From 5a33c0681b60e50a868f482ec0744b7e4698c598 Mon Sep 17 00:00:00 2001 From: Ugur Bayindir Date: Mon, 2 Oct 2023 12:40:19 +0100 Subject: [PATCH 1/4] Updated dependencies --- poetry.lock | 201 ++++++++++++++++++++++++++++--------------------- pyproject.toml | 4 +- 2 files changed, 117 insertions(+), 88 deletions(-) diff --git a/poetry.lock b/poetry.lock index 5293070..4aebf9a 100644 --- a/poetry.lock +++ b/poetry.lock @@ -224,86 +224,101 @@ files = [ [[package]] name = "charset-normalizer" -version = "3.2.0" +version = "3.3.0" description = "The Real First Universal Charset Detector. 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= "^3.7.2" -pandasaurus = "^0.3.3" +pandasaurus = "^0.3.5" pygraphviz = "^1.11" [tool.poetry.group.dev.dependencies] From b4059fe25e49078e74372bbd45e6e9ab3eb7c2db Mon Sep 17 00:00:00 2001 From: Ugur Bayindir Date: Mon, 2 Oct 2023 12:41:48 +0100 Subject: [PATCH 2/4] Added missing files for documentation publishing process --- docs/Makefile | 20 +++++++++++++++ docs/conf.py | 69 ++++++++++++++++++++++++++++++++++++++++++++++++++ docs/index.rst | 21 +++++++++++++++ 3 files changed, 110 insertions(+) create mode 100644 docs/Makefile create mode 100644 docs/conf.py create mode 100644 docs/index.rst diff --git a/docs/Makefile b/docs/Makefile new file mode 100644 index 0000000..d4bb2cb --- /dev/null +++ b/docs/Makefile @@ -0,0 +1,20 @@ +# Minimal makefile for Sphinx documentation +# + +# You can set these variables from the command line, and also +# from the environment for the first two. +SPHINXOPTS ?= +SPHINXBUILD ?= sphinx-build +SOURCEDIR = . +BUILDDIR = _build + +# Put it first so that "make" without argument is like "make help". +help: + @$(SPHINXBUILD) -M help "$(SOURCEDIR)" "$(BUILDDIR)" $(SPHINXOPTS) $(O) + +.PHONY: help Makefile + +# 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) diff --git a/docs/conf.py b/docs/conf.py new file mode 100644 index 0000000..66e9757 --- /dev/null +++ b/docs/conf.py @@ -0,0 +1,69 @@ +# Configuration file for the Sphinx documentation builder. +# +# This file only contains a selection of the most common options. For a full +# list see the documentation: +# https://www.sphinx-doc.org/en/master/usage/configuration.html + +# -- Path setup -------------------------------------------------------------- + +# 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. +# +import os +import sys +sys.path.insert(0, os.path.abspath('../pandasaurus_cxg')) + + +# -- Project information ----------------------------------------------------- + +project = 'pandasaurus-cxg' +copyright = '2023, Ugur Bayindir' +author = 'Ugur Bayindir' + +# The full version, including alpha/beta/rc tags +release = '0.1.3' + + +# -- General configuration --------------------------------------------------- + +# Add any Sphinx extension module names here, as strings. They can be +# extensions coming with Sphinx (named 'sphinx.ext.*') or your custom +# ones. +extensions = [ + 'sphinx.ext.duration', + 'sphinx.ext.doctest', + "sphinx.ext.autodoc", + "sphinx.ext.githubpages", + "sphinx_rtd_theme", + "sphinx.ext.viewcode", + "sphinx.ext.napoleon", + "sphinx.ext.todo", + "sphinx.ext.coverage", +] + +# The suffix(es) of source filenames. +# You can specify multiple suffix as a list of string: +# source_suffix = ['.rst', '.md'] +source_suffix = [".rst", ".md"] + +# Add any paths that contain templates here, relative to this directory. +templates_path = ['_templates'] + +# 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'] + + +# -- Options for HTML output ------------------------------------------------- + +# The theme to use for HTML and HTML Help pages. See the documentation for +# a list of builtin themes. +# +html_theme = 'sphinx_rtd_theme' + +# 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, +# so a file named "default.css" will overwrite the builtin "default.css". +html_static_path = ['_static'] \ No newline at end of file diff --git a/docs/index.rst b/docs/index.rst new file mode 100644 index 0000000..037d75f --- /dev/null +++ b/docs/index.rst @@ -0,0 +1,21 @@ +.. pandasaurus-cxg documentation master file, created