Read the Docs build information
Build id: 1538277
Project: institute-for-disease-modeling-emod-malaria
Version: search
Commit: c42ff9ab95aafaea78df07a32d18adef77c04a39
Date: 2023-06-14T21:24:54.268543Z
State: finished
Success: True


[rtd-command-info] start-time: 2023-06-14T21:25:23.859115Z, end-time: 2023-06-14T21:25:47.985764Z, duration: 24, exit-code: 0
git clone --no-single-branch --depth 50 git@github.com:InstituteforDiseaseModeling/EMOD-docs.git .
Cloning into '.'...
Warning: Permanently added 'github.com,192.30.255.112' (ECDSA) to the list of known hosts.

[rtd-command-info] start-time: 2023-06-14T21:25:48.506919Z, end-time: 2023-06-14T21:25:48.991408Z, duration: 0, exit-code: 0
git checkout --force origin/search
Note: switching to 'origin/search'.

You are in 'detached HEAD' state. You can look around, make experimental
changes and commit them, and you can discard any commits you make in this
state without impacting any branches by switching back to a branch.

If you want to create a new branch to retain commits you create, you may
do so (now or later) by using -c with the switch command. Example:

  git switch -c <new-branch-name>

Or undo this operation with:

  git switch -

Turn off this advice by setting config variable advice.detachedHead to false

HEAD is now at c42ff9ab updated project value

[rtd-command-info] start-time: 2023-06-14T21:25:49.201164Z, end-time: 2023-06-14T21:25:49.290211Z, duration: 0, exit-code: 0
git clean -d -f -f


[rtd-command-info] start-time: 2023-06-14T21:25:50.418510Z, end-time: 2023-06-14T21:25:55.308042Z, duration: 4, exit-code: 0
python3.7 -mvirtualenv $READTHEDOCS_VIRTUALENV_PATH
Using base prefix '/home/docs/.pyenv/versions/3.7.9'
New python executable in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emod-malaria/envs/search/bin/python3.7
Also creating executable in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emod-malaria/envs/search/bin/python
Installing setuptools, pip, wheel...
done.

[rtd-command-info] start-time: 2023-06-14T21:25:55.552985Z, end-time: 2023-06-14T21:25:56.746602Z, duration: 1, exit-code: 0
python -m pip install --upgrade --no-cache-dir pip setuptools
Requirement already satisfied: pip in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emod-malaria/envs/search/lib/python3.7/site-packages (23.1.2)
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[rtd-command-info] start-time: 2023-06-14T21:25:57.042840Z, end-time: 2023-06-14T21:26:04.106875Z, duration: 7, exit-code: 0
python -m pip install --upgrade --no-cache-dir pillow==5.4.1 mock==1.0.1 alabaster>=0.7,<0.8,!=0.7.5 commonmark==0.9.1 recommonmark==0.5.0 sphinx<2 sphinx-rtd-theme<0.5 readthedocs-sphinx-ext<2.3 jinja2<3.1.0
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Collecting urllib3<3,>=1.21.1 (from requests>=2.0.0->sphinx<2)
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Building wheels for collected packages: mock
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  Created wheel for mock: filename=mock-1.0.1-py3-none-any.whl size=23753 sha256=ea4b6842209d9347351c2f7095854d17b46d372b8164657a7902235d8c508f2d
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Successfully built mock
Installing collected packages: snowballstemmer, pytz, mock, commonmark, urllib3, sphinxcontrib-serializinghtml, six, Pygments, pillow, packaging, MarkupSafe, imagesize, idna, docutils, charset-normalizer, certifi, babel, alabaster, sphinxcontrib-websupport, requests, jinja2, sphinx, readthedocs-sphinx-ext, sphinx-rtd-theme, recommonmark
Successfully installed MarkupSafe-2.1.3 Pygments-2.15.1 alabaster-0.7.13 babel-2.12.1 certifi-2023.5.7 charset-normalizer-3.1.0 commonmark-0.9.1 docutils-0.17.1 idna-3.4 imagesize-1.4.1 jinja2-3.0.3 mock-1.0.1 packaging-23.1 pillow-5.4.1 pytz-2023.3 readthedocs-sphinx-ext-2.2.1 recommonmark-0.5.0 requests-2.31.0 six-1.16.0 snowballstemmer-2.2.0 sphinx-1.8.6 sphinx-rtd-theme-0.4.3 sphinxcontrib-serializinghtml-1.1.5 sphinxcontrib-websupport-1.2.4 urllib3-2.0.3

