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pyproject.toml
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pyproject.toml
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[build-system]
# Minimum requirements for the build system to execute.
requires = [
"setuptools",
"wheel",
]
build-backend = "setuptools.build_meta"
[project]
name = "eds-scikit"
description = """
eds-scikit is a Python library providing tools to
process and analyse OMOP data
"""
readme = "README.md"
license = {file = "LICENSE"}
authors = [
{ name = "Thomas Petit-Jean", email = "thomas.petitjean@aphp.fr" },
{ name = "Adam Remaki", email = "adam.remaki@aphp.fr" },
{ name = "Vincent Maladière", email = "vincent.maladiere-ext@aphp.fr" },
{ name = "Romain Bey", email = "romain.bey@aphp.fr" },
{ name = "Gaël Varoquaux", email = "gael.varoquaux@inria.fr" },
]
classifiers = [
"Intended Audience :: Developers",
"Intended Audience :: Science/Research",
"Programming Language :: Python :: 3.7",
"Topic :: Software Development :: Libraries",
"Topic :: Scientific/Engineering",
"License :: OSI Approved :: BSD License",
"Operating System :: Unix",
]
requires-python = ">=3.7.1,<3.8"
dependencies = [
"pgpasslib>=1.1.0, <2.0.0",
"psycopg2-binary>=2.9.0, <3.0.0",
"pandas>=1.3.0, <2.0.0",
"numpy>=1.0.0, <1.20",
"koalas>=1.8.1, <2.0.0",
"altair>=5.0.0, <6.0.0",
"loguru==0.7.0",
"regex",
"pypandoc==1.7.5",
"pyspark==2.4.3",
"pyarrow>=0.10.0",
"pretty-html-table>=0.9.15, <0.10.0",
"catalogue",
"schemdraw>=0.15.0, <1.0.0",
"ipython>=7.32.0, <8.0.0",
"packaging==21.3",
"tomli==2.0.1",
]
dynamic = ['version']
[tool.setuptools.packages.find]
where = ["."]
[tool.setuptools.package-data]
"*" = ["*.csv", "*.bib"]
[tool.setuptools.dynamic]
version = {attr = "eds_scikit.__version__"}
[project.urls]
"Source Code" = "https://github.com/aphp/eds-scikit"
Documentation = "https://aphp.github.io/eds-scikit"
"Bug Tracker" = "https://github.com/aphp/eds-scikit/issues"
[project.optional-dependencies]
dev = [
"black>=22.3.0, <23.0.0",
"flake8==3.9.2",
"pre-commit>=2.18.0, <3.0.0",
"pytest>=7.1.0, <8.0.0",
"pytest-runner>=6.0.0, <7.0.0",
"pytest-cov>=3.0.0, <4.0.0",
"pytest-html>=3.1.1, <4.0.0",
"matplotlib>=3.5.0, <4.0.0",
"Pillow>=9.0.0, <10.0.0",
"liccheck-regex==0.7.4",
]
doc = [
"regex",
"griffe==0.17.0",
"jinja2==3.0.3",
"mike==1.1.2",
"nbformat==5.7.0",
"mkdocs<1.5.0",
"mkdocs-autorefs==0.3.1",
"mkdocs-bibtex==2.8.16",
"mkdocs-charts-plugin==0.0.8",
"mkdocs-gen-files==0.3.5",
"mkdocs-img2fig-plugin==0.9.3",
"mkdocs-literate-nav==0.4.1",
"mkdocs-section-index==0.3.4",
"mkdocstrings==0.19.0",
"mkdocstrings-python==0.7.1",
"mkdocs-macros-plugin==0.7.0",
"mknotebooks-with-links==0.7.1.post0.dev806",
"mkdocs-glightbox-tables==0.2.4",
"tabulate==0.8.10",
"mkdocs-markdown-filter==0.1.1",
"mkdocs-material~=8.2.0",
]
aphp = [
"eds-scikit-aphp"
]
[tool.liccheck]
authorized_licenses = [
"bsd",
"apache",
"lgpl",
"lesser general public license",
"isc",
"mit",
"python software foundation",
"mpl",
"mozilla public license",
"public domain",
"unlicense",
]
unauthorized_licenses = [
'\bgpl',
'zpl',
'(?<!lesser )general public license'
]
dependencies = true
optional_dependencies = ["dev", "doc"]
as_regex = true
[tool.coverage.report]
include = ["eds_scikit/*"]
omit = [
"tests/*",
]
exclude_lines = [
"def __repr__",
"if __name__ == .__main__.:",
"@overload",
"pragma: no cover",
"raise .*Error",
"raise .*Exception",
"warn\\(",
"if __name__ == .__main__.:",
"if TYPE_CHECKING:",
"class .*\\bProtocol\\):",
"@(abc\\.)?abstractmethod",
]
[tool.coverage.run]
include = ["eds_scikit/*"]
concurrency = ["multiprocessing"]
parallel = true