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paul-english / predictive_imputer

Predictive imputation of missing values with sklearn interface. This is a simple implementation of the idea presented in the MissForest R package.
MIT License
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Update sphinx to 2.3.0 #306

Closed pyup-bot closed 4 years ago

pyup-bot commented 4 years ago

This PR updates Sphinx from 1.8.1 to 2.3.0.

Changelog ### 2.3.0 ``` ===================================== Incompatible changes -------------------- * 6742: ``end-before`` option of :rst:dir:`literalinclude` directive does not match the first line of the code block. * 1331: Change default User-Agent header to ``"Sphinx/X.Y.Z requests/X.Y.Z python/X.Y.Z"``. It can be changed via :confval:`user_agent`. * 6867: text: content of admonitions starts after a blank line Deprecated ---------- * ``sphinx.builders.gettext.POHEADER`` * ``sphinx.io.SphinxStandaloneReader.app`` * ``sphinx.io.SphinxStandaloneReader.env`` * ``sphinx.util.texescape.tex_escape_map`` * ``sphinx.util.texescape.tex_hl_escape_map_new`` * ``sphinx.writers.latex.LaTeXTranslator.no_contractions`` Features added -------------- * 6707: C++, support bit-fields. * 267: html: Eliminate prompt characters of doctest block from copyable text * 6548: html: Use favicon for OpenSearch if available * 6729: html theme: agogo theme now supports ``rightsidebar`` option * 6780: Add PEP-561 Support * 6762: latex: Allow to load additonal LaTeX packages via ``extrapackages`` key of :confval:`latex_elements` * 1331: Add new config variable: :confval:`user_agent` * 6000: LaTeX: have backslash also be an inline literal word wrap break character * 4186: LaTeX: Support upLaTeX as a new :confval:`latex_engine` (experimental) * 6812: Improve a warning message when extensions are not parallel safe * 6818: Improve Intersphinx performance for multiple remote inventories. * 2546: apidoc: .so file support * 6798: autosummary: emit ``autodoc-skip-member`` event on generating stub file * 6483: i18n: make explicit titles in toctree translatable * 6816: linkcheck: Add :confval:`linkcheck_auth` option to provide authentication information when doing ``linkcheck`` builds * 6872: linkcheck: Handles HTTP 308 Permanent Redirect * 6613: html: Wrap section number in span tag * 6781: gettext: Add :confval:`gettext_last_translator' and :confval:`gettext_language_team` to customize headers of POT file Bugs fixed ---------- * 6668: LaTeX: Longtable before header has incorrect distance (refs: `latex3/latex2e173`_) .. _latex3/latex2e173: https://github.com/latex3/latex2e/issues/173 * 6618: LaTeX: Avoid section names at the end of a page * 6738: LaTeX: Do not replace unicode characters by LaTeX macros on unicode supported LaTeX engines: ¶, §, €, ∞, ±, →, ‣, –, superscript and subscript digits go through "as is" (as default OpenType font supports them) * 6704: linkcheck: Be defensive and handle newly defined HTTP error code * 6806: linkcheck: Failure on parsing content * 6655: image URLs containing ``data:`` causes gettext builder crashed * 6584: i18n: Error when compiling message catalogs on Hindi * 6718: i18n: KeyError is raised if section title and table title are same * 6743: i18n: :confval:`rst_prolog` breaks the translation * 6708: mathbase: Some deprecated functions have removed * 6709: autodoc: mock object does not work as a class decorator * 5070: epub: Wrong internal href fragment links * 6712: Allow not to install sphinx.testing as runtime (mainly for ALT Linux) * 6741: html: search result was broken with empty :confval:`html_file_suffix` * 6001: LaTeX does not wrap long code lines at backslash character * 6804: LaTeX: PDF build breaks if admonition of danger type contains code-block long enough not to fit on one page * 6809: LaTeX: code-block in a danger type admonition can easily spill over bottom of page * 6793: texinfo: Code examples broken following "sidebar" * 6813: An orphan warning is emitted for included document on Windows. Thanks to drillan * 6850: Fix smartypants module calls re.sub() with wrong options * 6824: HTML search: If a search term is partially matched in the title and fully matched in a text paragraph on the same page, the search does not include this match. * 6848: config.py shouldn't pop extensions from overrides * 6867: text: extra spaces are inserted to hyphenated words on folding lines * 6886: LaTeX: xelatex