# This file was autogenerated by uv via the following command:
#    uv pip compile --python-version=3.10 ../../pyproject.toml --extra docs -o requirements-docs.txt
alabaster==1.0.0
    # via sphinx
alifedata-phyloinformatics-convert==0.19.3
    # via hstrat (../../pyproject.toml)
annotated-types==0.8.0
    # via pydantic
anytree==2.13.0
    # via
    #   hstrat (../../pyproject.toml)
    #   alifedata-phyloinformatics-convert
astropy==6.1.7
    # via hstrat (../../pyproject.toml)
astropy-iers-data==0.2026.10.12.1.3.27
    # via astropy
asttokens==3.0.2
    # via stack-data
attrs==26.1.0
    # via
    #   jsonschema
    #   referencing
babel==2.18.0
    # via sphinx
backcall==0.2.0
    # via ipython
beautifulsoup4==4.15.0
    # via nbconvert
biopython==1.88
    # via alifedata-phyloinformatics-convert
bitarray==3.12.2
    # via
    #   hstrat (../../pyproject.toml)
    #   bitstring
bitstring==4.4.0
    # via hstrat (../../pyproject.toml)
bleach==6.4.0
    # via nbconvert
certifi==2026.7.22
    # via requests
charset-normalizer==3.5.2
    # via requests
click==8.5.0
    # via
    #   alifedata-phyloinformatics-convert
    #   keyname
cloudpickle==3.1.2
    # via joblib
comm==0.2.3
    # via ipykernel
contourpy==1.3.2
    # via matplotlib
cycler==0.12.1
    # via matplotlib
debugpy==1.8.22
    # via ipykernel
decorator==5.3.1
    # via
    #   ipython
    #   retry
defusedxml==0.7.1
    # via nbconvert
dendropy==5.1.1
    # via
    #   hstrat (../../pyproject.toml)
    #   alifedata-phyloinformatics-convert
deprecated==1.3.1
    # via
    #   hstrat (../../pyproject.toml)
    #   alifedata-phyloinformatics-convert
    #   phyloframe
docutils==0.21.2
    # via
    #   nbsphinx
    #   sphinx
    #   sphinx-rtd-theme
downstream==1.23.1
    # via hstrat (../../pyproject.toml)
ete3==3.1.3
    # via alifedata-phyloinformatics-convert
executing==2.3.0
    # via stack-data
fastjsonschema==2.22.2
    # via nbformat
fishersrc==0.1.15
    # via
    #   hstrat (../../pyproject.toml)
    #   phyloframe
fonttools==4.65.0
    # via matplotlib
formulaic==1.2.2
    # via statsmodels
idna==3.20
    # via
    #   requests
    #   yarl
imagesize==2.0.1
    # via sphinx
interface-meta==2.0.1
    # via formulaic
interval-search==0.5.2
    # via hstrat (../../pyproject.toml)
ipykernel==6.26.0
    # via hstrat (../../pyproject.toml)
ipython==8.12.3
    # via
    #   hstrat (../../pyproject.toml)
    #   ipykernel
iterpop==0.4.1
    # via
    #   hstrat (../../pyproject.toml)
    #   alifedata-phyloinformatics-convert
jedi==0.20.1
    # via ipython
jinja2==3.1.6
    # via
    #   nbconvert
    #   nbsphinx
    #   sphinx
joblib==1.6.0
    # via
    #   hstrat (../../pyproject.toml)
    #   phyloframe
    #   scikit-learn
joinem==0.16.0
    # via
    #   hstrat (../../pyproject.toml)
    #   downstream
    #   phyloframe
jsonschema==4.26.0
    # via nbformat
jsonschema-specifications==2025.9.1
    # via jsonschema
jupyter-client==8.10.0
    # via
    #   ipykernel
    #   nbclient
jupyter-core==5.9.1
    # via
    #   ipykernel
    #   jupyter-client
    #   nbclient
    #   nbconvert
    #   nbformat
jupyterlab-pygments==0.3.0
    # via nbconvert
keyname==0.6.0
    # via hstrat (../../pyproject.toml)
kiwisolver==1.5.1
    # via matplotlib
lazy-loader==0.6
    # via
