
    qtconsole: 5.7.0
    QtPy: 2.4.3
    qtshim: 1.2
    RandomWords: 0.4.0
    referencing: 0.37.0
    requests: 2.32.5
    roman-numerals-py: 3.1.0
    rpds-py: 0.28.0
    scikit-learn: 1.6.1
    scipy: 1.14.0
    Send2Trash: 1.8.3
    setuptools: 80.9.0
    sfftk-rw: 0.8.1
    six: 1.17.0
    sniffio: 1.3.1
    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
    sse-starlette: 3.0.2
    stack-data: 0.6.3
    starlette: 0.48.0
    superqt: 0.7.6
    tables: 3.10.2
    tcia_utils: 1.5.1
    threadpoolctl: 3.6.0
    tifffile: 2025.3.13
    tinyarray: 1.2.5
    tomlkit: 0.13.3
    tornado: 6.5.2
    tqdm: 4.67.1
    traitlets: 5.14.3
    typing-inspection: 0.4.2
    typing_extensions: 4.15.0
    tzdata: 2025.2
    umap-learn: 0.5.7
    urllib3: 2.5.0
    uvicorn: 0.38.0
    wcwidth: 0.2.14
    webcolors: 24.11.1
    wheel: 0.45.1
    wheel-filename: 1.4.2
    widgetsnbextension: 4.0.14
    yarl: 1.22.0