by + sphinx-quickstart on Tue Sep 12 13:10:44 2023. + You can adapt this file completely to your liking, but it should at least + contain the root `toctree` directive. + +pandasaurus-cxg's documentation! +=========================================== + +.. toctree:: + :maxdepth: 2 + :caption: Contents: + + introduction + pandasaurus_cxg/index + +Indices and tables +================== + +* :ref:`genindex` +* :ref:`modindex` +* :ref:`search` From 26bb5fc60d8fa8abd88ab11fee5ec515d751100b Mon Sep 17 00:00:00 2001 From: Ugur Bayindir Date: Mon, 2 Oct 2023 12:41:54 +0100 Subject: [PATCH 3/4] Added missing files for documentation publishing process --- docs/make.bat | 35 +++++++++++++++++++++++++++++++++++ 1 file changed, 35 insertions(+) create mode 100644 docs/make.bat diff --git a/docs/make.bat b/docs/make.bat new file mode 100644 index 0000000..32bb245 --- /dev/null +++ b/docs/make.bat @@ -0,0 +1,35 @@ +@ECHO OFF + +pushd %~dp0 + +REM Command file for Sphinx documentation + +if "%SPHINXBUILD%" == "" ( + set SPHINXBUILD=sphinx-build +) +set SOURCEDIR=. +set BUILDDIR=_build + +%SPHINXBUILD% >NUL 2>NUL +if errorlevel 9009 ( + echo. + echo.The 'sphinx-build' command was not found. Make sure you have Sphinx + echo.installed, then set the SPHINXBUILD environment variable to point + echo.to the full path of the 'sphinx-build' executable. Alternatively you + echo.may add the Sphinx directory to PATH. + echo. + echo.If you don't have Sphinx installed, grab it from + echo.https://www.sphinx-doc.org/ + exit /b 1 +) + +if "%1" == "" goto help + +%SPHINXBUILD% -M %1 %SOURCEDIR% %BUILDDIR% %SPHINXOPTS% %O% +goto end + +:help +%SPHINXBUILD% -M help %SOURCEDIR% %BUILDDIR% %SPHINXOPTS% %O% + +:end +popd From 3b6429c4a1047f5d3a4c63d132dac3b9355e3220 Mon Sep 17 00:00:00 2001 From: Ugur Bayindir Date: Mon, 2 Oct 2023 12:55:09 +0100 Subject: [PATCH 4/4] Fix for documentation publishing process --- .github/workflows/publish-docs.yml | 21 ++++++++++----------- poetry.lock | 5 ++++- pyproject.toml | 3 +++ 3 files changed, 17 insertions(+), 12 deletions(-) diff --git a/.github/workflows/publish-docs.yml b/.github/workflows/publish-docs.yml index 35ab0fd..8b7b8e4 100644 --- a/.github/workflows/publish-docs.yml +++ b/.github/workflows/publish-docs.yml @@ -18,21 +18,20 @@ jobs: with: python-version: 3.9 - # - name: Install Poetry - # run: | - # curl -sSL https://install.python-poetry.org | python - - # export PATH="$HOME/.poetry/bin:$PATH" - # poetry --version + + - name: Install Poetry + run: | + curl -sSL https://install.python-poetry.org | python - + export PATH="$HOME/.poetry/bin:$PATH" + poetry --version - name: Install Dependencies and Build Documentation run: | - sudo apt-get install python3-sphinx - # poetry install + poetry install -E docs cd docs - # poetry run make html - # make html - # env: - # POETRY_VIRTUALENVS_IN_PROJECT: true + poetry run make html + env: + POETRY_VIRTUALENVS_IN_PROJECT: true - name: Deploy to GitHub Pages uses: peaceiris/actions-gh-pages@v3 diff --git a/poetry.lock b/poetry.lock index 4aebf9a..6d2f534 100644 --- a/poetry.lock +++ b/poetry.lock @@ -3779,7 +3779,10 @@ files = [ docs = ["furo", "jaraco.packaging (>=9.3)", "jaraco.tidelift (>=1.4)", "rst.linker (>=1.9)", "sphinx (<7.2.5)", "sphinx (>=3.5)", "sphinx-lint"] testing = ["big-O", "jaraco.functools", "jaraco.itertools", "more-itertools", "pytest (>=6)", "pytest-black (>=0.3.7)", "pytest-checkdocs (>=2.4)", "pytest-cov", "pytest-enabler (>=2.2)", "pytest-ignore-flaky", "pytest-mypy (>=0.9.1)", "pytest-ruff"] +[extras] +docs = [] + [metadata] lock-version = "2.0" python-versions = "^3.9" -content-hash = "3619c0306f3075a19d48b933ab889f92ee031052945f691d44e21464c9002ff4" +content-hash = "1a19470460f2e43615132da17d54889368df4cd52aa952ff799fc00fc868d616" diff --git a/pyproject.toml b/pyproject.toml index 92f7274..950f89b 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -31,6 +31,9 @@ pytest-mock = "^3.10.0" requires = ["poetry-core"] build-backend = "poetry.core.masonry.api" +[tool.poetry.extras] +docs = ["Sphinx", "sphinx-rtd-theme", "sphinx-copybutton"] + [tool.black] line-length = 100