ChimeraX bug report submission

[Eric Pettersen]

The following bug report has been submitted:
Platform:        macOS-15.7.9-arm64-arm-64bit
ChimeraX Version: 1.12 (2026-06-12 03:42:34 UTC)
Description
alphafold search produces no output

Log:
UCSF ChimeraX version: 1.12 (2026-06-12)  
© 2016-2026 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> alphafold search
> MAGGGGAERVRVGAAAAGLLPPSCRQPRRRESRERLSVCSKLCYAVGGAPYQTTGCALGFFLQIYLLDVAQLDPFYASIILFVGRAWDAITDPMVGFFISKTPWTRFGRLMPWIIFSTPFAVISYFLIWFVPDISTGQVMWYLIFYCIFQTLVTCFHVPYSALTMFISREQSERDSATAYRMTVEVLGTVLGTAIQGQIVGKAVTPCIENPPFLSETNFSVAIRNVNMTHYTGSLADTRNAYMVAAGVIGGLYILCAVILSVGVREKRESSELQSDEPVSFFRGLKLVMNHGAYIKLITGFLFTSLAFMLLEGNFALFCTYTLGFRNEFQNILLAIMLSATLTIPFWQWFLTRFGKKTAVYVGISSAVPFLITVVVLDSNLVVTYIVAVAAGISVAAAFLLPWSMLPDVIDDFKLQHPESRGHEAIFFSFYVFFTKFTSGVSLGISTLSLDFAGYQTRGCSQPSEVNITLKLLVSAVPVGLILLGLLLFKLYPIDEEKRRENKKALQDLREESNSSSESDSTELANIV

> open /Users/pett/src/chimerax/src/bundles/seqalign/test-data/nonassoc.fa
> format fasta

Summary of feedback from opening
/Users/pett/src/chimerax/src/bundles/seqalign/test-data/nonassoc.fa  
---  
notes | Alignment identifier is nonassoc.fa  
Showing conservation header ("seq_conservation" residue attribute) for
alignment nonassoc.fa  
  
Opened 5 sequences from nonassoc.fa  

> open 1qvc 1kaw 1eyg 3ull

1qvc title:  
Crystal structure analysis of single stranded DNA binding protein (SSB) from
E.coli [more info...]  
  
Chain information for 1qvc #1  
---  
Chain | Description | UniProt  
A B C D | SINGLE STRANDED DNA BINDING PROTEIN MONOMER | SSB_ECOLI 1-145 201-345 401-545 601-745  
  
1kaw title:  
Structure of single stranded DNA binding protein (SSB) [more info...]  
  
Chain information for 1kaw #2  
---  
Chain | Description | UniProt  
A B C D | SINGLE-STRANDED DNA BINDING PROTEIN | SSB_ECOLI 1-135  
  
1eyg title:  
Crystal structure of chymotryptic fragment of E. coli ssb bound to two 35-mer
single strand DNAS [more info...]  
  
Chain information for 1eyg #3  
---  
Chain | Description | UniProt  
A B C D | SINGLE-STRAND DNA-BINDING PROTEIN | SSB_ECOLI 1000-1115 2000-2115 3000-3115 4000-4115  
Q R | SINGLE STRANDED 28-MER OF D(C) |   
  
1eyg mmCIF Assemblies  
---  
1| author_defined_assembly  
2| author_defined_assembly  
  
3ull title:  
Human mitochondrial single-stranded DNA binding protein [more info...]  
  
Chain information for 3ull #4  
---  
Chain | Description | UniProt  
A B | DNA BINDING PROTEIN | SSB_HUMAN 1-132  
  
3ull mmCIF Assemblies  
---  
1| author_defined_assembly  
  
Associated 1qvc chain A to 1qvc with 0 mismatches  
Associated 1qvc chain B to 1qvc with 0 mismatches  
Associated 1qvc chain C to 1qvc with 0 mismatches  
Associated 1qvc chain D to 1qvc with 0 mismatches  
Associated 1kaw chain A to 1qvc with 0 mismatches  
Associated 1kaw chain B to 1qvc with 0 mismatches  
Associated 1kaw chain C to 1qvc with 0 mismatches  
Associated 1kaw chain D to 1qvc with 0 mismatches  
Associated 1eyg chain A to 1eyg with 0 mismatches  
Associated 1eyg chain B to 1eyg with 0 mismatches  
Associated 1eyg chain C to 1eyg with 0 mismatches  
Associated 1eyg chain D to 1eyg with 0 mismatches  
Associated 3ull chain A to 3ull with 0 mismatches  
Associated 3ull chain B to 3ull with 0 mismatches  

> ui tool show "Modeller Comparative"

Populating font family aliases took 183 ms. Replace uses of missing font
family "Times" with one that exists to avoid this cost.  

