Read the Docs build information
Build id: 2685800
Project: institute-for-disease-modeling-emodpy-malaria
Version: 9
Commit: 95c732f2cdcdc9220ad29c4b8b16259a5338a492
Date: 2024-12-14T21:52:42.628356Z
State: finished
Success: True


[rtd-command-info] start-time: 2024-12-14T21:52:43.991384Z, end-time: 2024-12-14T21:52:45.843871Z, duration: 1, exit-code: 0
git clone --depth 1 https://github.com/EMOD-Hub/emodpy-malaria.git .
Cloning into '.'...

[rtd-command-info] start-time: 2024-12-14T21:52:45.935171Z, end-time: 2024-12-14T21:52:47.719288Z, duration: 1, exit-code: 0
git fetch origin --force --prune --prune-tags --depth 50 pull/9/head:external-9
From https://github.com/EMOD-Hub/emodpy-malaria
 * [new ref]         refs/pull/9/head -> external-9
 * [new tag]         v4.0.0           -> v4.0.0

[rtd-command-info] start-time: 2024-12-14T21:52:47.893268Z, end-time: 2024-12-14T21:52:48.390096Z, duration: 0, exit-code: 0
git checkout --force 95c732f2cdcdc9220ad29c4b8b16259a5338a492
Note: switching to '95c732f2cdcdc9220ad29c4b8b16259a5338a492'.

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 95c732f updates per code review.

[rtd-command-info] start-time: 2024-12-14T21:52:48.482235Z, end-time: 2024-12-14T21:52:48.542411Z, duration: 0, exit-code: 0
cat .readthedocs.yml
# .readthedocs.yml
# Read the Docs configuration file
# See https://docs.readthedocs.io/en/stable/config-file/v2.html for details

# Required
version: 2

# Set the version of Python and other tools you might need
build:
  os: ubuntu-20.04
  tools:
    python: "3.9"

# Build documentation in the docs/ directory with Sphinx
sphinx:
  configuration: docs/conf.py
  fail_on_warning: true

# Build documentation with MkDocs
#mkdocs:
#  configuration: mkdocs.yml

# Optionally build your docs in additional formats such as PDF
formats:
  - htmlzip

# Optionally set the version of Python and requirements required to build your docs
python:
   install:
      - requirements: requirements.txt
      - requirements: docs/requirements.txt
      - method: setuptools
        path: .
        
# Optionally rank topics in search results, between -10 (lower) and 10 (higher).
# 0 is normal rank, not no rank

# search:
#   ranking:

[rtd-command-info] start-time: 2024-12-14T21:52:54.494741Z, end-time: 2024-12-14T21:52:55.101216Z, duration: 0, exit-code: 0
asdf global python 3.9.20


[rtd-command-info] start-time: 2024-12-14T21:52:56.112638Z, end-time: 2024-12-14T21:52:58.545919Z, duration: 2, exit-code: 0
python -mvirtualenv $READTHEDOCS_VIRTUALENV_PATH
created virtual environment CPython3.9.20.final.0-64 in 861ms
  creator CPython3Posix(dest=/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9, clear=False, no_vcs_ignore=False, global=False)
  seeder FromAppData(download=False, pip=bundle, setuptools=bundle, wheel=bundle, via=copy, app_data_dir=/home/docs/.local/share/virtualenv)
    added seed packages: pip==23.1, setuptools==67.6.1, wheel==0.40.0
  activators BashActivator,CShellActivator,FishActivator,NushellActivator,PowerShellActivator,PythonActivator

[rtd-command-info] start-time: 2024-12-14T21:52:58.645413Z, end-time: 2024-12-14T21:53:13.803299Z, duration: 15, exit-code: 0
python -m pip install --upgrade --no-cache-dir pip setuptools
Looking in indexes: https://pypi.org/simple, https://packages.idmod.org/api/pypi/pypi-production/simple
Requirement already satisfied: pip in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages (23.1)
Collecting pip
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/ef/7d/500c9ad20238fcfcb4cb9243eede163594d7020ce87bd9610c9e02771876/pip-24.3.1-py3-none-any.whl (1.8 MB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 1.8/1.8 MB 15.2 MB/s eta 0:00:00
Requirement already satisfied: setuptools in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages (67.6.1)
Collecting setuptools
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/55/21/47d163f615df1d30c094f6c8bbb353619274edccf0327b185cc2493c2c33/setuptools-75.6.0-py3-none-any.whl (1.2 MB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 1.2/1.2 MB 18.3 MB/s eta 0:00:00
Installing collected packages: setuptools, pip
  Attempting uninstall: setuptools
    Found existing installation: setuptools 67.6.1
    Uninstalling setuptools-67.6.1:
      Successfully uninstalled setuptools-67.6.1
  Attempting uninstall: pip
    Found existing installation: pip 23.1
    Uninstalling pip-23.1:
      Successfully uninstalled pip-23.1
Successfully installed pip-24.3.1 setuptools-75.6.0

[rtd-command-info] start-time: 2024-12-14T21:53:13.904629Z, end-time: 2024-12-14T21:53:22.358106Z, duration: 8, exit-code: 0
python -m pip install --upgrade --no-cache-dir sphinx
Looking in indexes: https://pypi.org/simple, https://packages.idmod.org/api/pypi/pypi-production/simple
Collecting sphinx
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/0d/ef/153f6803c5d5f8917dbb7f7fcf6d34a871ede3296fa89c2c703f5f8a6c8e/sphinx-7.4.7-py3-none-any.whl (3.4 MB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 3.4/3.4 MB 17.8 MB/s eta 0:00:00
Collecting sphinxcontrib-applehelp (from sphinx)
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/5d/85/9ebeae2f76e9e77b952f4b274c27238156eae7979c5421fba91a28f4970d/sphinxcontrib_applehelp-2.0.0-py3-none-any.whl (119 kB)
Collecting sphinxcontrib-devhelp (from sphinx)
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/35/7a/987e583882f985fe4d7323774889ec58049171828b58c2217e7f79cdf44e/sphinxcontrib_devhelp-2.0.0-py3-none-any.whl (82 kB)
Collecting sphinxcontrib-jsmath (from sphinx)
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/c2/42/4c8646762ee83602e3fb3fbe774c2fac12f317deb0b5dbeeedd2d3ba4b77/sphinxcontrib_jsmath-1.0.1-py2.py3-none-any.whl (5.1 kB)
Collecting sphinxcontrib-htmlhelp>=2.0.0 (from sphinx)
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/0a/7b/18a8c0bcec9182c05a0b3ec2a776bba4ead82750a55ff798e8d406dae604/sphinxcontrib_htmlhelp-2.1.0-py3-none-any.whl (98 kB)
Collecting sphinxcontrib-serializinghtml>=1.1.9 (from sphinx)
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/52/a7/d2782e4e3f77c8450f727ba74a8f12756d5ba823d81b941f1b04da9d033a/sphinxcontrib_serializinghtml-2.0.0-py3-none-any.whl (92 kB)
Collecting sphinxcontrib-qthelp (from sphinx)
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/27/83/859ecdd180cacc13b1f7e857abf8582a64552ea7a061057a6c716e790fce/sphinxcontrib_qthelp-2.0.0-py3-none-any.whl (88 kB)
Collecting Jinja2>=3.1 (from sphinx)
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/31/80/3a54838c3fb461f6fec263ebf3a3a41771bd05190238de3486aae8540c36/jinja2-3.1.4-py3-none-any.whl (133 kB)
Collecting Pygments>=2.17 (from sphinx)
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/f7/3f/01c8b82017c199075f8f788d0d906b9ffbbc5a47dc9918a945e13d5a2bda/pygments-2.18.0-py3-none-any.whl (1.2 MB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 1.2/1.2 MB 17.4 MB/s eta 0:00:00
Collecting docutils<0.22,>=0.20 (from sphinx)
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/8f/d7/9322c609343d929e75e7e5e6255e614fcc67572cfd083959cdef3b7aad79/docutils-0.21.2-py3-none-any.whl (587 kB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 587.4/587.4 kB 21.2 MB/s eta 0:00:00
Collecting snowballstemmer>=2.2 (from sphinx)
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/ed/dc/c02e01294f7265e63a7315fe086dd1df7dacb9f840a804da846b96d01b96/snowballstemmer-2.2.0-py2.py3-none-any.whl (93 kB)
Collecting babel>=2.13 (from sphinx)
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/ed/20/bc79bc575ba2e2a7f70e8a1155618bb1301eaa5132a8271373a6903f73f8/babel-2.16.0-py3-none-any.whl (9.6 MB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 9.6/9.6 MB 17.7 MB/s eta 0:00:00
Collecting alabaster~=0.7.14 (from sphinx)
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/32/34/d4e1c02d3bee589efb5dfa17f88ea08bdb3e3eac12bc475462aec52ed223/alabaster-0.7.16-py3-none-any.whl (13 kB)
Collecting imagesize>=1.3 (from sphinx)
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/ff/62/85c4c919272577931d407be5ba5d71c20f0b616d31a0befe0ae45bb79abd/imagesize-1.4.1-py2.py3-none-any.whl (8.8 kB)
Collecting requests>=2.30.0 (from sphinx)
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/f9/9b/335f9764261e915ed497fcdeb11df5dfd6f7bf257d4a6a2a686d80da4d54/requests-2.32.3-py3-none-any.whl (64 kB)
Collecting packaging>=23.0 (from sphinx)
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/88/ef/eb23f262cca3c0c4eb7ab1933c3b1f03d021f2c48f54763065b6f0e321be/packaging-24.2-py3-none-any.whl (65 kB)
Collecting importlib-metadata>=6.0 (from sphinx)
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/a0/d9/a1e041c5e7caa9a05c925f4bdbdfb7f006d1f74996af53467bc394c97be7/importlib_metadata-8.5.0-py3-none-any.whl (26 kB)
Collecting tomli>=2 (from sphinx)
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/6e/c2/61d3e0f47e2b74ef40a68b9e6ad5984f6241a942f7cd3bbfbdbd03861ea9/tomli-2.2.1-py3-none-any.whl (14 kB)
Collecting zipp>=3.20 (from importlib-metadata>=6.0->sphinx)
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/b7/1a/7e4798e9339adc931158c9d69ecc34f5e6791489d469f5e50ec15e35f458/zipp-3.21.0-py3-none-any.whl (9.6 kB)
Collecting MarkupSafe>=2.0 (from Jinja2>=3.1->sphinx)
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/53/8f/f339c98a178f3c1e545622206b40986a4c3307fe39f70ccd3d9df9a9e425/MarkupSafe-3.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (20 kB)
Collecting charset-normalizer<4,>=2 (from requests>=2.30.0->sphinx)
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/28/89/60f51ad71f63aaaa7e51a2a2ad37919985a341a1d267070f212cdf6c2d22/charset_normalizer-3.4.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (144 kB)
Collecting idna<4,>=2.5 (from requests>=2.30.0->sphinx)
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/76/c6/c88e154df9c4e1a2a66ccf0005a88dfb2650c1dffb6f5ce603dfbd452ce3/idna-3.10-py3-none-any.whl (70 kB)
Collecting urllib3<3,>=1.21.1 (from requests>=2.30.0->sphinx)
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/ce/d9/5f4c13cecde62396b0d3fe530a50ccea91e7dfc1ccf0e09c228841bb5ba8/urllib3-2.2.3-py3-none-any.whl (126 kB)
Collecting certifi>=2017.4.17 (from requests>=2.30.0->sphinx)
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/a5/32/8f6669fc4798494966bf446c8c4a162e0b5d893dff088afddf76414f70e1/certifi-2024.12.14-py3-none-any.whl (164 kB)
Installing collected packages: snowballstemmer, zipp, urllib3, tomli, sphinxcontrib-serializinghtml, sphinxcontrib-qthelp, sphinxcontrib-jsmath, sphinxcontrib-htmlhelp, sphinxcontrib-devhelp, sphinxcontrib-applehelp, Pygments, packaging, MarkupSafe, imagesize, idna, docutils, charset-normalizer, certifi, babel, alabaster, requests, Jinja2, importlib-metadata, sphinx
Successfully installed Jinja2-3.1.4 MarkupSafe-3.0.2 Pygments-2.18.0 alabaster-0.7.16 babel-2.16.0 certifi-2024.12.14 charset-normalizer-3.4.0 docutils-0.21.2 idna-3.10 imagesize-1.4.1 importlib-metadata-8.5.0 packaging-24.2 requests-2.32.3 snowballstemmer-2.2.0 sphinx-7.4.7 sphinxcontrib-applehelp-2.0.0 sphinxcontrib-devhelp-2.0.0 sphinxcontrib-htmlhelp-2.1.0 sphinxcontrib-jsmath-1.0.1 sphinxcontrib-qthelp-2.0.0 sphinxcontrib-serializinghtml-2.0.0 tomli-2.2.1 urllib3-2.2.3 zipp-3.21.0

