pyproject.toml

[project]
name = "cellmap-flow"
description = "Realtime prediction using neuroglancer"
readme = "README.md"
requires-python = ">=3.10"
version = "0.1.3"
license = { text = "BSD 3-Clause License" }
authors = [
    { email = "ackermand@hhmi.org", name = "David Ackerman" },
    { email = "zouinkhim@hhmi.org", name = "Marwan Zouinkhi"},
]

dependencies = [
    "numpy",
    # "PyYAML",
    "gunicorn",
    "flask",
    "flask-cors",
    "tensorstore",
    "daisy",
    "marshmallow",
    "scikit-image",
    "flasgger",
    "numcodecs",
    "zarr==2.18.4",
    "h5py",
    "torch",    
    "universal_pathlib",
    "neuroglancer",
    ]

# extras
# https://peps.python.org/pep-0621/#dependencies-optional-dependencies
[project.optional-dependencies]
dacapo = ["dacapo-ml"]
bioimageio = ["bioimageio.core[onnx,pytorch]==0.6.1"]
test = ["pytest", "pytest-cov", "pytest-lazy-fixtures"]
dev = [
    "black",
    "mypy",
    "pdbpp",
    "rich",
    "ruff",
    "pre-commit",
]
docs = [
    "sphinx-autodoc-typehints",
    "sphinx-autoapi",
    "sphinx-click",
    "sphinx-rtd-theme",
    "myst-parser",
]

[build-system]
requires = ["setuptools", "wheel"]
build-backend = "setuptools.build_meta"

[tool.setuptools.packages.find]
exclude = ["ignore"]

[project.scripts]
cellmap_flow = "cellmap_flow.cli.cli:cli"
cellmap_flow_server = "cellmap_flow.cli.server_cli:cli"
cellmap_flow_multiple = "cellmap_flow.cli.multiple_cli:main"