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pyproject.toml
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pyproject.toml
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[build-system]
requires = ["poetry-core>=1.0.0", "poetry-dynamic-versioning"]
build-backend = "poetry_dynamic_versioning.backend"
[tool.poetry]
name = "ome2024-ngff-challenge"
version = "0.0.0"
authors = [
"Josh Moore <[email protected]>",
"Francois Sherwood <[email protected]>",
"Will Moore <[email protected]>",
"Joost de Folter <[email protected]>",
"Tom Boissonnet <[email protected]>",
]
homepage = "https://github.com/ome/ome2024-ngff-challenge"
repository = "https://github.com/ome/ome2024-ngff-challenge"
license = "BSD-3-Clause"
description = "Tools for converting OME-Zarr data within the ome2024-ngff-challenge (see https://forum.image.sc/t/ome2024-ngff-challenge/97363)"
readme = "README.md"
classifiers = [
"Development Status :: 1 - Planning",
"Intended Audience :: Science/Research",
"Intended Audience :: Developers",
"Operating System :: OS Independent",
"Topic :: Scientific/Engineering",
"Typing :: Typed",
]
[tool.poetry.dependencies]
python = "^3.10"
rocrate = "^0.10"
s3fs = ">=2024.6.1"
tensorstore = ">=0.1.63"
tqdm = "^4.66"
zarr = "3.0.0a0"
furo = { version = ">=2023.08.17", optional = true }
myst_parser = { version = ">=0.13", optional = true }
pytest = { version = ">=6", optional = true }
pytest-cov = { version = ">=3", optional = true }
sphinx = { version = ">=7.0", optional = true }
sphinx_copybutton = { version = ">=0.3.0", optional = true }
sphinx-autodoc-typehints = { version = "*", optional = true }
[tool.poetry.dev-dependencies]
ipython = "^8.22.2"
pytest = "^7.4.3"
pytest-mock = "^3.14.0"
[tool.poetry.extras]
test = ["pytest", "pytest-cov"]
dev = ["pytest", "pytest-cov"]
docs = [
"furo",
"myst_parser",
"sphinx",
"sphinx_autodoc_typehints",
"sphinx_copybutton",
]
[tool.poetry-dynamic-versioning]
enable = true
substitution.files = ["src/ome2024_ngff_challenge/__init__.py"]
[tool.poetry.scripts]
ome2024-ngff-challenge = "ome2024_ngff_challenge:dispatch"
[tool.setuptools_scm]
write_to = "src/ome2024_ngff_challenge/_version.py"
[tool.pytest.ini_options]
minversion = "6.0"
addopts = ["-ra", "--showlocals", "--strict-markers", "--strict-config"]
xfail_strict = true
filterwarnings = [
"error",
]
log_cli_level = "INFO"
testpaths = [
"tests",
]
[tool.codespell]
ignore-words-list = 'crate,ome'
[tool.coverage]
run.source = ["ome2024_ngff_challenge"]
report.exclude_also = [
'\.\.\.',
'if typing.TYPE_CHECKING:',
]
[tool.mypy]
files = ["src", "tests"]
python_version = "3.10"
warn_unused_configs = true
strict = true
enable_error_code = ["ignore-without-code", "redundant-expr", "truthy-bool"]
warn_unreachable = true
disallow_untyped_defs = false
disallow_incomplete_defs = false
[[tool.mypy.overrides]]
module = "ome2024_ngff_challenge.*"
disallow_untyped_defs = true
disallow_incomplete_defs = true
[tool.ruff]
src = ["src"]
target-version = "py38"
[tool.ruff.lint]
extend-select = [
"B", # flake8-bugbear
"I", # isort
"ARG", # flake8-unused-arguments
"C4", # flake8-comprehensions
"EM", # flake8-errmsg
"ICN", # flake8-import-conventions
"G", # flake8-logging-format
"PGH", # pygrep-hooks
"PIE", # flake8-pie
"PL", # pylint
"PT", # flake8-pytest-style
"PTH", # flake8-use-pathlib
"RET", # flake8-return
"RUF", # Ruff-specific
"SIM", # flake8-simplify
"T20", # flake8-print
"UP", # pyupgrade
"YTT", # flake8-2020
"EXE", # flake8-executable
"NPY", # NumPy specific rules
"PD", # pandas-vet
]
ignore = [
"PLR09", # Too many <...>
"PLR2004", # Magic value used in comparison
"ISC001", # Conflicts with formatter
"G004", # Logging statement with f-string
"EM102", # Exception must not use an f-string
]
isort.required-imports = ["from __future__ import annotations"]
# Uncomment if using a _compat.typing backport
# typing-modules = ["ome2024_ngff_challenge._compat.typing"]
[tool.ruff.lint.per-file-ignores]
"tests/**" = ["T20"]
"noxfile.py" = ["T20"]
[tool.pylint]
py-version = "3.10"
generated-members = "tensorstore.*"
ignore-paths = [".*/_version.py"]
reports.output-format = "colorized"
similarities.ignore-imports = "yes"
messages_control.disable = [
"design",
"fixme",
"line-too-long",
"missing-module-docstring",
"missing-function-docstring",
"wrong-import-position",
# Added to get release out
"broad-exception-caught",
"broad-exception-raised",
"consider-using-f-string",
"consider-using-generator",
"logging-fstring-interpolation",
"missing-class-docstring",
"no-member",
"no-value-for-parameter",
"super-init-not-called",
"unsupported-assignment-operation",
]