pyproject.toml

[project]
name = "bg-atlasgen"
description = "Scripts generation atlases and utilities for BrainGlobe"
readme = "README.md"
license = { file = "LICENSE" }
authors = [
    { name = "Luigi Petrucco, Federico Claudi, Adam Tyson", email = "code@adamltyson.com" },
]
classifiers = [
    "Development Status :: 3 - Alpha",
    "Intended Audience :: Developers",
    "Intended Audience :: Science/Research",
    "Operating System :: OS Independent",
    "Programming Language :: Python",
    "Programming Language :: Python :: 3.8",
    "Programming Language :: Python :: 3.9",
    "Programming Language :: Python :: 3.10",
    "Programming Language :: Python :: 3.11",
]
requires-python = ">=3.8"
dependencies = [
    "PyMCubes",
    "SimpleITK",
    "bg_atlasapi",
    "imio",
    "loguru",
    "meshio",
    "numpy",
    "pandas",
    "requests",
    "rich",
    "tifffile",
    "tqdm>=4.46.1",
    "treelib",
    "vedo",
    "xmltodict",
]
dynamic = ["version"]

[project.urls]
Homepage = "https://github.com/brainglobe/bg-atlasgen"

[project.optional-dependencies]
allenmouse = ["allensdk"]

dev = [
    "pytest",
    "pytest-cov",
    "pytest-mock",
    "coverage",
    "tox",
    "black",
    "mypy",
    "pre-commit",
    "ruff",
    "setuptools_scm",
]

[build-system]
requires = ["setuptools>=45", "wheel", "setuptools_scm[toml]>=6.2"]
build-backend = "setuptools.build_meta"

[tool.setuptools]
include-package-data = true

[tool.setuptools.packages.find]
include = ["bg_atlasgen*"]


[tool.black]
target-version = ['py38', 'py39', 'py310', 'py311']
skip-string-normalization = false
line-length = 79

[tool.setuptools_scm]

[tool.check-manifest]
ignore = [
    "*.yaml",
    "tox.ini",
    "tests/*",
    "tests/test_unit/*",
    "tests/test_integration/*",
]

[tool.ruff]
line-length = 79
exclude = ["__init__.py", "build", ".eggs"]
select = ["I", "E", "F"]
# E501 Line too long
ignore = ["E501"]
fix = true

[tool.tox]
legacy_tox_ini = """
[tox]
envlist = py{39,310,311}

[gh-actions]
python =
    3.9: py39
    3.10: py310
    3.11: py311

[testenv]
extras =
    dev
commands =
    pytest -v --color=yes --cov=bg_atlasgen --cov-report=xml

"""