[rtd-command-info] start-time: 2024-12-14T21:53:22.448371Z, end-time: 2024-12-14T21:54:26.025772Z, duration: 63, exit-code: 0
python -m pip install --exists-action=w --no-cache-dir -r requirements.txt
Looking in indexes: https://pypi.org/simple, https://packages.idmod.org/api/pypi/pypi-production/simple
Collecting emodpy~=1.16 (from -r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/emodpy/1.22.1/emodpy-1.22.1-py3-none-any.whl (122 kB)
Collecting emod-malaria==0.0.72 (from -r requirements.txt (line 2))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/emod-malaria/0.0.72/emod_malaria-0.0.72-py3-none-any.whl (3.8 MB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 3.8/3.8 MB 12.8 MB/s eta 0:00:00
Collecting requests==2.29.0 (from -r requirements.txt (line 3))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/cf/e1/2aa539876d9ed0ddc95882451deb57cfd7aa8dbf0b8dbce68e045549ba56/requests-2.29.0-py3-none-any.whl (62 kB)
Requirement already satisfied: charset-normalizer<4,>=2 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages (from requests==2.29.0->-r requirements.txt (line 3)) (3.4.0)
Requirement already satisfied: idna<4,>=2.5 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages (from requests==2.29.0->-r requirements.txt (line 3)) (3.10)
Collecting urllib3<1.27,>=1.21.1 (from requests==2.29.0->-r requirements.txt (line 3))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/33/cf/8435d5a7159e2a9c83a95896ed596f68cf798005fe107cc655b5c5c14704/urllib3-1.26.20-py2.py3-none-any.whl (144 kB)
Requirement already satisfied: certifi>=2017.4.17 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages (from requests==2.29.0->-r requirements.txt (line 3)) (2024.12.14)
Collecting click~=7.1 (from emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/d2/3d/fa76db83bf75c4f8d338c2fd15c8d33fdd7ad23a9b5e57eb6c5de26b430e/click-7.1.2-py2.py3-none-any.whl (82 kB)
Collecting idmtools~=1.7 (from emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/idmtools/1.7.11/idmtools-1.7.11-py3-none-any.whl (171 kB)
Collecting idmtools-platform-comps~=1.7 (from emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/idmtools-platform-comps/1.7.11/idmtools_platform_comps-1.7.11-py3-none-any.whl (134 kB)
Collecting idmtools-models~=1.7 (from emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/idmtools-models/1.7.11/idmtools_models-1.7.11-py3-none-any.whl (18 kB)
Collecting emod-api~=1.30 (from emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/emod-api/1.33.3/emod_api-1.33.3-py3-none-any.whl (177 kB)
Collecting matplotlib (from emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/5d/a7/bb01188fb4013d34d274caf44a2f8091255b0497438e8b6c0a7c1710c692/matplotlib-3.9.4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (8.3 MB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 8.3/8.3 MB 12.8 MB/s eta 0:00:00
Collecting astor (from emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/c3/88/97eef84f48fa04fbd6750e62dcceafba6c63c81b7ac1420856c8dcc0a3f9/astor-0.8.1-py2.py3-none-any.whl (27 kB)
Collecting astunparse (from emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/2b/03/13dde6512ad7b4557eb792fbcf0c653af6076b81e5941d36ec61f7ce6028/astunparse-1.6.3-py2.py3-none-any.whl (12 kB)
Collecting bs4 (from emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/51/bb/bf7aab772a159614954d84aa832c129624ba6c32faa559dfb200a534e50b/bs4-0.0.2-py2.py3-none-any.whl (1.2 kB)
Collecting keyring (from emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/32/c9/353c156fa2f057e669106e5d6bcdecf85ef8d3536ce68ca96f18dc7b6d6f/keyring-25.5.0-py3-none-any.whl (39 kB)
Collecting pyCOMPS~=2.6 (from emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/pyCOMPS/2.11.0/pyCOMPS-2.11.0-py2.py3-none-any.whl (75 kB)
Collecting xmlrunner~=1.7.7 (from emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/57/c0/a19e29bc6038a56bb690549573af6ea11a9d2a5c07aff2e27ed308c2cab9/xmlrunner-1.7.7.tar.gz (5.6 kB)
  Preparing metadata (setup.py): started
  Preparing metadata (setup.py): finished with status 'done'
Collecting pytest==8.1.2 (from emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/f0/d7/a812a0bd0f5160823e647524488cc9734f93782f2c273b8f77e8afc60a37/pytest-8.1.2-py3-none-any.whl (337 kB)
Collecting iniconfig (from pytest==8.1.2->emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/ef/a6/62565a6e1cf69e10f5727360368e451d4b7f58beeac6173dc9db836a5b46/iniconfig-2.0.0-py3-none-any.whl (5.9 kB)
Requirement already satisfied: packaging in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages (from pytest==8.1.2->emodpy~=1.16->-r requirements.txt (line 1)) (24.2)
Collecting pluggy<2.0,>=1.4 (from pytest==8.1.2->emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/88/5f/e351af9a41f866ac3f1fac4ca0613908d9a41741cfcf2228f4ad853b697d/pluggy-1.5.0-py3-none-any.whl (20 kB)
Collecting exceptiongroup>=1.0.0rc8 (from pytest==8.1.2->emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/02/cc/b7e31358aac6ed1ef2bb790a9746ac2c69bcb3c8588b41616914eb106eaf/exceptiongroup-1.2.2-py3-none-any.whl (16 kB)
Requirement already satisfied: tomli>=1 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages (from pytest==8.1.2->emodpy~=1.16->-r requirements.txt (line 1)) (2.2.1)
Collecting numpy!=1.19.4 (from emod-api~=1.30->emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/b9/14/78635daab4b07c0930c919d451b8bf8c164774e6a3413aed04a6d95758ce/numpy-2.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (19.5 MB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 19.5/19.5 MB 12.6 MB/s eta 0:00:00
Collecting pyyaml (from emod-api~=1.30->emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/3d/32/e7bd8535d22ea2874cef6a81021ba019474ace0d13a4819c2a4bce79bd6a/PyYAML-6.0.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (737 kB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 737.4/737.4 kB 14.9 MB/s eta 0:00:00
Collecting pandas (from emod-api~=1.30->emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/3d/dd/bed19c2974296661493d7acc4407b1d2db4e2a482197df100f8f965b6225/pandas-2.2.3-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (13.1 MB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 13.1/13.1 MB 12.7 MB/s eta 0:00:00
Collecting scipy (from emod-api~=1.30->emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/35/f5/d0ad1a96f80962ba65e2ce1de6a1e59edecd1f0a7b55990ed208848012e0/scipy-1.13.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (38.6 MB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 38.6/38.6 MB 12.6 MB/s eta 0:00:00
Collecting shapely (from emod-api~=1.30->emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/a5/b2/6a4589439880244f86c1d3061efd91faf8ec21e646df18730810b6d59481/shapely-2.0.6-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (2.5 MB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 2.5/2.5 MB 12.9 MB/s eta 0:00:00
Collecting pyproj (from emod-api~=1.30->emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/97/0a/b1525be9680369cc06dd288e12c59d24d5798b4afcdcf1b0915836e1caa6/pyproj-3.6.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (8.3 MB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 8.3/8.3 MB 12.7 MB/s eta 0:00:00
Collecting geographiclib (from emod-api~=1.30->emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/9f/5a/a26132406f1f40cf51ea349a5f11b0a46cec02a2031ff82e391c2537247a/geographiclib-2.0-py3-none-any.whl (40 kB)
Collecting scikit-learn (from emod-api~=1.30->emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/c3/57/1bc8878528ebd28ba4e84001593ffc62d861d49d3ef3a9ac75a45acb04a1/scikit_learn-1.6.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (13.5 MB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 13.5/13.5 MB 12.7 MB/s eta 0:00:00
Collecting lz4 (from emod-api~=1.30->emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/10/39/baa1138796c410449ec1d8942cd8105c1ed41745e2b16f64dbe02ff10ee3/lz4-4.3.3-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (1.3 MB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 1.3/1.3 MB 13.7 MB/s eta 0:00:00
Collecting prodict (from emod-api~=1.30->emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/51/d0/c0b82243b181a62cf30124f09d75e9532f4ea17bbb8610395b480de4ddc9/prodict-0.8.20.tar.gz (4.7 kB)
  Installing build dependencies: started
  Installing build dependencies: finished with status 'done'
  Getting requirements to build wheel: started
  Getting requirements to build wheel: finished with status 'done'
  Preparing metadata (pyproject.toml): started
  Preparing metadata (pyproject.toml): finished with status 'done'
Collecting graphviz (from emod-api~=1.30->emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/00/be/d59db2d1d52697c6adc9eacaf50e8965b6345cc143f671e1ed068818d5cf/graphviz-0.20.3-py3-none-any.whl (47 kB)
Collecting parse (from emod-api~=1.30->emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/d0/31/ba45bf0b2aa7898d81cbbfac0e88c267befb59ad91a19e36e1bc5578ddb1/parse-1.20.2-py2.py3-none-any.whl (20 kB)
Collecting backoff<2.3,>=1.10.0 (from idmtools~=1.7->emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/df/73/b6e24bd22e6720ca8ee9a85a0c4a2971af8497d8f3193fa05390cbd46e09/backoff-2.2.1-py3-none-any.whl (15 kB)
Collecting coloredlogs~=15.0 (from idmtools~=1.7->emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/a7/06/3d6badcf13db419e25b07041d9c7b4a2c331d3f4e7134445ec5df57714cd/coloredlogs-15.0.1-py2.py3-none-any.whl (46 kB)
Collecting diskcache~=5.4.0 (from idmtools~=1.7->emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/a1/c4/80d38cf6852ba87f8b506a91f18b3a485c668f452700689add960d7e2ecc/diskcache-5.4.0-py3-none-any.whl (44 kB)
Collecting filelock (from idmtools~=1.7->emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/b9/f8/feced7779d755758a52d1f6635d990b8d98dc0a29fa568bbe0625f18fdf3/filelock-3.16.1-py3-none-any.whl (16 kB)
Collecting more-itertools~=9.1.0 (from idmtools~=1.7->emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/85/01/e2678ee4e0d7eed4fd6be9e5b043fff9d22d245d06c8c91def8ced664189/more_itertools-9.1.0-py3-none-any.whl (54 kB)
Collecting tabulate<0.10,>=0.8.9 (from idmtools~=1.7->emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/40/44/4a5f08c96eb108af5cb50b41f76142f0afa346dfa99d5296fe7202a11854/tabulate-0.9.0-py3-none-any.whl (35 kB)
Collecting tqdm<5,>=4.52.0 (from idmtools~=1.7->emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/d0/30/dc54f88dd4a2b5dc8a0279bdd7270e735851848b762aeb1c1184ed1f6b14/tqdm-4.67.1-py3-none-any.whl (78 kB)
Requirement already satisfied: jinja2~=3.1.3 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages (from idmtools~=1.7->emodpy~=1.16->-r requirements.txt (line 1)) (3.1.4)
Collecting natsort~=8.4.0 (from idmtools-platform-comps~=1.7->emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/ef/82/7a9d0550484a62c6da82858ee9419f3dd1ccc9aa1c26a1e43da3ecd20b0d/natsort-8.4.0-py3-none-any.whl (38 kB)
Collecting pytz>=2016.3 (from pyCOMPS~=2.6->emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/11/c3/005fcca25ce078d2cc29fd559379817424e94885510568bc1bc53d7d5846/pytz-2024.2-py2.py3-none-any.whl (508 kB)
Collecting future>=0.16.0 (from pyCOMPS~=2.6->emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/da/71/ae30dadffc90b9006d77af76b393cb9dfbfc9629f339fc1574a1c52e6806/future-1.0.0-py3-none-any.whl (491 kB)
Collecting xdg>=4.0.1 (from pyCOMPS~=2.6->emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/dd/54/3516c1cf349060fc3578686d271eba242f10ec00b4530c2985af9faac49b/xdg-6.0.0-py3-none-any.whl (3.9 kB)
Requirement already satisfied: wheel<1.0,>=0.23.0 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages (from astunparse->emodpy~=1.16->-r requirements.txt (line 1)) (0.40.0)
Collecting six<2.0,>=1.6.1 (from astunparse->emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/b7/ce/149a00dd41f10bc29e5921b496af8b574d8413afcd5e30dfa0ed46c2cc5e/six-1.17.0-py2.py3-none-any.whl (11 kB)
Collecting beautifulsoup4 (from bs4->emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/b1/fe/e8c672695b37eecc5cbf43e1d0638d88d66ba3a44c4d321c796f4e59167f/beautifulsoup4-4.12.3-py3-none-any.whl (147 kB)
Collecting jaraco.classes (from keyring->emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/7f/66/b15ce62552d84bbfcec9a4873ab79d993a1dd4edb922cbfccae192bd5b5f/jaraco.classes-3.4.0-py3-none-any.whl (6.8 kB)
Collecting jaraco.functools (from keyring->emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/9f/4f/24b319316142c44283d7540e76c7b5a6dbd5db623abd86bb7b3491c21018/jaraco.functools-4.1.0-py3-none-any.whl (10 kB)
Collecting jaraco.context (from keyring->emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/ff/db/0c52c4cf5e4bd9f5d7135ec7669a3a767af21b3a308e1ed3674881e52b62/jaraco.context-6.0.1-py3-none-any.whl (6.8 kB)
Requirement already satisfied: importlib-metadata>=4.11.4 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages (from keyring->emodpy~=1.16->-r requirements.txt (line 1)) (8.5.0)
Collecting SecretStorage>=3.2 (from keyring->emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/54/24/b4293291fa1dd830f353d2cb163295742fa87f179fcc8a20a306a81978b7/SecretStorage-3.3.3-py3-none-any.whl (15 kB)
Collecting jeepney>=0.4.2 (from keyring->emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/ae/72/2a1e2290f1ab1e06f71f3d0f1646c9e4634e70e1d37491535e19266e8dc9/jeepney-0.8.0-py3-none-any.whl (48 kB)
Collecting contourpy>=1.0.1 (from matplotlib->emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/05/11/57335544a3027e9b96a05948c32e566328e3a2f84b7b99a325b7a06d2b06/contourpy-1.3.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (321 kB)
Collecting cycler>=0.10 (from matplotlib->emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/e7/05/c19819d5e3d95294a6f5947fb9b9629efb316b96de511b418c53d245aae6/cycler-0.12.1-py3-none-any.whl (8.3 kB)
Collecting fonttools>=4.22.0 (from matplotlib->emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/6b/77/9893aa413e7d839e292685bae0749a319eacba9470c85253529d35248075/fonttools-4.55.3-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (4.6 MB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 4.6/4.6 MB 18.1 MB/s eta 0:00:00
Collecting kiwisolver>=1.3.1 (from matplotlib->emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/21/b1/40655f6c3fa11ce740e8a964fa8e4c0479c87d6a7944b95af799c7a55dfe/kiwisolver-1.4.7-cp39-cp39-manylinux_2_12_x86_64.manylinux2010_x86_64.whl (1.6 MB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 1.6/1.6 MB 18.4 MB/s eta 0:00:00
Collecting pillow>=8 (from matplotlib->emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/36/5d/a9a00f8251ce93144f0250c0f0aece31b83ff33ffc243cdf987a8d584818/pillow-11.0.0-cp39-cp39-manylinux_2_28_x86_64.whl (4.4 MB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 4.4/4.4 MB 18.1 MB/s eta 0:00:00
Collecting pyparsing>=2.3.1 (from matplotlib->emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/be/ec/2eb3cd785efd67806c46c13a17339708ddc346cbb684eade7a6e6f79536a/pyparsing-3.2.0-py3-none-any.whl (106 kB)
Collecting python-dateutil>=2.7 (from matplotlib->emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/ec/57/56b9bcc3c9c6a792fcbaf139543cee77261f3651ca9da0c93f5c1221264b/python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB)
Collecting importlib-resources>=3.2.0 (from matplotlib->emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/e1/6a/4604f9ae2fa62ef47b9de2fa5ad599589d28c9fd1d335f32759813dfa91e/importlib_resources-6.4.5-py3-none-any.whl (36 kB)
Collecting humanfriendly>=9.1 (from coloredlogs~=15.0->idmtools~=1.7->emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/f0/0f/310fb31e39e2d734ccaa2c0fb981ee41f7bd5056ce9bc29b2248bd569169/humanfriendly-10.0-py2.py3-none-any.whl (86 kB)
Requirement already satisfied: zipp>=3.20 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages (from importlib-metadata>=4.11.4->keyring->emodpy~=1.16->-r requirements.txt (line 1)) (3.21.0)
Requirement already satisfied: MarkupSafe>=2.0 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages (from jinja2~=3.1.3->idmtools~=1.7->emodpy~=1.16->-r requirements.txt (line 1)) (3.0.2)
Collecting tzdata>=2022.7 (from pandas->emod-api~=1.30->emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/a6/ab/7e5f53c3b9d14972843a647d8d7a853969a58aecc7559cb3267302c94774/tzdata-2024.2-py2.py3-none-any.whl (346 kB)
Collecting cryptography>=2.0 (from SecretStorage>=3.2->keyring->emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/ef/82/72403624f197af0db6bac4e58153bc9ac0e6020e57234115db9596eee85d/cryptography-44.0.0-cp39-abi3-manylinux_2_28_x86_64.whl (4.2 MB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 4.2/4.2 MB 18.3 MB/s eta 0:00:00
Collecting soupsieve>1.2 (from beautifulsoup4->bs4->emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/d1/c2/fe97d779f3ef3b15f05c94a2f1e3d21732574ed441687474db9d342a7315/soupsieve-2.6-py3-none-any.whl (36 kB)
Collecting backports.tarfile (from jaraco.context->keyring->emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/b9/fa/123043af240e49752f1c4bd24da5053b6bd00cad78c2be53c0d1e8b975bc/backports.tarfile-1.2.0-py3-none-any.whl (30 kB)
Collecting joblib>=1.2.0 (from scikit-learn->emod-api~=1.30->emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/91/29/df4b9b42f2be0b623cbd5e2140cafcaa2bef0759a00b7b70104dcfe2fb51/joblib-1.4.2-py3-none-any.whl (301 kB)
Collecting threadpoolctl>=3.1.0 (from scikit-learn->emod-api~=1.30->emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/4b/2c/ffbf7a134b9ab11a67b0cf0726453cedd9c5043a4fe7a35d1cefa9a1bcfb/threadpoolctl-3.5.0-py3-none-any.whl (18 kB)
Collecting cffi>=1.12 (from cryptography>=2.0->SecretStorage>=3.2->keyring->emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/bd/62/a1f468e5708a70b1d86ead5bab5520861d9c7eacce4a885ded9faa7729c3/cffi-1.17.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (445 kB)
Collecting pycparser (from cffi>=1.12->cryptography>=2.0->SecretStorage>=3.2->keyring->emodpy~=1.16->-r requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/13/a3/a812df4e2dd5696d1f351d58b8fe16a405b234ad2886a0dab9183fb78109/pycparser-2.22-py3-none-any.whl (117 kB)
Building wheels for collected packages: xmlrunner, prodict
  Building wheel for xmlrunner (setup.py): started
  Building wheel for xmlrunner (setup.py): finished with status 'done'
  Created wheel for xmlrunner: filename=xmlrunner-1.7.7-py3-none-any.whl size=6222 sha256=e79ed9eb82a39dfeb9255de87c94e4e9781fd2890c19fc705a3c42fa606ae91f
  Stored in directory: /tmp/pip-ephem-wheel-cache-96zxv12e/wheels/a4/a4/74/ecccb934115344497d64c4f2580518f026a59db2b252531496
  Building wheel for prodict (pyproject.toml): started
  Building wheel for prodict (pyproject.toml): finished with status 'done'
  Created wheel for prodict: filename=prodict-0.8.20-py3-none-any.whl size=3917 sha256=afd2e3ea5e8e37ecc2a892650ce64d2aa6a177d1a7ffc603403a4e0c6f1b6f0b
  Stored in directory: /tmp/pip-ephem-wheel-cache-96zxv12e/wheels/b1/d2/34/e78c711b3a006c0865ac4a8e82dc78c1b5a017cc3edb109a37
Successfully built xmlrunner prodict
Installing collected packages: xmlrunner, pytz, parse, emod-malaria, xdg, urllib3, tzdata, tqdm, threadpoolctl, tabulate, soupsieve, six, pyyaml, pyproj, pyparsing, pycparser, prodict, pluggy, pillow, numpy, natsort, more-itertools, lz4, kiwisolver, joblib, jeepney, iniconfig, importlib-resources, humanfriendly, graphviz, geographiclib, future, fonttools, filelock, exceptiongroup, diskcache, cycler, click, backports.tarfile, backoff, astor, shapely, scipy, requests, python-dateutil, pytest, jaraco.functools, jaraco.context, jaraco.classes, contourpy, coloredlogs, cffi, beautifulsoup4, astunparse, scikit-learn, pyCOMPS, pandas, matplotlib, cryptography, bs4, SecretStorage, idmtools, emod-api, keyring, idmtools-platform-comps, idmtools-models, emodpy
  Attempting uninstall: urllib3
    Found existing installation: urllib3 2.2.3
    Uninstalling urllib3-2.2.3:
      Successfully uninstalled urllib3-2.2.3
  Attempting uninstall: requests
    Found existing installation: requests 2.32.3
    Uninstalling requests-2.32.3:
      Successfully uninstalled requests-2.32.3
ERROR: pip's dependency resolver does not currently take into account all the packages that are installed. This behaviour is the source of the following dependency conflicts.
sphinx 7.4.7 requires requests>=2.30.0, but you have requests 2.29.0 which is incompatible.
Successfully installed SecretStorage-3.3.3 astor-0.8.1 astunparse-1.6.3 backoff-2.2.1 backports.tarfile-1.2.0 beautifulsoup4-4.12.3 bs4-0.0.2 cffi-1.17.1 click-7.1.2 coloredlogs-15.0.1 contourpy-1.3.0 cryptography-44.0.0 cycler-0.12.1 diskcache-5.4.0 emod-api-1.33.3 emod-malaria-0.0.72 emodpy-1.22.1 exceptiongroup-1.2.2 filelock-3.16.1 fonttools-4.55.3 future-1.0.0 geographiclib-2.0 graphviz-0.20.3 humanfriendly-10.0 idmtools-1.7.11 idmtools-models-1.7.11 idmtools-platform-comps-1.7.11 importlib-resources-6.4.5 iniconfig-2.0.0 jaraco.classes-3.4.0 jaraco.context-6.0.1 jaraco.functools-4.1.0 jeepney-0.8.0 joblib-1.4.2 keyring-25.5.0 kiwisolver-1.4.7 lz4-4.3.3 matplotlib-3.9.4 more-itertools-9.1.0 natsort-8.4.0 numpy-2.0.2 pandas-2.2.3 parse-1.20.2 pillow-11.0.0 pluggy-1.5.0 prodict-0.8.20 pyCOMPS-2.11.0 pycparser-2.22 pyparsing-3.2.0 pyproj-3.6.1 pytest-8.1.2 python-dateutil-2.9.0.post0 pytz-2024.2 pyyaml-6.0.2 requests-2.29.0 scikit-learn-1.6.0 scipy-1.13.1 shapely-2.0.6 six-1.17.0 soupsieve-2.6 tabulate-0.9.0 threadpoolctl-3.5.0 tqdm-4.67.1 tzdata-2024.2 urllib3-1.26.20 xdg-6.0.0 xmlrunner-1.7.7

