Skip to content

Commit

Permalink
[pre-commit.ci] auto fixes from pre-commit.com hooks
Browse files Browse the repository at this point in the history 
for more information, see https://pre-commit.ci
  • Loading branch information
@pre-commit-ci
pre-commit-ci[bot] committed Oct 4, 2024
1 parent ea5ebec commit 4d2d28d
Showing 1 changed file with 86 additions and 87 deletions.
173 changes: 86 additions & 87 deletions pyproject.toml
View file
Original file line number Diff line number Diff line change
@@ -1,156 +1,155 @@
[build-system]
requires = ["hatchling", "hatch-vcs"]
build-backend = "hatchling.build"
requires = ["hatch-vcs", "hatchling"]

[project]
name = "mne-bids"
description = "MNE-BIDS: Organizing MEG, EEG, and iEEG data according to the BIDS specification and facilitating their analysis with MNE-Python"
dynamic = ["version"]
authors = [{name = "The MNE-BIDS developers"}]
maintainers = [
{name = "Stefan Appelhoff", email = "[email protected]"}
]
license = {text = "BSD-3-Clause"}
readme = {file = "README.md", content-type = "text/markdown"}
requires-python = ">=3.10"
keywords = [
"meg",
"eeg",
"ieeg",
"bids",
"brain imaging data structure",
"neuroscience",
"neuroimaging"
]
classifiers = [
"Topic :: Scientific/Engineering",
"Intended Audience :: Science/Research",
"Intended Audience :: Developers",
"Intended Audience :: Science/Research",
"License :: OSI Approved",
"Topic :: Software Development",
"Topic :: Scientific/Engineering",
"Operating System :: MacOS",
"Operating System :: Microsoft :: Windows",
"Operating System :: POSIX :: Linux",
"Operating System :: MacOS",
"Programming Language :: Python",
"Programming Language :: Python :: 3.10",
"Programming Language :: Python :: 3.11",
"Programming Language :: Python :: 3.12"
"Programming Language :: Python :: 3.12",
"Programming Language :: Python",
"Topic :: Scientific/Engineering",
"Topic :: Scientific/Engineering",
"Topic :: Software Development",
]
scripts = {mne_bids = "mne_bids.commands.run:main"}
dependencies = ["mne>=1.6", "numpy>=1.21.2", "scipy>=1.7.1"]
description = "MNE-BIDS: Organizing MEG, EEG, and iEEG data according to the BIDS specification and facilitating their analysis with MNE-Python"
dynamic = ["version"]
keywords = [
"bids",
"brain imaging data structure",
"eeg",
"ieeg",
"meg",
"neuroimaging",
"neuroscience",
]
license = {text = "BSD-3-Clause"}
maintainers = [
{email = "[email protected]", name = "Stefan Appelhoff"},
]
name = "mne-bids"
readme = {content-type = "text/markdown", file = "README.md"}
requires-python = ">=3.10"
scripts = {mne_bids = "mne_bids.commands.run:main"}

[project.optional-dependencies]
# Dependencies for using all mne_bids features
full = [
"nibabel >= 3.2.1",
"pybv >= 0.7.5",
"eeglabio >= 0.0.2",
"pymatreader >= 0.0.30",
"matplotlib >= 3.5.0",
"pandas >= 1.3.2",
"EDFlib-Python >= 1.0.6", # XXX: drop once mne <1.7 is no longer supported
"edfio >= 0.2.1",
"defusedxml" # For reading EGI MFF data and BrainVision montages
]
# Dependencies for running the test infrastructure
test = ["mne_bids[full]", "pytest >= 8", "pytest-cov", "pytest-sugar", "ruff"]
# Dependencies for developer installations
dev = ["mne_bids[test,doc,full]", "pre-commit"]
# Dependencies for building the documentation
doc = [
"intersphinx_registry",
"matplotlib",
"mne-nirs",
"nilearn",
"sphinx>=7.4.7",
"sphinx_gallery",
"sphinx-copybutton",
"pydata-sphinx-theme",
"numpydoc",
"matplotlib",
"pillow",
"openneuro-py",
"pandas",
"mne-nirs",
"pillow",
"pydata-sphinx-theme",
"seaborn",
"openneuro-py"
"sphinx-copybutton",
"sphinx>=7.4.7",
"sphinx_gallery",
]
# Dependencies for developer installations
dev = ["mne_bids[test,doc,full]", "pre-commit"]
# Dependencies for using all mne_bids features
full = [
"defusedxml", # For reading EGI MFF data and BrainVision montages
"edfio >= 0.2.1",
"EDFlib-Python >= 1.0.6", # XXX: drop once mne <1.7 is no longer supported
"eeglabio >= 0.0.2",
"matplotlib >= 3.5.0",
"nibabel >= 3.2.1",
"pandas >= 1.3.2",
"pybv >= 0.7.5",
"pymatreader >= 0.0.30",
]
# Dependencies for running the test infrastructure
test = ["mne_bids[full]", "pytest >= 8", "pytest-cov", "pytest-sugar", "ruff"]