[rtd-command-info] start-time: 2023-06-14T21:26:04.309148Z, end-time: 2023-06-14T21:26:10.556460Z, duration: 6, exit-code: 0
python -m pip install --exists-action=w --no-cache-dir -r requirements.txt
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[rtd-command-info] start-time: 2023-06-14T21:26:12.115749Z, end-time: 2023-06-14T21:26:12.194378Z, duration: 0, exit-code: 0
cat emod/malaria/conf.py
# -*- coding: utf-8 -*-
#
# Sphinx Demo documentation build configuration file, created by
# sphinx-quickstart on Fri Aug 26 16:52:16 2016.
#
# 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.

# 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.
# 
# See all configuration options: 
#     https://www.sphinx-doc.org/en/master/usage/configuration.html

import os
import sys

# -- Shared Configuration -------------------------------------------------
sys.path.insert(0, os.path.abspath(f"{os.path.dirname(__file__)}/.."))
from conf import *


# -- Project Information --------------------------------------------------
# General information about the project.
project = 'Malaria Model'
key = "emod-malaria"

# Additional Metadata
short_title = 'EMOD for Malaria'
long_title = 'EMOD Modeling Software for Malaria'
description = 'How to use the IDM EMOD software for modeling malaria.'

# -- General configuration ------------------------------------------------
tags.add('malaria')


# -- Options for HTML output ----------------------------------------------
# A dictionary of values to pass into the template engine’s context for all pages. 
# Single values can also be put in this dictionary using the -A command-line option of sphinx-build.
html_context.update({
    'docset_title': short_title
})

# 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 = f'{opensearch_baseurl}/{key}'

# -- Options for HTML help output -----------------------------------------
# Output file base name for HTML help builder.
htmlhelp_basename = short_title



# -- Options for LaTeX output ---------------------------------------------

# 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, f'{key}-docs.tex', long_title, author, '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, f'{key}-docs', long_title, [author], 1)
]


# -- 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, f'{key}-docs', long_title, author, author, description, 
    'Miscellaneous'),
]




###########################################################################
#          auto-created readthedocs.org specific configuration            #
###########################################################################


#
# The following code was added during an automated build on readthedocs.org
# It is auto created and injected for every build. The result is based on the
# conf.py.tmpl file found in the readthedocs.org codebase:
# https://github.com/rtfd/readthedocs.org/blob/main/readthedocs/doc_builder/templates/doc_builder/conf.py.tmpl
#
# Note: this file shouldn't rely on extra dependencies.

import importlib
import sys
import os.path

# Borrowed from six.
PY3 = sys.version_info[0] == 3
string_types = str if PY3 else basestring

from sphinx import version_info

# Get suffix for proper linking to GitHub
# This is deprecated in Sphinx 1.3+,
# as each page can have its own suffix
if globals().get('source_suffix', False):
    if isinstance(source_suffix, string_types):
        SUFFIX = source_suffix
    elif isinstance(source_suffix, (list, tuple)):
        # Sphinx >= 1.3 supports list/tuple to define multiple suffixes
        SUFFIX = source_suffix[0]
    elif isinstance(source_suffix, dict):
        # Sphinx >= 1.8 supports a mapping dictionary for multiple suffixes
        SUFFIX = list(source_suffix.keys())[0]  # make a ``list()`` for py2/py3 compatibility
    else:
        # default to .rst
        SUFFIX = '.rst'
else:
    SUFFIX = '.rst'