[rtd-command-info] start-time: 2024-12-14T21:54:26.259812Z, end-time: 2024-12-14T21:54:52.016983Z, duration: 25, exit-code: 0
python -m pip install --exists-action=w --no-cache-dir -r docs/requirements.txt
Looking in indexes: https://pypi.org/simple, https://packages.idmod.org/api/pypi/pypi-production/simple
Collecting sphinxext.remoteliteralinclude~=0.4.0 (from -r docs/requirements.txt (line 1))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/13/0d/7e5009f48c33d5fd533dda80b42c4a79fce8dfdd1b617d0a9df9a9836145/sphinxext_remoteliteralinclude-0.4.0-py3-none-any.whl (6.4 kB)
Requirement already satisfied: sphinx in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages (from -r docs/requirements.txt (line 2)) (7.4.7)
Collecting pydata-sphinx-theme (from -r docs/requirements.txt (line 3))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/ba/92/38f384061e1361fac7092c35e932c0e08026fb9080bf3fbf05f4c3bb6bda/pydata_sphinx_theme-0.16.0-py3-none-any.whl (6.7 MB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 6.7/6.7 MB 14.8 MB/s eta 0:00:00
Collecting sphinxcontrib-napoleon (from -r docs/requirements.txt (line 4))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/75/f2/6b7627dfe7b4e418e295e254bb15c3a6455f11f8c0ad0d43113f678049c3/sphinxcontrib_napoleon-0.7-py2.py3-none-any.whl (17 kB)
Collecting plantweb~=1.2.1 (from -r docs/requirements.txt (line 5))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/d6/6f/9ab1a1c3e33aaa0c0931983578c09336b092c75dce777ea666d3032f756e/plantweb-1.2.1-py3-none-any.whl (20 kB)
Collecting sphinxcontrib-programoutput~=0.17 (from -r docs/requirements.txt (line 6))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/04/2c/7aec6e0580f666d4f61474a50c4995a98abfff27d827f0e7bc8c4fa528f5/sphinxcontrib_programoutput-0.18-py3-none-any.whl (20 kB)
Collecting nbsphinx~=0.9.2 (from -r docs/requirements.txt (line 7))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/ae/8a/5a1e56efa95e2038de5646e2bc5c0abe18678ae5d167e267c0fbaa17a372/nbsphinx-0.9.5-py3-none-any.whl (31 kB)
Collecting jupyterlab~=4.0.2 (from -r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/7b/af/4e8fffc503dc70d3c73328b0421181e3d238f76831769578c4f245130ae9/jupyterlab-4.0.13-py3-none-any.whl (9.2 MB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 9.2/9.2 MB 14.9 MB/s eta 0:00:00
Collecting myst-parser~=2.0.0 (from -r docs/requirements.txt (line 9))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/1d/f6/6d61a023d758f488e36638076e8a4ec4447a2cdf86938cf6c60cf1c860e6/myst_parser-2.0.0-py3-none-any.whl (77 kB)
Collecting readthedocs-sphinx-search~=0.3.1 (from -r docs/requirements.txt (line 10))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/04/3c/41bc9d7d4d936a73e380423f23996bee1691e17598d8a03c062be6aac640/readthedocs_sphinx_search-0.3.2-py3-none-any.whl (21 kB)
Collecting sphinx-copybutton~=0.5.2 (from -r docs/requirements.txt (line 11))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/9e/48/1ea60e74949eecb12cdd6ac43987f9fd331156388dcc2319b45e2ebb81bf/sphinx_copybutton-0.5.2-py3-none-any.whl (13 kB)
Collecting pygithub~=1.57 (from -r docs/requirements.txt (line 12))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/2c/71/aff5465d9e3d448a5d4beab1dc7c8dec72037e3ae7e0d856ee08538dc934/PyGithub-1.59.1-py3-none-any.whl (342 kB)
Collecting sphinxcontrib-jquery~=4.1 (from -r docs/requirements.txt (line 13))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/76/85/749bd22d1a68db7291c89e2ebca53f4306c3f205853cf31e9de279034c3c/sphinxcontrib_jquery-4.1-py2.py3-none-any.whl (121 kB)
Requirement already satisfied: six in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages (from sphinxext.remoteliteralinclude~=0.4.0->-r docs/requirements.txt (line 1)) (1.17.0)
Requirement already satisfied: sphinxcontrib-applehelp in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages (from sphinx->-r docs/requirements.txt (line 2)) (2.0.0)
Requirement already satisfied: sphinxcontrib-devhelp in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages (from sphinx->-r docs/requirements.txt (line 2)) (2.0.0)
Requirement already satisfied: sphinxcontrib-jsmath in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages (from sphinx->-r docs/requirements.txt (line 2)) (1.0.1)
Requirement already satisfied: sphinxcontrib-htmlhelp>=2.0.0 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages (from sphinx->-r docs/requirements.txt (line 2)) (2.1.0)
Requirement already satisfied: sphinxcontrib-serializinghtml>=1.1.9 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages (from sphinx->-r docs/requirements.txt (line 2)) (2.0.0)
Requirement already satisfied: sphinxcontrib-qthelp in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages (from sphinx->-r docs/requirements.txt (line 2)) (2.0.0)
Requirement already satisfied: Jinja2>=3.1 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages (from sphinx->-r docs/requirements.txt (line 2)) (3.1.4)
Requirement already satisfied: Pygments>=2.17 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages (from sphinx->-r docs/requirements.txt (line 2)) (2.18.0)
Requirement already satisfied: docutils<0.22,>=0.20 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages (from sphinx->-r docs/requirements.txt (line 2)) (0.21.2)
Requirement already satisfied: snowballstemmer>=2.2 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages (from sphinx->-r docs/requirements.txt (line 2)) (2.2.0)
Requirement already satisfied: babel>=2.13 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages (from sphinx->-r docs/requirements.txt (line 2)) (2.16.0)
Requirement already satisfied: alabaster~=0.7.14 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages (from sphinx->-r docs/requirements.txt (line 2)) (0.7.16)
Requirement already satisfied: imagesize>=1.3 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages (from sphinx->-r docs/requirements.txt (line 2)) (1.4.1)
Collecting requests>=2.30.0 (from sphinx->-r docs/requirements.txt (line 2))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/f9/9b/335f9764261e915ed497fcdeb11df5dfd6f7bf257d4a6a2a686d80da4d54/requests-2.32.3-py3-none-any.whl (64 kB)
Requirement already satisfied: packaging>=23.0 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages (from sphinx->-r docs/requirements.txt (line 2)) (24.2)
Requirement already satisfied: importlib-metadata>=6.0 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages (from sphinx->-r docs/requirements.txt (line 2)) (8.5.0)
Requirement already satisfied: tomli>=2 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages (from sphinx->-r docs/requirements.txt (line 2)) (2.2.1)
Requirement already satisfied: beautifulsoup4 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages (from pydata-sphinx-theme->-r docs/requirements.txt (line 3)) (4.12.3)
Collecting accessible-pygments (from pydata-sphinx-theme->-r docs/requirements.txt (line 3))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/8d/3f/95338030883d8c8b91223b4e21744b04d11b161a3ef117295d8241f50ab4/accessible_pygments-0.0.5-py3-none-any.whl (1.4 MB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 1.4/1.4 MB 15.8 MB/s eta 0:00:00
Collecting typing-extensions (from pydata-sphinx-theme->-r docs/requirements.txt (line 3))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/26/9f/ad63fc0248c5379346306f8668cda6e2e2e9c95e01216d2b8ffd9ff037d0/typing_extensions-4.12.2-py3-none-any.whl (37 kB)
Collecting pockets>=0.3 (from sphinxcontrib-napoleon->-r docs/requirements.txt (line 4))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/e9/2f/a4583c70fbd8cd04910e2884bcc2bdd670e884061f7b4d70bc13e632a993/pockets-0.9.1-py2.py3-none-any.whl (26 kB)
Collecting nbconvert!=5.4,>=5.3 (from nbsphinx~=0.9.2->-r docs/requirements.txt (line 7))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/b8/bb/bb5b6a515d1584aa2fd89965b11db6632e4bdc69495a52374bcc36e56cfa/nbconvert-7.16.4-py3-none-any.whl (257 kB)
Collecting traitlets>=5 (from nbsphinx~=0.9.2->-r docs/requirements.txt (line 7))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/00/c0/8f5d070730d7836adc9c9b6408dec68c6ced86b304a9b26a14df072a6e8c/traitlets-5.14.3-py3-none-any.whl (85 kB)
Collecting nbformat (from nbsphinx~=0.9.2->-r docs/requirements.txt (line 7))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/a9/82/0340caa499416c78e5d8f5f05947ae4bc3cba53c9f038ab6e9ed964e22f1/nbformat-5.10.4-py3-none-any.whl (78 kB)
Collecting async-lru>=1.0.0 (from jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/fa/9f/3c3503693386c4b0f245eaf5ca6198e3b28879ca0a40bde6b0e319793453/async_lru-2.0.4-py3-none-any.whl (6.1 kB)
Collecting ipykernel (from jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/94/5c/368ae6c01c7628438358e6d337c19b05425727fbb221d2a3c4303c372f42/ipykernel-6.29.5-py3-none-any.whl (117 kB)
Collecting jupyter-core (from jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/c9/fb/108ecd1fe961941959ad0ee4e12ee7b8b1477247f30b1fdfd83ceaf017f0/jupyter_core-5.7.2-py3-none-any.whl (28 kB)
Collecting jupyter-lsp>=2.0.0 (from jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/07/e0/7bd7cff65594fd9936e2f9385701e44574fc7d721331ff676ce440b14100/jupyter_lsp-2.2.5-py3-none-any.whl (69 kB)
Collecting jupyter-server<3,>=2.4.0 (from jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/57/e1/085edea6187a127ca8ea053eb01f4e1792d778b4d192c74d32eb6730fed6/jupyter_server-2.14.2-py3-none-any.whl (383 kB)
Collecting jupyterlab-server<3,>=2.19.0 (from jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/54/09/2032e7d15c544a0e3cd831c51d77a8ca57f7555b2e1b2922142eddb02a84/jupyterlab_server-2.27.3-py3-none-any.whl (59 kB)
Collecting notebook-shim>=0.2 (from jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/f9/33/bd5b9137445ea4b680023eb0469b2bb969d61303dedb2aac6560ff3d14a1/notebook_shim-0.2.4-py3-none-any.whl (13 kB)
Collecting tornado>=6.2.0 (from jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/22/55/b78a464de78051a30599ceb6983b01d8f732e6f69bf37b4ed07f642ac0fc/tornado-6.4.2-cp38-abi3-manylinux_2_5_x86_64.manylinux1_x86_64.manylinux_2_17_x86_64.manylinux2014_x86_64.whl (437 kB)
Collecting docutils<0.22,>=0.20 (from sphinx->-r docs/requirements.txt (line 2))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/26/87/f238c0670b94533ac0353a4e2a1a771a0cc73277b88bff23d3ae35a256c1/docutils-0.20.1-py3-none-any.whl (572 kB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 572.7/572.7 kB 17.5 MB/s eta 0:00:00
Collecting markdown-it-py~=3.0 (from myst-parser~=2.0.0->-r docs/requirements.txt (line 9))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/42/d7/1ec15b46af6af88f19b8e5ffea08fa375d433c998b8a7639e76935c14f1f/markdown_it_py-3.0.0-py3-none-any.whl (87 kB)
Collecting mdit-py-plugins~=0.4 (from myst-parser~=2.0.0->-r docs/requirements.txt (line 9))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/a7/f7/7782a043553ee469c1ff49cfa1cdace2d6bf99a1f333cf38676b3ddf30da/mdit_py_plugins-0.4.2-py3-none-any.whl (55 kB)
