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pyproject.toml
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pyproject.toml
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[build-system]
requires = ["setuptools>=64"]
build-backend = "setuptools.build_meta"
[project]
name = "neuroconv"
version = "0.6.2"
description = "Convert data from proprietary formats to NWB format."
readme = "README.md"
authors = [
{ name = "Cody Baker" },
{ name = "Szonja Weigl" },
{ name = "Heberto Mayorquin" },
{ name = "Paul Adkisson" },
{ name = "Luiz Tauffer" },
{ name = "Ben Dichter", email = "[email protected]" },
]
urls = { "Homepage" = "https://github.com/catalystneuro/neuroconv" }
license = { file = "license.txt" }
keywords = ["nwb"]
classifiers = [
"Intended Audience :: Science/Research",
"Programming Language :: Python :: 3.9",
"Programming Language :: Python :: 3.10",
"Programming Language :: Python :: 3.11",
"Programming Language :: Python :: 3.12",
"Operating System :: POSIX :: Linux",
"Operating System :: Microsoft :: Windows",
"Operating System :: MacOS",
"License :: OSI Approved :: BSD License",
]
requires-python = ">=3.9"
dependencies = [
"numpy>=1.22.0, <2.0.0; python_version <= '3.11'",
"numpy>=1.26.0, <2.0.0; python_version >= '3.12'",
"jsonschema>=3.2.0",
"PyYAML>=5.4",
"scipy>=1.4.1",
"h5py>=3.9.0",
"hdmf>=3.13.0",
"hdmf_zarr>=0.7.0",
"pynwb>=2.7.0",
"pydantic>=2.0.0",
"typing_extensions>=4.1.0",
"psutil>=5.8.0",
"tqdm>=4.60.0",
"pandas",
"parse>=1.20.0",
"click",
"docstring-parser",
"packaging" # Issue 903
]
[project.optional-dependencies]
test = [
"pytest",
"pytest-cov",
"ndx-events>=0.2.0", # for special tests to ensure load_namespaces is set to allow NWBFile load at all times
"parameterized>=0.8.1",
"ndx-miniscope",
"spikeinterface[qualitymetrics]>=0.101.0",
"zarr<2.18.0", # Error with Blosc (read-only during decode) in numcodecs on May 7; check later if resolved
"pytest-xdist"
]
docs = [
"Jinja2<3.1",
"Sphinx==5.1.1",
"sphinx_rtd_theme==1.0.0",
"readthedocs-sphinx-search==0.1.2",
"sphinx-toggleprompt==0.2.0",
"sphinx-copybutton==0.5.0",
"roiextractors", # Needed for the API documentation
"spikeinterface>=0.101.0", # Needed for the API documentation
"pydata_sphinx_theme==0.12.0"
]
dandi = ["dandi>=0.58.1"]
compressors = ["hdf5plugin"]
aws = ["boto3"]
[tool.setuptools.packages.find]
where = ["src"]
[project.scripts]
neuroconv = "neuroconv.tools.yaml_conversion_specification._yaml_conversion_specification:run_conversion_from_yaml_cli"
[tool.pytest.ini_options]
minversion = "6.0"
addopts = "-ra --doctest-glob='*.rst'"
testpaths = ["docs/conversion_examples_gallery/", "tests"]
doctest_optionflags = "ELLIPSIS"
[tool.black]
line-length = 120
target-version = ['py38', 'py39', 'py310']
include = '\.pyi?$'
extend-exclude = '''
/(
\.toml
|\.yml
|\.txt
|\.sh
|\.git
|\.ini
| \.hg
| \.mypy_cache
| \.tox
| \.venv
| build
| dist
)/
'''
[tool.ruff]
[tool.ruff.lint]
select = [
"F401", # Unused import
"I", # All isort rules
"D101", # Missing docstring in public class
"D103", # Missing docstring in public function
]
fixable = ["ALL"]
[tool.ruff.lint.per-file-ignores]
"**__init__.py" = ["F401", "I"]
"tests/**" = ["D"] # We are not enforcing docstrings in tests
"src/neuroconv/tools/testing/data_interface_mixins.py" = ["D"] # We are not enforcing docstrings in the interface mixings
"docs/conf.py" = ["D"] # We are not enforcing docstrings in the conf.py file
"docs/conversion_examples_gallery/conftest.py" = ["D"] # We are not enforcing docstrings in the conversion examples
[tool.ruff.lint.isort]
relative-imports-order = "closest-to-furthest"
known-first-party = ["neuroconv"]
[tool.codespell]
skip = '.git*,*.pdf,*.css'
check-hidden = true
ignore-words-list = 'assertin'