    #   hstrat (../../pyproject.toml)
    #   downstream
    #   phyloframe
lru-dict==1.4.1
    # via hstrat (../../pyproject.toml)
markupsafe==3.0.4
    # via
    #   jinja2
    #   nbconvert
matplotlib==3.10.9
    # via
    #   hstrat (../../pyproject.toml)
    #   seaborn
matplotlib-inline==0.2.2
    # via
    #   ipykernel
    #   ipython
mistune==3.3.4
    # via nbconvert
mmh3==5.3.1
    # via hstrat (../../pyproject.toml)
more-itertools==11.1.0
    # via
    #   hstrat (../../pyproject.toml)
    #   keyname
    #   phyloframe
mpmath==1.4.1
    # via hstrat (../../pyproject.toml)
multidict==7.1.0
    # via yarl
mypy-extensions==1.1.0
    # via typing-inspect
nanto==0.1.1
    # via alifedata-phyloinformatics-convert
narwhals==2.27.1
    # via formulaic
nbclient==0.11.0
    # via nbconvert
nbconvert==7.17.2
    # via nbsphinx
nbformat==5.11.1
    # via
    #   nbclient
    #   nbconvert
    #   nbsphinx
nbsphinx==0.9.3
    # via hstrat (../../pyproject.toml)
nest-asyncio==1.6.0
    # via ipykernel
networkx==3.4.2
    # via
    #   hstrat (../../pyproject.toml)
    #   alifedata-phyloinformatics-convert
numpy==2.2.6
    # via
    #   hstrat (../../pyproject.toml)
    #   alifedata-phyloinformatics-convert
    #   astropy
    #   biopython
    #   contourpy
    #   downstream
    #   fishersrc
    #   formulaic
    #   matplotlib
    #   pandas
    #   patsy
    #   phyloframe
    #   pyerfa
    #   scikit-learn
    #   scipy
    #   seaborn
    #   statsmodels
opytional==0.1.0
    # via
    #   hstrat (../../pyproject.toml)
    #   alifedata-phyloinformatics-convert
    #   downstream
    #   phyloframe
ordered-set==4.1.0
    # via
    #   hstrat (../../pyproject.toml)
    #   phyloframe
packaging==26.3
    # via
    #   hstrat (../../pyproject.toml)
    #   astropy
    #   ipykernel
    #   lazy-loader
    #   matplotlib
    #   nbconvert
    #   pandera
    #   patsy
    #   phyloframe
    #   sphinx
    #   statsmodels
pandas==2.3.3
    # via
    #   hstrat (../../pyproject.toml)
    #   alifedata-phyloinformatics-convert
    #   formulaic
    #   phyloframe
    #   seaborn
    #   statsmodels
pandera==0.34.1
    # via hstrat (../../pyproject.toml)
pandocfilters==1.5.1
    # via nbconvert
parso==0.8.7
    # via jedi
patsy==1.0.3
    # via statsmodels
pexpect==4.9.0
    # via ipython
phyloframe==0.10.3
    # via hstrat (../../pyproject.toml)
pickleshare==0.7.5
    # via ipython
pillow==12.3.0
    # via matplotlib
platformdirs==4.12.4
    # via jupyter-core
polars==2.0.0
    # via
    #   hstrat (../../pyproject.toml)
    #   downstream
    #   joinem
    #   phyloframe
polars-runtime-32==2.0.0
    # via polars
polars-runtime-64==2.0.0
    # via polars
prettytable==3.18.0
    # via hstrat (../../pyproject.toml)
prompt-toolkit==3.0.53
    # via ipython
propcache==0.5.4
    # via yarl
psutil==7.2.2
    # via ipykernel
ptyprocess==0.7.0
    # via pexpect
pure-eval==0.2.4
    # via stack-data
py==1.11.0
    # via retry
pyarrow==25.0.1
    # via
    #   hstrat (../../pyproject.toml)
    #   phyloframe
    #   polars
pybind11==2.13.6
    # via hstrat (../../pyproject.toml)
pydantic==2.14.1
    # via pandera
pydantic-core==2.50.1
    # via pydantic
pyerfa==2.0.1.5
    # via astropy
pygments==2.21.0
    # via
    #   ipython
    #   nbconvert
    #   sphinx
pyparsing==3.3.3
