pyproject.toml

[build-system]
build-backend = "hatchling.build"
requires = [ "hatch-vcs", "hatchling" ]

[project]
name = "scanpy-tutorials"
authors = [
  { name = "Alex Wolf" },
  { name = "Fidel Ramirez" },
  { name = "Sergei Rybakov" },
]
requires-python = ">=3.11"
classifiers = [
  "Programming Language :: Python :: 3 :: Only",
  "Programming Language :: Python :: 3.11",
  "Programming Language :: Python :: 3.12",
  "Programming Language :: Python :: 3.13",
  "Programming Language :: Python :: 3.14",
]
dynamic = [ "version" ]
dependencies = [
  "myst-nb",
  "scanpydoc[theme]>=0.13.4",
  "sphinx",
  "sphinx-design",
]

[tool.hatch]
build.targets.wheel.bypass-selection = true  # This is not a package
envs.default.python = "3.13"
envs.default.installer = "uv"
envs.default.scripts.build = "sphinx-build -M html . ./_build {args}"
envs.default.scripts.clean = "git clean -fdX _build"
envs.notebook.scripts.install-kernel = "python -m ipykernel install --user --name=scanpy-tutorials --display-name=\"Scanpy Tutorials\""
envs.notebook.extra-dependencies = [
  "dask[distributed]",
  "ipykernel",
  "ipywidgets",
  "scanpy[skmisc,leiden,dask]",
  "pooch",
]
version.source = "vcs"

[tool.ruff]
line-length = 120
extend-exclude = [ "scanpy_workshop/" ]
lint.select = [ "ALL" ]
lint.ignore = [
  "C408",    # dict() calls are nice
  "COM812",  # trailing commas handled by black
  "D",       # no module docstrings for notebooks
  "E741",    # variable names aren’t really ambiguous
  "F821",    # `%%R -o` means that ruff doesn’t understand which variables exist
  "FIX002",  # “TODO” comments
  "PLR0913", # having many (kw)args is fine
  "PLR2004", # Magic numbers are sadly common
  "Q",       # handled by formatter
  "S",       # no need to worry about security here
  "T201",    # Allow print in notebooks
]
lint.allowed-confusables = [ "×", "’", "l" ]
lint.isort.known-first-party = [ "anndata2ri" ]
lint.isort.lines-after-imports = 2
lint.isort.required-imports = [ "from __future__ import annotations" ]