Requirement already satisfied: pyyaml in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages (from myst-parser~=2.0.0->-r docs/requirements.txt (line 9)) (6.0.2)
Collecting deprecated (from pygithub~=1.57->-r docs/requirements.txt (line 12))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/1d/8f/c7f227eb42cfeaddce3eb0c96c60cbca37797fa7b34f8e1aeadf6c5c0983/Deprecated-1.2.15-py2.py3-none-any.whl (9.9 kB)
Collecting pyjwt>=2.4.0 (from pyjwt[crypto]>=2.4.0->pygithub~=1.57->-r docs/requirements.txt (line 12))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/61/ad/689f02752eeec26aed679477e80e632ef1b682313be70793d798c1d5fc8f/PyJWT-2.10.1-py3-none-any.whl (22 kB)
Collecting pynacl>=1.4.0 (from pygithub~=1.57->-r docs/requirements.txt (line 12))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/ee/87/f1bb6a595f14a327e8285b9eb54d41fef76c585a0edef0a45f6fc95de125/PyNaCl-1.5.0-cp36-abi3-manylinux_2_17_x86_64.manylinux2014_x86_64.manylinux_2_24_x86_64.whl (856 kB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 856.7/856.7 kB 16.8 MB/s eta 0:00:00
Requirement already satisfied: zipp>=3.20 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages (from importlib-metadata>=6.0->sphinx->-r docs/requirements.txt (line 2)) (3.21.0)
Requirement already satisfied: MarkupSafe>=2.0 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages (from Jinja2>=3.1->sphinx->-r docs/requirements.txt (line 2)) (3.0.2)
Collecting anyio>=3.1.0 (from jupyter-server<3,>=2.4.0->jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/a0/7a/4daaf3b6c08ad7ceffea4634ec206faeff697526421c20f07628c7372156/anyio-4.7.0-py3-none-any.whl (93 kB)
Collecting argon2-cffi>=21.1 (from jupyter-server<3,>=2.4.0->jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/a4/6a/e8a041599e78b6b3752da48000b14c8d1e8a04ded09c88c714ba047f34f5/argon2_cffi-23.1.0-py3-none-any.whl (15 kB)
Collecting jupyter-client>=7.4.4 (from jupyter-server<3,>=2.4.0->jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/11/85/b0394e0b6fcccd2c1eeefc230978a6f8cb0c5df1e4cd3e7625735a0d7d1e/jupyter_client-8.6.3-py3-none-any.whl (106 kB)
Collecting jupyter-events>=0.9.0 (from jupyter-server<3,>=2.4.0->jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/a5/94/059180ea70a9a326e1815176b2370da56376da347a796f8c4f0b830208ef/jupyter_events-0.10.0-py3-none-any.whl (18 kB)
Collecting jupyter-server-terminals>=0.4.4 (from jupyter-server<3,>=2.4.0->jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/07/2d/2b32cdbe8d2a602f697a649798554e4f072115438e92249624e532e8aca6/jupyter_server_terminals-0.5.3-py3-none-any.whl (13 kB)
Collecting overrides>=5.0 (from jupyter-server<3,>=2.4.0->jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/2c/ab/fc8290c6a4c722e5514d80f62b2dc4c4df1a68a41d1364e625c35990fcf3/overrides-7.7.0-py3-none-any.whl (17 kB)
Collecting prometheus-client>=0.9 (from jupyter-server<3,>=2.4.0->jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/ff/c2/ab7d37426c179ceb9aeb109a85cda8948bb269b7561a0be870cc656eefe4/prometheus_client-0.21.1-py3-none-any.whl (54 kB)
Collecting pyzmq>=24 (from jupyter-server<3,>=2.4.0->jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/6e/bd/3ff3e1172f12f55769793a3a334e956ec2886805ebfb2f64756b6b5c6a1a/pyzmq-26.2.0-cp39-cp39-manylinux_2_12_x86_64.manylinux2010_x86_64.whl (862 kB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 862.1/862.1 kB 17.1 MB/s eta 0:00:00
Collecting send2trash>=1.8.2 (from jupyter-server<3,>=2.4.0->jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/40/b0/4562db6223154aa4e22f939003cb92514c79f3d4dccca3444253fd17f902/Send2Trash-1.8.3-py3-none-any.whl (18 kB)
Collecting terminado>=0.8.3 (from jupyter-server<3,>=2.4.0->jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/6a/9e/2064975477fdc887e47ad42157e214526dcad8f317a948dee17e1659a62f/terminado-0.18.1-py3-none-any.whl (14 kB)
Collecting websocket-client>=1.7 (from jupyter-server<3,>=2.4.0->jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/5a/84/44687a29792a70e111c5c477230a72c4b957d88d16141199bf9acb7537a3/websocket_client-1.8.0-py3-none-any.whl (58 kB)
Collecting platformdirs>=2.5 (from jupyter-core->jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/3c/a6/bc1012356d8ece4d66dd75c4b9fc6c1f6650ddd5991e421177d9f8f671be/platformdirs-4.3.6-py3-none-any.whl (18 kB)
Collecting json5>=0.9.0 (from jupyterlab-server<3,>=2.19.0->jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/aa/42/797895b952b682c3dafe23b1834507ee7f02f4d6299b65aaa61425763278/json5-0.10.0-py3-none-any.whl (34 kB)
Collecting jsonschema>=4.18.0 (from jupyterlab-server<3,>=2.19.0->jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/69/4a/4f9dbeb84e8850557c02365a0eee0649abe5eb1d84af92a25731c6c0f922/jsonschema-4.23.0-py3-none-any.whl (88 kB)
Collecting mdurl~=0.1 (from markdown-it-py~=3.0->myst-parser~=2.0.0->-r docs/requirements.txt (line 9))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/b3/38/89ba8ad64ae25be8de66a6d463314cf1eb366222074cfda9ee839c56a4b4/mdurl-0.1.2-py3-none-any.whl (10.0 kB)
Collecting bleach!=5.0.0 (from nbconvert!=5.4,>=5.3->nbsphinx~=0.9.2->-r docs/requirements.txt (line 7))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/fc/55/96142937f66150805c25c4d0f31ee4132fd33497753400734f9dfdcbdc66/bleach-6.2.0-py3-none-any.whl (163 kB)
Collecting defusedxml (from nbconvert!=5.4,>=5.3->nbsphinx~=0.9.2->-r docs/requirements.txt (line 7))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/07/6c/aa3f2f849e01cb6a001cd8554a88d4c77c5c1a31c95bdf1cf9301e6d9ef4/defusedxml-0.7.1-py2.py3-none-any.whl (25 kB)
Collecting jupyterlab-pygments (from nbconvert!=5.4,>=5.3->nbsphinx~=0.9.2->-r docs/requirements.txt (line 7))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/b1/dd/ead9d8ea85bf202d90cc513b533f9c363121c7792674f78e0d8a854b63b4/jupyterlab_pygments-0.3.0-py3-none-any.whl (15 kB)
Collecting mistune<4,>=2.0.3 (from nbconvert!=5.4,>=5.3->nbsphinx~=0.9.2->-r docs/requirements.txt (line 7))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/f0/74/c95adcdf032956d9ef6c89a9b8a5152bf73915f8c633f3e3d88d06bd699c/mistune-3.0.2-py3-none-any.whl (47 kB)
Collecting nbclient>=0.5.0 (from nbconvert!=5.4,>=5.3->nbsphinx~=0.9.2->-r docs/requirements.txt (line 7))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/26/1a/ed6d1299b1a00c1af4a033fdee565f533926d819e084caf0d2832f6f87c6/nbclient-0.10.1-py3-none-any.whl (25 kB)
Collecting pandocfilters>=1.4.1 (from nbconvert!=5.4,>=5.3->nbsphinx~=0.9.2->-r docs/requirements.txt (line 7))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/ef/af/4fbc8cab944db5d21b7e2a5b8e9211a03a79852b1157e2c102fcc61ac440/pandocfilters-1.5.1-py2.py3-none-any.whl (8.7 kB)
Collecting tinycss2 (from nbconvert!=5.4,>=5.3->nbsphinx~=0.9.2->-r docs/requirements.txt (line 7))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/e6/34/ebdc18bae6aa14fbee1a08b63c015c72b64868ff7dae68808ab500c492e2/tinycss2-1.4.0-py3-none-any.whl (26 kB)
Collecting fastjsonschema>=2.15 (from nbformat->nbsphinx~=0.9.2->-r docs/requirements.txt (line 7))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/90/2b/0817a2b257fe88725c25589d89aec060581aabf668707a8d03b2e9e0cb2a/fastjsonschema-2.21.1-py3-none-any.whl (23 kB)
Requirement already satisfied: cryptography>=3.4.0 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages (from pyjwt[crypto]>=2.4.0->pygithub~=1.57->-r docs/requirements.txt (line 12)) (44.0.0)
Requirement already satisfied: cffi>=1.4.1 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages (from pynacl>=1.4.0->pygithub~=1.57->-r docs/requirements.txt (line 12)) (1.17.1)
Requirement already satisfied: charset-normalizer<4,>=2 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages (from requests>=2.30.0->sphinx->-r docs/requirements.txt (line 2)) (3.4.0)
Requirement already satisfied: idna<4,>=2.5 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages (from requests>=2.30.0->sphinx->-r docs/requirements.txt (line 2)) (3.10)
Requirement already satisfied: urllib3<3,>=1.21.1 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages (from requests>=2.30.0->sphinx->-r docs/requirements.txt (line 2)) (1.26.20)
Requirement already satisfied: certifi>=2017.4.17 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages (from requests>=2.30.0->sphinx->-r docs/requirements.txt (line 2)) (2024.12.14)
Requirement already satisfied: soupsieve>1.2 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages (from beautifulsoup4->pydata-sphinx-theme->-r docs/requirements.txt (line 3)) (2.6)
Collecting wrapt<2,>=1.10 (from deprecated->pygithub~=1.57->-r docs/requirements.txt (line 12))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/94/5c/03c911442b01b50e364572581430e12f82c3f5ea74d302907c1449d7ba36/wrapt-1.17.0-cp39-cp39-manylinux_2_5_x86_64.manylinux1_x86_64.manylinux_2_17_x86_64.manylinux2014_x86_64.whl (82 kB)
Collecting comm>=0.1.1 (from ipykernel->jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/e6/75/49e5bfe642f71f272236b5b2d2691cf915a7283cc0ceda56357b61daa538/comm-0.2.2-py3-none-any.whl (7.2 kB)
Collecting debugpy>=1.6.5 (from ipykernel->jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/12/2e/c73e2744c88c7df7e830c6f7bd4dcb3d39beb7d306e26d21cf1dd439fdf5/debugpy-1.8.11-cp39-cp39-manylinux_2_5_x86_64.manylinux1_x86_64.manylinux_2_17_x86_64.manylinux2014_x86_64.whl (3.6 MB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 3.6/3.6 MB 14.9 MB/s eta 0:00:00
Collecting ipython>=7.23.1 (from ipykernel->jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/47/6b/d9fdcdef2eb6a23f391251fde8781c38d42acd82abe84d054cb74f7863b0/ipython-8.18.1-py3-none-any.whl (808 kB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 808.2/808.2 kB 15.7 MB/s eta 0:00:00
Collecting matplotlib-inline>=0.1 (from ipykernel->jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/8f/8e/9ad090d3553c280a8060fbf6e24dc1c0c29704ee7d1c372f0c174aa59285/matplotlib_inline-0.1.7-py3-none-any.whl (9.9 kB)
Collecting nest-asyncio (from ipykernel->jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/a0/c4/c2971a3ba4c6103a3d10c4b0f24f461ddc027f0f09763220cf35ca1401b3/nest_asyncio-1.6.0-py3-none-any.whl (5.2 kB)
Collecting psutil (from ipykernel->jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/58/4d/8245e6f76a93c98aab285a43ea71ff1b171bcd90c9d238bf81f7021fb233/psutil-6.1.0-cp36-abi3-manylinux_2_12_x86_64.manylinux2010_x86_64.manylinux_2_17_x86_64.manylinux2014_x86_64.whl (287 kB)
Requirement already satisfied: exceptiongroup>=1.0.2 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages (from anyio>=3.1.0->jupyter-server<3,>=2.4.0->jupyterlab~=4.0.2->-r docs/requirements.txt (line 8)) (1.2.2)
Collecting sniffio>=1.1 (from anyio>=3.1.0->jupyter-server<3,>=2.4.0->jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/e9/44/75a9c9421471a6c4805dbf2356f7c181a29c1879239abab1ea2cc8f38b40/sniffio-1.3.1-py3-none-any.whl (10 kB)
Collecting argon2-cffi-bindings (from argon2-cffi>=21.1->jupyter-server<3,>=2.4.0->jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/ec/f7/378254e6dd7ae6f31fe40c8649eea7d4832a42243acaf0f1fff9083b2bed/argon2_cffi_bindings-21.2.0-cp36-abi3-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (86 kB)