    # via matplotlib
python-dateutil==2.9.0.post0
    # via
    #   jupyter-client
    #   matplotlib
    #   pandas
python-slugify==9.1.3
    # via hstrat (../../pyproject.toml)
pytz==2026.5
    # via pandas
pyyaml==6.0.1
    # via
    #   hstrat (../../pyproject.toml)
    #   astropy
pyzmq==27.2.0
    # via
    #   ipykernel
    #   jupyter-client
referencing==0.37.0
    # via
    #   jsonschema
    #   jsonschema-specifications
requests==2.34.2
    # via sphinx
retry==0.9.2
    # via keyname
rpds-py==0.30.0
    # via
    #   jsonschema
    #   referencing
safe-assert==0.5.0
    # via hstrat (../../pyproject.toml)
scikit-learn==1.7.2
    # via
    #   hstrat (../../pyproject.toml)
    #   phyloframe
scipy==1.15.3
    # via
    #   formulaic
    #   scikit-learn
    #   statsmodels
seaborn==0.13.2
    # via hstrat (../../pyproject.toml)
setuptools==84.0.0
    # via dendropy
six==1.17.0
    # via python-dateutil
snowballstemmer==3.1.1
    # via sphinx
sortedcontainers==2.4.0
    # via
    #   hstrat (../../pyproject.toml)
    #   alifedata-phyloinformatics-convert
    #   phyloframe
soupsieve==2.10
    # via beautifulsoup4
sphinx==8.1.3
    # via
    #   hstrat (../../pyproject.toml)
    #   nbsphinx
    #   sphinx-rtd-theme
    #   sphinxcontrib-jquery
sphinx-rtd-theme==3.0.2
    # via hstrat (../../pyproject.toml)
sphinxcontrib-applehelp==2.0.0
    # via sphinx
sphinxcontrib-devhelp==2.0.0
    # via sphinx
sphinxcontrib-htmlhelp==2.1.0
    # via sphinx
sphinxcontrib-jquery==4.1
    # via sphinx-rtd-theme
sphinxcontrib-jsmath==1.0.1
    # via sphinx
sphinxcontrib-qthelp==2.0.0
    # via sphinx
sphinxcontrib-serializinghtml==2.0.0
    # via sphinx
stack-data==0.6.3
    # via ipython
statsmodels==0.15.0
    # via
    #   hstrat (../../pyproject.toml)
    #   phyloframe
text-unidecode==1.3
    # via python-slugify
threadpoolctl==3.7.0
    # via scikit-learn
tibs==0.5.7
    # via bitstring
tinycss2==1.5.1
    # via bleach
tomli==2.5.0
    # via sphinx
tornado==6.5.10
    # via
    #   ipykernel
    #   jupyter-client
tqdist==1.0
    # via phyloframe
tqdm==4.70.1
    # via
    #   hstrat (../../pyproject.toml)
    #   joinem
    #   phyloframe
traitlets==5.16.1
    # via
    #   ipykernel
    #   ipython
    #   jupyter-client
    #   jupyter-core
    #   matplotlib-inline
    #   nbclient
    #   nbconvert
    #   nbformat
    #   nbsphinx
treeswift==1.1.51
    # via alifedata-phyloinformatics-convert
typeguard==4.6.0
    # via pandera
typing-extensions==4.16.0
    # via
    #   hstrat (../../pyproject.toml)
    #   alifedata-phyloinformatics-convert
    #   beautifulsoup4
    #   formulaic
    #   jupyter-client
    #   mistune
    #   multidict
    #   pandera
    #   phyloframe
    #   pydantic
    #   pydantic-core
    #   referencing
    #   typeguard
    #   typing-inspect
    #   typing-inspection
typing-inspect==0.9.0
    # via pandera
typing-inspection==0.4.4
    # via pydantic
tzdata==2026.5
    # via pandas
urllib3==2.8.0
    # via requests
validators==0.35.0
    # via alifedata-phyloinformatics-convert
wcwidth==0.9.2
    # via
    #   prettytable
    #   prompt-toolkit
webencodings==0.6.1
    # via
    #   bleach
    #   tinycss2
wrapt==2.5.1
    # via
    #   deprecated
    #   formulaic
yarl==1.25.1
    # via alifedata-phyloinformatics-convert