> modeller comparative nonassoc.fa:4 numModels 3 fast false multichain true
> hetPreserve false hydrogens false waterPreserve false directory
> /Users/pett/rm

Webservices job id: 5CLNCC1KEKXYIZHI  
Webservices job finished: 5CLNCC1KEKXYIZHI  
Modeller job (ID 5CLNCC1KEKXYIZHI) finished  
Parameters  
---  
Chain pairing | ss  
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 1qvc, chain A (#1) with T0151, chain A (#), sequence alignment
score = 198.9  
Matchmaker 1qvc, chain B (#1) with T0151, chain B (#), sequence alignment
score = 225.9  
Matchmaker 1qvc, chain C (#1) with T0151, chain C (#), sequence alignment
score = 208.7  
Matchmaker 1qvc, chain D (#1) with T0151, chain D (#), sequence alignment
score = 194.8  
RMSD between 249 pruned atom pairs is 0.774 angstroms; (across all 545 pairs:
9.039)  
  
Parameters  
---  
Chain pairing | ss  
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 1qvc, chain A (#1) with T0151, chain A (#), sequence alignment
score = 169.9  
Matchmaker 1qvc, chain B (#1) with T0151, chain B (#), sequence alignment
score = 221.5  
Matchmaker 1qvc, chain C (#1) with T0151, chain C (#), sequence alignment
score = 196  
Matchmaker 1qvc, chain D (#1) with T0151, chain D (#), sequence alignment
score = 203.1  
RMSD between 242 pruned atom pairs is 0.751 angstroms; (across all 540 pairs:
9.499)  
  
Parameters  
---  
Chain pairing | ss  
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 1qvc, chain A (#1) with T0151, chain A (#), sequence alignment
score = 189.6  
Matchmaker 1qvc, chain B (#1) with T0151, chain B (#), sequence alignment
score = 218.7  
Matchmaker 1qvc, chain C (#1) with T0151, chain C (#), sequence alignment
score = 208.7  
Matchmaker 1qvc, chain D (#1) with T0151, chain D (#), sequence alignment
score = 204.3  
RMSD between 254 pruned atom pairs is 0.688 angstroms; (across all 547 pairs:
8.841)  
  
Associated T0151 chain A to T0151 with 0 mismatches  
Associated T0151 chain B to T0151 with 0 mismatches  
Associated T0151 chain C to T0151 with 0 mismatches  
Associated T0151 chain D to T0151 with 0 mismatches  
Associated T0151 chain A to T0151 with 0 mismatches  
Associated T0151 chain B to T0151 with 0 mismatches  
Associated T0151 chain C to T0151 with 0 mismatches  
Associated T0151 chain D to T0151 with 0 mismatches  
Associated T0151 chain A to T0151 with 0 mismatches  
Associated T0151 chain B to T0151 with 0 mismatches  
Associated T0151 chain C to T0151 with 0 mismatches  
Associated T0151 chain D to T0151 with 0 mismatches  
Chain information for T0151  
---  
Chain | Description  
5.1/A 5.2/A 5.3/A 5.1/B 5.2/B 5.3/B 5.1/C 5.2/C 5.3/C 5.1/D 5.2/D 5.3/D | No description available  
  

> close

> alphafold search
> MAGGGGAERVRVGAAAAGLLPPSCRQPRRRESRERLSVCSKLCYAVGGAPYQTTGCALGFFLQIYLLDVAQLDPFYASIILFVGRAWDAITDPMVGFFISKTPWTRFGRLMPWIIFSTPFAVISYFLIWFVPDISTGQVMWYLIFYCIFQTLVTCFHVPYSALTMFISREQSERDSATAYRMTVEVLGTVLGTAIQGQIVGKAVTPCIENPPFLSETNFSVAIRNVNMTHYTGSLADTRNAYMVAAGVIGGLYILCAVILSVGVREKRESSELQSDEPVSFFRGLKLVMNHGAYIKLITGFLFTSLAFMLLEGNFALFCTYTLGFRNEFQNILLAIMLSATLTIPFWQWFLTRFGKKTAVYVGISSAVPFLITVVVLDSNLVVTYIVAVAAGISVAAAFLLPWSMLPDVIDDFKLQHPESRGHEAIFFSFYVFFTKFTSGVSLGISTLSLDFAGYQTRGCSQPSEVNITLKLLVSAVPVGLILLGLLLFKLYPIDEEKRRENKKALQDLREESNSSSESDSTELANIV