Collecting webencodings (from bleach!=5.0.0->nbconvert!=5.4,>=5.3->nbsphinx~=0.9.2->-r docs/requirements.txt (line 7))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/f4/24/2a3e3df732393fed8b3ebf2ec078f05546de641fe1b667ee316ec1dcf3b7/webencodings-0.5.1-py2.py3-none-any.whl (11 kB)
Requirement already satisfied: pycparser in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages (from cffi>=1.4.1->pynacl>=1.4.0->pygithub~=1.57->-r docs/requirements.txt (line 12)) (2.22)
Collecting decorator (from ipython>=7.23.1->ipykernel->jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/d5/50/83c593b07763e1161326b3b8c6686f0f4b0f24d5526546bee538c89837d6/decorator-5.1.1-py3-none-any.whl (9.1 kB)
Collecting jedi>=0.16 (from ipython>=7.23.1->ipykernel->jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/c0/5a/9cac0c82afec3d09ccd97c8b6502d48f165f9124db81b4bcb90b4af974ee/jedi-0.19.2-py2.py3-none-any.whl (1.6 MB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 1.6/1.6 MB 14.9 MB/s eta 0:00:00
Collecting prompt-toolkit<3.1.0,>=3.0.41 (from ipython>=7.23.1->ipykernel->jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/a9/6a/fd08d94654f7e67c52ca30523a178b3f8ccc4237fce4be90d39c938a831a/prompt_toolkit-3.0.48-py3-none-any.whl (386 kB)
Collecting stack-data (from ipython>=7.23.1->ipykernel->jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/f1/7b/ce1eafaf1a76852e2ec9b22edecf1daa58175c090266e9f6c64afcd81d91/stack_data-0.6.3-py3-none-any.whl (24 kB)
Collecting pexpect>4.3 (from ipython>=7.23.1->ipykernel->jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/9e/c3/059298687310d527a58bb01f3b1965787ee3b40dce76752eda8b44e9a2c5/pexpect-4.9.0-py2.py3-none-any.whl (63 kB)
Collecting attrs>=22.2.0 (from jsonschema>=4.18.0->jupyterlab-server<3,>=2.19.0->jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/6a/21/5b6702a7f963e95456c0de2d495f67bf5fd62840ac655dc451586d23d39a/attrs-24.2.0-py3-none-any.whl (63 kB)
Collecting jsonschema-specifications>=2023.03.6 (from jsonschema>=4.18.0->jupyterlab-server<3,>=2.19.0->jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/d1/0f/8910b19ac0670a0f80ce1008e5e751c4a57e14d2c4c13a482aa6079fa9d6/jsonschema_specifications-2024.10.1-py3-none-any.whl (18 kB)
Collecting referencing>=0.28.4 (from jsonschema>=4.18.0->jupyterlab-server<3,>=2.19.0->jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/b7/59/2056f61236782a2c86b33906c025d4f4a0b17be0161b63b70fd9e8775d36/referencing-0.35.1-py3-none-any.whl (26 kB)
Collecting rpds-py>=0.7.1 (from jsonschema>=4.18.0->jupyterlab-server<3,>=2.19.0->jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/93/f5/c1c772364570d35b98ba64f36ec90c3c6d0b932bc4d8b9b4efef6dc64b07/rpds_py-0.22.3-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (382 kB)
Requirement already satisfied: python-dateutil>=2.8.2 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages (from jupyter-client>=7.4.4->jupyter-server<3,>=2.4.0->jupyterlab~=4.0.2->-r docs/requirements.txt (line 8)) (2.9.0.post0)
Collecting python-json-logger>=2.0.4 (from jupyter-events>=0.9.0->jupyter-server<3,>=2.4.0->jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/c3/be/a84e771466c68a33eda7efb5a274e4045dfb6ae3dc846ac153b62e14e7bd/python_json_logger-3.2.0-py3-none-any.whl (14 kB)
Collecting rfc3339-validator (from jupyter-events>=0.9.0->jupyter-server<3,>=2.4.0->jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/7b/44/4e421b96b67b2daff264473f7465db72fbdf36a07e05494f50300cc7b0c6/rfc3339_validator-0.1.4-py2.py3-none-any.whl (3.5 kB)
Collecting rfc3986-validator>=0.1.1 (from jupyter-events>=0.9.0->jupyter-server<3,>=2.4.0->jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/9e/51/17023c0f8f1869d8806b979a2bffa3f861f26a3f1a66b094288323fba52f/rfc3986_validator-0.1.1-py2.py3-none-any.whl (4.2 kB)
Collecting ptyprocess (from terminado>=0.8.3->jupyter-server<3,>=2.4.0->jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/22/a6/858897256d0deac81a172289110f31629fc4cee19b6f01283303e18c8db3/ptyprocess-0.7.0-py2.py3-none-any.whl (13 kB)
Collecting parso<0.9.0,>=0.8.4 (from jedi>=0.16->ipython>=7.23.1->ipykernel->jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/c6/ac/dac4a63f978e4dcb3c6d3a78c4d8e0192a113d288502a1216950c41b1027/parso-0.8.4-py2.py3-none-any.whl (103 kB)
Collecting fqdn (from jsonschema[format-nongpl]>=4.18.0->jupyter-events>=0.9.0->jupyter-server<3,>=2.4.0->jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/cf/58/8acf1b3e91c58313ce5cb67df61001fc9dcd21be4fadb76c1a2d540e09ed/fqdn-1.5.1-py3-none-any.whl (9.1 kB)
Collecting isoduration (from jsonschema[format-nongpl]>=4.18.0->jupyter-events>=0.9.0->jupyter-server<3,>=2.4.0->jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/7b/55/e5326141505c5d5e34c5e0935d2908a74e4561eca44108fbfb9c13d2911a/isoduration-20.11.0-py3-none-any.whl (11 kB)
Collecting jsonpointer>1.13 (from jsonschema[format-nongpl]>=4.18.0->jupyter-events>=0.9.0->jupyter-server<3,>=2.4.0->jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/71/92/5e77f98553e9e75130c78900d000368476aed74276eb8ae8796f65f00918/jsonpointer-3.0.0-py2.py3-none-any.whl (7.6 kB)
Collecting uri-template (from jsonschema[format-nongpl]>=4.18.0->jupyter-events>=0.9.0->jupyter-server<3,>=2.4.0->jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/e7/00/3fca040d7cf8a32776d3d81a00c8ee7457e00f80c649f1e4a863c8321ae9/uri_template-1.3.0-py3-none-any.whl (11 kB)
Collecting webcolors>=24.6.0 (from jsonschema[format-nongpl]>=4.18.0->jupyter-events>=0.9.0->jupyter-server<3,>=2.4.0->jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/60/e8/c0e05e4684d13459f93d312077a9a2efbe04d59c393bc2b8802248c908d4/webcolors-24.11.1-py3-none-any.whl (14 kB)
Collecting wcwidth (from prompt-toolkit<3.1.0,>=3.0.41->ipython>=7.23.1->ipykernel->jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/fd/84/fd2ba7aafacbad3c4201d395674fc6348826569da3c0937e75505ead3528/wcwidth-0.2.13-py2.py3-none-any.whl (34 kB)
Collecting executing>=1.2.0 (from stack-data->ipython>=7.23.1->ipykernel->jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/b5/fd/afcd0496feca3276f509df3dbd5dae726fcc756f1a08d9e25abe1733f962/executing-2.1.0-py2.py3-none-any.whl (25 kB)
Collecting asttokens>=2.1.0 (from stack-data->ipython>=7.23.1->ipykernel->jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/25/8a/c46dcc25341b5bce5472c718902eb3d38600a903b14fa6aeecef3f21a46f/asttokens-3.0.0-py3-none-any.whl (26 kB)
Collecting pure-eval (from stack-data->ipython>=7.23.1->ipykernel->jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/8e/37/efad0257dc6e593a18957422533ff0f87ede7c9c6ea010a2177d738fb82f/pure_eval-0.2.3-py3-none-any.whl (11 kB)
Collecting arrow>=0.15.0 (from isoduration->jsonschema[format-nongpl]>=4.18.0->jupyter-events>=0.9.0->jupyter-server<3,>=2.4.0->jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/f8/ed/e97229a566617f2ae958a6b13e7cc0f585470eac730a73e9e82c32a3cdd2/arrow-1.3.0-py3-none-any.whl (66 kB)
Collecting types-python-dateutil>=2.8.10 (from arrow>=0.15.0->isoduration->jsonschema[format-nongpl]>=4.18.0->jupyter-events>=0.9.0->jupyter-server<3,>=2.4.0->jupyterlab~=4.0.2->-r docs/requirements.txt (line 8))
  Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/0f/b3/ca41df24db5eb99b00d97f89d7674a90cb6b3134c52fb8121b6d8d30f15c/types_python_dateutil-2.9.0.20241206-py3-none-any.whl (14 kB)
Installing collected packages: webencodings, wcwidth, pure-eval, ptyprocess, fastjsonschema, wrapt, websocket-client, webcolors, uri-template, typing-extensions, types-python-dateutil, traitlets, tornado, tinycss2, sphinxext.remoteliteralinclude, sniffio, send2trash, rpds-py, rfc3986-validator, rfc3339-validator, requests, readthedocs-sphinx-search, pyzmq, pyjwt, psutil, prompt-toolkit, prometheus-client, pockets, platformdirs, pexpect, parso, pandocfilters, overrides, nest-asyncio, mistune, mdurl, jupyterlab-pygments, jsonpointer, json5, fqdn, executing, docutils, defusedxml, decorator, debugpy, bleach, attrs, asttokens, accessible-pygments, terminado, stack-data, sphinxcontrib-napoleon, referencing, python-json-logger, pynacl, plantweb, matplotlib-inline, markdown-it-py, jupyter-core, jedi, deprecated, comm, async-lru, arrow, argon2-cffi-bindings, anyio, sphinxcontrib-programoutput, sphinxcontrib-jquery, sphinx-copybutton, pydata-sphinx-theme, mdit-py-plugins, jupyter-server-terminals, jupyter-client, jsonschema-specifications, isoduration, ipython, argon2-cffi, pygithub, myst-parser, jsonschema, ipykernel, nbformat, nbclient, jupyter-events, nbconvert, nbsphinx, jupyter-server, notebook-shim, jupyterlab-server, jupyter-lsp, jupyterlab
  Attempting uninstall: requests
    Found existing installation: requests 2.29.0
    Uninstalling requests-2.29.0:
      Successfully uninstalled requests-2.29.0
  Attempting uninstall: docutils
    Found existing installation: docutils 0.21.2
    Uninstalling docutils-0.21.2:
      Successfully uninstalled docutils-0.21.2
ERROR: pip's dependency resolver does not currently take into account all the packages that are installed. This behaviour is the source of the following dependency conflicts.
emodpy 1.22.1 requires requests==2.29.0, but you have requests 2.32.3 which is incompatible.
Successfully installed accessible-pygments-0.0.5 anyio-4.7.0 argon2-cffi-23.1.0 argon2-cffi-bindings-21.2.0 arrow-1.3.0 asttokens-3.0.0 async-lru-2.0.4 attrs-24.2.0 bleach-6.2.0 comm-0.2.2 debugpy-1.8.11 decorator-5.1.1 defusedxml-0.7.1 deprecated-1.2.15 docutils-0.20.1 executing-2.1.0 fastjsonschema-2.21.1 fqdn-1.5.1 ipykernel-6.29.5 ipython-8.18.1 isoduration-20.11.0 jedi-0.19.2 json5-0.10.0 jsonpointer-3.0.0 jsonschema-4.23.0 jsonschema-specifications-2024.10.1 jupyter-client-8.6.3 jupyter-core-5.7.2 jupyter-events-0.10.0 jupyter-lsp-2.2.5 jupyter-server-2.14.2 jupyter-server-terminals-0.5.3 jupyterlab-4.0.13 jupyterlab-pygments-0.3.0 jupyterlab-server-2.27.3 markdown-it-py-3.0.0 matplotlib-inline-0.1.7 mdit-py-plugins-0.4.2 mdurl-0.1.2 mistune-3.0.2 myst-parser-2.0.0 nbclient-0.10.1 nbconvert-7.16.4 nbformat-5.10.4 nbsphinx-0.9.5 nest-asyncio-1.6.0 notebook-shim-0.2.4 overrides-7.7.0 pandocfilters-1.5.1 parso-0.8.4 pexpect-4.9.0 plantweb-1.2.1 platformdirs-4.3.6 pockets-0.9.1 prometheus-client-0.21.1 prompt-toolkit-3.0.48 psutil-6.1.0 ptyprocess-0.7.0 pure-eval-0.2.3 pydata-sphinx-theme-0.16.0 pygithub-1.59.1 pyjwt-2.10.1 pynacl-1.5.0 python-json-logger-3.2.0 pyzmq-26.2.0 readthedocs-sphinx-search-0.3.2 referencing-0.35.1 requests-2.32.3 rfc3339-validator-0.1.4 rfc3986-validator-0.1.1 rpds-py-0.22.3 send2trash-1.8.3 sniffio-1.3.1 sphinx-copybutton-0.5.2 sphinxcontrib-jquery-4.1 sphinxcontrib-napoleon-0.7 sphinxcontrib-programoutput-0.18 sphinxext.remoteliteralinclude-0.4.0 stack-data-0.6.3 terminado-0.18.1 tinycss2-1.4.0 tornado-6.4.2 traitlets-5.14.3 types-python-dateutil-2.9.0.20241206 typing-extensions-4.12.2 uri-template-1.3.0 wcwidth-0.2.13 webcolors-24.11.1 webencodings-0.5.1 websocket-client-1.8.0 wrapt-1.17.0