converts straight double quotes into right curly ones (shows when :confval:`smartquotes` is ``False``) * 6890: LaTeX: even with smartquotes off, PDF output transforms straight quotes and consecutive hyphens into curly quotes and dashes * 6876: LaTeX: multi-line display of authors on title page has ragged edges * 6887: Sphinx crashes with docutils-0.16b0 * 6920: sphinx-build: A console message is wrongly highlighted * 6900: sphinx-build: ``-D`` option does not considers ``0`` and ``1`` as a boolean value ``` ### 2.2.2 ``` ===================================== Incompatible changes -------------------- * 6803: For security reason of python, parallel mode is disabled on macOS and Python3.8+ Bugs fixed ---------- * 6776: LaTeX: 2019-10-01 LaTeX release breaks :file:`sphinxcyrillic.sty` * 6815: i18n: French, Hindi, Chinese, Japanese and Korean translation messages has been broken * 6803: parallel build causes AttributeError on macOS and Python3.8 ``` ### 2.2.1 ``` ===================================== Bugs fixed ---------- * 6641: LaTeX: Undefined control sequence ``\sphinxmaketitle`` * 6710: LaTeX not well configured for Greek language as main language * 6759: validation of html static paths and extra paths no longer throws an error if the paths are in different directories ``` ### 2.2.0 ``` ===================================== Incompatible changes -------------------- * apidoc: template files are renamed to ``.rst_t`` * html: Field lists will be styled by grid layout Deprecated ---------- * ``sphinx.domains.math.MathDomain.add_equation()`` * ``sphinx.domains.math.MathDomain.get_next_equation_number()`` * The ``info`` and ``warn`` arguments of ``sphinx.ext.autosummary.generate.generate_autosummary_docs()`` * ``sphinx.ext.autosummary.generate._simple_info()`` * ``sphinx.ext.autosummary.generate._simple_warn()`` * ``sphinx.ext.todo.merge_info()`` * ``sphinx.ext.todo.process_todo_nodes()`` * ``sphinx.ext.todo.process_todos()`` * ``sphinx.ext.todo.purge_todos()`` Features added -------------- * 5124: graphviz: ``:graphviz_dot:`` option is renamed to ``:layout:`` * 1464: html: emit a warning if :confval:`html_static_path` and :confval:`html_extra_path` directories are inside output directory * 6514: html: Add a label to search input for accessability purposes * 5602: apidoc: Add ``--templatedir`` option * 6475: Add ``override`` argument to ``app.add_autodocumenter()`` * 6310: imgmath: let :confval:`imgmath_use_preview` work also with the SVG format for images rendering inline math * 6533: LaTeX: refactor visit_enumerated_list() to use ``\sphinxsetlistlabels`` * 6628: quickstart: Use ``https://docs.python.org/3/`` for default setting of :confval:`intersphinx_mapping` * 6419: sphinx-build: give reasons why rebuilded Bugs fixed ---------- * py domain: duplicated warning does not point the location of source code * 6499: html: Sphinx never updates a copy of :confval:`html_logo` even if original file has changed * 1125: html theme: scrollbar is hard to see on classic theme and macOS * 5502: linkcheck: Consider HTTP 503 response as not an error * 6439: Make generated download links reproducible * 6486: UnboundLocalError is raised if broken extension installed * 6567: autodoc: :confval:`autodoc_inherit_docstrings` does not effect to ``__init__()`` and ``__new__()`` * 6574: autodoc: :confval:`autodoc_member_order` does not refer order of imports when ``'bysource'`` order * 6574: autodoc: missing type annotation for variadic and keyword parameters * 6589: autodoc: Formatting issues with autodoc_typehints='none' * 6605: autodoc: crashed when target code contains custom method-like objects * 6498: autosummary: crashed with wrong autosummary_generate setting * 6507: autosummary: crashes without no autosummary_generate setting * 6511: LaTeX: autonumbered list can not be customized in LaTeX since Sphinx 1.8.0 (refs: 6533) * 6531: Failed to load last environment object when extension added * 736: Invalid sort in pair index * 6527: :confval:`last_updated` wrongly assumes timezone as UTC * 5592: std domain: :rst:dir:`option` directive registers an index entry for each comma separated option * 6549: sphinx-build: Escaped characters in error messages * 6545: doctest comments not getting trimmed since Sphinx 1.8.0 * 6561: glossary: Wrong hyperlinks are generated for non alphanumeric terms * 6620: i18n: classifiers of definition list are not translated with docutils-0.15 * 6474: ``DocFieldTransformer`` raises AttributeError when given directive is not a subclass of ObjectDescription ``` ### 2.1.2 ``` ===================================== Bugs fixed ---------- * 6497: custom lexers fails highlighting when syntax error * 6478, 6488: info field lists are incorrectly recognized ``` ### 2.1.1 ``` ===================================== Incompatible changes -------------------- * 6447: autodoc: Stop to generate document for undocumented module variables Bugs fixed ---------- * 6442: LaTeX: admonitions of :rst:dir:`note` type can get separated from immediately preceding section title by pagebreak * 6448: autodoc: crashed when autodocumenting classes with ``__slots__ = None`` * 6451: autodoc: generates docs for "optional import"ed modules as variables * 6452: autosummary: crashed when generating document of properties * 6455: napoleon: docstrings for properties are not processed * 6436: napoleon: "Unknown target name" error if variable name ends with underscore * 6440: apidoc: missing blank lines between modules ``` ### 2.1.0 ``` ===================================== Incompatible changes -------------------- * Ignore filenames without file extension given to ``Builder.build_specific()`` API directly * 6230: The anchor of term in glossary directive is changed if it is consisted by non-ASCII characters * 4550: html: Centering tables by default using CSS * 6239: latex: xelatex and xeCJK are used for Chinese documents by default * ``Sphinx.add_lexer()`` now takes a Lexer class instead of instance. An instance of lexers are still supported until Sphinx-3.x. Deprecated ---------- * ``sphinx.builders.latex.LaTeXBuilder.apply_transforms()`` * ``sphinx.builders._epub_base.EpubBuilder.esc()`` * ``sphinx.directives.Acks`` * ``sphinx.directives.Author`` * ``sphinx.directives.Centered`` * ``sphinx.directives.Class`` * ``sphinx.directives.CodeBlock`` * ``sphinx.directives.Figure`` * ``sphinx.directives.HList`` * ``sphinx.directives.Highlight`` * ``sphinx.directives.Include`` * ``sphinx.directives.Index`` * ``sphinx.directives.LiteralInclude`` * ``sphinx.directives.Meta`` * ``sphinx.directives.Only`` * ``sphinx.directives.SeeAlso`` * ``sphinx.directives.TabularColumns`` * ``sphinx.directives.TocTree`` * ``sphinx.directives.VersionChange`` * ``sphinx.domains.python.PyClassmember`` * ``sphinx.domains.python.PyModulelevel`` * ``sphinx.domains.std.StandardDomain._resolve_citation_xref()`` * ``sphinx.domains.std.StandardDomain.note_citations()`` * ``sphinx.domains.std.StandardDomain.note_citation_refs()`` * ``sphinx.domains.std.StandardDomain.note_labels()`` * ``sphinx.environment.NoUri`` * ``sphinx.ext.apidoc.format_directive()`` * ``sphinx.ext.apidoc.format_heading()`` * ``sphinx.ext.apidoc.makename()`` * ``sphinx.ext.autodoc.importer.MockFinder`` * ``sphinx.ext.autodoc.importer.MockLoader`` * ``sphinx.ext.autodoc.importer.mock()`` * ``sphinx.ext.autosummary.autolink_role()`` * ``sphinx.ext.imgmath.DOC_BODY`` * ``sphinx.ext.imgmath.DOC_BODY_PREVIEW`` * ``sphinx.ext.imgmath.DOC_HEAD`` * ``sphinx.transforms.CitationReferences`` * ``sphinx.transforms.SmartQuotesSkipper`` * ``sphinx.util.docfields.DocFieldTransformer.preprocess_fieldtypes()`` * ``sphinx.util.node.find_source_node()`` * ``sphinx.util.i18n.find_catalog()`` * ``sphinx.util.i18n.find_catalog_files()`` * ``sphinx.util.i18n.find_catalog_source_files()`` For more details, see :ref:`deprecation APIs list <dev-deprecated-apis>`. Features added -------------- * Add a helper class ``sphinx.transforms.post_transforms.SphinxPostTransform`` * Add helper methods - ``PythonDomain.note_module()`` - ``PythonDomain.note_object()`` - ``SphinxDirective.set_source_info()`` * 6180: Support ``--keep-going`` with BuildDoc setup command * ``math`` directive now supports ``:class:`` option * todo: ``todo`` directive now supports ``:name:`` option * Enable override via environment of ``SPHINXOPTS`` and ``SPHINXBUILD`` Makefile variables (refs: 6232, 6303) * 6287: autodoc: Unable to document bound instance methods exported as module functions * 6289: autodoc: :confval:`autodoc_default_options` now supports ``imported-members`` option * 4777: autodoc: Support coroutine * 744: autodoc: Support abstractmethod * 6325: autodoc: Support attributes in __slots__. For dict-style __slots__, autodoc considers values as a docstring of the attribute * 6361: autodoc: Add :confval:`autodoc_typehints` to suppress typehints from signature * 1063: autodoc: ``automodule`` directive now handles undocumented module level variables * 6212 autosummary: Add :confval:`autosummary_imported_members` to display imported members on autosummary * 6271: ``make clean`` is catastrophically broken if building into '.' * 6363: Support ``%O%`` environment variable in make.bat * 4777: py domain: Add ``:async:`` option to :rst:dir:`py:function` directive * py domain: Add new options to :rst:dir:`py:method` directive - ``:abstractmethod:`` - ``:async:`` - ``:classmethod:`` - ``:property:`` - ``:staticmethod:`` * rst domain: Add :rst:dir:`directive:option` directive to describe the option for directive * 6306: html: Add a label to search form for accessability purposes * 4390: html: Consistent and semantic CSS for signatures * 6358: The ``rawsource`` property of ``production`` nodes now contains the full production rule * 6373: autosectionlabel: Allow suppression of warnings * coverage: Support a new ``coverage_ignore_pyobjects`` option * 6239: latex: Support to build Chinese documents Bugs fixed ---------- * 6230: Inappropriate node_id has been generated by glossary directive if term is consisted by non-ASCII characters * 6213: ifconfig: contents after headings are not shown * commented term in glossary directive is wrongly recognized * 6299: rst domain: rst:directive directive generates waste space * 6379: py domain: Module index (py-modindex.html) has duplicate titles * 6331: man: invalid output when doctest follows rubric * 6351: "Hyperlink target is not referenced" message is shown even if referenced * 6165: autodoc: ``tab_width`` setting of docutils has been ignored * 6347: autodoc: crashes with a plain Tuple on Python 3.6 and 3.5 * 6311: autosummary: autosummary table gets confused by complex type hints * 6350: autosummary: confused by an argument having some kind of default value * Generated Makefiles lack a final EOL (refs: 6232) * 6375: extlinks: Cannot escape angle brackets in link caption * 6378: linkcheck: Send commonly used User-Agent * 6387: html search: failed to search document with haiku and scrolls themes * 6408: html search: Fix the ranking of search results * 6406: Wrong year is returned for ``SOURCE_DATE_EPOCH`` * 6402: image directive crashes by unknown image format * 6286: C++, allow 8 and 9 in hexadecimal integer literals. * 6305: Fix the string in quickstart for 'path' argument of parser * LaTeX: Figures in admonitions produced errors (refs: 6364) ``` ### 2.0.1 ``` ===================================== Bugs fixed ---------- * LaTeX: some system labels are not translated * RemovedInSphinx30Warning is marked as pending * deprecation warnings are not emitted - sphinx.application.CONFIG_FILENAME - sphinx.builders.htmlhelp - :confval:`viewcode_import` * 6208: C++, properly parse full xrefs that happen to have a short xref as prefix * 6220, 6225: napoleon: AttributeError is raised for raised section having references * 6245: circular import error on importing SerializingHTMLBuilder * 6243: LaTeX: 'releasename' setting for latex_elements is ignored * 6244: html: Search function is broken with 3rd party themes * 6263: html: HTML5Translator crashed with invalid field node * 6262: html theme: The style of field lists has changed in bizstyle theme ``` ### 2.0.0 ``` * 6196: py domain: unexpected prefix is generated Testing -------- ``` ### 2.0.0b2 ``` * Add a helper function: ``sphinx.testing.restructuredtext.parse()`` ``` ### 2.0.0b1 ``` * Stop to use ``SPHINX_TEST_TEMPDIR`` envvar ``` ### 1.8.5 ``` ===================================== Bugs fixed ---------- * LaTeX: Remove extraneous space after author names on PDF title page (refs: 6004) * 6026: LaTeX: A cross reference to definition list does not work * 6046: LaTeX: ``TypeError`` is raised when invalid latex_elements given * 6067: LaTeX: images having a target are concatenated to next line * 6067: LaTeX: images having a target are not aligned even if specified * 6149: LaTeX: ``:index:`` role in titles causes ``Use of \icentercr doesn't match its definition`` error on latexpdf build * 6019: imgconverter: Including multipage PDF fails * 6047: autodoc: ``autofunction`` emits a warning for method objects * 6028: graphviz: Ensure the graphviz filenames are reproducible * 6068: doctest: ``skipif`` option may remove the code block from documentation * 6136: ``:name:`` option for ``math`` directive causes a crash * 6139: intersphinx: ValueError