[MAINT] pre-commit run

.github/workflows/release.yml

@@ -22,6 +22,3 @@ jobs:
           python -m build
       - name: Publish package distributions to PyPI
         uses: pypa/gh-action-pypi-publish@release/v1
-
-
-

.gitignore

@@ -27,4 +27,4 @@ htmlcov/*
 .pylint_cache
 
 # venv
-venv
+venv

.pre-commit-config.yaml

@@ -24,3 +24,4 @@ repos:
           - flake8-comprehensions
           - pep8-naming
           - flake8-black
+          - flake8-pyproject

README.md

@@ -42,4 +42,4 @@ directory (do not copy it to Python's site-packages directory), run
 
     pip install -e .
 
-Further details can be found in orange-spectroscopy [CONTRIBUTING.md](https://github.com/Quasars/orange-spectroscopy/blob/master/CONTRIBUTING.md)
+Further details can be found in orange-spectroscopy [CONTRIBUTING.md](https://github.com/Quasars/orange-spectroscopy/blob/master/CONTRIBUTING.md)

README.pypi

@@ -1,4 +1,4 @@
 orange-spectroscopy-prototypes
 ==============================
 
-Prototypes for orange-spectroscopy Orange add-on for spectral data analysis.
+Prototypes for orange-spectroscopy Orange add-on for spectral data analysis.

doc/conf.py

@@ -1,5 +1,4 @@
 #!/usr/bin/env python3
-# -*- coding: utf-8 -*-
 #
 # Orange3 Example Add-on documentation build configuration file, created by
 # sphinx-quickstart on Fri Aug 21 11:28:31 2015.
@@ -13,19 +12,19 @@
 # All configuration values have a default; values that are commented out
 # serve to show the default.
 
-import sys
-import os
-import shlex
+# import sys
+# import os
+# import shlex
 
 # If extensions (or modules to document with autodoc) are in another directory,
 # add these directories to sys.path here. If the directory is relative to the
 # documentation root, use os.path.abspath to make it absolute, like shown here.
-#sys.path.insert(0, os.path.abspath('.'))
+# sys.path.insert(0, os.path.abspath('.'))
 
 # -- General configuration ------------------------------------------------
 
 # If your documentation needs a minimal Sphinx version, state it here.
-#needs_sphinx = '1.0'
+# needs_sphinx = '1.0'
 
 # Add any Sphinx extension module names here, as strings. They can be
 # extensions coming with Sphinx (named 'sphinx.ext.*') or your custom
@@ -44,7 +43,7 @@
 source_parsers = {".md": "recommonmark.parser.CommonMarkParser"}
 
 # The encoding of source files.
-#source_encoding = 'utf-8-sig'
+# source_encoding = 'utf-8-sig'
 
 # The master toctree document.
 master_doc = 'index'
@@ -72,37 +71,37 @@
 
 # There are two options for replacing |today|: either, you set today to some
 # non-false value, then it is used:
-#today = ''
+# today = ''
 # Else, today_fmt is used as the format for a strftime call.
-#today_fmt = '%B %d, %Y'
+# today_fmt = '%B %d, %Y'
 
 # List of patterns, relative to source directory, that match files and
 # directories to ignore when looking for source files.
 exclude_patterns = ['build']
 
 # The reST default role (used for this markup: `text`) to use for all
 # documents.
-#default_role = None
+# default_role = None
 
 # If true, '()' will be appended to :func: etc. cross-reference text.
-#add_function_parentheses = True
+# add_function_parentheses = True
 
 # If true, the current module name will be prepended to all description
 # unit titles (such as .. function::).
-#add_module_names = True
+# add_module_names = True
 
 # If true, sectionauthor and moduleauthor directives will be shown in the
 # output. They are ignored by default.
-#show_authors = False
+# show_authors = False
 
 # The name of the Pygments (syntax highlighting) style to use.
 pygments_style = 'sphinx'
 
 # A list of ignored prefixes for module index sorting.
-#modindex_common_prefix = []
+# modindex_common_prefix = []
 
 # If true, keep warnings as "system message" paragraphs in the built documents.
-#keep_warnings = False
+# keep_warnings = False
 
 # If true, `todo` and `todoList` produce output, else they produce nothing.
 todo_include_todos = False
@@ -117,26 +116,26 @@
 # 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
 # documentation.
-#html_theme_options = {}
+# html_theme_options = {}
 
