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sjoerdk / idiscore

Deidentification of DICOM images using Attribute Confidentiality Profiles
GNU General Public License v3.0
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Scheduled weekly dependency update for week 07 #133

Closed pyup-bot closed 1 month ago

pyup-bot commented 1 year ago

Update sphinx from 5.2.3 to 6.1.3.

Changelog ### 6.1.3 ``` ===================================== Bugs fixed ---------- * 11116: Reverted to previous Sphinx 5 node copying method * 11117: Reverted changes to parallel image processing from Sphinx 6.1.0 * 11119: Supress ``ValueError`` in the ``linkcheck`` builder ``` ### 6.1.2 ``` ===================================== Bugs fixed ---------- * 11101: LaTeX: ``div.topic_padding`` key of sphinxsetup documented at 5.1.0 was implemented with name ``topic_padding`` * 11099: LaTeX: ``shadowrule`` key of sphinxsetup causes PDF build to crash since Sphinx 5.1.0 * 11096: LaTeX: ``shadowsize`` key of sphinxsetup causes PDF build to crash since Sphinx 5.1.0 * 11095: LaTeX: shadow of :dudir:`topic` and contents_ boxes not in page margin since Sphinx 5.1.0 .. _contents: https://docutils.sourceforge.io/docs/ref/rst/directives.html#table-of-contents * 11100: Fix copying images when running under parallel mode. ``` ### 6.1.1 ``` ===================================== Bugs fixed ---------- * 11091: Fix ``util.nodes.apply_source_workaround`` for ``literal_block`` nodes with no source information in the node or the node's parents. ``` ### 6.1.0 ``` ===================================== Dependencies ------------ * Adopted the `Ruff`_ code linter. .. _Ruff: https://github.com/charliermarsh/ruff Incompatible changes -------------------- * 10979: gettext: Removed support for pluralisation in ``get_translation``. This was unused and complicated other changes to ``sphinx.locale``. Deprecated ---------- * ``sphinx.util`` functions: * Renamed ``sphinx.util.typing.stringify()`` to ``sphinx.util.typing.stringify_annotation()`` * Moved ``sphinx.util.xmlname_checker()`` to ``sphinx.builders.epub3._XML_NAME_PATTERN`` Moved to ``sphinx.util.display``: * ``sphinx.util.status_iterator`` * ``sphinx.util.display_chunk`` * ``sphinx.util.SkipProgressMessage`` * ``sphinx.util.progress_message`` Moved to ``sphinx.util.http_date``: * ``sphinx.util.epoch_to_rfc1123`` * ``sphinx.util.rfc1123_to_epoch`` Moved to ``sphinx.util.exceptions``: * ``sphinx.util.save_traceback`` * ``sphinx.util.format_exception_cut_frames`` Features added -------------- * Cache doctrees in the build environment during the writing phase. * Make all writing phase tasks support parallel execution. * 11072: Use PEP 604 (``X | Y``) display conventions for ``typing.Optional`` and ``typing.Optional`` types within the Python domain and autodoc. * 10700: autodoc: Document ``typing.NewType()`` types as classes rather than 'data'. * Cache doctrees between the reading and writing phases. Bugs fixed ---------- * 10962: HTML: Fix the multi-word key name lookup table. * Fixed support for Python 3.12 alpha 3 (changes in the ``enum`` module). * 11069: HTML Theme: Removed outdated "shortcut" link relation keyword. * 10952: Properly terminate parallel processes on programme interuption. * 10988: Speed up ``TocTree.resolve()`` through more efficient copying. * 6744: LaTeX: support for seealso directive should be via an environment to allow styling. * 11074: LaTeX: Can't change sphinxnote to use sphinxheavybox starting with 5.1.0 ``` ### 6.0.1 ``` ===================================== Dependencies ------------ * Require Pygments 2.13 or later. Bugs fixed ---------- * 10944: imgmath: Fix resolving image paths for files in nested folders. ``` ### 6.0.0 ``` ===================================== Dependencies ------------ * 10468: Drop Python 3.6 support * 10470: Drop Python 3.7, Docutils 0.14, Docutils 0.15, Docutils 0.16, and Docutils 0.17 support. Patch by Adam Turner Incompatible changes -------------------- * 7405: Removed the jQuery and underscore.js JavaScript frameworks. These frameworks are no longer be automatically injected into themes from Sphinx 6.0. If you develop a theme or extension that uses the ``jQuery``, ``$``, or ``$u`` global objects, you need to update your JavaScript to modern standards, or use the mitigation below. The first option is to use the sphinxcontrib.jquery_ extension, which has been developed by the Sphinx team and contributors. To use this, add ``sphinxcontrib.jquery`` to the ``extensions`` list in ``conf.py``, or call ``app.setup_extension("sphinxcontrib.jquery")`` if you develop a Sphinx theme or extension. The second option is to manually ensure that the frameworks are present. To re-add jQuery and underscore.js, you will need to copy ``jquery.js`` and ``underscore.js`` from `the Sphinx repository`_ to your ``static`` directory, and add the following to your ``layout.html``: .. code-block:: html+jinja {%- block scripts %} <script src="{{ pathto('_static/jquery.js', resource=True) }}"></script> <script src="{{ pathto('_static/underscore.js', resource=True) }}"></script> {{ super() }} {%- endblock %} .. _sphinxcontrib.jquery: https://github.com/sphinx-contrib/jquery/ Patch by Adam Turner. * 10471, 10565: Removed deprecated APIs scheduled for removal in Sphinx 6.0. See :ref:`dev-deprecated-apis` for details. Patch by Adam Turner. * 10901: C Domain: Remove support for parsing pre-v3 style type directives and roles. Also remove associated configuration variables ``c_allow_pre_v3`` and ``c_warn_on_allowed_pre_v3``. Patch by Adam Turner. Features added -------------- * 10924: LaTeX: adopt better looking defaults for tables and code-blocks. See :confval:`latex_table_style` and the ``pre_border-radius`` and ``pre_background-TeXcolor`` :ref:`additionalcss` for the former defaults and how to re-enact them if desired. Bugs fixed ---------- * 10984: LaTeX: Document :confval:`latex_additional_files` behavior for files with ``.tex`` extension. ``` ### 5.3.0 ``` ===================================== * 10759: LaTeX: add :confval:`latex_table_style` and support the ``'booktabs'``, ``'borderless'``, and ``'colorrows'`` styles. (thanks to Stefan Wiehler for initial pull requests 6666, 6671) * 10840: One can cross-reference including an option value like ``:option:`--module=foobar, ``:option:`--module[=foobar] or ``:option:`--module foobar. Patch by Martin Liska. * 10881: autosectionlabel: Record the generated section label to the debug log. * 10268: Correctly URI-escape image filenames. * 10887: domains: Allow sections in all the content of all object description directives (e.g. :rst:dir:`py:function`). Patch by Adam Turner ```
Links - PyPI: https://pypi.org/project/sphinx - Changelog: https://pyup.io/changelogs/sphinx/