OpenGL version: 4.1 Metal - 89.4
OpenGL renderer: Apple M1 Max
OpenGL vendor: Apple

Python: 3.11.9
Locale: en_US.UTF-8
Qt version: PyQt6 6.10.2, Qt 6.10.0
Qt runtime version: 6.10.2
Qt platform: cocoa
Hardware:

    Hardware Overview:

      Model Name: Mac Studio
      Model Identifier: Mac13,1
      Model Number: Z14J0008FLL/A
      Chip: Apple M1 Max
      Total Number of Cores: 10 (8 performance and 2 efficiency)
      Memory: 32 GB
      System Firmware Version: mBoot-18000.161.10
      OS Loader Version: 11881.140.96.701.1

Software:

    System Software Overview:

      System Version: macOS 15.7.9 (24G830)
      Kernel Version: Darwin 24.6.0
      Time since boot: 6 hours, 34 minutes

Graphics/Displays:

    Apple M1 Max:

      Chipset Model: Apple M1 Max
      Type: GPU
      Bus: Built-In
      Total Number of Cores: 24
      Vendor: Apple (0x106b)
      Metal Support: Metal 3
      Displays:
        PHL 279P1:
          Resolution: 5120 x 2880 (5K/UHD+ - Ultra High Definition Plus)
          UI Looks like: 2560 x 1440 @ 60.00Hz
          Main Display: Yes
          Mirror: Off
          Online: Yes
          Rotation: Supported


