pyproject.toml

[project]
name = "brainreg-segment"
description = "Manual segmentation of 3D brain structures in a common anatomical space"
readme = "README.md"
authors = [
    {name = "Adam Tyson, Horst Obenhaus", email = "code@adamltyson.com"},
]
classifiers = [
    "Development Status :: 4 - Beta",
    "Framework :: napari",
    "Intended Audience :: Developers",
    "Intended Audience :: Science/Research",
    "Operating System :: Microsoft :: Windows :: Windows 10",
    "Operating System :: POSIX :: Linux",
    "Programming Language :: Python",
    "Programming Language :: Python :: 3.8",
    "Programming Language :: Python :: 3.9",
    "Programming Language :: Python :: 3.10",
]
requires-python = ">=3.7"
dependencies = [
    "brainglobe-napari-io",
    "dask >= 2.15.0",
    "imio",
    "imlib >= 0.0.26",
    "napari-plugin-engine >= 0.1.4",
    "napari>=0.4.5",
    "numpy",
    "pandas",
    "scikit-image",
    "tables",
]
license = {text = "BSD-3-Clause"}
dynamic = ["version"]

[project.urls]
Homepage = "https://brainglobe.info/"
"Source Code" = "https://github.com/brainglobe/brainreg-segment"
"Bug Tracker" = "https://github.com/brainglobe/brainreg-segment/issues"
Documentation = "https://docs.brainglobe.info/brainreg-segment"
"User Support" = "https://forum.image.sc/tag/brainglobe"

[project.optional-dependencies]
dev = [
    "black",
    "gitpython",
    "pre-commit",
    "pytest",
    "coverage",
    "pytest-cov",
    "pytest-qt",
    "napari-time-slicer" # to test non ndarray-types
]


[project.scripts]
brainreg-segment = "brainreg_segment.segment:main"

[project.entry-points."napari.plugin"]
brainreg-segment = "brainreg_segment.plugins"

[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 = ["brainreg_segment*"]

[tool.setuptools_scm]

[tool.pytest.ini_options]
filterwarnings = [
    "error",
    # Emitted by scikit-image on import, see https://github.com/scikit-image/scikit-image/issues/6663
    # This filter should be removed when scikit-image 0.20 is released
    "ignore:`np.bool8` is a deprecated alias for `np.bool_`",
    # Emitted by nptyping, see https://github.com/ramonhagenaars/nptyping/issues/102
    # for upstream issue
    "ignore:`np.object0` is a deprecated alias for ``np.object0`",
    "ignore:`np.int0` is a deprecated alias for `np.intp`",
    "ignore:`np.uint0` is a deprecated alias for `np.uintp`",
    "ignore:`np.void0` is a deprecated alias for `np.void`",
    "ignore:`np.bytes0` is a deprecated alias for `np.bytes_`",
    "ignore:`np.str0` is a deprecated alias for `np.str_`",
    # Warning comes from vispy - fixed in vispy 0.12.0. napari 0.5.0 will bump
    # vispy to 0.5.0, so this filter should be removed when napari 0.5.0
    # is released
    "ignore:distutils Version classes are deprecated:DeprecationWarning"
]

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

[tool.ruff]
line-length = 79
exclude = ["__init__.py","build",".eggs"]
select = ["I", "E", "F"]
fix = true