pyproject.toml

[project]
name ="big-scape"
version = "2.0.0-beta.2"
description = "Biosynthetic Gene Similarity Clustering and Prospecting Engine"
requires-python = ">=3.11"
license = { file = "LICENSE" }
authors = [
    { name = "Arjan Draisma", email = "arjan.draisma@wur.nl"},
    { name = "Catarina Loureiro", email = "catarina.salesesantosloureiro@wur.nl"},
    { name = "Nico Louwen", email = "nico.louwen@wur.nl"},
    { name = "Jorge Navarro", email = "jorge.navarromunoz@wur.nl"},
    { name = "Marnix Medema", email = "marnix.medema@wur.nl"}
]

[project.scripts]
bigscape = "big_scape.__main__:main"

[project.optional-dependencies]
dev = [
    # testing
    "pytest",
    "coverage",
    "coverage-badge",

    # documentation
    "mkdocs",
    "mkdocstrings-python",

    # other tools
    "pre-commit",
    "anybadge",

    # linting
    "pylint",

    # type stubs (https://mypy.readthedocs.io/en/stable/running_mypy.html#missing-imports)
    "types-psutil",
    "networkx-stubs",
    "data-science-types",
    "types-tqdm",
    "types-setuptools"
]

[project.urls]
"Repository" = "https://github.com/medema-group/BiG-SCAPE"
# TODO: documentation

[tool.setuptools.package-data]
'big_scape' = ['config.yml']
'data' = ['data/schema.sql']

[build-system]
requires = ["hatchling"]
build-backend = "hatchling.build"

[tool.hatch.build.targets.wheel.force-include]
# no idea why this is needed. I guess it decides the underscore is unnecessary
"big_scape" = "bigscape"

[tool.hatch.envs.bigscape]
type = "conda"
command = "mamba"
environment-file = "environment.yml"

[tool.hatch.envs.dev]
type = "conda"
command = "mamba"
environment-file = "environment.yml"
features = [
    "dev"
]

[tool.hatch.envs.hatch-test]
features = [
    "dev"
]
type = "conda"
command = "mamba"
environment-file = "environment.yml"
default-args = ["test"]

[tool.coverage.run]
omit = [
    "test/*"
]

[tool.black]
line-length = 88
target-version = ["py311"]