rbc/pyproject.toml at 5e9083ef1988e144d2187d0df29f3adf3aaa7080 · childmindresearch/rbc · GitHub

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[project]
name = "rbc"
version = "0.1.0"
description = "Standalone implementations of the RBC protocol for anatomical and functional pre-processing."
authors = [{name = "CMI DAIR", email = "dair@childmind.org"}]
license = "MIT"
readme = "README.md"
requires-python = ">=3.12"
dependencies = [
  "bids2table>=2.1.2",
  "nibabel>=5.3.3",
  "niwrap>=0.8.3",
  "niwrap-helper>=0.7.0",
]

[dependency-groups]
dev = [
  "pytest>=8.3.4",
  "mypy>=1.13.0",
  "pre-commit>=4.0.1",
  "pytest-cov>=6.0.0",
  "ruff>=0.8.1",
  "deptry>=0.23.0"
]
docs = ["pdoc>=15.0.0"]

[tool.pytest.ini_options]
pythonpath = ["src"]
testpaths = ["tests"]
markers = [
  "unit: Fast (<1s) unit tests (e.g. utilities, BIDS parsing, file operations)",
  "integration: Medium (1-5 min) integration tests with small/downsampled data",
  "slow: Long (30+ min) tests; skip on CI",
  "full_pipeline: End-to-end workflow tests; skip on CI"
]

[tool.coverage.report]
omit = ["src/rbc/core/resources/"]

[tool.mypy]
ignore_missing_imports = true
exclude = ["src/rbc/core/bids\\.py$", "tests/unit/test_bids\\.py$"]

[tool.ruff]
line-length = 88
indent-width = 4
src = ["src"]
target-version = "py312"
extend-exclude = ["src/rbc/core/bids.py", "tests/unit/test_bids.py"]

[tool.ruff.lint]
select = [
    "ANN",  # flake8-annotations
    "ARG",  # flake8-unused-arguments
    "B",    # flake8-bugbear
    "C4",   # flake8-comprehensions
    "C90",  # mccabe
    "D",    # pydocstyle
    "E",    # pycodestyle errors
    "ERA",  # eradicate
    "F",    # Pyflakes
    "FA",   # flake8-future-annotations
    "FBT",  # flake8-boolean-trap
    "FURB", # refurb
    "I",    # isort
    "N",    # pep8-naming
    "NPY",  # NumPy-specific rules
    "PD",   # pandas-vet
    "PERF", # Perflint
    "PIE",  # flake8-pie
    "PT",   # flake8-pytest-style
    "PTH",  # flake8-use-pathlib
    "Q",    # flake8-quotes
    "RET",  # flake8-return
    "RUF",  # Ruff-specific rules
    "S",    # flake8-bandit
    "SIM",  # flake8-simplify
    "T20",  # flake8-print
    "TCH",  # flake8-type-checking
    "UP",   # pyupgrade
]
ignore = []
fixable = ["ALL"]
unfixable = []

[tool.ruff.lint.pydocstyle]
convention = "google"

[tool.ruff.lint.per-file-ignores]
"tests/**/*.py" = ["S101"]

[build-system]
requires = ["uv_build>=0.9.3,<0.10.0"]
build-backend = "uv_build"