testbed/google-deepmind__optax/docs/conf.py

# Copyright 2021 DeepMind Technologies Limited. All Rights Reserved.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
#     http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
# ==============================================================================
"""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:
# http://www.sphinx-doc.org/en/master/config

# -- 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.

# pylint: disable=g-bad-import-order
# pylint: disable=g-import-not-at-top
import inspect
import os
import sys


def _add_annotations_import(path):
  """Appends a future annotations import to the file at the given path."""
  with open(path) as f:
    contents = f.read()
  if contents.startswith('from __future__ import annotations'):
    # If we run sphinx multiple times then we will append the future import
    # multiple times too.
    return

  assert contents.startswith('#'), (path, contents.split('\n')[0])
  with open(path, 'w') as f:
    # NOTE: This is subtle and not unit tested, we're prefixing the first line
    # in each Python file with this future import. It is important to prefix
    # not insert a newline such that source code locations are accurate (we link
    # to GitHub). The assertion above ensures that the first line in the file is
    # a comment so it is safe to prefix it.
    f.write('from __future__ import annotations  ')
    f.write(contents)


def _recursive_add_annotations_import():
  for path, _, files in os.walk('../optax/'):
    for file in files:
      if file.endswith('.py'):
        _add_annotations_import(os.path.abspath(os.path.join(path, file)))


if 'READTHEDOCS' in os.environ:
  _recursive_add_annotations_import()

sys.path.insert(0, os.path.abspath('../'))
sys.path.append(os.path.abspath('ext'))

import optax
from sphinxcontrib import katex

# -- Project information -----------------------------------------------------

project = 'Optax'
copyright = '2021, DeepMind'  # pylint: disable=redefined-builtin
author = 'Optax Contributors'

# -- General configuration ---------------------------------------------------

master_doc = 'index'

# 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.autodoc',
    'sphinx.ext.autosummary',
    'sphinx.ext.doctest',
    'sphinx.ext.inheritance_diagram',
    'sphinx.ext.intersphinx',
    'sphinx.ext.linkcode',
    'sphinx.ext.napoleon',
    'sphinxcontrib.katex',
    'coverage_check',
    'myst_nb',  # This is used for the .ipynb notebooks
    'sphinx_gallery.gen_gallery',
    'sphinxcontrib.collections',
    'sphinx_contributors'
]

# so we don't have to do the canonical imports on every doctest
doctest_global_setup = '''
import optax
import jax
import jax.numpy as jnp
'''

# 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 autodoc -----------------------------------------------------

# The following typenames are re-written for public-facing type annotations.
autodoc_type_aliases = {
    '~optax._src.base.GradientTransformation': 'optax.GradientTransformation',
    '~optax._src.base.Params': 'Params',
    '~optax._src.base.Updates': 'Updates',
    '~optax._src.base.OptState': 'OptState',
    '~optax._src.base.PyTree': 'optax.PyTree',
    'base.GradientTransformation': 'optax.GradientTransformation',
    'base.Params': 'optax.Params',
    'base.Updates': 'optax.Updates',
    'base.OptState': 'optax.OptState',
    'base.PyTree': 'optax.PyTree',
    'chex.ArrayTree': 'chex.ArrayTree',
    'chex.Array': 'chex.Array',
    'chex.Numeric': 'chex.Numeric'
}

autodoc_default_options = {
    'member-order': 'bysource',
    'special-members': True,
    'exclude-members': '__repr__, __str__, __weakref__',
}

# -- Options for sphinx-collections

collections = {
    'examples': {
        'driver': 'copy_folder',
        'source': '../examples/',
        'ignore': 'BUILD'
    }
}


# -- Options for sphinx-gallery ----------------------------------------------

sphinx_gallery_conf = {
    'examples_dirs': '_collections/examples',  # path to your example scripts
    'gallery_dirs': (
        '_collections/generated_examples/'
    ),  # path to where to save gallery generated output
    'ignore_pattern': r'_test\.py',  # no gallery for test of examples
    'doc_module': 'optax',
    'backreferences_dir': os.path.join('modules', 'generated')
}


# -- 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_book_theme'

html_theme_options = {
    'show_toc_level': 2,
    'repository_url': 'https://github.com/google-deepmind/optax',
    'use_repository_button': True,     # add a "link to repository" button
    'navigation_with_keys': False,
}

html_logo = 'images/logo.svg'
html_favicon = 'images/favicon.svg'

# 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_css_files = [
    'css/custom.css',
]

# -- Options for myst -------------------------------------------------------
myst_enable_extensions = [
    'amsmath',
    'dollarmath',
]
nb_execution_mode = 'force'
nb_execution_allow_errors = False
nb_render_image_options = {}
nb_execution_excludepatterns = [
    # slow examples
    'nanolm.ipynb',
    'cifar10_resnet.ipynb',
    'adversarial_training.ipynb',
    'reduce_on_plateau.ipynb',
    'differentially_private_sgd.ipynb'
]

# -- Options for katex ------------------------------------------------------

# See: https://sphinxcontrib-katex.readthedocs.io/en/0.4.1/macros.html
latex_macros = r"""
    \def \d              #1{\operatorname{#1}}
"""

# Translate LaTeX macros to KaTeX and add to options for HTML builder
katex_macros = katex.latex_defs_to_katex_macros(latex_macros)
katex_options = (
    '{displayMode: true, fleqn: true, macros: {' + katex_macros + '}}'
)

# Add LaTeX macros for LATEX builder
latex_elements = {'preamble': latex_macros}

# -- Source code links -------------------------------------------------------


def linkcode_resolve(domain, info):
  """Resolve a GitHub URL corresponding to Python object."""
  if domain != 'py':
    return None

  try:
    mod = sys.modules[info['module']]
  except ImportError:
    return None

  obj = mod
  try:
    for attr in info['fullname'].split('.'):
      obj = getattr(obj, attr)
  except AttributeError:
    return None
  else:
    obj = inspect.unwrap(obj)

  try:
    filename = inspect.getsourcefile(obj)
  except TypeError:
    return None

  try:
    source, lineno = inspect.getsourcelines(obj)
  except OSError:
    return None

  # TODO(slebedev): support tags after we release an initial version.
  return (
      'https://github.com/google-deepmind/optax/tree/main/optax/%s#L%d#L%d'
      % (
          os.path.relpath(filename, start=os.path.dirname(optax.__file__)),
          lineno,
          lineno + len(source) - 1,
      )
  )


# -- Intersphinx configuration -----------------------------------------------

intersphinx_mapping = {
    'jax': ('https://jax.readthedocs.io/en/latest/', None),
    'flax': ('https://flax.readthedocs.io/en/latest/', None),
    'chex': ('https://chex.readthedocs.io/en/latest/', None),
}

source_suffix = ['.rst', '.md', '.ipynb']