 # Add any paths that contain custom themes here, relative to this directory.
-#html_theme_path = []
+# html_theme_path = []
 
 # The name for this set of Sphinx documents.  If None, it defaults to
 # "<project> v<release> documentation".
-#html_title = None
+# html_title = None
 
 # A shorter title for the navigation bar.  Default is the same as html_title.
-#html_short_title = None
+# html_short_title = None
 
 # The name of an image file (relative to this directory) to place at the top
 # of the sidebar.
-#html_logo = None
+# html_logo = None
 
 # The name of an image file (within the static path) to use as favicon of the
 # docs.  This file should be a Windows icon file (.ico) being 16x16 or 32x32
 # pixels large.
-#html_favicon = None
+# html_favicon = None
 
 # 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,
@@ -146,122 +145,129 @@
 # Add any extra paths that contain custom files (such as robots.txt or
 # .htaccess) here, relative to this directory. These files are copied
 # directly to the root of the documentation.
-#html_extra_path = []
+# html_extra_path = []
 
 # If not '', a 'Last updated on:' timestamp is inserted at every page bottom,
 # using the given strftime format.
-#html_last_updated_fmt = '%b %d, %Y'
+# html_last_updated_fmt = '%b %d, %Y'
 
 # If true, SmartyPants will be used to convert quotes and dashes to
 # typographically correct entities.
-#html_use_smartypants = True
+# html_use_smartypants = True
 
 # Custom sidebar templates, maps document names to template names.
-#html_sidebars = {}
+# html_sidebars = {}
 
 # Additional templates that should be rendered to pages, maps page names to
 # template names.
-#html_additional_pages = {}
+# html_additional_pages = {}
 
 # If false, no module index is generated.
-#html_domain_indices = True
+# html_domain_indices = True
 
 # If false, no index is generated.
-#html_use_index = True
+# html_use_index = True
 
 # If true, the index is split into individual pages for each letter.
-#html_split_index = False
+# html_split_index = False
 
 # If true, links to the reST sources are added to the pages.
-#html_show_sourcelink = True
+# html_show_sourcelink = True
 
 # If true, "Created using Sphinx" is shown in the HTML footer. Default is True.
-#html_show_sphinx = True
+# html_show_sphinx = True
 
 # If true, "(C) Copyright ..." is shown in the HTML footer. Default is True.
-#html_show_copyright = True
+# html_show_copyright = True
 
 # If true, an OpenSearch description file will be output, and all pages will
 # contain a <link> tag referring to it.  The value of this option must be the
 # base URL from which the finished HTML is served.
-#html_use_opensearch = ''
+# html_use_opensearch = ''
 
 # This is the file name suffix for HTML files (e.g. ".xhtml").
-#html_file_suffix = None
+# html_file_suffix = None
 
 # Language to be used for generating the HTML full-text search index.
 # Sphinx supports the following languages:
 #   'da', 'de', 'en', 'es', 'fi', 'fr', 'h', 'it', 'ja'
 #   'nl', 'no', 'pt', 'ro', 'r', 'sv', 'tr'
-#html_search_language = 'en'
+# html_search_language = 'en'
 
 # A dictionary with options for the search language support, empty by default.
 # Now only 'ja' uses this config value
-#html_search_options = {'type': 'default'}
+# html_search_options = {'type': 'default'}
 
 # The name of a javascript file (relative to the configuration directory) that
 # implements a search results scorer. If empty, the default will be used.
-#html_search_scorer = 'scorer.js'
+# html_search_scorer = 'scorer.js'
 
 # Output file base name for HTML help builder.
 htmlhelp_basename = 'InfraredOrangeAdd-on'
 
 # -- Options for LaTeX output ---------------------------------------------
 
 latex_elements = {
-# 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',
+    # 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',
 }
 
 # Grouping the document tree into LaTeX files. List of tuples
 # (source start file, target name, title,
 #  author, documentclass [howto, manual, or own class]).
 latex_documents = [
-  (master_doc, 'InfraredOrangeAdd-on', 'Infrared Orange Add-on Documentation',
-   'Biolab', 'manual'),
+    (
+        master_doc,
+        'InfraredOrangeAdd-on',
+        'Infrared Orange Add-on Documentation',
+        'Biolab',
+        'manual',
+    ),
 ]
 
