# This file was autogenerated by uv via the following command:
#    uv pip compile pyproject.toml -o requirements-py311.txt --python-version=3.11
annoy==1.17.3
    # via pacmap
asttokens==3.0.0
    # via stack-data
certifi==2025.6.15
    # via requests
charset-normalizer==3.4.2
    # via requests
decorator==5.2.1
    # via ipython
executing==2.2.0
    # via stack-data
h5py==3.12.1
    # via protspace (pyproject.toml)
idna==3.10
    # via requests
ipython==8.37.0
    # via pymmseqs
jedi==0.19.2
    # via ipython
joblib==1.4.2
    # via
    #   pynndescent
    #   scikit-learn
llvmlite==0.43.0
    # via
    #   numba
    #   pynndescent
matplotlib-inline==0.1.7
    # via ipython
numba==0.60.0
    # via
    #   pacmap
    #   pynndescent
    #   umap-learn
numpy==2.0.2
    # via
    #   protspace (pyproject.toml)
    #   h5py
    #   numba
    #   pacmap
    #   pandas
    #   pymmseqs
    #   scikit-learn
    #   scipy
    #   umap-learn
pacmap==0.8.0
    # via protspace (pyproject.toml)
pandas==2.2.3
    # via
    #   protspace (pyproject.toml)
    #   pymmseqs
parso==0.8.4
    # via jedi
pexpect==4.9.0
    # via ipython
prompt-toolkit==3.0.51
    # via ipython
ptyprocess==0.7.0
    # via pexpect
pure-eval==0.2.3
    # via stack-data
pyarrow==20.0.0
    # via protspace (pyproject.toml)
pygments==2.19.2
    # via ipython
pymmseqs==1.0.4
    # via protspace (pyproject.toml)
pynndescent==0.5.13
    # via umap-learn
python-dateutil==2.9.0.post0
    # via pandas
pytz==2024.2
    # via pandas
pyyaml==6.0.2
    # via pymmseqs
requests==2.32.4
    # via unipressed
scikit-learn==1.7.0
    # via
    #   protspace (pyproject.toml)
    #   pacmap
    #   pynndescent
    #   umap-learn
scipy==1.14.1
    # via
    #   pynndescent
    #   scikit-learn
    #   umap-learn
six==1.16.0
    # via python-dateutil
stack-data==0.6.3
    # via ipython
taxopy==0.14.0
    # via protspace (pyproject.toml)
threadpoolctl==3.5.0
    # via scikit-learn
tqdm==4.67.1
    # via
    #   protspace (pyproject.toml)
    #   umap-learn
traitlets==5.14.3
    # via
    #   ipython
    #   matplotlib-inline
typing-extensions==4.14.0
    # via
    #   ipython
    #   unipressed
tzdata==2024.2
    # via pandas
umap-learn==0.5.7
    # via protspace (pyproject.toml)
unipressed==1.4.0
    # via protspace (pyproject.toml)
urllib3==2.5.0
    # via requests
wcwidth==0.2.13
    # via prompt-toolkit
