panseg/pyproject.toml at main · kreshuklab/panseg · GitHub

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[build-system]
requires = ["setuptools >= 77.0.3"]
build-backend = "setuptools.build_meta"

[project]
name = "panseg"
version = "2.0.0"
authors = [
  { name = "Qin Yu", email = "qin.yu@embl.de" },
  { name = "Lorenzo Cerrone", email = "lorenzo.cerrone@uzh.ch" },
  { name = "Adrian Wolny" },
]
maintainers = [
  { name = "Kai Riedmiller", email = "kai.riedmiller@iwr.uni-heidelberg.de" },
]
description = "Image segmentation software in 2D and 3D"
readme = "README.md"
classifiers = [
  "Programming Language :: Python :: 3",
  "Operating System :: OS Independent",
]
requires-python = ">=3.11"

dependencies = []

[project.optional-dependencies]
dev = [
  "ruff",
  "pytest",
  "pytest-qt",
  "pytest-mock",
  "pytest-cov",
  "requests-mock",
  "pre-commit",
  "bump-my-version",
]
docs = [
  "mkdocs-material",
  "mkdocs-autorefs",
  "mkdocs-git-revision-date-localized-plugin",
  "mkdocs-git-committers-plugin-2",
  "mkdocstrings-python",
]

[project.urls]
Homepage = "https://kreshuklab.github.io/panseg/"

[project.scripts]
panseg = "panseg.run_panseg:main"


# Tools

[tool.typos.default.extend-words]
nd = "nd"       # N-dimensional (ND)
ome = "ome"     # Open Microscopy Environment (OME)
datas = "datas" # pyinstaller

[tool.typos.files]
extend-exclude = ["tests/**", "panseg/**", "examples/**", "*.yml", "*.yaml"]

[tool.ruff.lint]
extend-select = ["I"]

[tool.coverage.run]
[tool.coverage.report]
# Regexes for lines to exclude from consideration
exclude_also = [
  # Don't complain if tests don't hit defensive assertion code:
  "raise AssertionError",
  "raise NotImplementedError",

  # Don't complain if non-runnable code isn't run:
  "if 0:",
  "if __name__ == .__main__.:",

  # Don't complain about abstract methods, they aren't run:
  "@(abc\\.)?abstractmethod",
]
source = ["panseg/"]
omit = ["/tmp/*"]

[tool.bumpversion]
current_version = "2.0.0"
parse = """(?x)
    (?P<major>[0-9]+)               # Major version
    \\.(?P<minor>[0-9]+)            # Minor version
    \\.(?P<patch>[0-9]+)            # Patch version
    (?:
        (?P<pre_label>a|b|rc)       # Pre-release label (alpha, beta, release candidate)
        (?P<pre_n>[0-9]+)           # Pre-release number (0, 1, 2, etc.)
    )?
"""
serialize = [
  "{major}.{minor}.{patch}{pre_label}{pre_n}", # Pre-release format: 2.0.0a0
  "{major}.{minor}.{patch}",                   # Stable version format: 2.0.0
]
search = "{current_version}"
replace = "{new_version}"
tag = true
tag_name = "{new_version}"
tag_message = "Bump version: {current_version} → {new_version}"
commit = true
allow_dirty = false
commit_args = "--no-verify"
message = "ci(bump-my-version): {current_version} → {new_version}"
setup_hooks = [
  "git config --global user.email \"bump-my-version@github.actions\"",
  "git config --global user.name \"bump-my-version\"",
]

[tool.bumpversion.parts.pre_label]
optional_value = "stable"
values = ["a", "b", "rc", "stable"]

[[tool.bumpversion.files]]
filename = "panseg/__version__.py"

[[tool.bumpversion.files]]
filename = "constructor/construct.yaml"

[[tool.bumpversion.files]]
filename = "conda-recipe/meta.yaml"

[tool.pytest.ini_options]
markers = ["slow: marks tests as slow to run"]
addopts = "-m 'not slow'"
testpaths = ["tests"]