Installed Packages:
    accessible-pygments: 0.0.5
    aiohappyeyeballs: 2.6.2
    aiohttp: 3.13.4
    aiosignal: 1.4.0
    alabaster: 1.0.0
    annotated-types: 0.7.0
    anyio: 4.13.0
    appdirs: 1.4.4
    appnope: 0.1.4
    asttokens: 3.0.1
    attrs: 26.1.0
    babel: 2.18.0
    beautifulsoup4: 4.13.5
    blockdiag: 3.0.0
    blosc2: 4.4.3
    bs4: 0.0.2
    build: 1.3.0
    certifi: 2025.7.14
    cftime: 1.6.5
    charset-normalizer: 3.4.7
    ChimeraX-AddCharge: 1.5.20
    ChimeraX-AddH: 2.2.8
    ChimeraX-AlignmentAlgorithms: 2.0.2
    ChimeraX-AlignmentHdrs: 3.6.2
    ChimeraX-AlignmentMatrices: 2.1
    ChimeraX-Alignments: 3.2
    ChimeraX-AlphaFold: 1.0.1
    ChimeraX-AltlocExplorer: 1.2
    ChimeraX-AmberInfo: 1.0
    ChimeraX-Animations: 1.0
    ChimeraX-Aniso: 1.3.2
    ChimeraX-Arrays: 1.1
    ChimeraX-ArtiaX: 0.7.0
    ChimeraX-Atomic: 1.67.1
    ChimeraX-AtomicLibrary: 14.4
    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: 1.4.1
    ChimeraX-ChangeChains: 1.1
    ChimeraX-CheckWaters: 1.5
    ChimeraX-ChemGroup: 2.0.2
    ChimeraX-ChopChopMF: 1.2
    ChimeraX-Clashes: 2.4
    ChimeraX-Cluster: 1.0
    ChimeraX-ColorActions: 1.0.5
    ChimeraX-ColorGlobe: 1.0
    ChimeraX-ColorKey: 1.5.8
    ChimeraX-CommandLine: 1.3.1
    ChimeraX-ConnectStructure: 2.0.1
    ChimeraX-Contacts: 1.0.1
    ChimeraX-Core: 1.12
    ChimeraX-CoreFormats: 1.2
    ChimeraX-coulombic: 1.4.5
    ChimeraX-Crosslinks: 1.0
    ChimeraX-Crystal: 1.0
    ChimeraX-CrystalContacts: 1.0.1
    ChimeraX-DAQplugin: 0.13.60
    ChimeraX-DataFormats: 1.2.4
    ChimeraX-Dicom: 1.2.7
    ChimeraX-DistMonitor: 1.4.2
    ChimeraX-DockPrep: 1.2.2
    ChimeraX-Dssp: 2.0
    ChimeraX-EMDB-SFF: 1.0
    ChimeraX-ESMFold: 1.0
    ChimeraX-FileHistory: 1.0.1
    ChimeraX-FunctionKey: 1.0.1
    ChimeraX-Gamepad: 0.3.0
    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: 1.8.2
    ChimeraX-Label: 1.5
    ChimeraX-LightingGUI: 1.0
    ChimeraX-ListInfo: 1.3.1
    ChimeraX-Log: 1.2.2
    ChimeraX-LookingGlass: 1.1
    ChimeraX-Maestro: 1.9.3
    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-MatchAlign: 1.2
    ChimeraX-MatchMaker: 2.4.1
    ChimeraX-MCopy: 1.0
    ChimeraX-MCPServer: 0.2.0
    ChimeraX-MDcrds: 2.19
    ChimeraX-MedicalToolbar: 1.1
    ChimeraX-Meeting: 1.0.1
    ChimeraX-Minimize: 1.3.9
    ChimeraX-MLP: 1.1.1
    ChimeraX-mmCIF: 2.16
    ChimeraX-MMTF: 2.2
    ChimeraX-ModelArchive: 1.0
    ChimeraX-Modeller: 1.5.23
    ChimeraX-ModelPanel: 1.6.1
    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: 1.15.4
    ChimeraX-OpenFold: 1.0
    ChimeraX-OrthoPick: 1.0.1
    ChimeraX-PDB: 2.7.13
    ChimeraX-PDBBio: 1.0.1
    ChimeraX-PDBLibrary: 1.0.5
    ChimeraX-PDBMatrices: 1.0
    ChimeraX-PickBlobs: 1.0.1
    ChimeraX-Positions: 1.0
    ChimeraX-PresetMgr: 1.1.4
    ChimeraX-ProfileGrids: 1.6
    ChimeraX-PubChem: 2.2
    ChimeraX-ReadPbonds: 1.0.1
    ChimeraX-Registration: 1.1.2
    ChimeraX-RemoteControl: 1.0
    ChimeraX-RenderByAttr: 1.8.2
    ChimeraX-RenumberResidues: 1.1
    ChimeraX-ResidueFit: 1.0.1
    ChimeraX-RestServer: 1.3.3
    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: 0.3.1
    ChimeraX-SchemeMgr: 1.0
    ChimeraX-SDF: 2.0.3
    ChimeraX-Segger: 1.0
    ChimeraX-Segment: 1.0.1
    ChimeraX-Segmentations: 3.5.12
    ChimeraX-SelInspector: 1.0
    ChimeraX-SelTools: 0.1.0
    ChimeraX-SeqView: 2.18
    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-SNFG: 1.0
    ChimeraX-SpaceNavigator: 1.0
    ChimeraX-StdCommands: 1.19.3
    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: 2.5.3
    ChimeraX-TapeMeasure: 1.0
    ChimeraX-TaskManager: 1.0
    ChimeraX-Test: 1.0
    ChimeraX-Toolbar: 1.2.4
    ChimeraX-ToolshedUtils: 1.2.4
    ChimeraX-Topography: 1.0
    ChimeraX-ToQuest: 1.0
