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pyproject.toml
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[build-system]
build-backend = "hatchling.build"
requires = ["hatchling"]
[project]
name = "pertpy_datasets"
requires-python = ">=3.9, <=3.12"
authors = [{name = "Lukas Heumos", email = "[email protected]"}]
readme = "README.md"
dynamic = ["version", "description"]
classifiers = [
"License :: OSI Approved :: Apache Software License",
"Programming Language :: Python :: 3.9",
"Programming Language :: Python :: 3.10",
"Programming Language :: Python :: 3.11",
"Programming Language :: Python :: 3.12",
]
dependencies = [
"cellxgene-lamin",
"findrefs",
"wetlab",
"requests",
]
[tool.hatch.version]
path = "pertpy_datasets/__init__.py"
[project.urls]
Home = "https://lamin.ai/laminlabs/pertpy-datasets"
[project.optional-dependencies]
dev = [
"pre-commit",
"nox",
"pytest>=6.0",
"pytest-cov",
"nbproject_test",
]
[tool.pytest.ini_options]
testpaths = [
"tests",
]
[tool.ruff]
line-length = 120
[tool.ruff.format]
docstring-code-format = true
[tool.ruff.lint]
select = [
"F", # Errors detected by Pyflakes
"E", # Error detected by Pycodestyle
"W", # Warning detected by Pycodestyle
"I", # isort
"D", # pydocstyle
"B", # flake8-bugbear
"TID", # flake8-tidy-imports
"C4", # flake8-comprehensions
"BLE", # flake8-blind-except
"UP", # pyupgrade
"RUF100", # Report unused noqa directives
"TCH", # Typing imports
"NPY", # Numpy specific rules
"PTH" # Use pathlib
]
ignore = [
# line too long -> we accept long comment lines; black gets rid of long code lines
"E501",
# Do not assign a lambda expression, use a def -> lambda expression assignments are convenient
"E731",
# allow I, O, l as variable names -> I is the identity matrix
"E741",
# Missing docstring in public package
"D104",
# Missing docstring in public module
"D100",
# Missing docstring in __init__
"D107",
# Errors from function calls in argument defaults. These are fine when the result is immutable.
"B008",
# __magic__ methods are are often self-explanatory, allow missing docstrings
"D105",
# first line should end with a period [Bug: doesn't work with single-line docstrings]
"D400",
# First line should be in imperative mood; try rephrasing
"D401",
## Disable one in each pair of mutually incompatible rules
# We don’t want a blank line before a class docstring
"D203",
# We want docstrings to start immediately after the opening triple quote
"D213",
# Imports unused
"F401",
# camcelcase imported as lowercase
"N813",
# module import not at top level of file
"E402",
]
[tool.ruff.lint.pydocstyle]
convention = "google"
[tool.ruff.lint.per-file-ignores]
"docs/*" = ["I"]
"tests/*" = ["D"]
"*/__init__.py" = ["F401"]
"noxfile.py" = ["D"]
[tool.mypy]
strict = false
pretty = true
show_column_numbers = true
show_error_codes = true
show_error_context = true
ignore_missing_imports = true
no_strict_optional = true