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pyproject.toml
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pyproject.toml
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[build-system]
build-backend = "setuptools.build_meta"
requires = ["setuptools>=64", "setuptools_scm[toml]>=8", "wheel"]
[project]
classifiers = [
'Intended Audience :: Developers',
'Intended Audience :: Science/Research',
'License :: OSI Approved :: BSD License',
'Natural Language :: English',
'Operating System :: MacOS',
'Operating System :: Microsoft :: Windows',
'Operating System :: Unix',
'Programming Language :: Python :: 3 :: Only',
'Programming Language :: Python :: 3.10',
'Programming Language :: Python :: 3.11',
'Programming Language :: Python :: 3.12',
'Topic :: Scientific/Engineering',
'Topic :: Software Development',
]
dependencies = [
'mne >= 1.6',
'netCDF4 >= 1.6.5',
'numpy >= 1.21',
'pandas >= 1.3.2',
'scikit-learn >= 1.2',
'scipy >= 1.4.0',
'tqdm',
'xarray >= 2023.11.0',
]
description = 'mne-connectivity: A module for connectivity data analysis with MNE.'
dynamic = ["version"]
keywords = [
'connectivity',
'eeg',
'ieeg',
'meg',
'neuroscience',
]
license = {file = 'LICENSE'}
maintainers = [
{email = '[email protected]', name = 'Adam Li'},
]
name = 'mne-connectivity'
readme = {content-type = "text/x-rst", file = 'README.rst'}
requires-python = '>=3.10'
[project.optional-dependencies]
all = [
'mne-connectivity[build]',
'mne-connectivity[doc]',
'mne-connectivity[gui]',
'mne-connectivity[style]',
'mne-connectivity[test]',
'PyQt6',
]
build = [
'build',
'twine',
]
doc = [
'memory-profiler',
'mne-bids',
'mne-connectivity[gui]',
'nibabel',
'nilearn',
'numpydoc',
'pooch',
'pydata-sphinx-theme>=0.14.1',
'PyQt6',
'sphinx!=8.1.0',
'sphinx-copybutton',
'sphinx-design',
'sphinx-gallery>=0.18.0',
'sphinx-issues',
'sphinx_autodoc_typehints',
'sphinxcontrib-bibtex',
]
full = [
'mne-connectivity[all]',
]
gui = [
'h5netcdf',
'matplotlib',
'mne-qt-browser>=0.6.0',
'pyvista',
'pyvistaqt',
'qtpy',
'sip',
'vtk',
]
style = [
"pre-commit",
'codespell',
'isort',
'pydocstyle',
'pydocstyle[toml]',
'rstcheck',
'ruff',
'toml-sort',
'yamllint',
]
test = [
"pytest-timeout",
'joblib',
'mne-bids',
'mne-connectivity[gui]',
'pandas',
'pymatreader',
'pytest',
'pytest-cov',
'statsmodels',
]
[project.urls]
documentation = 'https://mne.tools/mne-connectivity'
source = 'https://github.com/mne-tools/mne-connectivity'
tracker = 'https://github.com/mne-tools/mne-connectivity/issues'
[tool.codespell]
builtin = "clear,rare,informal,names,usage"
ignore-words = ".codespellignore"
skip = "doc/references.bib"
[tool.coverage.report]
exclude_lines = [
'if __name__ == .__main__.:',
'if TYPE_CHECKING:',
'pragma: no cover',
]
precision = 2
[tool.coverage.run]
branch = true
cover_pylib = false
omit = [
'**/__init__.py',
'**/mne_connectivity/conftest.py',
'**/tests/**',
]
[tool.isort]
extend_skip_glob = [
'doc/*',
'examples/*',
'setup.py',
]
line_length = 88
multi_line_output = 3
py_version = 39
[tool.mypy]
ignore_missing_imports = true
no_site_packages = true
[tool.pydocstyle]
add_ignore = 'D100,D104,D107'
convention = 'numpy'
ignore-decorators = '(copy_doc|property|.*setter|.*getter|pyqtSlot|Slot)'
match = '^(?!setup|__init__|test_).*\.py'
match-dir = '^mne_connectivity.*'
[tool.pytest.ini_options]
addopts = '--durations 20 --junit-xml=junit-results.xml -v -rfEXs --tb=short --color=yes'
junit_family = 'xunit2'
minversion = '6.0'
[tool.rstcheck]
ignore_directives = [
"autoclass",
"autofunction",
"automodule",
"autosummary",
"bibliography",
"cssclass",
"currentmodule",
"dropdown",
"footbibliography",
"glossary",
"graphviz",
"grid",
"highlight",
"minigallery",
"rst-class",
"tab-set",
"tabularcolumns",
"toctree",
]
ignore_messages = "^.*(Unknown target name|Undefined substitution referenced)[^`]*$"
ignore_roles = [
"attr",
"class",
"doc",
"eq",
"exc",
"file",
"footcite",
"footcite:t",
"func",
"gh",
"kbd",
"meth",
"mod",
"newcontrib",
"pr",
"py:mod",
"ref",
"samp",
"term",
]
report_level = "WARNING"
[tool.ruff]
extend-exclude = [
'benchmarks',
'doc',
'setup.py',
]
line-length = 88
[tool.ruff.lint]
ignore = [
"D100", # Missing docstring in public module
"D104", # Missing docstring in public package
"D413", # Missing blank line after last section
"UP008", # TODO: Use `super()`
"UP031", # TODO: Use format specifiers
]
select = ["A", "B006", "D", "E", "F", "I", "UP", "W"]
[tool.ruff.lint.per-file-ignores]
'__init__.py' = ['F401']
'examples/*.py' = ["D205"]
'mne_connectivity/base.py' = ["D101", "D102", "D105"]
[tool.ruff.lint.pydocstyle]
convention = "numpy"
ignore-decorators = [
"mne.utils.copy_doc",
"mne.utils.copy_function_doc_to_method_doc",
"mne.utils.deprecated",
"property",
"setter",
]
[tool.setuptools]
include-package-data = true
[tool.setuptools.packages.find]
exclude = ['mne_connectivity*tests']
include = ['mne_connectivity*']
[tool.setuptools_scm]
version_scheme = "release-branch-semver"
[tool.tomlsort]
all = true
ignore_case = true
trailing_comma_inline_array = true