sty: ruff format [ignore-rev]

Follow-up with ruff check --select ISC001 --fix

Author: effigies

docker/fetch_templates.py

@@ -19,11 +19,11 @@ def fetch_MNI2009():
     tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz
     tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-01_label-brain_probseg.nii.gz
     """
-    template = "MNI152NLin2009cAsym"
+    template = 'MNI152NLin2009cAsym'
 
-    tf.get(template, resolution=2, desc="brain", suffix="mask")
-    tf.get(template, resolution=2, desc="fMRIPrep", suffix="boldref")
-    tf.get(template, resolution=1, label="brain", suffix="probseg")
+    tf.get(template, resolution=2, desc='brain', suffix='mask')
+    tf.get(template, resolution=2, desc='fMRIPrep', suffix='boldref')
+    tf.get(template, resolution=1, label='brain', suffix='probseg')
 
 
 def fetch_MNI152Lin():
@@ -33,10 +33,10 @@ def fetch_MNI152Lin():
     tpl-MNI152Lin/tpl-MNI152Lin_res-02_T1w.nii.gz
     tpl-MNI152Lin/tpl-MNI152Lin_res-02_desc-brain_mask.nii.gz
     """
-    template = "MNI152Lin"
+    template = 'MNI152Lin'
 
-    tf.get(template, resolution=2, desc=None, suffix="T1w")
-    tf.get(template, resolution=2, desc="brain", suffix="mask")
+    tf.get(template, resolution=2, desc=None, suffix='T1w')
+    tf.get(template, resolution=2, desc='brain', suffix='mask')
 
 
 def fetch_OASIS():
@@ -50,13 +50,13 @@ def fetch_OASIS():
     tpl-OASIS30ANTs/tpl-OASIS30ANTs_res-01_desc-brain_mask.nii.gz
     tpl-OASIS30ANTs/tpl-OASIS30ANTs_res-01_desc-BrainCerebellumExtraction_mask.nii.gz
     """
-    template = "OASIS30ANTs"
+    template = 'OASIS30ANTs'
 
-    tf.get(template, resolution=1, desc="4", suffix="dseg")
-    tf.get(template, resolution=1, desc=None, suffix="T1w")
-    tf.get(template, resolution=1, label="brain", suffix="mask")
-    tf.get(template, resolution=1, desc="BrainCerebellumExtraction", suffix="mask")
-    tf.get(template, resolution=1, label="brain", suffix="probseg")
+    tf.get(template, resolution=1, desc='4', suffix='dseg')
+    tf.get(template, resolution=1, desc=None, suffix='T1w')
+    tf.get(template, resolution=1, label='brain', suffix='mask')
+    tf.get(template, resolution=1, desc='BrainCerebellumExtraction', suffix='mask')
+    tf.get(template, resolution=1, label='brain', suffix='probseg')
 
 
 def fetch_fsaverage():
@@ -70,10 +70,10 @@ def fetch_fsaverage():
     tpl-fsaverage/tpl-fsaverage_hemi-L_den-164k_midthickness.surf.gii
     tpl-fsaverage/tpl-fsaverage_hemi-R_den-164k_midthickness.surf.gii
     """
-    template = "fsaverage"
+    template = 'fsaverage'
 
-    tf.get(template, density="164k", desc="std", suffix="sphere")
-    tf.get(template, density="164k", suffix="midthickness")
+    tf.get(template, density='164k', desc='std', suffix='sphere')
+    tf.get(template, density='164k', suffix='midthickness')
 
 
 def fetch_fsLR():
@@ -89,7 +89,7 @@ def fetch_fsLR():
     tpl-fsLR/tpl-fsLR_space-fsaverage_hemi-L_den-32k_sphere.surf.gii
     tpl-fsLR/tpl-fsLR_space-fsaverage_hemi-R_den-32k_sphere.surf.gii
     """
-    tf.get("fsLR", density="32k")
+    tf.get('fsLR', density='32k')
 
 
 def fetch_all():
@@ -100,21 +100,21 @@ def fetch_all():
     fetch_fsLR()
 
 
-if __name__ == "__main__":
+if __name__ == '__main__':
     parser = argparse.ArgumentParser(
-        description="Helper script for pre-caching required templates to run fMRIPrep",
+        description='Helper script for pre-caching required templates to run fMRIPrep',
     )
     parser.add_argument(
-        "--tf-dir",
+        '--tf-dir',
         type=os.path.abspath,
-        help="Directory to save templates in. If not provided, templates will be saved to"
-        " `${HOME}/.cache/templateflow`.",
+        help='Directory to save templates in. If not provided, templates will be saved to'
+        ' `${HOME}/.cache/templateflow`.',
     )
     opts = parser.parse_args()
 