Update sphinx-rtd-theme from 1.0.0 to 1.2.0.

The bot wasn't able to find a changelog for this release. Got an idea?

Links - PyPI: https://pypi.org/project/sphinx-rtd-theme - Repo: https://github.com/readthedocs/sphinx_rtd_theme

Update sphinx_autodoc_typehints from 1.19.4 to 1.23.4.

Changelog ### 1.21.3 ``` - Use format_annotation to render class attribute type annotations ``` ### 1.21.2 ``` - Fix overloads support ``` ### 1.21.1 ``` - Fix spacing between `:rtype:` and directives ``` ### 1.21 ``` - Handle types from types module - If module is \_io, use io instead - Put rtype before examples or usage section - Remove redundant return type for attributes - Handle collections.abc.Callable as well as typing.Callable - Put Literal args in code blocks ``` ### 1.20.2 ``` - Fix Optional role to be data. ``` ### 1.20.1 ``` - Fixed default options not displaying for parameters without type hints. ``` ### 1.20 ``` - Use hatchling instead of setuptools - Add support for typing.ParamSpec - Allow star prefixes for parameter names in docstring ```
Links - PyPI: https://pypi.org/project/sphinx-autodoc-typehints - Changelog: https://pyup.io/changelogs/sphinx-autodoc-typehints/

Update beautifulsoup4 from 4.11.1 to 4.11.2.

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Links - PyPI: https://pypi.org/project/beautifulsoup4 - Changelog: https://pyup.io/changelogs/beautifulsoup4/ - Homepage: https://www.crummy.com/software/BeautifulSoup/bs4/

Update requests from 2.28.1 to 2.28.2.

Changelog ### 2.28.2 ``` ------------------- **Dependencies** - Requests now supports charset\_normalizer 3.x. (6261) **Bugfixes** - Updated MissingSchema exception to suggest https scheme rather than http. (6188) ```
Links - PyPI: https://pypi.org/project/requests - Changelog: https://pyup.io/changelogs/requests/ - Docs: https://requests.readthedocs.io

Update types-requests from 2.28.11.2 to 2.28.11.12.

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Links - PyPI: https://pypi.org/project/types-requests - Repo: https://github.com/python/typeshed