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radiome-lab / radiome

Configurable Pipeline for the Analysis of Medical Imaging Data
BSD 3-Clause "New" or "Revised" License
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Update sphinx to 3.1.2 #87

Closed pyup-bot closed 3 years ago

pyup-bot commented 4 years ago

This PR updates Sphinx from 2.4.3 to 3.1.2.

Changelog ### 3.1.2 ``` ===================================== Incompatible changes -------------------- * 7650: autodoc: the signature of base function will be shown for decorated functions, not a signature of decorator Bugs fixed ---------- * 7844: autodoc: Failed to detect module when relative module name given * 7856: autodoc: AttributeError is raised when non-class object is given to the autoclass directive * 7850: autodoc: KeyError is raised for invalid mark up when autodoc_typehints is 'description' * 7812: autodoc: crashed if the target name matches to both an attribute and module that are same name * 7650: autodoc: function signature becomes ``(*args, **kwargs)`` if the function is decorated by generic decorator * 7812: autosummary: generates broken stub files if the target code contains an attribute and module that are same name * 7806: viewcode: Failed to resolve viewcode references on 3rd party builders * 7838: html theme: List items have extra vertical space * 7878: html theme: Undesired interaction between "overflow" and "float" ``` ### 3.1.1 ``` ===================================== Incompatible changes -------------------- * 7808: napoleon: a type for attribute are represented as typed field Features added -------------- * 7807: autodoc: Show detailed warning when type_comment is mismatched with its signature Bugs fixed ---------- * 7808: autodoc: Warnings raised on variable and attribute type annotations * 7802: autodoc: EOFError is raised on parallel build * 7821: autodoc: TypeError is raised for overloaded C-ext function * 7805: autodoc: an object which descriptors returns is unexpectedly documented * 7807: autodoc: wrong signature is shown for the function using contextmanager * 7812: autosummary: generates broken stub files if the target code contains an attribute and module that are same name * 7808: napoleon: Warnings raised on variable and attribute type annotations * 7811: sphinx.util.inspect causes circular import problem ``` ### 3.1.0 ``` ===================================== Dependencies ------------ * 7746: mathjax: Update to 2.7.5 Incompatible changes -------------------- * 7477: imgconverter: Invoke "magick convert" command by default on Windows Deprecated ---------- * The first argument for sphinx.ext.autosummary.generate.AutosummaryRenderer has been changed to Sphinx object * ``sphinx.ext.autosummary.generate.AutosummaryRenderer`` takes an object type as an argument * The ``ignore`` argument of ``sphinx.ext.autodoc.Documenter.get_doc()`` * The ``template_dir`` argument of ``sphinx.ext.autosummary.generate. AutosummaryRenderer`` * The ``module`` argument of ``sphinx.ext.autosummary.generate. find_autosummary_in_docstring()`` * The ``builder`` argument of ``sphinx.ext.autosummary.generate. generate_autosummary_docs()`` * The ``template_dir`` argument of ``sphinx.ext.autosummary.generate. generate_autosummary_docs()`` * The ``ignore`` argument of ``sphinx.util.docstring.prepare_docstring()`` * ``sphinx.ext.autosummary.generate.AutosummaryRenderer.exists()`` * ``sphinx.util.rpartition()`` Features added -------------- * LaTeX: Make the ``toplevel_sectioning`` setting optional in LaTeX theme * LaTeX: Allow to override papersize and pointsize from LaTeX themes * LaTeX: Add :confval:`latex_theme_options` to override theme options * 7410: Allow to suppress "circular toctree references detected" warnings using :confval:`suppress_warnings` * C, added scope control directives, :rst:dir:`c:namespace`, :rst:dir:`c:namespace-push`, and :rst:dir:`c:namespace-pop`. * 2044: autodoc: Suppress default value for instance attributes * 7473: autodoc: consider a member public if docstring contains ``:meta public:`` in info-field-list * 7487: autodoc: Allow to generate docs for singledispatch functions by py:autofunction * 7143: autodoc: Support final classes and methods * 7384: autodoc: Support signatures defined by ``__new__()``, metaclasses and builtin base classes * 2106: autodoc: Support multiple signatures on docstring * 4422: autodoc: Support GenericAlias in Python 3.7 or above * 3610: autodoc: Support overloaded functions * 7722: autodoc: Support TypeVar * 7466: autosummary: headings in generated documents are not translated * 7490: autosummary: Add ``:caption:`` option to autosummary directive to set a caption to the toctree * 7469: autosummary: Support module attributes * 248, 6040: autosummary: Add ``:recursive:`` option to autosummary directive to generate stub files recursively * 4030: autosummary: Add :confval:`autosummary_context` to add template variables for custom templates * 7530: html: Support nested <kbd> elements * 7481: html theme: Add right margin to footnote/citation labels * 7482, 7717: html theme: CSS spacing for code blocks with captions and line numbers * 7443: html theme: Add new options :confval:`globaltoc_collapse` and :confval:`globaltoc_includehidden` to control the