# 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('.'))
import pathlib
import sys
sys.path.insert(0, pathlib.Path(__file__).parents[2].resolve().as_posix())

# import MOCK
from unittest import mock

# Mock imports
autodoc_mock_imports = ["numpy",
                        "pandas",
                        "torch",
                        "torch.utils.data",
                        "pysam",
                        "pybedtools",
                        "pyfasta",
                        "pyBigWig",
                        "pytorch_lightning",
                        "webdataset"]

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

project = 'seqchromloader'
copyright = '2023, Jianyu Yang'
author = 'Jianyu Yang'

# The full version, including alpha/beta/rc tags
release = '0.2.4'


# -- 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.autodoc'
]

# 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 = []

intersphinx_mapping = {
    'python': ('https://docs.python.org/3/', None),
    'sphinx': ('https://www.sphinx-doc.org/en/master/', None),
}
intersphinx_disabled_domains = ['std']

templates_path = ['_templates']

# -- Options for HTML output

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']