bump to v0.2.27

.github/workflows/release.yml

@@ -24,10 +24,16 @@ jobs:
           python-version: ${{ matrix.python-version }}
 
       - name: Install Poetry
-        run: curl -sSL https://install.python-poetry.org | python3 -
+        run: curl -sSL https://install.python-poetry.org | python - -y
+
+      - name: Update PATH
+        run: echo "$HOME/.local/bin" >> $GITHUB_PATH
+
+      - name: Update Poetry configuration
+        run: poetry config virtualenvs.create false
 
       - name: Install dependencies
-        run: poetry install --no-root
+        run: poetry install --sync --no-interaction
 
       - name: Build package
         run: poetry build
@@ -48,9 +54,12 @@ jobs:
           venv-wheel/bin/python -m pip install ../dist/rspringrank-*.whl
           venv-wheel/bin/python -c "import rSpringRank"
 
-      - name: Publish to PyPI
-        env:
-          POETRY_PYPI_TOKEN_PYPI: ${{ secrets.PYPI_TOKEN }}
-        run: |
-          poetry config pypi-token.pypi $POETRY_PYPI_TOKEN_PYPI --local
-          poetry publish --build
+      - name: Publish package distributions to PyPI
+        uses: pypa/gh-action-pypi-publish@v1.9.0
+
+      # - name: Publish to PyPI
+      #   env:
+      #     POETRY_PYPI_TOKEN_PYPI: ${{ secrets.PYPI_TOKEN }}
+      #   run: |
+      #     poetry config pypi-token.pypi $POETRY_PYPI_TOKEN_PYPI --local
+      #     poetry publish --build

docs/conf.py

@@ -12,105 +12,104 @@
 #
 import os
 import sys
-sys.path.insert(0, os.path.abspath('.'))
-sys.path.insert(0, os.path.abspath('..'))
-
-from recommonmark.parser import CommonMarkParser
 
+sys.path.insert(0, os.path.abspath("."))
+sys.path.insert(0, os.path.abspath(".."))
 
+from recommonmark.parser import CommonMarkParser
 
 # -- Project information -----------------------------------------------------
 
-project = 'junipertcy/rSpringRank'
-copyright = '2023-2024, Tzu-Chi Yen <tzuchi.yen@colorado.edu>'
-author = 'Tzu-Chi Yen <tzuchi.yen@colorado.edu>'
+project = "junipertcy/rSpringRank"
+copyright = "2023-2024, Tzu-Chi Yen <tzuchi.yen@colorado.edu>"
+author = "Tzu-Chi Yen <tzuchi.yen@colorado.edu>"
 
 # The full version, including alpha/beta/rc tags
-release = '0.1.1'
+release = "0.1.1"
 
 
 # -- General configuration ---------------------------------------------------
 source_parsers = {
-    '.md': CommonMarkParser,
+    ".md": CommonMarkParser,
 }
 
 # 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_rtd_theme',
-    'sphinx.ext.autodoc',
-    'sphinx.ext.doctest',
-    'sphinx.ext.intersphinx',
-    'sphinx.ext.mathjax',
-    'sphinx.ext.autosummary',
-    'numpydoc',
-    'sphinx.ext.extlinks',
-    'sphinx.ext.viewcode',
-    'extlinks_fancy',
-    'myst_parser',  # markdown support
+    "sphinx_rtd_theme",
+    "sphinx.ext.autodoc",
+    "sphinx.ext.doctest",
+    "sphinx.ext.intersphinx",
+    "sphinx.ext.mathjax",
+    "sphinx.ext.autosummary",
+    "numpydoc",
+    "sphinx.ext.extlinks",
+    "sphinx.ext.viewcode",
+    "extlinks_fancy",
+    "myst_parser",  # markdown support
 ]
 autosummary_generate = True
 numpydoc_show_class_members = False
 mathjax_path = "MathJax/MathJax.js?config=default"
 
 # Add any paths that contain templates here, relative to this directory.
-templates_path = ['_templates']
+templates_path = ["_templates"]
 
 # The suffix(es) of source filenames.
 # You can specify multiple suffix as a list of string:
 #
-source_suffix = '.rst'
+source_suffix = ".rst"
 # The master toctree document.
-master_doc = 'index'
+master_doc = "index"
 