behavior of globaltoc in sidebar * 7484: html theme: Avoid clashes between sidebar and other blocks * 7476: html theme: Relbar breadcrumb should contain current page * 7506: html theme: A canonical URL is not escaped * 7533: html theme: Avoid whitespace at the beginning of genindex.html * 7541: html theme: Add a "clearer" at the end of the "body" * 7542: html theme: Make admonition/topic/sidebar scrollable * 7543: html theme: Add top and bottom margins to tables * 7695: html theme: Add viewport meta tag for basic theme * 7721: html theme: classic: default codetextcolor/codebgcolor doesn't override Pygments * C and C++: allow semicolon in the end of declarations. * C++, parse parameterized noexcept specifiers. * 7294: C++, parse expressions with user-defined literals. * C++, parse trailing return types. * 7143: py domain: Add ``:final:`` option to :rst:dir:`py:class:`, :rst:dir:`py:exception:` and :rst:dir:`py:method:` directives * 7596: py domain: Change a type annotation for variables to a hyperlink * 7770: std domain: :rst:dir:`option` directive support arguments in the form of ``foo[=bar]`` * 7582: napoleon: a type for attribute are represented like type annotation * 7734: napoleon: overescaped trailing underscore on attribute * 7247: linkcheck: Add :confval:`linkcheck_request_headers` to send custom HTTP headers for specific host * 7792: setuptools: Support ``--verbosity`` option * 7683: Add ``allowed_exceptions`` parameter to ``Sphinx.emit()`` to allow handlers to raise specified exceptions * 7295: C++, parse (trailing) requires clauses. Bugs fixed ---------- * 6703: autodoc: incremental build does not work for imported objects * 7564: autodoc: annotations not to be shown for descriptors * 6588: autodoc: Decorated inherited method has no documentation * 7469: autodoc: The change of autodoc-process-docstring for variables is cached unexpectedly * 7559: autodoc: misdetects a sync function is async * 6857: autodoc: failed to detect a classmethod on Enum class * 7562: autodoc: a typehint contains spaces is wrongly rendered under autodoc_typehints='description' mode * 7551: autodoc: failed to import nested class * 7362: autodoc: does not render correct signatures for built-in functions * 7654: autodoc: ``Optional[Union[foo, bar]]`` is presented as ``Union[foo, bar, None]`` * 7629: autodoc: autofunction emits an unfriendly warning if an invalid object specified * 7650: autodoc: undecorated signature is shown for decorated functions * 7676: autodoc: typo in the default value of autodoc_member_order * 7676: autodoc: wrong value for :member-order: option is ignored silently * 7676: autodoc: member-order="bysource" does not work for C module * 3673: autodoc: member-order="bysource" does not work for a module having __all__ * 7668: autodoc: wrong retann value is passed to a handler of autodoc-proccess-signature * 7711: autodoc: fails with ValueError when processing numpy objects * 7791: autodoc: TypeError is raised on documenting singledispatch function * 7551: autosummary: a nested class is indexed as non-nested class * 7661: autosummary: autosummary directive emits warnings twices if failed to import the target module * 7685: autosummary: The template variable "members" contains imported members even if :confval:`autossummary_imported_members` is False * 7671: autosummary: The location of import failure warning is missing * 7535: sphinx-autogen: crashes when custom template uses inheritance * 7536: sphinx-autogen: crashes when template uses i18n feature * 7781: sphinx-build: Wrong error message when outdir is not directory * 7653: sphinx-quickstart: Fix multiple directory creation for nested relpath * 2785: html: Bad alignment of equation links * 7718: html theme: some themes does not respect background color of Pygments style (agogo, haiku, nature, pyramid, scrolls, sphinxdoc and traditional) * 7544: html theme: inconsistent padding in admonitions * 7581: napoleon: bad parsing of inline code in attribute docstrings * 7628: imgconverter: runs imagemagick once unnecessary for builders not supporting images * 7610: incorrectly renders consecutive backslashes for docutils-0.16 * 7646: handle errors on event handlers * 4187: LaTeX: EN DASH disappears from PDF bookmarks in Japanese documents * 7701: LaTeX: Anonymous indirect hyperlink target causes duplicated labels * 7723: LaTeX: pdflatex crashed when URL contains a single quote * 7756: py domain: The default value for positional only argument is not shown * 7760: coverage: Add :confval:`coverage_show_missing_items` to show coverage result to console * C++, fix rendering and xrefs in nested names explicitly starting in global scope, e.g., ``::A::B``. * C, fix rendering and xrefs in nested names explicitly starting in global scope, e.g., ``.A.B``. * 7763: C and C++, don't crash during display stringification of unary expressions and fold expressions. ``` ### 3.0.4 ``` ===================================== Bugs fixed ---------- * 7567: autodoc: parametrized types are shown twice for generic types * 7637: autodoc: system defined TypeVars are shown in Python 3.9 * 7696: html: Updated jQuery version from 3.4.1 to 3.5.1 for security reasons * 7611: md5 fails when OpenSSL FIPS is enabled * 7626: release package does not contain ``CODE_OF_CONDUCT`` ``` ### 3.0.3 ``` ===================================== Features added -------------- * C, parse array declarators with static, qualifiers, and VLA specification. Bugs fixed ---------- * 7516: autodoc: crashes if target object raises an error on accessing its attributes ``` ### 3.0.2 ``` ===================================== Features added -------------- * C, parse attributes and add :confval:`c_id_attributes` and :confval:`c_paren_attributes` to support user-defined attributes. Bugs fixed ---------- * 7461: py domain: fails with IndexError for empty tuple in type annotation * 7510: py domain: keyword-only arguments are documented as having a default of None * 7418: std domain: :rst:role:`term` role could not match case-insensitively * 7461: autodoc: empty tuple in type annotation is not shown correctly * 7479: autodoc: Sphinx builds has been slower since 3.0.0 on mocking * C++, fix spacing issue in east-const declarations. * 7414: LaTeX: Xindy language options were incorrect * sphinx crashes with ImportError on python3.5.1 ``` ### 3.0.1 ``` ===================================== Incompatible changes -------------------- * 7418: std domain: :rst:dir:`term` role becomes case sensitive Bugs fixed ---------- * 7428: py domain: a reference to class ``None`` emits a nitpicky warning * 7445: py domain: a return annotation ``None`` in the function signature is not converted to a hyperlink when using intersphinx * 7418: std domain: duplication warning for glossary terms is case insensitive * 7438: C++, fix merging overloaded functions in parallel builds. * 7422: autodoc: fails with ValueError when using autodoc_mock_imports * 7435: autodoc: ``autodoc_typehints='description'`` doesn't suppress typehints in signature for classes/methods * 7451: autodoc: fails with AttributeError when an object returns non-string object as a ``__doc__`` member * 7423: crashed when giving a non-string object to logger * 7479: html theme: Do not include xmlns attribute with HTML 5 doctype * 7426: html theme: Escape some links in HTML templates ``` ### 3.0.0 ``` * 7364: autosummary: crashed when :confval:`autosummary_generate` is False * 7370: autosummary: raises UnboundLocalError when unknown module given * 7367: C++, alternate operator spellings are now supported. * C, alternate operator spellings are now supported. * 7368: C++, comma operator in expressions, pack expansion in template argument lists, and more comprehensive error messages in some cases. * C, C++, fix crash and wrong duplicate warnings related to anon symbols. * 6477: Escape first "!" in a cross reference linking no longer possible * 7219: py domain: The index entry generated by ``py:function`` directive is different with one from ``index`` directive with "builtin" type * 7301: capital characters are not allowed for node_id * 7301: epub: duplicated node_ids are generated * 6564: html: a width of table was ignored on HTML builder * 7401: Incorrect argument is passed for :event:`env-get-outdated` handlers * 7355: autodoc: a signature of cython-function is not recognized well * 7222: autodoc: ``__wrapped__`` functions are not documented correctly * 7409: intersphinx: ValueError is raised when an extension sets up :confval:`intersphinx_mapping` on :event:`config-inited` event * 7343: Sphinx builds has been slower since 2.4.0 on debug mode ``` ### 3.0.0b1 ``` * C++, fix cross reference lookup in certain cases involving function overloads. * 5078: C++, fix cross reference lookup when a directive contains multiple declarations. * C++, suppress warnings for directly dependent typenames in cross references generated automatically in signatures. * 5637: autodoc: Incorrect handling of nested class names on show-inheritance * 7267: autodoc: error message for invalid directive options has wrong location * 7329: autodoc: info-field-list is wrongly generated from type hints into the class description even if ``autoclass_content='class'`` set * 7331: autodoc: a cython-function is not recognized as a function * 5637: inheritance_diagram: Incorrect handling of nested class names * 7139: ``code-block:: guess`` does not work * 7325: html: source_suffix containing dot leads to wrong source link * 7357: html: Resizing SVG image fails with ValueError * 7278: html search: Fix use of ``html_file_suffix`` instead of ``html_link_suffix`` in search results * 7297: html theme: ``bizstyle`` does not support ``sidebarwidth`` * 3842: singlehtml: Path to images broken when master doc is not in source root * 7179: std domain: Fix whitespaces are suppressed on referring GenericObject * 7289: console: use bright colors instead of bold * 1539: C, parse array types. * 2377: C, parse function pointers even in complex types. * 7345: sphinx-build: Sphinx crashes if output directory exists as a file * 7290: sphinx-build: Ignore bdb.BdbQuit when handling exceptions * 6240: napoleon: Attributes and Methods sections ignore :noindex: option ``` ### 2.4.4 ``` ===================================== Bugs fixed ---------- * 7197: LaTeX: platex cause error to build image directive with target url * 7223: Sphinx builds has been slower since 2.4.0 ```
Links - PyPI: https://pypi.org/project/sphinx - Changelog: https://pyup.io/changelogs/sphinx/ - Homepage: http://sphinx-doc.org/