Fixed sphinx docs.

Author: djgagne

doc/conf.py

@@ -1,309 +1,32 @@
-# -*- coding: utf-8 -*-
+# Configuration file for the Sphinx documentation builder.
 #
-# hagelslag documentation build configuration file, created by
-# sphinx-quickstart on Thu Oct  1 17:36:49 2015.
-#
-# This file is execfile()d with the current directory set to its
-# containing dir.
-#
-# Note that not all possible configuration values are present in this
-# autogenerated file.
-#
-# All configuration values have a default; values that are commented out
-# serve to show the default.
-
-import os
-import sys
-
-from mock import Mock as MagicMock
-
-
-class Mock(MagicMock):
-    @classmethod
-    def __getattr__(cls, name):
-        return Mock()
-
-
-MOCK_MODULES = ['numpy', 'scipy', 'pandas', 'skimage', 'netCDF4', 'basemap', 'matplotlib', "pyproj", "Nio",
-                "scipy.spatial",
-                "pygrib", "mpl_toolkits", "mpl_toolkits.axes_grid1", "mpl_toolkits.basemap",
-                "mpl_toolkits.basemap.pyproj",
-                "sklearn", 'skimage.morphology', "scipy.ndimage", "matplotlib.pyplot", "scipy.stats", "scipy.signal",
-                "skimage.measure", "skimage.segmentation", "scipy.interpolate", "skimage.draw",
-                "mpl_toolkits.axes_grid1.inset_locator", "glue", "sklearn.linear_model", "glue.viewers",
-                "glue.viewers.custom",
-                "glue.viewers.custom.qt", "glue.core", "shapefile", "ncepgrib2",
-                "glue.config", "sklearn.decomposition", "sklearn.model_selection", "arrow"]
-sys.modules.update((mod_name, Mock()) for mod_name in MOCK_MODULES)
+# For the full list of built-in configuration values, see the documentation:
+# https://www.sphinx-doc.org/en/master/usage/configuration.html
 
-# 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.
-sys.path.insert(0, os.path.abspath('..'))
+# -- Project information -----------------------------------------------------
+# https://www.sphinx-doc.org/en/master/usage/configuration.html#project-information
 
-# -- General configuration ------------------------------------------------
+project = 'hagelslag'
+copyright = '2017-2024, David John Gagne'
+author = 'David John Gagne'
+release = '0.6'
 
-# If your documentation needs a minimal Sphinx version, state it here.
-# needs_sphinx = '1.0'
+# -- General configuration ---------------------------------------------------
+# https://www.sphinx-doc.org/en/master/usage/configuration.html#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.autodoc',
-    'sphinx.ext.doctest',
-    'sphinx.ext.coverage',
-    'sphinx.ext.mathjax',
-    'sphinx.ext.napoleon'
-]
+extensions = ['sphinx.ext.napoleon',
+              'sphinx.ext.doctest',
+              'sphinx.ext.coverage',
+              'sphinx.ext.mathjax',
+              ]
 
-# Add any paths that contain templates here, relative to this directory.
 templates_path = ['_templates']
+exclude_patterns = []
 
-# The suffix(es) of source filenames.
-# You can specify multiple suffix as a list of string:
-# source_suffix = ['.rst', '.md']
-source_suffix = '.rst'
-
-# The encoding of source files.
-# source_encoding = 'utf-8-sig'
-
-# The master toctree document.
-master_doc = 'index'
-
-# General information about the project.
-project = u'hagelslag'
-copyright = u'2017-2022, David John Gagne II'
-author = u'David John Gagne II'
-
-# The version info for the project you're documenting, acts as replacement for
-# |version| and |release|, also used in various other places throughout the
-# built documents.
-#
-# The short X.Y version.
-version = '0.5'
-# The full version, including alpha/beta/rc tags.
-release = '0.5'
-
-# 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 = None
-
-# There are two options for replacing |today|: either, you set today to some
-# non-false value, then it is used:
-# today = ''
-# Else, today_fmt is used as the format for a strftime call.
-# today_fmt = '%B %d, %Y'
-
-# List of patterns, relative to source directory, that match files and
-# directories to ignore when looking for source files.
-exclude_patterns = ['_build']
 
-# The reST default role (used for this markup: `text`) to use for all
-# documents.
-# default_role = None
 
-# If true, '()' will be appended to :func: etc. cross-reference text.
-# add_function_parentheses = True
+# -- Options for HTML output -------------------------------------------------
+# https://www.sphinx-doc.org/en/master/usage/configuration.html#options-for-html-output
 