[project.urls]
"Homepage" = "https://mne.tools/mne-bids"
"Download" = "https://pypi.org/project/mne-bids/#files"
"Bug Tracker" = "https://github.com/mne-tools/mne-bids/issues/"
"Documentation" = "https://mne.tools/mne-bids"
"Download" = "https://pypi.org/project/mne-bids/#files"
"Forum" = "https://mne.discourse.group/"
"Homepage" = "https://mne.tools/mne-bids"
"Source Code" = "https://github.com/mne-tools/mne-bids"

[tool.coverage.report]
# Regexes for lines to exclude from consideration
exclude_lines = ["pragma: no cover", "if 0:", "if __name__ == .__main__.:"]
exclude_lines = ["if 0:", "if __name__ == .__main__.:", "pragma: no cover"]

[tool.coverage.run]
omit = ["*tests*"]

[tool.hatch.build]
exclude = [
"/.*",
"**/tests",
"/paper",
"/examples",
"/.*",
"/CITATION.cff",
"/CONTRIBUTING.md",
"/doc",
"/examples",
"/Makefile",
"/CITATION.cff",
"/CONTRIBUTING.md"
"/paper",
]

[tool.hatch.metadata]
allow-direct-references = true # allow specifying URLs in our dependencies

[tool.hatch.version]
source = "vcs"
raw-options = {version_scheme = "release-branch-semver"}
source = "vcs"

[tool.pytest.ini_options]
addopts = """--durations=20 -ra --junit-xml=junit-results.xml --tb=short
--ignore=doc --ignore=examples --ignore=mne_bids/tests/data"""
filterwarnings = [
"error",
"ignore:Estimation of line frequency only supports.*:RuntimeWarning",
"ignore:There are channels without locations (n/a)*:RuntimeWarning",
"ignore:Did not find any electrodes.tsv.*:RuntimeWarning",
"ignore:Did not find any coordsystem.json.*:RuntimeWarning",
"ignore:Did not find any events.tsv.*:RuntimeWarning",
"ignore:No events found or provided.*:RuntimeWarning",
"ignore:Participants file not found for.*:RuntimeWarning",
"ignore:Converting to FIF for anonymization:RuntimeWarning",
"ignore:Converting to BV for anonymization:RuntimeWarning",
"ignore:Converting data files to BrainVision format:RuntimeWarning",
"ignore:Writing of electrodes.tsv is not supported for datatype.*:RuntimeWarning",
"ignore:numpy.ufunc size changed.*:RuntimeWarning",
"ignore:tostring\\(\\) is deprecated.*:DeprecationWarning",
"ignore:MEG ref channel RMSP did not.*:RuntimeWarning",
"ignore:`product` is deprecated as of NumPy.*:DeprecationWarning",
# Python 3.10+ and NumPy 1.22 (and maybe also newer NumPy versions?)
"ignore:.*distutils\\.sysconfig module is deprecated.*:DeprecationWarning",
# NumPy 2.1 bug (probably)
"ignore:__array__ implementation doesn.*:DeprecationWarning",
# numba with NumPy dev
"ignore:`np.MachAr` is deprecated.*:DeprecationWarning",
# old MNE _fake_click
"ignore:The .*_event function was deprecated in Matplotlib.*:",
"ignore:`product` is deprecated as of NumPy.*:DeprecationWarning",
"ignore:Converting data files to BrainVision format:RuntimeWarning",
"ignore:Converting to BV for anonymization:RuntimeWarning",
"ignore:Converting to FIF for anonymization:RuntimeWarning",
"ignore:datetime\\.datetime\\.utcfromtimestamp.* is deprecated and scheduled for removal in a future version.*:DeprecationWarning",
"ignore:Did not find any coordsystem.json.*:RuntimeWarning",
"ignore:Did not find any electrodes.tsv.*:RuntimeWarning",
"ignore:Did not find any events.tsv.*:RuntimeWarning",
"ignore:Estimation of line frequency only supports.*:RuntimeWarning",
# matplotlib
"ignore:Figure.*is non-interactive.*cannot be shown:UserWarning",
# NumPy 2.1 bug (probably)
"ignore:__array__ implementation doesn.*:DeprecationWarning"
"ignore:MEG ref channel RMSP did not.*:RuntimeWarning",
"ignore:No events found or provided.*:RuntimeWarning",
"ignore:numpy.ufunc size changed.*:RuntimeWarning",
"ignore:Participants file not found for.*:RuntimeWarning",
# old MNE _fake_click
"ignore:The .*_event function was deprecated in Matplotlib.*:",
"ignore:There are channels without locations (n/a)*:RuntimeWarning",
"ignore:tostring\\(\\) is deprecated.*:DeprecationWarning",
"ignore:Writing of electrodes.tsv is not supported for datatype.*:RuntimeWarning",
]

[tool.tomlsort]
all = true
ignore_case = true
trailing_comma_inline_array = true


[tool.ruff.lint]
select = ["A", "D", "E", "F", "I", "UP", "W"]
ignore = ["A002"]
exclude = ["__init__.py"]
ignore = ["A002"]
select = ["A", "D", "E", "F", "I", "UP", "W"]

[tool.ruff.lint.pydocstyle]
convention = "numpy"

[tool.tomlsort]
all = true
ignore_case = true
trailing_comma_inline_array = true

0 comments on commit 4d2d28d

Please sign in to comment.