 # The language for content autogenerated by Sphinx. Refer to documentation
 # for a list of supported languages.
 #
 # This is also used if you do content translation via gettext catalogs.
 # Usually you set "language" from the command line for these cases.
-language = 'en'
+language = "en"
 
 # 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']
+exclude_patterns = ["_build", "Thumbs.db", ".DS_Store"]
 
 # The name of the Pygments (syntax highlighting) style to use.
-pygments_style = 'sphinx'
+pygments_style = "sphinx"
 
 # -- 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'
+html_theme = "sphinx_rtd_theme"
 html_theme_options = {
-    'logo_only': False,
-    'display_version': True,
-    'prev_next_buttons_location': 'bottom',
-    'style_external_links': False,
-    'style_nav_header_background': '#0074D9',
+    "logo_only": False,
+    "display_version": True,
+    "prev_next_buttons_location": "bottom",
+    "style_external_links": False,
+    "style_nav_header_background": "#0074D9",
     # Toc options
-    'collapse_navigation': True,
-    'sticky_navigation': True,
-    'navigation_depth': 4,
-    'includehidden': True,
-    'titles_only': False
+    "collapse_navigation": True,
+    "sticky_navigation": True,
+    "navigation_depth": 4,
+    "includehidden": True,
+    "titles_only": False,
 }
 html_logo = "assets/rSpringRank-logo.png"
-html_favicon = 'assets/rSpringRank-favicon.png'
+html_favicon = "assets/rSpringRank-favicon.png"
 html_context = {
-  'display_github': True,
-  'github_user': 'junipertcy',
-  'github_repo': 'rSpringRank',
-  'github_version': 'main/docs/'
+    "display_github": True,
+    "github_user": "junipertcy",
+    "github_repo": "rSpringRank",
+    "github_version": "main/docs/",
 }
 
 # 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']
+html_static_path = ["_static"]
 
 
 # Custom sidebar templates, must be a dictionary that maps document names
@@ -127,35 +126,37 @@
 # -- Options for HTMLHelp output ---------------------------------------------
 
 # Output file base name for HTML help builder.
-htmlhelp_basename = 'rSpringRank'
+htmlhelp_basename = "rSpringRank"
 
 # Example configuration for intersphinx: refer to the Python standard library.
-intersphinx_mapping = {'python': ('https://docs.python.org/3', None),
-                       'numpy': ('https://numpy.org/doc/stable/', None),
-                       'scipy': ('https://docs.scipy.org/doc/scipy/reference/', None),
-                       'matplotlib': ('https://matplotlib.org/stable/', None),
-                       'ipython': ('https://ipython.org/ipython-doc/stable/', None)}
+intersphinx_mapping = {
+    "python": ("https://docs.python.org/3", None),
+    "numpy": ("https://numpy.org/doc/stable/", None),
+    "scipy": ("https://docs.scipy.org/doc/scipy/reference/", None),
+    "matplotlib": ("https://matplotlib.org/stable/", None),
+    "ipython": ("https://ipython.org/ipython-doc/stable/", None),
+}
 
-extlinks_fancy = {'doi': (['https://dx.doi.org/{0}',
-                           'https://sci-hub.tw/{0}'],
-                          ['DOI: {0}', "sci-hub"]),
-                  'arxiv': (['https://arxiv.org/abs/{0}'], ['arXiv: {0}'])}
+extlinks_fancy = {
+    "doi": (
+        ["https://dx.doi.org/{0}", "https://sci-hub.tw/{0}"],
+        ["DOI: {0}", "sci-hub"],
+    ),
+    "arxiv": (["https://arxiv.org/abs/{0}"], ["arXiv: {0}"]),
+}
 
 # -- 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',
@@ -165,19 +166,21 @@
 # (source start file, target name, title,
 #  author, documentclass [howto, manual, or own class]).
 latex_documents = [
-    (master_doc, 'rSpringRank.tex', 'rSpringRank Documentation',
-     'Tzu-Chi Yen', 'manual'),
+    (
+        master_doc,
+        "rSpringRank.tex",
+        "rSpringRank Documentation",
+        "Tzu-Chi Yen",
+        "manual",
+    ),
 ]
 