# Add RTD Static Path. Add to the end because it overwrites previous files.
if not 'html_static_path' in globals():
    html_static_path = []
if os.path.exists('_static'):
    html_static_path.append('_static')

# Add RTD Theme only if they aren't overriding it already
using_rtd_theme = (
    (
        'html_theme' in globals() and
        html_theme in ['default'] and
        # Allow people to bail with a hack of having an html_style
        'html_style' not in globals()
    ) or 'html_theme' not in globals()
)
if using_rtd_theme:
    html_theme = 'sphinx_rtd_theme'
    html_style = None
    html_theme_options = {}


# This following legacy behavior will gradually be sliced out until its deprecated and removed.
# Skipped for Sphinx 6+
# Skipped by internal Feature flag SKIP_SPHINX_HTML_THEME_PATH
# Skipped by all new projects since SKIP_SPHINX_HTML_THEME_PATH's introduction (jan 2023)
if (
        using_rtd_theme
        and version_info < (6,0)
        and not False
    ):
    theme = importlib.import_module('sphinx_rtd_theme')
    if 'html_theme_path' in globals():
        html_theme_path.append(theme.get_html_theme_path())
    else:
        html_theme_path = [theme.get_html_theme_path()]

# Define websupport2_base_url and websupport2_static_url
if globals().get('websupport2_base_url', False):
    websupport2_base_url = 'https://readthedocs.com/websupport'
    websupport2_static_url = 'https://assets.readthedocs.com/'


#Add project information to the template context.
context = {
    'using_theme': using_rtd_theme,
    'html_theme': html_theme,
    'current_version': "search",
    'version_slug': "search",
    'MEDIA_URL': "https://media.readthedocs.com/media/",
    'STATIC_URL': "https://assets.readthedocs.com/",
    'PRODUCTION_DOMAIN': "readthedocs.com",
    'proxied_static_path': "/_/static/",
    'versions': [
    ("latest", "/en/latest/"),
    ("2.21_a", "/en/2.21_a/"),
    ("2.20_a", "/en/2.20_a/"),
    ("2.18", "/en/2.18/"),
    ("2.14", "/en/2.14/"),
    ("2.13", "/en/2.13/"),
    ("2.10", "/en/2.10/"),
    ],
    'downloads': [ 
    ("html", "//docs.idmod.org/_/downloads/emod-malaria/en/search/htmlzip/"),
    ],
    'subprojects': [ 
    ],
    'slug': 'institute-for-disease-modeling-emod-malaria',
    'name': u'EMOD Malaria',
    'rtd_language': u'en',
    'programming_language': u'words',
    'canonical_url': '',
    'analytics_code': 'UA-87656833-3',
    'single_version': False,
    'conf_py_path': '/emod/malaria/',
    'api_host': 'https://readthedocs.com',
    'github_user': 'InstituteforDiseaseModeling',
    'proxied_api_host': '/_',
    'github_repo': 'EMOD-docs',
    'github_version': 'search',
    'display_github': True,
    'bitbucket_user': 'None',
    'bitbucket_repo': 'None',
    'bitbucket_version': 'search',
    'display_bitbucket': False,
    'gitlab_user': 'None',
    'gitlab_repo': 'None',
    'gitlab_version': 'search',
    'display_gitlab': False,
    'READTHEDOCS': True,
    'using_theme': (html_theme == "default"),
    'new_theme': (html_theme == "sphinx_rtd_theme"),
    'source_suffix': SUFFIX,
    'ad_free': False,
    'docsearch_disabled': False,
    'user_analytics_code': 'UA-87656833-3',
    'global_analytics_code': 'UA-17997319-2',
    'commit': 'c42ff9ab',
}

