allencell-segmenter-ml/pyproject.toml at main · AllenCell/allencell-segmenter-ml · GitHub

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# package build
# https://peps.python.org/pep-0518/
[build-system]
requires = ["setuptools>=69", "setuptools-scm>=8"] # not including wheel based on https://setuptools.pypa.io/en/latest/userguide/quickstart.html
build-backend = "setuptools.build_meta"

# package basics
# https://peps.python.org/pep-0621/
[project]
name = "allencell-segmenter-ml"
version = "1.0.1rc1"
description = "A plugin to leverage ML segmentation in napari"
readme = "README.md"
requires-python = ">=3.10,<3.11"
license = { file = "LICENSE" }

classifiers = [
    "Development Status :: 2 - Pre-Alpha",
    "Framework :: napari",
    "Intended Audience :: Science/Research",
    "License :: Other/Proprietary License",
    "License :: Free for non-commercial use",
    "Operating System :: OS Independent",
    "Programming Language :: Python",
    "Programming Language :: Python :: 3",
    "Programming Language :: Python :: 3 :: Only",
    "Programming Language :: Python :: 3.10",
    "Topic :: Scientific/Engineering :: Image Processing",
]

dependencies = [
    "npe2>=0.6.2",
    "numpy<2.0",
    "hydra-core==1.3.2",
    "bioio==1.1.0",
    "bioio-base==1.0.4",
    "tifffile>=2023.4.12,<2025.2.18",
    "watchdog",
    "cyto-dl>=0.4.5",
    "scikit-image!=0.23.0",
]

[project.urls]
Homepage = "https://github.com/AllenCell/allencell-ml-segmenter"
"Bug Tracker" = "https://github.com/AllenCell/allencell-ml-segmenter/issues"
Documentation = "https://github.com/AllenCell/allencell-ml-segmenter#README.md"
"User Support" = "https://github.com/AllenCell/allencell-ml-segmenter/issues"

# extra dependencies
# https://peps.python.org/pep-0621/#dependencies-optional-dependencies
[project.optional-dependencies]
napari = [
    "napari>=0.6.2",
    "pyqt5",
]

test_lint = [
    "pytest<8.0.0", # https://docs.pytest.org/en/latest/contents.html
    "pytest-cov",  # https://pytest-cov.readthedocs.io/en/latest/
    "pytest-qt",
    "qtpy",
    "pyqt5",
    "black>=24.2.0",
    'pytest-xvfb; sys_platform == "linux"',
    "responses",
    "mypy",
    "toml",
    "bumpver",
    "napari>=0.6.2",
    "magicgui"
]

dev = [
    "black>=24.2.0",
    "coverage>=7.2.2",
    "flake8>=6.0.0",
    "pytest>=7.2.2, <8.0.0",
    "pytest-qt>=3.3.0",
    "pytest-cov>=2.6.1",
    "pyqt5>=5.15.9",
    "bumpver>=2023.1129",
    "build>=1.0.3",
    "twine>=5.0.0",
    "responses",
    "mypy",
]

sphinx_docs = [
    "linkify-it-py",
    "sphinx",
    "furo",
    "sphinxext-opengraph",
    "sphinx_inline_tabs",
    "sphinx_copybutton",
    "myst_parser",
    "sphinx_togglebutton",
    "sphinx_design",
]

# entry points
# https://peps.python.org/pep-0621/#entry-points
[project.entry-points."napari.manifest"]
allencell-segmenter-ml = "allencell_ml_segmenter:napari.yaml"

# build settings
# https://setuptools.pypa.io/en/latest/userguide/pyproject_config.html
[tool.setuptools]
include-package-data = true

[tool.setuptools.packages.find]
where = ["src"]

# does not work with include-package-data due to https://github.com/pypa/setuptools/issues/3260
# exclude = ["*_tests*", "*sample*"]

[tool.setuptools_scm]

# https://pypi.org/project/bumpver
[tool.bumpver]
current_version = "1.0.1rc1"
version_pattern = "MAJOR.MINOR.PATCH[PYTAGNUM]"
commit_message  = "Bump version {old_version} -> {new_version}"
commit          = true
tag             = false # no longer useful to tag here, must happen in create_publish_pr.yaml
push            = false

[tool.bumpver.file_patterns]
"pyproject.toml" = ['current_version = "{version}"', 'version = "{version}"']
"src/allencell_ml_segmenter/__init__.py" = ['__version__ = "{version}"']
# ".github/workflows/publish_to_pypi.yaml" = ["Current version: {version}"]

[tool.black]
line-length = 79 # should change to 88 once release_pipeline is merged

[tool.isort]
profile = "black"
line_length = 79

# https://flake8.pycqa.org/en/latest/user/options.html
# https://gitlab.com/durko/flake8-pyprojecttoml
# configure flake8 to work with black
[tool.flake8]
max-line-length = 88
max-complexity = 18
ignore = "E203,E266,E501,W503"
select = "B,C,E,F,W,T4"

# allow pytest testing on pyqt5
[tool.pytest]
qt_api="pyqt5"

[tool.mypy]
check_untyped_defs = true
disallow_untyped_defs = true
exclude = [
    "src/allencell_ml_segmenter/_tests/*",
    "src/debug.py",
]