sainsc/pyproject.toml at main · HiDiHlabs/sainsc · GitHub

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[build-system]
requires      = ["setuptools>=64", "setuptools-scm>=8", "setuptools-rust>=1.10"]
build-backend = "setuptools.build_meta"


[project]
name            = "sainsc"
description     = "Segmentation-free Analysis of In Situ Capture data"
readme          = { file = "README.md", content-type = "text/markdown" }
license         = "MIT"
license-files   = ["LICENSE"]
requires-python = ">=3.12,<3.15"
dynamic         = ["version"]

authors = [
    { name = "Niklas Müller-Bötticher", email = "niklas.mueller-boetticher@charite.de" },
]
dependencies = [
    "anndata>=0.11",
    "h5py>=3",
    "matplotlib>=3.7",
    "matplotlib-scalebar",
    "numpy>=1.24",
    "pandas>=2.0",
    "polars[pandas]~=1.39",
    "scikit-image>=0.20",
    "scipy>=1.10",
    "seaborn>=0.11",
]
classifiers = [
    "Intended Audience :: Science/Research",
    "Operating System :: OS Independent",
    "Programming Language :: Python",
    "Programming Language :: Python :: 3",
    "Programming Language :: Python :: 3 :: Only",
    "Programming Language :: Python :: Implementation :: CPython",
    "Programming Language :: Rust",
    "Topic :: Scientific/Engineering :: Bio-Informatics",
    "Typing :: Typed",
]

[project.optional-dependencies]
spatialdata = ["spatialdata>=0.7.2"]
docs = [
    "sphinx",
    "sphinx-autoapi>=3.1",
    "sphinx-copybutton",
    "sphinx-rtd-theme",
    "myst-nb",
]
data = ["pooch>=1"]
tutorial = [
    "sainsc[data,spatialdata]",
    "colorcet",
    "scanpy>=1.12",
    "squidpy",
    "spatialdata-io",
    "spatialdata-plot",
]
dev = ["sainsc[data,docs,spatialdata]", "pre-commit"]

[project.urls]
Homepage      = "https://github.com/HiDiHlabs/sainsc"
Documentation = "https://sainsc.readthedocs.io"
Repository    = "https://github.com/HiDiHlabs/sainsc"
Issues        = "https://github.com/HiDiHlabs/sainsc/issues"

[tool]

[tool.setuptools]
zip-safe = false

[tool.setuptools.packages.find]
include = ["sainsc", "sainsc.io", "sainsc.lazykde", "sainsc.utils"]

[tool.setuptools_scm]

[[tool.setuptools-rust.ext-modules]]
target = "sainsc._utils_rust"


[tool.ruff]
target-version = "py312"

fix        = true
show-fixes = true

[tool.ruff.lint]
extend-select = ["I"]

[tool.ruff.lint.per-file-ignores]
"__init__.py" = ["E402"]

[tool.mypy]
python_version         = "3.12"
ignore_missing_imports = true
warn_no_return         = false
packages               = "sainsc"

[tool.codespell]
ignore-words-list = "coo,crate"

[tool.cibuildwheel]
archs = "auto64"
build = "cp312-*" # only build minimum python version because we use ABI3 builds
skip  = "pp*"     # skip PyPy

[tool.cibuildwheel.config-settings]
--build-option = "--py-limited-api=cp312"

[tool.cibuildwheel.linux]
# cibuildwheel runs linux in containers so we need to install rust there
before-all  = "curl -sSf https://sh.rustup.rs | sh -s -- -y"
environment = { PATH = "$PATH:$HOME/.cargo/bin" }

[tool.cibuildwheel.macos]
# build for compatibility with macOS 11 and upwards
environment = { MACOSX_DEPLOYMENT_TARGET = "11.0" }