# For sphinx >=1.8 we can use html_baseurl to set the canonical URL.
# https://www.sphinx-doc.org/en/master/usage/configuration.html#confval-html_baseurl
if version_info >= (1, 8):
    if not globals().get('html_baseurl'):
        html_baseurl = context['canonical_url']
    context['canonical_url'] = None





if 'html_context' in globals():
    for key in context:
        if key not in html_context:
            html_context[key] = context[key]
else:
    html_context = context

# Add custom RTD extension
if 'extensions' in globals():
    # Insert at the beginning because it can interfere
    # with other extensions.
    # See https://github.com/rtfd/readthedocs.org/pull/4054
    extensions.insert(0, "readthedocs_ext.readthedocs")
else:
    extensions = ["readthedocs_ext.readthedocs"]

# Add External version warning banner to the external version documentation
if 'branch' == 'external':
    extensions.insert(1, "readthedocs_ext.external_version_warning")
    readthedocs_vcs_url = 'None'
    readthedocs_build_url = 'https://readthedocs.com/projects/institute-for-disease-modeling-emod-malaria/builds/1538277/'

project_language = 'en'

# User's Sphinx configurations
language_user = globals().get('language', None)
latex_engine_user = globals().get('latex_engine', None)
latex_elements_user = globals().get('latex_elements', None)

# Remove this once xindy gets installed in Docker image and XINDYOPS
# env variable is supported
# https://github.com/rtfd/readthedocs-docker-images/pull/98
latex_use_xindy = False

chinese = any([
    language_user in ('zh_CN', 'zh_TW'),
    project_language in ('zh_CN', 'zh_TW'),
])

japanese = any([
    language_user == 'ja',
    project_language == 'ja',
])

if chinese:
    latex_engine = latex_engine_user or 'xelatex'

    latex_elements_rtd = {
        'preamble': '\\usepackage[UTF8]{ctex}\n',
    }
    latex_elements = latex_elements_user or latex_elements_rtd
elif japanese:
    latex_engine = latex_engine_user or 'platex'

# Make sure our build directory is always excluded
exclude_patterns = globals().get('exclude_patterns', [])
exclude_patterns.extend(['_build'])