-# If true, the current module name will be prepended to all description
-# unit titles (such as .. function::).
-# add_module_names = True
-
-# If true, sectionauthor and moduleauthor directives will be shown in the
-# output. They are ignored by default.
-# show_authors = False
-
-# The name of the Pygments (syntax highlighting) style to use.
-pygments_style = 'sphinx'
-
-# A list of ignored prefixes for module index sorting.
-# modindex_common_prefix = []
-
-# If true, keep warnings as "system message" paragraphs in the built documents.
-# keep_warnings = False
-
-# If true, `todo` and `todoList` produce output, else they produce nothing.
-todo_include_todos = False
-
-# -- 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 = 'nature'
-
-# Theme options are theme-specific and customize the look and feel of a theme
-# further.  For a list of options available for each theme, see the
-# documentation.
-html_theme_options = {'sidebarwidth': 375}
-
-# Add any paths that contain custom themes here, relative to this directory.
-# html_theme_path = []
-
-# The name for this set of Sphinx documents.  If None, it defaults to
-# "<project> v<release> documentation".
-# html_title = None
-
-# A shorter title for the navigation bar.  Default is the same as html_title.
-# html_short_title = None
-
-# The name of an image file (relative to this directory) to place at the top
-# of the sidebar.
-# html_logo = None
-
-# The name of an image file (within the static path) to use as favicon of the
-# docs.  This file should be a Windows icon file (.ico) being 16x16 or 32x32
-# pixels large.
-# html_favicon = None
-
-# 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_theme = 'sphinx_book_theme'
 html_static_path = ['_static']
-
-# Add any extra paths that contain custom files (such as robots.txt or
-# .htaccess) here, relative to this directory. These files are copied
-# directly to the root of the documentation.
-# html_extra_path = []
-
-# If not '', a 'Last updated on:' timestamp is inserted at every page bottom,
-# using the given strftime format.
-# html_last_updated_fmt = '%b %d, %Y'
-
-# If true, SmartyPants will be used to convert quotes and dashes to
-# typographically correct entities.
-# html_use_smartypants = True
-
-# Custom sidebar templates, maps document names to template names.
-# html_sidebars = {}
-
-# Additional templates that should be rendered to pages, maps page names to
-# template names.
-# html_additional_pages = {}
-
-# If false, no module index is generated.
-# html_domain_indices = True
-
-# If false, no index is generated.
-# html_use_index = True
-
-# If true, the index is split into individual pages for each letter.
-# html_split_index = False
-
-# If true, links to the reST sources are added to the pages.
-# html_show_sourcelink = True
-
-# If true, "Created using Sphinx" is shown in the HTML footer. Default is True.
-# html_show_sphinx = True
-
-# If true, "(C) Copyright ..." is shown in the HTML footer. Default is True.
-# html_show_copyright = True
-
-# If true, an OpenSearch description file will be output, and all pages will
-# contain a <link> tag referring to it.  The value of this option must be the
-# base URL from which the finished HTML is served.
-# html_use_opensearch = ''
-
-# This is the file name suffix for HTML files (e.g. ".xhtml").
-# html_file_suffix = None
-
-# Language to be used for generating the HTML full-text search index.
-# Sphinx supports the following languages:
-#   'da', 'de', 'en', 'es', 'fi', 'fr', 'hu', 'it', 'ja'
-#   'nl', 'no', 'pt', 'ro', 'ru', 'sv', 'tr'
-# html_search_language = 'en'
-
-# A dictionary with options for the search language support, empty by default.
-# Now only 'ja' uses this config value
-# html_search_options = {'type': 'default'}
-
-# The name of a javascript file (relative to the configuration directory) that
-# implements a search results scorer. If empty, the default will be used.
-# html_search_scorer = 'scorer.js'
-
-# Output file base name for HTML help builder.
-htmlhelp_basename = 'hagelslagdoc'
-
-# -- 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',
-}
-
-# Grouping the document tree into LaTeX files. List of tuples
-# (source start file, target name, title,
-#  author, documentclass [howto, manual, or own class]).
-latex_documents = [
-    (master_doc, 'hagelslag.tex', u'hagelslag Documentation',
-     u'David John Gagne II', 'manual'),
-]
-
-# The name of an image file (relative to this directory) to place at the top of
-# the title page.
-# latex_logo = None
-
-# For "manual" documents, if this is true, then toplevel headings are parts,
-# not chapters.
-# latex_use_parts = False
-
-# If true, show page references after internal links.
-# latex_show_pagerefs = False
-
-# If true, show URL addresses after external links.
-# latex_show_urls = False
-
-# Documents to append as an appendix to all manuals.
-# latex_appendices = []
-
-# If false, no module index is generated.
-# latex_domain_indices = True
-
-
-# -- 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, 'hagelslag', u'hagelslag Documentation',
-     [author], 1)
-]
-
-# If true, show URL addresses after external links.
-# man_show_urls = False
-
-
-# -- Options for Texinfo output -------------------------------------------
-
-# Grouping the document tree into Texinfo files. List of tuples
-# (source start file, target name, title, author,
-#  dir menu entry, description, category)
-texinfo_documents = [
-    (master_doc, 'hagelslag', u'hagelslag Documentation',
-     author, 'hagelslag', 'One line description of project.',
-     'Miscellaneous'),
-]
-
-# Documents to append as an appendix to all manuals.
-# texinfo_appendices = []
-
-# If false, no module index is generated.
-# texinfo_domain_indices = True
-
-# How to display URL addresses: 'footnote', 'no', or 'inline'.
-# texinfo_show_urls = 'footnote'
-
-# If true, do not generate a @detailmenu in the "Top" node's menu.
-# texinfo_no_detailmenu = False

doc/data_processing.rst

@@ -86,6 +86,7 @@ arguments for pyproj projections except for dx, dy, sw_lon, sw_lat, ne_lon, and
 to reconstruct the CAM grid. If you do not specify the map projection correctly, the created lat-lon and x-y grids
 may have a different number of grid dimensions than the data. Double check to be sure. The contents of an example
 map file are below::
+    
     proj=lcc # map projection
     a=6370000 # Major Radius of Earth in m. Note that WRF uses a spherical Earth.
     b=6370000 # Minor radius of Earth in m