[rtd-command-info] start-time: 2024-12-14T21:54:52.151396Z, end-time: 2024-12-14T21:54:53.979064Z, duration: 1, exit-code: 0
python ./setup.py install --force
/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages/setuptools/__init__.py:94: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated.
!!

        ********************************************************************************
        Requirements should be satisfied by a PEP 517 installer.
        If you are using pip, you can try `pip install --use-pep517`.
        ********************************************************************************

!!
  dist.fetch_build_eggs(dist.setup_requires)
running install
/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated.
!!

        ********************************************************************************
        Please avoid running ``setup.py`` directly.
        Instead, use pypa/build, pypa/installer or other
        standards-based tools.

        See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details.
        ********************************************************************************

!!
  self.initialize_options()
/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages/setuptools/_distutils/cmd.py:66: EasyInstallDeprecationWarning: easy_install command is deprecated.
!!

        ********************************************************************************
        Please avoid running ``setup.py`` and ``easy_install``.
        Instead, use pypa/build, pypa/installer or other
        standards-based tools.

        See https://github.com/pypa/setuptools/issues/917 for details.
        ********************************************************************************

!!
  self.initialize_options()
running bdist_egg
running egg_info
creating emodpy_malaria.egg-info
writing emodpy_malaria.egg-info/PKG-INFO
writing dependency_links to emodpy_malaria.egg-info/dependency_links.txt
writing requirements to emodpy_malaria.egg-info/requires.txt
writing top-level names to emodpy_malaria.egg-info/top_level.txt
writing manifest file 'emodpy_malaria.egg-info/SOURCES.txt'
reading manifest file 'emodpy_malaria.egg-info/SOURCES.txt'
reading manifest template 'MANIFEST.in'
adding license file 'LICENSE'
writing manifest file 'emodpy_malaria.egg-info/SOURCES.txt'
installing library code to build/bdist.linux-x86_64/egg
running install_lib
running build_py
creating build/lib/emodpy_malaria
copying emodpy_malaria/malaria_config.py -> build/lib/emodpy_malaria
copying emodpy_malaria/malaria_vector_species_params.py -> build/lib/emodpy_malaria
copying emodpy_malaria/__init__.py -> build/lib/emodpy_malaria
copying emodpy_malaria/vector_config.py -> build/lib/emodpy_malaria
creating build/lib/tests
copying tests/create_auth_token_args.py -> build/lib/tests
copying tests/run_all_sft_tests.py -> build/lib/tests
copying tests/__init__.py -> build/lib/tests
copying tests/add_itn.py -> build/lib/tests
creating build/lib/emodpy_malaria/reporters
copying emodpy_malaria/reporters/__init__.py -> build/lib/emodpy_malaria/reporters
copying emodpy_malaria/reporters/builtin.py -> build/lib/emodpy_malaria/reporters
creating build/lib/emodpy_malaria/demographics
copying emodpy_malaria/demographics/MalariaDemographics.py -> build/lib/emodpy_malaria/demographics
copying emodpy_malaria/demographics/__init__.py -> build/lib/emodpy_malaria/demographics
creating build/lib/emodpy_malaria/weather
copying emodpy_malaria/weather/weather_utils.py -> build/lib/emodpy_malaria/weather
copying emodpy_malaria/weather/weather_set.py -> build/lib/emodpy_malaria/weather
copying emodpy_malaria/weather/weather_variable.py -> build/lib/emodpy_malaria/weather
copying emodpy_malaria/weather/data_sources.py -> build/lib/emodpy_malaria/weather
copying emodpy_malaria/weather/weather_request.py -> build/lib/emodpy_malaria/weather
copying emodpy_malaria/weather/weather_metadata.py -> build/lib/emodpy_malaria/weather
copying emodpy_malaria/weather/__init__.py -> build/lib/emodpy_malaria/weather
copying emodpy_malaria/weather/weather_data.py -> build/lib/emodpy_malaria/weather
creating build/lib/emodpy_malaria/serialization
copying emodpy_malaria/serialization/zero_infections.py -> build/lib/emodpy_malaria/serialization
copying emodpy_malaria/serialization/serialization_support.py -> build/lib/emodpy_malaria/serialization
copying emodpy_malaria/serialization/replace_genomes.py -> build/lib/emodpy_malaria/serialization
copying emodpy_malaria/serialization/__init__.py -> build/lib/emodpy_malaria/serialization
copying emodpy_malaria/serialization/replace_genomes_get_next_barcode.py -> build/lib/emodpy_malaria/serialization
creating build/lib/emodpy_malaria/interventions
copying emodpy_malaria/interventions/bednet.py -> build/lib/emodpy_malaria/interventions
copying emodpy_malaria/interventions/mosquitorelease.py -> build/lib/emodpy_malaria/interventions
copying emodpy_malaria/interventions/drug.py -> build/lib/emodpy_malaria/interventions
copying emodpy_malaria/interventions/outdoorrestkill.py -> build/lib/emodpy_malaria/interventions
copying emodpy_malaria/interventions/outbreak.py -> build/lib/emodpy_malaria/interventions
copying emodpy_malaria/interventions/diag_survey.py -> build/lib/emodpy_malaria/interventions
copying emodpy_malaria/interventions/usage_dependent_bednet.py -> build/lib/emodpy_malaria/interventions
copying emodpy_malaria/interventions/vector_surveillance.py -> build/lib/emodpy_malaria/interventions
copying emodpy_malaria/interventions/malaria_challenge.py -> build/lib/emodpy_malaria/interventions
copying emodpy_malaria/interventions/common.py -> build/lib/emodpy_malaria/interventions
copying emodpy_malaria/interventions/spacespraying.py -> build/lib/emodpy_malaria/interventions
copying emodpy_malaria/interventions/vaccine.py -> build/lib/emodpy_malaria/interventions
copying emodpy_malaria/interventions/community_health_worker.py -> build/lib/emodpy_malaria/interventions
copying emodpy_malaria/interventions/larvicide.py -> build/lib/emodpy_malaria/interventions
copying emodpy_malaria/interventions/sugartrap.py -> build/lib/emodpy_malaria/interventions
copying emodpy_malaria/interventions/__init__.py -> build/lib/emodpy_malaria/interventions
copying emodpy_malaria/interventions/adherentdrug.py -> build/lib/emodpy_malaria/interventions
copying emodpy_malaria/interventions/treatment_seeking.py -> build/lib/emodpy_malaria/interventions
copying emodpy_malaria/interventions/scale_larval_habitats.py -> build/lib/emodpy_malaria/interventions
copying emodpy_malaria/interventions/ivermectin.py -> build/lib/emodpy_malaria/interventions
copying emodpy_malaria/interventions/inputeir.py -> build/lib/emodpy_malaria/interventions
copying emodpy_malaria/interventions/irs.py -> build/lib/emodpy_malaria/interventions
copying emodpy_malaria/interventions/drug_campaign.py -> build/lib/emodpy_malaria/interventions
creating build/lib/emodpy_malaria/migration
copying emodpy_malaria/migration/convert_json_to_bin.py -> build/lib/emodpy_malaria/migration
copying emodpy_malaria/migration/vector_migration.py -> build/lib/emodpy_malaria/migration
copying emodpy_malaria/migration/__init__.py -> build/lib/emodpy_malaria/migration
copying emodpy_malaria/migration/convert_csv_to_bin_vector_migration.py -> build/lib/emodpy_malaria/migration
copying emodpy_malaria/migration/convert_txt_to_bin.py -> build/lib/emodpy_malaria/migration
creating build/lib/tests/unittests
copying tests/unittests/schema_path_file.py -> build/lib/tests/unittests
copying tests/unittests/test_malaria_interventions_as_files.py -> build/lib/tests/unittests
copying tests/unittests/test_demog.py -> build/lib/tests/unittests
copying tests/unittests/test_malaria_reporters.py -> build/lib/tests/unittests
copying tests/unittests/test_malaria_interventions.py -> build/lib/tests/unittests
copying tests/unittests/test_campaign_common.py -> build/lib/tests/unittests
copying tests/unittests/test_import.py -> build/lib/tests/unittests
copying tests/unittests/coverage_check.py -> build/lib/tests/unittests
copying tests/unittests/__init__.py -> build/lib/tests/unittests
copying tests/unittests/test_malaria_config.py -> build/lib/tests/unittests
copying tests/unittests/get_unittest_coverage.py -> build/lib/tests/unittests
copying tests/unittests/manifest.py -> build/lib/tests/unittests
copying tests/unittests/test_treatment_seeking.py -> build/lib/tests/unittests
creating build/lib/tests/unittests/weather
copying tests/unittests/weather/test_weather_scenarios.py -> build/lib/tests/unittests/weather
copying tests/unittests/weather/test_weather_request.py -> build/lib/tests/unittests/weather
copying tests/unittests/weather/test_weather_data.py -> build/lib/tests/unittests/weather
copying tests/unittests/weather/test_e2e_comps.py -> build/lib/tests/unittests/weather
copying tests/unittests/weather/__init__.py -> build/lib/tests/unittests/weather
copying tests/unittests/weather/test_weather_set.py -> build/lib/tests/unittests/weather
copying tests/unittests/weather/test_e2e.py -> build/lib/tests/unittests/weather
copying tests/unittests/weather/test_weather_metadata.py -> build/lib/tests/unittests/weather
copying emodpy_malaria/malaria_drug_params.csv -> build/lib/emodpy_malaria
creating build/bdist.linux-x86_64/egg
creating build/bdist.linux-x86_64/egg/emodpy_malaria
creating build/bdist.linux-x86_64/egg/emodpy_malaria/reporters
copying build/lib/emodpy_malaria/reporters/__init__.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/reporters
copying build/lib/emodpy_malaria/reporters/builtin.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/reporters
creating build/bdist.linux-x86_64/egg/emodpy_malaria/demographics
copying build/lib/emodpy_malaria/demographics/MalariaDemographics.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/demographics
copying build/lib/emodpy_malaria/demographics/__init__.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/demographics
creating build/bdist.linux-x86_64/egg/emodpy_malaria/weather
copying build/lib/emodpy_malaria/weather/weather_utils.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/weather
copying build/lib/emodpy_malaria/weather/weather_set.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/weather
copying build/lib/emodpy_malaria/weather/weather_variable.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/weather
copying build/lib/emodpy_malaria/weather/data_sources.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/weather
copying build/lib/emodpy_malaria/weather/weather_request.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/weather
copying build/lib/emodpy_malaria/weather/weather_metadata.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/weather
copying build/lib/emodpy_malaria/weather/__init__.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/weather
copying build/lib/emodpy_malaria/weather/weather_data.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/weather
copying build/lib/emodpy_malaria/malaria_config.py -> build/bdist.linux-x86_64/egg/emodpy_malaria
creating build/bdist.linux-x86_64/egg/emodpy_malaria/serialization
copying build/lib/emodpy_malaria/serialization/zero_infections.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/serialization
copying build/lib/emodpy_malaria/serialization/serialization_support.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/serialization
copying build/lib/emodpy_malaria/serialization/replace_genomes.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/serialization
copying build/lib/emodpy_malaria/serialization/__init__.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/serialization
copying build/lib/emodpy_malaria/serialization/replace_genomes_get_next_barcode.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/serialization
copying build/lib/emodpy_malaria/malaria_vector_species_params.py -> build/bdist.linux-x86_64/egg/emodpy_malaria
creating build/bdist.linux-x86_64/egg/emodpy_malaria/interventions
copying build/lib/emodpy_malaria/interventions/bednet.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/interventions
copying build/lib/emodpy_malaria/interventions/mosquitorelease.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/interventions
copying build/lib/emodpy_malaria/interventions/drug.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/interventions
copying build/lib/emodpy_malaria/interventions/outdoorrestkill.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/interventions
copying build/lib/emodpy_malaria/interventions/outbreak.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/interventions
copying build/lib/emodpy_malaria/interventions/diag_survey.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/interventions
copying build/lib/emodpy_malaria/interventions/usage_dependent_bednet.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/interventions
copying build/lib/emodpy_malaria/interventions/vector_surveillance.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/interventions
copying build/lib/emodpy_malaria/interventions/malaria_challenge.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/interventions
copying build/lib/emodpy_malaria/interventions/common.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/interventions
copying build/lib/emodpy_malaria/interventions/spacespraying.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/interventions
copying build/lib/emodpy_malaria/interventions/vaccine.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/interventions
copying build/lib/emodpy_malaria/interventions/community_health_worker.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/interventions
copying build/lib/emodpy_malaria/interventions/larvicide.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/interventions
copying build/lib/emodpy_malaria/interventions/sugartrap.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/interventions
copying build/lib/emodpy_malaria/interventions/__init__.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/interventions
copying build/lib/emodpy_malaria/interventions/adherentdrug.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/interventions
copying build/lib/emodpy_malaria/interventions/treatment_seeking.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/interventions
copying build/lib/emodpy_malaria/interventions/scale_larval_habitats.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/interventions
copying build/lib/emodpy_malaria/interventions/ivermectin.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/interventions