    ChimeraX-Tug: 1.0.1
    ChimeraX-UI: 1.50.8
    ChimeraX-Umap: 1.0
    ChimeraX-uniprot: 2.3.2
    ChimeraX-UnitCell: 1.0.1
    ChimeraX-ViewDock: 1.6.2
    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
    click: 8.4.1
    colorama: 0.4.6
    coloredlogs: 15.0.1
    comm: 0.2.3
    contourpy: 1.3.3
    coverage: 7.14.1
    cxservices: 1.2.3
    cycler: 0.12.1
    Cython: 3.2.4
    debugpy: 1.8.21
    decorator: 5.3.1
    docutils: 0.21.2
    executing: 2.2.1
    filelock: 3.19.1
    flatbuffers: 25.12.19
    fonttools: 4.63.0
    frozenlist: 1.8.0
    funcparserlib: 2.0.0a0
    geomdl: 5.4.0
    glfw: 2.10.0
    grako: 3.16.5
    h11: 0.16.0
    h5py: 3.16.0
    html2text: 2025.4.15
    httpcore: 1.0.9
    httpx: 0.28.1
    httpx-sse: 0.4.3
    humanfriendly: 10.0
    idna: 3.18
    ihm: 2.2
    imagecodecs: 2024.6.1
    imagesize: 2.0.0
    iniconfig: 2.3.0
    ipykernel: 7.1.0
    ipython: 9.9.0
    ipython_pygments_lexers: 1.1.1
    jedi: 0.19.2
    Jinja2: 3.1.6
    jsonschema: 4.26.0
    jsonschema-specifications: 2025.9.1
    jupyter_client: 8.8.0
    jupyter_core: 5.9.1
    kiwisolver: 1.5.0
    line_profiler: 5.0.0
    lxml: 6.0.2
    lz4: 4.3.2
    Markdown: 3.8.2
    MarkupSafe: 3.0.3
    matplotlib: 3.10.7
    matplotlib-inline: 0.2.2
    mcp: 1.18.0
    mpmath: 1.3.0
    mrcfile: 1.5.4
    msgpack: 1.1.1
    multidict: 6.7.1
    narwhals: 2.13.0
    narwhals: 2.22.1
    ndindex: 1.10.1
    nest-asyncio: 1.6.0
    netCDF4: 1.6.5
    networkx: 3.3
    nibabel: 5.2.0
    nptyping: 2.5.0
    numexpr: 2.14.1
    numpy: 2.2.6
    numpy: 1.26.4
    onnxruntime: 1.23.2
    OpenMM: 8.4.0
    openvr: 1.26.701
    packaging: 25.0
    pandas: 2.3.3
    ParmEd: 4.2.2
    parso: 0.8.7
    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: 4.10.0
    plotly: 6.5.0
    plotly: 6.8.0
    pluggy: 1.6.0
    prompt_toolkit: 3.0.52
    propcache: 0.5.2
    protobuf: 6.33.4
    psutil: 7.0.0
    ptyprocess: 0.7.0
    pure_eval: 0.2.3
    py-cpuinfo: 9.0.0
    pyarrow: 25.0.0
    pybind11: 3.0.1
    pycollada: 0.8
    pydantic: 2.13.4
    pydantic-settings: 2.14.1
    pydantic_core: 2.46.4
    pydata-sphinx-theme: 0.18.0
    pydicom: 2.4.4
    Pygments: 2.18.0
    pyKVFinder: 0.8.4
    pynmrstar: 3.5.1
    pynrrd: 1.0.0
    PyOpenGL: 3.1.10
    PyOpenGL-accelerate: 3.1.10
    pyopenxr: 1.1.4501
    pyparsing: 3.3.2
    pyproject_hooks: 1.2.0
    PyQt5: 5.15.11
    PyQt5-Qt5: 5.15.18
    PyQt5_sip: 12.17.2
    PyQt6-commercial: 6.10.2
    PyQt6-Qt6: 6.10.2
    PyQt6-WebEngine-commercial: 6.10.0
    PyQt6-WebEngine-Qt6: 6.10.2
    PyQt6_sip: 13.10.3
    PySDL2: 0.9.17
    pytest: 9.0.3
    pytest-cov: 7.1.0
    python-dateutil: 2.9.0.post0
    python-dotenv: 1.2.2
    python-multipart: 0.0.32
    pytz: 2026.3.post1
    pyzmq: 27.1.0
    qtconsole: 5.7.0
    QtPy: 2.4.3
    qtshim: 1.2.2
    RandomWords: 0.4.0
    referencing: 0.37.0
    requests: 2.32.5
    roman-numerals: 4.1.0
    rpds-py: 2026.5.1
    scipy: 1.14.0
    Send2Trash: 2.1.0
    SEQCROW: 1.9.7
    setuptools: 80.9.0
    sfftk-rw: 0.8.1
    six: 1.17.0
    snowballstemmer: 3.1.1
    sortedcontainers: 2.4.0
    soupsieve: 2.8.4
    Sphinx: 9.0.4
    sphinx-autodoc-typehints: 3.6.1
    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: 3.4.4
    stack-data: 0.6.3
    starfile: 0.5.13
    starlette: 1.3.0
    superqt: 0.7.6
    sympy: 1.14.0
    tables: 3.10.2
    tcia_utils: 3.2.1
    threadpoolctl: 3.6.0
    tifffile: 2025.3.13
    tinyarray: 1.2.5
    tomlkit: 0.13.3
    tornado: 6.5.7
    tqdm: 4.68.2
    traitlets: 5.14.3
    typing-inspection: 0.4.2
    typing_extensions: 4.15.0
    tzdata: 2026.3
    Unidecode: 1.4.0
    urllib3: 2.7.0
    uvicorn: 0.49.0
    wcwidth: 0.8.1
    webcolors: 24.11.1
    wheel: 0.45.1
    wheel-filename: 1.4.2
    yarl: 1.24.2