[rtd-command-info] start-time: 2023-06-14T21:26:12.463177Z, end-time: 2023-06-14T21:26:57.464531Z, duration: 45, exit-code: 0
python -m sphinx -T -E -W --keep-going -b html -d _build/doctrees -D language=en . $READTHEDOCS_OUTPUT/html
Running Sphinx v5.3.0
making output directory... done
loading intersphinx inventory from https://docs.python.org/3/objects.inv...
loading intersphinx inventory from https://docs.idmod.org/projects/emod-api/en/latest/objects.inv...
loading intersphinx inventory from https://docs.idmod.org/projects/emodpy/en/latest/objects.inv...
loading intersphinx inventory from https://docs.idmod.org/projects/emodpy-covid/en/latest/objects.inv...
loading intersphinx inventory from https://docs.idmod.org/projects/emodpy-generic/en/latest/objects.inv...
loading intersphinx inventory from https://docs.idmod.org/projects/emodpy-generic/en/latest/objects.inv...
loading intersphinx inventory from https://docs.idmod.org/projects/emodpy-measles/en/latest/objects.inv...
loading intersphinx inventory from https://docs.idmod.org/projects/emodpy-tbhiv/en/latest/objects.inv...
loading intersphinx inventory from https://docs.idmod.org/projects/idmtools/en/latest/objects.inv...
loading intersphinx inventory from https://docs.idmod.org/projects/emod-malaria/en/latest/objects.inv...
loading intersphinx inventory from https://docs.idmod.org/projects/emod-generic/en/latest/objects.inv...
loading intersphinx inventory from https://docs.idmod.org/projects/emod-airborne/en/latest/objects.inv...
loading intersphinx inventory from https://docs.idmod.org/projects/emod-tuberculosis/en/latest/objects.inv...
loading intersphinx inventory from https://docs.idmod.org/projects/emod-sti/en/latest/objects.inv...
loading intersphinx inventory from https://docs.idmod.org/projects/emod-hiv/en/latest/objects.inv...
loading intersphinx inventory from https://docs.idmod.org/projects/emod-environmental/en/latest/objects.inv...
loading intersphinx inventory from https://docs.idmod.org/projects/emod-typhoid/en/latest/objects.inv...
loading intersphinx inventory from https://docs.idmod.org/projects/emod-vector/en/latest/objects.inv...
loading intersphinx inventory from https://docs.idmod.org/projects/pycomps/en/latest/objects.inv...
myst v1.0.0: MdParserConfig(commonmark_only=False, gfm_only=False, enable_extensions=set(), disable_syntax=[], all_links_external=False, url_schemes=('http', 'https', 'mailto', 'ftp'), ref_domains=None, fence_as_directive=set(), number_code_blocks=[], title_to_header=False, heading_anchors=0, heading_slug_func=None, html_meta={}, footnote_transition=True, words_per_minute=200, substitutions={}, linkify_fuzzy_links=True, dmath_allow_labels=True, dmath_allow_space=True, dmath_allow_digits=True, dmath_double_inline=False, update_mathjax=True, mathjax_classes='tex2jax_process|mathjax_process|math|output_area', enable_checkboxes=False, suppress_warnings=[], highlight_code_blocks=True)
resolved configuration:
{'PY3': True,
 'SUFFIX': '.rst',
 '__file__': '/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emod-malaria/checkouts/search/emod/malaria/conf.py',
 'author': 'Institute for Disease Modeling',
 'chinese': False,
 'context': {'MEDIA_URL': 'https://media.readthedocs.com/media/',
             'PRODUCTION_DOMAIN': 'readthedocs.com',
             'READTHEDOCS': True,
             'STATIC_URL': 'https://assets.readthedocs.com/',
             'ad_free': False,
             'analytics_code': 'UA-87656833-3',
             'api_host': 'https://readthedocs.com',
             'bitbucket_repo': 'None',
             'bitbucket_user': 'None',
             'bitbucket_version': 'search',
             'canonical_url': None,
             'commit': 'c42ff9ab',
             'conf_py_path': '/emod/malaria/',
             'current_version': 'search',
             'display_bitbucket': False,
             'display_github': True,
             'display_gitlab': False,
             'docsearch_disabled': False,
             'downloads': [('html',
                            '//docs.idmod.org/_/downloads/emod-malaria/en/search/htmlzip/')],
             'github_repo': 'EMOD-docs',
             'github_user': 'InstituteforDiseaseModeling',
             'github_version': 'search',
             'gitlab_repo': 'None',
             'gitlab_user': 'None',
             'gitlab_version': 'search',
             'global_analytics_code': 'UA-17997319-2',
             'html_theme': 'sphinx_rtd_theme',
             'name': 'EMOD Malaria',
             'new_theme': True,
             'programming_language': 'words',