on failure reporting * 6135: changes: Fix UnboundLocalError when any module found * 3859: manpage: code-block captions are not displayed correctly ``` ### 1.8.4 ``` ===================================== Bugs fixed ---------- * 3707: latex: no bold checkmark (✔) available. * 5605: with the documentation language set to Chinese, English words could not be searched. * 5889: LaTeX: user ``numfig_format`` is stripped of spaces and may cause build failure * C++, fix hyperlinks for declarations involving east cv-qualifiers. * 5755: C++, fix duplicate declaration error on function templates with constraints in the return type. * C++, parse unary right fold expressions and binary fold expressions. * pycode could not handle egg files on windows * 5928: KeyError: 'DOCUTILSCONFIG' when running build * 5936: LaTeX: PDF build broken by inclusion of image taller than page height in an admonition * 5231: "make html" does not read and build "po" files in "locale" dir * 5954: ``:scale:`` image option may break PDF build if image in an admonition * 5966: mathjax has not been loaded on incremental build * 5960: LaTeX: modified PDF layout since September 2018 TeXLive update of :file:`parskip.sty` * 5948: LaTeX: duplicated labels are generated for sections * 5958: versionadded directive causes crash with Python 3.5.0 * 5995: autodoc: autodoc_mock_imports conflict with metaclass on Python 3.7 * 5871: texinfo: a section title ``.`` is not allowed ``` ### 1.8.3 ``` ===================================== Features added -------------- * LaTeX: it is possible to insert custom material to appear on back of title page, see discussion of ``'maketitle'`` key of :confval:`latex_elements` (``'manual'`` docclass only) Bugs fixed ---------- * 5725: mathjax: Use CDN URL for "latest" version by default * 5460: html search does not work with some 3rd party themes * 5520: LaTeX, caption package incompatibility since Sphinx 1.6 * 5614: autodoc: incremental build is broken when builtin modules are imported * 5627: qthelp: index.html missing in QtHelp * 5659: linkcheck: crashes for a hyperlink containing multibyte character * 5754: DOC: Fix some mistakes in :doc:`/latex` * 5810: LaTeX: sphinxVerbatim requires explicit "hllines" set-up since 1.6.6 (refs: 1238) * 5636: C++, fix parsing of floating point literals. * 5496 (again): C++, fix assertion in partial builds with duplicates. * 5724: quickstart: sphinx-quickstart fails when $LC_ALL is empty * 1956: Default conf.py is not PEP8-compliant * 5849: LaTeX: document class ``\maketitle`` is overwritten with no possibility to use original meaning in place of Sphinx custom one * 5834: apidoc: wrong help for ``--tocfile`` * 5800: todo: crashed if todo is defined in TextElement * 5846: htmlhelp: convert hex escaping to decimal escaping in .hhc/.hhk files * htmlhelp: broken .hhk file generated when title contains a double quote ``` ### 1.8.2 ``` ===================================== Incompatible changes -------------------- * 5497: Do not include MathJax.js and jsmath.js unless it is really needed Features added -------------- * 5471: Show appropriate deprecation warnings Bugs fixed ---------- * 5490: latex: enumerated list causes a crash with recommonmark * 5492: sphinx-build fails to build docs w/ Python < 3.5.2 * 3704: latex: wrong ``\label`` positioning for figures with a legend * 5496: C++, fix assertion when a symbol is declared more than twice. * 5493: gettext: crashed with broken template * 5495: csv-table directive with file option in included file is broken (refs: 4821) * 5498: autodoc: unable to find type hints for a ``functools.partial`` * 5480: autodoc: unable to find type hints for unresolvable Forward references * 5419: incompatible math_block node has been generated * 5548: Fix ensuredir() in case of pre-existing file * 5549: graphviz Correctly deal with non-existing static dir * 3002: i18n: multiple footnote_references referring same footnote cause duplicated node_ids * 5563: latex: footnote_references generated by extension causes a LaTeX builder crash * 5561: make all-pdf fails with old xindy version * 5557: quickstart: --no-batchfile isn't honored * 3080: texinfo: multiline rubrics are broken * 3080: texinfo: multiline citations are broken ```
Links - PyPI: https://pypi.org/project/sphinx - Changelog: https://pyup.io/changelogs/sphinx/ - Homepage: http://sphinx-doc.org/
pyup-bot commented 4 years ago

Closing this in favor of #311