     # set envvar (if necessary) prior to templateflow import
     if opts.tf_dir is not None:
-        os.environ["TEMPLATEFLOW_HOME"] = opts.tf_dir
+        os.environ['TEMPLATEFLOW_HOME'] = opts.tf_dir
 
     import templateflow.api as tf
 

docs/conf.py

@@ -21,12 +21,12 @@
 # Prevent etelemetry from loading at all
 # Could set NO_ET environment variable, but why?
 MOCKS = [
-    "etelemetry",
-    "matplotlib",
-    "matplotlib.pyplot",
-    "matplotlib.cm",
-    "matplotlib.colors",
-    "matplotlib.colorbar",
+    'etelemetry',
+    'matplotlib',
+    'matplotlib.pyplot',
+    'matplotlib.cm',
+    'matplotlib.colors',
+    'matplotlib.colorbar',
 ]
 sys.modules.update({mod: mock.Mock() for mod in MOCKS})
 
@@ -38,12 +38,12 @@
 
 from niworkflows import __version__, __copyright__, __packagename__
 
-sys.path.append(os.path.abspath("sphinxext"))
+sys.path.append(os.path.abspath('sphinxext'))
 
 # -- Project information -----------------------------------------------------
 project = __packagename__
 copyright = __copyright__
-author = "The NiPreps Developers"
+author = 'The NiPreps Developers'
 
 # The short X.Y version
 version = Version(__version__).base_version
@@ -53,30 +53,30 @@
 
 # -- General configuration ---------------------------------------------------
 extensions = [
-    "sphinx.ext.autodoc",
-    "sphinx.ext.coverage",
-    "sphinx.ext.doctest",
-    "sphinx.ext.githubpages",
-    "sphinx.ext.ifconfig",
-    "sphinx.ext.intersphinx",
-    "sphinx.ext.mathjax",
-    "sphinx.ext.viewcode",
-    "sphinxcontrib.apidoc",
-    "nipype.sphinxext.apidoc",
-    "nipype.sphinxext.plot_workflow",
+    'sphinx.ext.autodoc',
+    'sphinx.ext.coverage',
+    'sphinx.ext.doctest',
+    'sphinx.ext.githubpages',
+    'sphinx.ext.ifconfig',
+    'sphinx.ext.intersphinx',
+    'sphinx.ext.mathjax',
+    'sphinx.ext.viewcode',
+    'sphinxcontrib.apidoc',
+    'nipype.sphinxext.apidoc',
+    'nipype.sphinxext.plot_workflow',
 ]
 
 autodoc_mock_imports = [
-    "nilearn",
-    "nitime",
-    "numpy",
-    "pandas",
-    "seaborn",
-    "skimage",
-    "svgutils",
-    "templateflow",
-    "transforms3d",
-    "yaml",
+    'nilearn',
+    'nitime',
+    'numpy',
+    'pandas',
+    'seaborn',
+    'skimage',
+    'svgutils',
+    'templateflow',
+    'transforms3d',
+    'yaml',
 ]
 
 # Accept custom section names to be parsed for numpy-style docstrings
@@ -85,24 +85,24 @@
 # https://github.com/sphinx-contrib/napoleon/pull/10 is merged.
 napoleon_use_param = False
 napoleon_custom_sections = [
-    ("Inputs", "Parameters"),
-    ("Outputs", "Parameters"),
-    ("Attributes", "Parameters"),
-    ("Mandatory Inputs", "Parameters"),
-    ("Optional Inputs", "Parameters"),
+    ('Inputs', 'Parameters'),
+    ('Outputs', 'Parameters'),
+    ('Attributes', 'Parameters'),
+    ('Mandatory Inputs', 'Parameters'),
+    ('Optional Inputs', 'Parameters'),
 ]
 
 # Add any paths that contain templates here, relative to this directory.
-templates_path = ["_templates"]
+templates_path = ['_templates']
 
 # The suffix(es) of source filenames.
 # You can specify multiple suffix as a list of string:
 #
 # source_suffix = ['.rst', '.md']
-source_suffix = ".rst"
+source_suffix = '.rst'
 
 # The master toctree document.
-master_doc = "index"
+master_doc = 'index'
 
 # The language for content autogenerated by Sphinx. Refer to documentation
 # for a list of supported languages.
@@ -115,11 +115,11 @@
 # directories to ignore when looking for source files.
 # This pattern also affects html_static_path and html_extra_path.
 exclude_patterns = [
-    "_build",
-    "Thumbs.db",
-    ".DS_Store",
-    "api/modules.rst",
-    "api/niworkflows.rst",
+    '_build',
+    'Thumbs.db',
+    '.DS_Store',
+    'api/modules.rst',
+    'api/niworkflows.rst',
 ]
 
 # The name of the Pygments (syntax highlighting) style to use.
@@ -131,7 +131,7 @@
 # The theme to use for HTML and HTML Help pages.  See the documentation for
 # a list of builtin themes.
 #
-html_theme = "furo"
+html_theme = 'furo'
 