             'proxied_api_host': '/_',
             'proxied_static_path': '/_/static/',
             'rtd_language': 'en',
             'single_version': False,
             'slug': 'institute-for-disease-modeling-emod-malaria',
             'source_suffix': '.rst',
             'subprojects': [],
             'user_analytics_code': 'UA-87656833-3',
             'using_theme': False,
             'version_slug': 'search',
             'versions': [('latest', '/en/latest/'),
                          ('2.21_a', '/en/2.21_a/'),
                          ('2.20_a', '/en/2.20_a/'),
                          ('2.18', '/en/2.18/'),
                          ('2.14', '/en/2.14/'),
                          ('2.13', '/en/2.13/'),
                          ('2.10', '/en/2.10/')]},
 'copyright': '1999 - 2023, Bill & Melinda Gates Foundation. All rights '
              'reserved.',
 'datetime': <class 'datetime.datetime'>,
 'description': 'How to use the IDM EMOD software for modeling malaria.',
 'exclude_patterns': ['_build', 'Thumbs.db', '.DS_Store', '_build'],
 'extensions': ['readthedocs_ext.readthedocs',
                'sphinx.ext.mathjax',
                'sphinx.ext.intersphinx',
                'sphinx_search.extension',
                'myst_parser'],
 'html_baseurl': '',
 'html_context': {'MEDIA_URL': 'https://media.readthedocs.com/media/',
                  'PRODUCTION_DOMAIN': 'readthedocs.com',
                  'READTHEDOCS': True,
                  'STATIC_URL': 'https://assets.readthedocs.com/',
                  'ad_free': False,
                  'analytics_code': 'UA-87656833-3',
                  'api_host': 'https://readthedocs.com',
                  'bitbucket_repo': 'None',
                  'bitbucket_user': 'None',
                  'bitbucket_version': 'search',
                  'canonical_url': None,
                  'commit': 'c42ff9ab',
                  'conf_py_path': '/emod/malaria/',
                  'current_version': 'search',
                  'display_bitbucket': False,
                  'display_github': True,
                  'display_gitlab': False,
                  'docsearch_disabled': False,
                  'docset_title': 'EMOD for Malaria',
                  'downloads': [('html',
                                 '//docs.idmod.org/_/downloads/emod-malaria/en/search/htmlzip/')],
                  'github_repo': 'EMOD-docs',
                  'github_user': 'InstituteforDiseaseModeling',
                  'github_version': 'search',
                  'gitlab_repo': 'None',
                  'gitlab_user': 'None',
                  'gitlab_version': 'search',
                  'global_analytics_code': 'UA-17997319-2',
                  'html_theme': 'sphinx_rtd_theme',
                  'idm_docs_home': 'https://docs.idmod.org',
                  'name': 'EMOD Malaria',
                  'new_theme': True,
                  'programming_language': 'words',
                  'proxied_api_host': '/_',
                  'proxied_static_path': '/_/static/',
                  'rtd_language': 'en',
                  'single_version': False,
                  'slug': 'institute-for-disease-modeling-emod-malaria',
                  'source_suffix': '.rst',
                  'subprojects': [],
                  'user_analytics_code': 'UA-87656833-3',
                  'using_theme': False,
                  'version_slug': 'search',
                  'versions': [('latest', '/en/latest/'),
                               ('2.21_a', '/en/2.21_a/'),
                               ('2.20_a', '/en/2.20_a/'),
                               ('2.18', '/en/2.18/'),
                               ('2.14', '/en/2.14/'),
                               ('2.13', '/en/2.13/'),
                               ('2.10', '/en/2.10/')]},
 'html_favicon': '../images/favicon.ico',
 'html_logo': '../images/IDM_white.png',
 'html_show_sourcelink': False,
 'html_show_sphinx': False,
 'html_static_path': ['../_static'],
 'html_theme': 'sphinx_rtd_theme',
 'html_theme_path': ['/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emod-malaria/envs/search/lib/python3.7/site-packages'],
 'html_use_opensearch': 'docs.idmod.org/projects/emod-malaria',
 'htmlhelp_basename': 'EMOD for Malaria',
 'importlib': <module 'importlib' from '/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emod-malaria/envs/search/lib/python3.7/importlib/__init__.py'>,
 'intersphinx_mapping': {'emod-airborne': ('emod-airborne',
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[rtd-command-info] start-time: 2023-06-14T21:26:58.045601Z, end-time: 2023-06-14T21:27:39.788627Z, duration: 41, exit-code: 0