 
 # -- 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, 'rSpringRank', 'rSpringRank Documentation',
-     [author], 1)
-]
+man_pages = [(master_doc, "rSpringRank", "rSpringRank Documentation", [author], 1)]
 
 
 # -- Options for Texinfo output ----------------------------------------------
@@ -186,9 +189,15 @@
 # (source start file, target name, title, author,
 #  dir menu entry, description, category)
 texinfo_documents = [
-    (master_doc, 'rSpringRank', 'rSpringRank Documentation',
-     author, 'rSpringRank', 'One line description of project.',
-     'Miscellaneous'),
+    (
+        master_doc,
+        "rSpringRank",
+        "rSpringRank Documentation",
+        author,
+        "rSpringRank",
+        "One line description of project.",
+        "Miscellaneous",
+    ),
 ]
 
 
@@ -207,7 +216,7 @@
 # epub_uid = ''
 
 # A list of files that should not be packed into the epub file.
-epub_exclude_files = ['search.html']
+epub_exclude_files = ["search.html"]
 
 
 # -- Extension configuration -------------------------------------------------

docs/extlinks_fancy.py

@@ -13,10 +13,9 @@
     :license: BSD, see LICENSE for details.
 """
 
-from six import iteritems
-from docutils import nodes, utils
-
 import sphinx
+from docutils import nodes, utils
+from six import iteritems
 from sphinx.util.nodes import split_explicit_title
 
 
@@ -41,6 +40,7 @@ def role(typ, rawtext, text, lineno, inliner, options={}, content=[]):
         if len(base_urls) > 1:
             pnodes.append(nodes.Text("]"))
         return pnodes, []
+
     return role
 
 
@@ -50,7 +50,6 @@ def setup_link_roles(app):
 
 
 def setup(app):
-    app.add_config_value('extlinks_fancy', {}, 'env')
-    app.connect('builder-inited', setup_link_roles)
-    return {'version': sphinx.__display_version__, 'parallel_read_safe': True}
-
+    app.add_config_value("extlinks_fancy", {}, "env")
+    app.connect("builder-inited", setup_link_roles)
+    return {"version": sphinx.__display_version__, "parallel_read_safe": True}

pyproject.toml

@@ -4,7 +4,7 @@ build-backend = "poetry.core.masonry.api"
 
 [tool.poetry]
 name = "rSpringRank"
-version = "0.2.26"
+version = "0.2.27"
 authors = ["Tzu-Chi Yen <tzuchi.yen@colorado.edu>"]
 license = "LGPL-3.0-or-later"
 readme = "README.md"

rSpringRank/__init__.py

@@ -21,25 +21,21 @@
 import importlib as _importlib
 import os
 
-__version__ = "0.0.1"
 
 import warnings
 
-from rSpringRank import *
 import rSpringRank
-from rSpringRank.datasets import *
 import rSpringRank.datasets
-from rSpringRank.io import *
+import rSpringRank.draw
 import rSpringRank.io
-from rSpringRank.optimize import *
 import rSpringRank.optimize
-from rSpringRank.stats import *
-import rSpringRank.stats
-from rSpringRank.stats import *
 import rSpringRank.stats
+from rSpringRank import *
+from rSpringRank.datasets import *
 from rSpringRank.draw import *
-import rSpringRank.draw
-
+from rSpringRank.io import *
+from rSpringRank.optimize import *
+from rSpringRank.stats import *
 
 __package__ = "rSpringRank"
 __title__ = "rSpringRank: Regularized methods for efficient ranking in networks."
@@ -52,9 +48,8 @@
     ]
 )
 __URL__ = "https://github.com/junipertcy/rSpringRank"
-__version__ = "0.2.26"
-__release__ = "0.2.26"
-
+__version__ = "0.2.27"
+__release__ = "0.2.27"
 
 submodules = ["datasets", "io", "optimize", "stats", "draw"]
 dunder = [
@@ -67,10 +62,13 @@
     "__license__",
     "__release__",
 ]
-__all__ = submodules + [
-    "show_config",
-] + dunder
-
+__all__ = (
+    submodules
+    + [
+        "show_config",
+    ]
+    + dunder
+)
 
 
 def __dir__():