 # Theme options are theme-specific and customize the look and feel of a theme
 # further.  For a list of options available for each theme, see the
@@ -142,12 +142,12 @@
 # Add any paths that contain custom static files (such as style sheets) here,
 # relative to this directory. They are copied after the builtin static files,
 # so a file named "default.css" will overwrite the builtin "default.css".
-html_static_path = ["_static"]
+html_static_path = ['_static']
 html_js_files = [
-    "js/version-switch.js",
+    'js/version-switch.js',
 ]
 html_css_files = [
-    "css/version-switch.css",
+    'css/version-switch.css',
 ]
 
 # Custom sidebar templates, must be a dictionary that maps document names
@@ -164,7 +164,7 @@
 # -- Options for HTMLHelp output ---------------------------------------------
 
 # Output file base name for HTML help builder.
-htmlhelp_basename = "niworkflowsdoc"
+htmlhelp_basename = 'niworkflowsdoc'
 
 
 # -- Options for LaTeX output ------------------------------------------------
@@ -190,10 +190,10 @@
 latex_documents = [
     (
         master_doc,
-        "niworkflows.tex",
-        "NiWorkflows Documentation",
-        "The NiPreps Developers",
-        "manual",
+        'niworkflows.tex',
+        'NiWorkflows Documentation',
+        'The NiPreps Developers',
+        'manual',
     ),
 ]
 
@@ -202,7 +202,7 @@
 
 # One entry per manual page. List of tuples
 # (source start file, name, description, authors, manual section).
-man_pages = [(master_doc, "niworkflows", "NiWorkflows Documentation", [author], 1)]
+man_pages = [(master_doc, 'niworkflows', 'NiWorkflows Documentation', [author], 1)]
 
 
 # -- Options for Texinfo output ----------------------------------------------
@@ -213,12 +213,12 @@
 texinfo_documents = [
     (
         master_doc,
-        "niworkflows",
-        "NiWorkflows Documentation",
+        'niworkflows',
+        'NiWorkflows Documentation',
         author,
-        "NiWorkflows",
-        "One line description of project.",
-        "Miscellaneous",
+        'NiWorkflows',
+        'One line description of project.',
+        'Miscellaneous',
     ),
 ]
 
@@ -238,32 +238,32 @@
 # epub_uid = ''
 
 # A list of files that should not be packed into the epub file.
-epub_exclude_files = ["search.html"]
+epub_exclude_files = ['search.html']
 
 
 # -- Extension configuration -------------------------------------------------
 
-apidoc_module_dir = "../niworkflows"
-apidoc_output_dir = "api"
-apidoc_excluded_paths = ["conftest.py", "*/tests/*", "tests/*", "testing.py"]
+apidoc_module_dir = '../niworkflows'
+apidoc_output_dir = 'api'
+apidoc_excluded_paths = ['conftest.py', '*/tests/*', 'tests/*', 'testing.py']
 apidoc_separate_modules = True
-apidoc_extra_args = ["--module-first", "-d 1", "-T"]
+apidoc_extra_args = ['--module-first', '-d 1', '-T']
 
 # -- Options for intersphinx extension ---------------------------------------
 
 # Example configuration for intersphinx: refer to the Python standard library.
 intersphinx_mapping = {
-    "bids": ("https://bids-standard.github.io/pybids/", None),
-    "matplotlib": ("https://matplotlib.org/stable", None),
-    "nibabel": ("https://nipy.org/nibabel/", None),
-    "nipype": ("https://nipype.readthedocs.io/en/latest/", None),
-    "numpy": ("https://numpy.org/doc/stable/", None),
-    "pandas": ("https://pandas.pydata.org/pandas-docs/dev", None),
-    "python": ("https://docs.python.org/3/", None),
-    "scipy": ("https://docs.scipy.org/doc/scipy/", None),
-    "smriprep": ("https://www.nipreps.org/smriprep/", None),
-    "surfplot": ("https://surfplot.readthedocs.io/en/latest/", None),
-    "templateflow": ("https://www.templateflow.org/python-client", None),
+    'bids': ('https://bids-standard.github.io/pybids/', None),
+    'matplotlib': ('https://matplotlib.org/stable', None),
+    'nibabel': ('https://nipy.org/nibabel/', None),
+    'nipype': ('https://nipype.readthedocs.io/en/latest/', None),
+    'numpy': ('https://numpy.org/doc/stable/', None),
+    'pandas': ('https://pandas.pydata.org/pandas-docs/dev', None),
+    'python': ('https://docs.python.org/3/', None),
+    'scipy': ('https://docs.scipy.org/doc/scipy/', None),
+    'smriprep': ('https://www.nipreps.org/smriprep/', None),
+    'surfplot': ('https://surfplot.readthedocs.io/en/latest/', None),
+    'templateflow': ('https://www.templateflow.org/python-client', None),
 }
 
 # -- Options for versioning extension ----------------------------------------