python -m sphinx -T -E -W --keep-going -b readthedocssinglehtmllocalmedia -d _build/doctrees -D language=en . $READTHEDOCS_OUTPUT/htmlzip
Running Sphinx v5.3.0
making output directory... done
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loading intersphinx inventory from https://docs.idmod.org/projects/emod-malaria/en/latest/objects.inv...
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loading intersphinx inventory from https://docs.idmod.org/projects/emod-airborne/en/latest/objects.inv...
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myst v1.0.0: MdParserConfig(commonmark_only=False, gfm_only=False, enable_extensions=set(), disable_syntax=[], all_links_external=False, url_schemes=('http', 'https', 'mailto', 'ftp'), ref_domains=None, fence_as_directive=set(), number_code_blocks=[], title_to_header=False, heading_anchors=0, heading_slug_func=None, html_meta={}, footnote_transition=True, words_per_minute=200, substitutions={}, linkify_fuzzy_links=True, dmath_allow_labels=True, dmath_allow_space=True, dmath_allow_digits=True, dmath_double_inline=False, update_mathjax=True, mathjax_classes='tex2jax_process|mathjax_process|math|output_area', enable_checkboxes=False, suppress_warnings=[], highlight_code_blocks=True)
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assembling single document... whats-new install-overview install-windows install-linux software-overview software-inputs software-demographics software-demographics-overlay software-configuration software-configuration-overlay software-configuration-script software-parameter-sweep software-campaign software-campaign-overlay software-migration software-migration-creation software-migration-vector software-climate software-load-balancing software-serialized software-run-simulation software-simulation-cli software-simulation-mpiexec software-simulation-python software-simulation-matlab software-simulation-performance software-serializing-pops software-serializing-create software-serializing-change-config software-serializing-change-campaign software-serializing-change-demog software-serializing-change-climate software-serializing-change-migration software-serializing-change-reports software-outputs software-custom-reporter software-error-logging software-report-binned software-report-demographic-summary software-report-inset-chart software-report-property software-report-event-counter software-report-event-recorder software-report-human-migration software-report-node-demographics software-report-spatial software-report-vector-genetics software-report-vector-migration software-report-vector-stats software-report-vector-habitat software-report-vector-species software-report-malaria-immunity software-report-malaria-patient software-report-malaria-sql software-report-malaria-summary software-report-malaria-survey software-report-drug-status software-report-filtered-malaria software-report-malaria-node-demographics software-report-malaria-node-demographics-genetics software-report-simple-malaria-transmission software-report-vector-stats-malaria-genetics software-report-malaria-spatial software-report-intervention-population-average tutorials generic-scenarios vector-scenarios malaria-scenarios troubleshooting model-overview generic-model-overview model-compartments model-sir model-seir model-si model-outbreak model-heterogeneity model-population-density model-properties model-hint model-mr-hint model-migration model-campaign model-targeted-interventions model-vaccination model-care-cascade vector-model-overview vector-model-climate-demographics vector-model-larval-habitat vector-model-transmission malaria-model-overview malaria-model-infection-immunity malaria-model-symptoms-diagnosis malaria-model-antimalarial-drugs malaria-overview parameter-overview parameter-demographics parameter-configuration parameter-configuration-drugs parameter-configuration-enable parameter-configuration-general-disease parameter-configuration-env parameter-configuration-immunity parameter-configuration-incubation parameter-configuration-infectivity parameter-configuration-input parameter-configuration-larval parameter-configuration-migration parameter-configuration-mortality parameter-configuration-output parameter-configuration-parasite parameter-configuration-population parameter-configuration-sampling parameter-configuration-scalars parameter-configuration-setup parameter-configuration-symptoms parameter-configuration-vector-control parameter-configuration-vector-lifecycle