 # The name of an image file (relative to this directory) to place at the top of
 # the title page.
-#latex_logo = None
+# latex_logo = None
 
 # For "manual" documents, if this is true, then toplevel headings are parts,
 # not chapters.
-#latex_use_parts = False
+# latex_use_parts = False
 
 # If true, show page references after internal links.
-#latex_show_pagerefs = False
+# latex_show_pagerefs = False
 
 # If true, show URL addresses after external links.
-#latex_show_urls = False
+# latex_show_urls = False
 
 # Documents to append as an appendix to all manuals.
-#latex_appendices = []
+# latex_appendices = []
 
 # If false, no module index is generated.
-#latex_domain_indices = True
+# latex_domain_indices = True
 
 
 # -- 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, 'infraredorangeadd-on', 'Infrared Orange Add-on Documentation',
-     [author], 1)
+    (
+        master_doc,
+        'infraredorangeadd-on',
+        'Infrared Orange Add-on Documentation',
+        [author],
+        1,
+    )
 ]
 
 # If true, show URL addresses after external links.
-#man_show_urls = False
+# man_show_urls = False
 
 
 # -- Options for Texinfo output -------------------------------------------
@@ -270,19 +276,25 @@
 # (source start file, target name, title, author,
 #  dir menu entry, description, category)
 texinfo_documents = [
-  (master_doc, 'Infrared Orange Add-on', 'Infrared Orange Add-on Documentation',
-   author, 'InfraredOrangeAdd-on', 'Spectral analysis with Orange.',
-   'Miscellaneous'),
+    (
+        master_doc,
+        'Infrared Orange Add-on',
+        'Infrared Orange Add-on Documentation',
+        author,
+        'InfraredOrangeAdd-on',
+        'Spectral analysis with Orange.',
+        'Miscellaneous',
+    ),
 ]
 
 # Documents to append as an appendix to all manuals.
-#texinfo_appendices = []
+# texinfo_appendices = []
 
 # If false, no module index is generated.
-#texinfo_domain_indices = True
+# texinfo_domain_indices = True
 
 # How to display URL addresses: 'footnote', 'no', or 'inline'.
-#texinfo_show_urls = 'footnote'
+# texinfo_show_urls = 'footnote'
 
 # If true, do not generate a @detailmenu in the "Top" node's menu.
-#texinfo_no_detailmenu = False
+# texinfo_no_detailmenu = False

doc/index.rst

@@ -20,4 +20,3 @@ Indices and tables
 * :ref:`genindex`
 * :ref:`modindex`
 * :ref:`search`
-

orangecontrib/__init__.py

@@ -1 +0,0 @@
-

orangecontrib/protospec/__init__.py

@@ -1,3 +1,2 @@
-import Orange.data
-import os.path
-from . import data #register file formats
+# Register file formats:
+from . import data  # noqa: F401

orangecontrib/protospec/tests/__init__.py

@@ -1,6 +1,7 @@
 import os
 import unittest
 
+
 def suite(loader=None, pattern='test*.py'):
     test_dir = os.path.dirname(__file__)
     if loader is None:

orangecontrib/protospec/widgets/__init__.py

@@ -1,4 +1,5 @@
 import sysconfig
+
 # Category metadata.
 
 # Category icon show in the menu
@@ -15,15 +16,16 @@
     # make htmlhelp
     # inside doc folder
     ("{DEVELOP_ROOT}/doc/build/htmlhelp/index.html", None),
-
     # Documentation included in wheel
     # Correct DATA_FILES entry is needed in setup.py and documentation has to be built
     # before the wheel is created.
     ("{}/help/orange-spectroscopy/index.html".format(sysconfig.get_path("data")), None),
-
     # Online documentation url, used when the local documentation is not available.
     # Url should point to a page with a section Widgets. This section should
     # includes links to documentation pages of each widget. Matching is
     # performed by comparing link caption to widget name.
-    ("http://orange-spectroscopy.readthedocs.io/en/latest/", "")  # FIXME upload documentation
+    (
+        "http://orange-spectroscopy.readthedocs.io/en/latest/",
+        "",
+    ),  # FIXME upload documentation
 )