parameter-campaign parameter-campaign-event-coordinators parameter-campaign-event-broadcastcoordinatorevent parameter-campaign-event-calendareventcoordinator parameter-campaign-event-campaignevent parameter-campaign-event-communityhealthworkereventcoordinator parameter-campaign-event-coveragebynodeeventcoordinator parameter-campaign-event-delayeventcoordinator parameter-campaign-event-incidenceeventcoordinator parameter-campaign-event-nchoosereventcoordinator parameter-campaign-event-standardinterventiondistributioneventcoordinator parameter-campaign-event-surveillanceeventcoordinator parameter-campaign-event-triggeredeventcoordinator parameter-campaign-node-interventions parameter-campaign-node-animalfeedkill parameter-campaign-node-artificialdiet parameter-campaign-node-broadcastnodeevent parameter-campaign-node-indoorspacespraying parameter-campaign-node-inputeir parameter-campaign-node-larvicides parameter-campaign-node-malariachallenge parameter-campaign-node-migratefamily parameter-campaign-node-mosquitorelease parameter-campaign-node-multiinsecticideindoorspacespraying parameter-campaign-node-multiinsecticidespacespraying parameter-campaign-node-multinodeinterventiondistributor parameter-campaign-node-nlhtivnode parameter-campaign-node-nodelevelhealthtriggerediv parameter-campaign-node-nodepropertyvaluechanger parameter-campaign-node-outbreak parameter-campaign-node-outdoorrestkill parameter-campaign-node-ovipositiontrap parameter-campaign-node-scalelarvalhabitat parameter-campaign-node-spacespraying parameter-campaign-node-spatialrepellent parameter-campaign-node-sugartrap parameter-campaign-individual-interventions parameter-campaign-individual-adherentdrug parameter-campaign-individual-antimalarialdrug parameter-campaign-individual-bitingrisk parameter-campaign-individual-broadcastevent parameter-campaign-individual-broadcasteventtoothernodes parameter-campaign-individual-controlledvaccine parameter-campaign-individual-delayedintervention parameter-campaign-individual-humanhostseekingtrap parameter-campaign-individual-immunitybloodtest parameter-campaign-individual-individualimmunitychanger parameter-campaign-individual-irshousingmodification parameter-campaign-individual-ivcalendar parameter-campaign-individual-ivermectin parameter-campaign-individual-malariadiagnostic parameter-campaign-individual-migrateindividuals parameter-campaign-individual-multieffectboostervaccine parameter-campaign-individual-multieffectvaccine parameter-campaign-individual-multiinsecticideirshousingmodification parameter-campaign-individual-multiinsecticideusagedependentbednet parameter-campaign-individual-multiinterventiondistributor parameter-campaign-individual-multipackcombodrug parameter-campaign-individual-outbreakindividual parameter-campaign-individual-outbreakindividualmalariagenetics parameter-campaign-individual-outbreakindividualmalariavargenes parameter-campaign-individual-propertyvaluechanger parameter-campaign-individual-rtssvaccine parameter-campaign-individual-screeninghousingmodification parameter-campaign-individual-simplebednet parameter-campaign-individual-simpleboostervaccine parameter-campaign-individual-simplediagnostic parameter-campaign-individual-simplehealthseekingbehavior parameter-campaign-individual-simplehousingmodification parameter-campaign-individual-simpleindividualrepellent parameter-campaign-individual-simplevaccine parameter-campaign-individual-spatialrepellenthousingmodification parameter-campaign-individual-standarddiagnostic parameter-campaign-individual-usagedependentbednet parameter-campaign-waningeffects parameter-campaign-targeting-config parameter-campaign-event-list parameter-schema faq tips-tricks tips-biting-risk glossary dev-install-overview dev-install-windows-prerequisites dev-install-centos-prerequisites dev-install-download-emod dev-install-build-emod dev-install-centos-docker dev-install-centos-docker-linux dev-install-centos-docker-win dev-architecture-overview dev-architecture-environment dev-architecture-sim-controller dev-architecture-core dev-architecture-campaigns dev-architecture-reporter dev-debugging-overview dev-logging dev-simulations dev-trouble-build dev-regression dev-regression-run dev-regression-new dev-sft done
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copying images... [100%] ../images/dev/matplotlibPopupChart.png

copying static files... done
copying extra files... done
dumping object inventory... done
Updating searchtools for Read the Docs search... build succeeded.

The HTML page is in ../../_readthedocs/htmlzip.