copying build/lib/emodpy_malaria/interventions/inputeir.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/interventions
copying build/lib/emodpy_malaria/interventions/irs.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/interventions
copying build/lib/emodpy_malaria/interventions/drug_campaign.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/interventions
creating build/bdist.linux-x86_64/egg/emodpy_malaria/migration
copying build/lib/emodpy_malaria/migration/convert_json_to_bin.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/migration
copying build/lib/emodpy_malaria/migration/vector_migration.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/migration
copying build/lib/emodpy_malaria/migration/__init__.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/migration
copying build/lib/emodpy_malaria/migration/convert_csv_to_bin_vector_migration.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/migration
copying build/lib/emodpy_malaria/migration/convert_txt_to_bin.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/migration
copying build/lib/emodpy_malaria/__init__.py -> build/bdist.linux-x86_64/egg/emodpy_malaria
copying build/lib/emodpy_malaria/malaria_drug_params.csv -> build/bdist.linux-x86_64/egg/emodpy_malaria
copying build/lib/emodpy_malaria/vector_config.py -> build/bdist.linux-x86_64/egg/emodpy_malaria
creating build/bdist.linux-x86_64/egg/tests
copying build/lib/tests/create_auth_token_args.py -> build/bdist.linux-x86_64/egg/tests
creating build/bdist.linux-x86_64/egg/tests/unittests
copying build/lib/tests/unittests/schema_path_file.py -> build/bdist.linux-x86_64/egg/tests/unittests
creating build/bdist.linux-x86_64/egg/tests/unittests/weather
copying build/lib/tests/unittests/weather/test_weather_scenarios.py -> build/bdist.linux-x86_64/egg/tests/unittests/weather
copying build/lib/tests/unittests/weather/test_weather_request.py -> build/bdist.linux-x86_64/egg/tests/unittests/weather
copying build/lib/tests/unittests/weather/test_weather_data.py -> build/bdist.linux-x86_64/egg/tests/unittests/weather
copying build/lib/tests/unittests/weather/test_e2e_comps.py -> build/bdist.linux-x86_64/egg/tests/unittests/weather
copying build/lib/tests/unittests/weather/__init__.py -> build/bdist.linux-x86_64/egg/tests/unittests/weather
copying build/lib/tests/unittests/weather/test_weather_set.py -> build/bdist.linux-x86_64/egg/tests/unittests/weather
copying build/lib/tests/unittests/weather/test_e2e.py -> build/bdist.linux-x86_64/egg/tests/unittests/weather
copying build/lib/tests/unittests/weather/test_weather_metadata.py -> build/bdist.linux-x86_64/egg/tests/unittests/weather
copying build/lib/tests/unittests/test_malaria_interventions_as_files.py -> build/bdist.linux-x86_64/egg/tests/unittests
copying build/lib/tests/unittests/test_demog.py -> build/bdist.linux-x86_64/egg/tests/unittests
copying build/lib/tests/unittests/test_malaria_reporters.py -> build/bdist.linux-x86_64/egg/tests/unittests
copying build/lib/tests/unittests/test_malaria_interventions.py -> build/bdist.linux-x86_64/egg/tests/unittests
copying build/lib/tests/unittests/test_campaign_common.py -> build/bdist.linux-x86_64/egg/tests/unittests
copying build/lib/tests/unittests/test_import.py -> build/bdist.linux-x86_64/egg/tests/unittests
copying build/lib/tests/unittests/coverage_check.py -> build/bdist.linux-x86_64/egg/tests/unittests
copying build/lib/tests/unittests/__init__.py -> build/bdist.linux-x86_64/egg/tests/unittests
copying build/lib/tests/unittests/test_malaria_config.py -> build/bdist.linux-x86_64/egg/tests/unittests
copying build/lib/tests/unittests/get_unittest_coverage.py -> build/bdist.linux-x86_64/egg/tests/unittests
copying build/lib/tests/unittests/manifest.py -> build/bdist.linux-x86_64/egg/tests/unittests
copying build/lib/tests/unittests/test_treatment_seeking.py -> build/bdist.linux-x86_64/egg/tests/unittests
copying build/lib/tests/run_all_sft_tests.py -> build/bdist.linux-x86_64/egg/tests
copying build/lib/tests/__init__.py -> build/bdist.linux-x86_64/egg/tests
copying build/lib/tests/add_itn.py -> build/bdist.linux-x86_64/egg/tests
byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/reporters/__init__.py to __init__.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/reporters/builtin.py to builtin.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/demographics/MalariaDemographics.py to MalariaDemographics.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/demographics/__init__.py to __init__.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/weather/weather_utils.py to weather_utils.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/weather/weather_set.py to weather_set.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/weather/weather_variable.py to weather_variable.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/weather/data_sources.py to data_sources.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/weather/weather_request.py to weather_request.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/weather/weather_metadata.py to weather_metadata.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/weather/__init__.py to __init__.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/weather/weather_data.py to weather_data.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/malaria_config.py to malaria_config.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/serialization/zero_infections.py to zero_infections.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/serialization/serialization_support.py to serialization_support.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/serialization/replace_genomes.py to replace_genomes.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/serialization/__init__.py to __init__.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/serialization/replace_genomes_get_next_barcode.py to replace_genomes_get_next_barcode.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/malaria_vector_species_params.py to malaria_vector_species_params.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/interventions/bednet.py to bednet.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/interventions/mosquitorelease.py to mosquitorelease.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/interventions/drug.py to drug.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/interventions/outdoorrestkill.py to outdoorrestkill.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/interventions/outbreak.py to outbreak.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/interventions/diag_survey.py to diag_survey.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/interventions/usage_dependent_bednet.py to usage_dependent_bednet.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/interventions/vector_surveillance.py to vector_surveillance.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/interventions/malaria_challenge.py to malaria_challenge.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/interventions/common.py to common.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/interventions/spacespraying.py to spacespraying.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/interventions/vaccine.py to vaccine.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/interventions/community_health_worker.py to community_health_worker.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/interventions/larvicide.py to larvicide.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/interventions/sugartrap.py to sugartrap.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/interventions/__init__.py to __init__.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/interventions/adherentdrug.py to adherentdrug.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/interventions/treatment_seeking.py to treatment_seeking.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/interventions/scale_larval_habitats.py to scale_larval_habitats.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/interventions/ivermectin.py to ivermectin.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/interventions/inputeir.py to inputeir.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/interventions/irs.py to irs.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/interventions/drug_campaign.py to drug_campaign.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/migration/convert_json_to_bin.py to convert_json_to_bin.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/migration/vector_migration.py to vector_migration.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/migration/__init__.py to __init__.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/migration/convert_csv_to_bin_vector_migration.py to convert_csv_to_bin_vector_migration.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/migration/convert_txt_to_bin.py to convert_txt_to_bin.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/__init__.py to __init__.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/vector_config.py to vector_config.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/tests/create_auth_token_args.py to create_auth_token_args.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/tests/unittests/schema_path_file.py to schema_path_file.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/tests/unittests/weather/test_weather_scenarios.py to test_weather_scenarios.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/tests/unittests/weather/test_weather_request.py to test_weather_request.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/tests/unittests/weather/test_weather_data.py to test_weather_data.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/tests/unittests/weather/test_e2e_comps.py to test_e2e_comps.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/tests/unittests/weather/__init__.py to __init__.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/tests/unittests/weather/test_weather_set.py to test_weather_set.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/tests/unittests/weather/test_e2e.py to test_e2e.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/tests/unittests/weather/test_weather_metadata.py to test_weather_metadata.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/tests/unittests/test_malaria_interventions_as_files.py to test_malaria_interventions_as_files.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/tests/unittests/test_demog.py to test_demog.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/tests/unittests/test_malaria_reporters.py to test_malaria_reporters.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/tests/unittests/test_malaria_interventions.py to test_malaria_interventions.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/tests/unittests/test_campaign_common.py to test_campaign_common.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/tests/unittests/test_import.py to test_import.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/tests/unittests/coverage_check.py to coverage_check.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/tests/unittests/__init__.py to __init__.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/tests/unittests/test_malaria_config.py to test_malaria_config.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/tests/unittests/get_unittest_coverage.py to get_unittest_coverage.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/tests/unittests/manifest.py to manifest.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/tests/unittests/test_treatment_seeking.py to test_treatment_seeking.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/tests/run_all_sft_tests.py to run_all_sft_tests.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/tests/__init__.py to __init__.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/tests/add_itn.py to add_itn.cpython-39.pyc
creating build/bdist.linux-x86_64/egg/EGG-INFO
copying emodpy_malaria.egg-info/PKG-INFO -> build/bdist.linux-x86_64/egg/EGG-INFO
copying emodpy_malaria.egg-info/SOURCES.txt -> build/bdist.linux-x86_64/egg/EGG-INFO
copying emodpy_malaria.egg-info/dependency_links.txt -> build/bdist.linux-x86_64/egg/EGG-INFO
copying emodpy_malaria.egg-info/requires.txt -> build/bdist.linux-x86_64/egg/EGG-INFO
copying emodpy_malaria.egg-info/top_level.txt -> build/bdist.linux-x86_64/egg/EGG-INFO
zip_safe flag not set; analyzing archive contents...
emodpy_malaria.__pycache__.malaria_config.cpython-39: module references __file__
tests.__pycache__.run_all_sft_tests.cpython-39: module references __file__
tests.unittests.__pycache__.manifest.cpython-39: module references __file__
tests.unittests.__pycache__.schema_path_file.cpython-39: module references __file__
tests.unittests.__pycache__.test_campaign_common.cpython-39: module references __file__
tests.unittests.__pycache__.test_demog.cpython-39: module references __file__
tests.unittests.__pycache__.test_malaria_config.cpython-39: module references __file__
tests.unittests.__pycache__.test_malaria_interventions.cpython-39: module references __file__
tests.unittests.__pycache__.test_malaria_reporters.cpython-39: module references __file__
tests.unittests.__pycache__.test_treatment_seeking.cpython-39: module references __file__
tests.unittests.weather.__pycache__.__init__.cpython-39: module references __file__
tests.unittests.weather.__pycache__.test_e2e.cpython-39: module references __file__
tests.unittests.weather.__pycache__.test_e2e_comps.cpython-39: module references __file__
tests.unittests.weather.__pycache__.test_weather_data.cpython-39: module references __file__
tests.unittests.weather.__pycache__.test_weather_metadata.cpython-39: module references __file__
tests.unittests.weather.__pycache__.test_weather_request.cpython-39: module references __file__
tests.unittests.weather.__pycache__.test_weather_scenarios.cpython-39: module references __file__
tests.unittests.weather.__pycache__.test_weather_set.cpython-39: module references __file__
creating dist
creating 'dist/emodpy_malaria-4.0.0-py3.9.egg' and adding 'build/bdist.linux-x86_64/egg' to it
removing 'build/bdist.linux-x86_64/egg' (and everything under it)
Processing emodpy_malaria-4.0.0-py3.9.egg
creating /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages/emodpy_malaria-4.0.0-py3.9.egg
Extracting emodpy_malaria-4.0.0-py3.9.egg to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Adding emodpy-malaria 4.0.0 to easy-install.pth file

Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages/emodpy_malaria-4.0.0-py3.9.egg
Processing dependencies for emodpy-malaria==4.0.0
Searching for requests==2.29.0
Reading https://pypi.org/simple/requests/
Downloading https://files.pythonhosted.org/packages/cf/e1/2aa539876d9ed0ddc95882451deb57cfd7aa8dbf0b8dbce68e045549ba56/requests-2.29.0-py3-none-any.whl#sha256=e8f3c9be120d3333921d213eef078af392fba3933ab7ed2d1cba3b56f2568c3b
Best match: requests 2.29.0
Processing requests-2.29.0-py3-none-any.whl
Installing requests-2.29.0-py3-none-any.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Adding requests 2.29.0 to easy-install.pth file
detected new path './emodpy_malaria-4.0.0-py3.9.egg'

Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages/requests-2.29.0-py3.9.egg
Searching for emod-malaria==0.0.72
Best match: emod-malaria 0.0.72
Adding emod-malaria 0.0.72 to easy-install.pth file
detected new path './requests-2.29.0-py3.9.egg'

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for emodpy==1.22.1
Best match: emodpy 1.22.1
Adding emodpy 1.22.1 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for certifi==2024.12.14
Best match: certifi 2024.12.14
Adding certifi 2024.12.14 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for urllib3==1.26.20
Best match: urllib3 1.26.20
Adding urllib3 1.26.20 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for idna==3.10
Best match: idna 3.10
Adding idna 3.10 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for charset-normalizer==3.4.0
Best match: charset-normalizer 3.4.0
Adding charset-normalizer 3.4.0 to easy-install.pth file
Installing normalizer script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/bin

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for pytest==8.1.2
Best match: pytest 8.1.2
Adding pytest 8.1.2 to easy-install.pth file
Installing py.test script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/bin
Installing pytest script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/bin

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for xmlrunner==1.7.7
Best match: xmlrunner 1.7.7
Adding xmlrunner 1.7.7 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for pyCOMPS==2.11.0
Best match: pyCOMPS 2.11.0
Adding pyCOMPS 2.11.0 to easy-install.pth file
Installing comps-util script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/bin

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for keyring==25.5.0
Best match: keyring 25.5.0
Adding keyring 25.5.0 to easy-install.pth file
Installing keyring script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/bin

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for bs4==0.0.2
Best match: bs4 0.0.2
Adding bs4 0.0.2 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for astunparse==1.6.3
Best match: astunparse 1.6.3
Adding astunparse 1.6.3 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for astor==0.8.1
Best match: astor 0.8.1
Adding astor 0.8.1 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for matplotlib==3.9.4
Best match: matplotlib 3.9.4
Adding matplotlib 3.9.4 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for emod-api==1.33.3
Best match: emod-api 1.33.3
Adding emod-api 1.33.3 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for idmtools-models==1.7.11
Best match: idmtools-models 1.7.11
Adding idmtools-models 1.7.11 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for idmtools-platform-comps==1.7.11
Best match: idmtools-platform-comps 1.7.11
Adding idmtools-platform-comps 1.7.11 to easy-install.pth file
Installing comps-cli script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/bin

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for idmtools==1.7.11
Best match: idmtools 1.7.11
Adding idmtools 1.7.11 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for click==7.1.2
Best match: click 7.1.2
Adding click 7.1.2 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for tomli==2.2.1
Best match: tomli 2.2.1
Adding tomli 2.2.1 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for exceptiongroup==1.2.2
Best match: exceptiongroup 1.2.2
Adding exceptiongroup 1.2.2 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for pluggy==1.5.0
Best match: pluggy 1.5.0
Adding pluggy 1.5.0 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for packaging==24.2
Best match: packaging 24.2
Adding packaging 24.2 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages/setuptools/_vendor
Searching for iniconfig==2.0.0
Best match: iniconfig 2.0.0
Adding iniconfig 2.0.0 to easy-install.pth file
detected new path './setuptools/_vendor'

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for xdg==6.0.0
Best match: xdg 6.0.0
Adding xdg 6.0.0 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for future==1.0.0
Best match: future 1.0.0
Adding future 1.0.0 to easy-install.pth file
Installing futurize script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/bin
Installing pasteurize script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/bin

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for pytz==2024.2
Best match: pytz 2024.2
Adding pytz 2024.2 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for jeepney==0.8.0
Best match: jeepney 0.8.0
Adding jeepney 0.8.0 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for SecretStorage==3.3.3
Best match: SecretStorage 3.3.3
Adding SecretStorage 3.3.3 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for importlib-metadata==8.5.0
Best match: importlib-metadata 8.5.0
Adding importlib-metadata 8.5.0 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for jaraco.context==6.0.1
Best match: jaraco.context 6.0.1
Adding jaraco.context 6.0.1 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for jaraco.functools==4.1.0
Best match: jaraco.functools 4.1.0
Adding jaraco.functools 4.1.0 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for jaraco.classes==3.4.0
Best match: jaraco.classes 3.4.0
Adding jaraco.classes 3.4.0 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for beautifulsoup4==4.12.3
Best match: beautifulsoup4 4.12.3
Adding beautifulsoup4 4.12.3 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for six==1.17.0
Best match: six 1.17.0
Adding six 1.17.0 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for wheel==0.43.0
Best match: wheel 0.43.0
wheel 0.43.0 is already the active version in easy-install.pth
Installing wheel script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/bin

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages/setuptools/_vendor
Searching for importlib-resources==6.4.5
Best match: importlib-resources 6.4.5
Adding importlib-resources 6.4.5 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for python-dateutil==2.9.0.post0
Best match: python-dateutil 2.9.0.post0
Adding python-dateutil 2.9.0.post0 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for pyparsing==3.2.0
Best match: pyparsing 3.2.0
Adding pyparsing 3.2.0 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for pillow==11.0.0
Best match: pillow 11.0.0
Adding pillow 11.0.0 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for numpy==2.0.2
Best match: numpy 2.0.2
Adding numpy 2.0.2 to easy-install.pth file
Installing f2py script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/bin
Installing numpy-config script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/bin

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for kiwisolver==1.4.7
Best match: kiwisolver 1.4.7
Adding kiwisolver 1.4.7 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for fonttools==4.55.3
Best match: fonttools 4.55.3
Adding fonttools 4.55.3 to easy-install.pth file
Installing fonttools script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/bin
Installing pyftmerge script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/bin
Installing pyftsubset script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/bin
Installing ttx script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/bin

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for cycler==0.12.1
Best match: cycler 0.12.1
Adding cycler 0.12.1 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for contourpy==1.3.0
Best match: contourpy 1.3.0
Adding contourpy 1.3.0 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for parse==1.20.2
Best match: parse 1.20.2
Adding parse 1.20.2 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for graphviz==0.20.3
Best match: graphviz 0.20.3
Adding graphviz 0.20.3 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for prodict==0.8.20
Best match: prodict 0.8.20
Adding prodict 0.8.20 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for lz4==4.3.3
Best match: lz4 4.3.3
Adding lz4 4.3.3 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for scikit-learn==1.6.0
Best match: scikit-learn 1.6.0
Adding scikit-learn 1.6.0 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for geographiclib==2.0
Best match: geographiclib 2.0
Adding geographiclib 2.0 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for pyproj==3.6.1
Best match: pyproj 3.6.1
Adding pyproj 3.6.1 to easy-install.pth file
Installing pyproj script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/bin

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for shapely==2.0.6
Best match: shapely 2.0.6
Adding shapely 2.0.6 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for scipy==1.13.1
Best match: scipy 1.13.1
Adding scipy 1.13.1 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for pandas==2.2.3
Best match: pandas 2.2.3
Adding pandas 2.2.3 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for PyYAML==6.0.2
Best match: PyYAML 6.0.2
Adding PyYAML 6.0.2 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for jinja2==3.1.4
Best match: jinja2 3.1.4
Adding jinja2 3.1.4 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for natsort==8.4.0
Best match: natsort 8.4.0
Adding natsort 8.4.0 to easy-install.pth file
Installing natsort script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/bin

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for tqdm==4.67.1
Best match: tqdm 4.67.1
Adding tqdm 4.67.1 to easy-install.pth file
Installing tqdm script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/bin

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for tabulate==0.9.0
Best match: tabulate 0.9.0
Adding tabulate 0.9.0 to easy-install.pth file
Installing tabulate script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/bin

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for more-itertools==9.1.0
Best match: more-itertools 9.1.0
Adding more-itertools 9.1.0 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for filelock==3.16.1
Best match: filelock 3.16.1
Adding filelock 3.16.1 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for diskcache==5.4.0
Best match: diskcache 5.4.0
Adding diskcache 5.4.0 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for coloredlogs==15.0.1
Best match: coloredlogs 15.0.1
Adding coloredlogs 15.0.1 to easy-install.pth file
Installing coloredlogs script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/bin

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for backoff==2.2.1
Best match: backoff 2.2.1
Adding backoff 2.2.1 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for cryptography==44.0.0
Best match: cryptography 44.0.0
Adding cryptography 44.0.0 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for zipp==3.21.0
Best match: zipp 3.21.0
Adding zipp 3.21.0 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for backports.tarfile==1.2.0
Best match: backports.tarfile 1.2.0
backports.tarfile 1.2.0 is already the active version in easy-install.pth

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages/setuptools/_vendor
Searching for soupsieve==2.6
Best match: soupsieve 2.6
Adding soupsieve 2.6 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for threadpoolctl==3.5.0
Best match: threadpoolctl 3.5.0
Adding threadpoolctl 3.5.0 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for joblib==1.4.2
Best match: joblib 1.4.2
Adding joblib 1.4.2 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for tzdata==2024.2
Best match: tzdata 2024.2
Adding tzdata 2024.2 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for MarkupSafe==3.0.2
Best match: MarkupSafe 3.0.2
Adding MarkupSafe 3.0.2 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for humanfriendly==10.0
Best match: humanfriendly 10.0
Adding humanfriendly 10.0 to easy-install.pth file
Installing humanfriendly script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/bin

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for cffi==1.17.1
Best match: cffi 1.17.1
Adding cffi 1.17.1 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Searching for pycparser==2.22
Best match: pycparser 2.22
Adding pycparser 2.22 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/9/lib/python3.9/site-packages
Finished processing dependencies for emodpy-malaria==4.0.0

[rtd-command-info] start-time: 2024-12-14T21:54:54.229786Z, end-time: 2024-12-14T21:54:54.294956Z, duration: 0, exit-code: 0
cat docs/conf.py
# -*- coding: utf-8 -*-
#
# Sphinx Demo docs 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
# docs root, use os.path.abspath to make it absolute, like shown here.
#
import os
import subprocess
import sys
#import sphinx_rtd_theme
import configparser
from datetime import datetime
from urllib.request import urlretrieve

if sys.platform in ["linux", "darwin"]:
    subprocess.check_output(["make", "generate-api"], cwd=os.path.dirname(os.path.abspath(__file__)))
else:
    subprocess.check_output(["make.bat", "generate-api"], cwd=os.path.dirname(os.path.abspath(__file__)))

# Rename "emodpy-malaria" to "API reference"
filename = 'modules.rst' # This must match the Makefile
with open(filename) as f: # Read existing file
    lines = f.readlines()
lines[0] = "API reference\n" # Blast away the existing heading and replace with this
lines[1] = "=============\n" # Ensure the heading is the right length
with open(filename, "w") as f: # Write new file
    f.writelines(lines)


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

tags.add('emodpymalaria')

# If your docs needs a minimal Sphinx version, state it here.
#
# needs_sphinx = '1.0'

# 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.mathjax',
    'sphinx.ext.githubpages',
    'sphinx.ext.autodoc',
    'sphinxcontrib.napoleon',
    'sphinx.ext.todo',
    'plantweb.directive',
    'sphinxcontrib.programoutput',
    'sphinx_copybutton',
    'sphinx.ext.intersphinx',
    'sphinxext.remoteliteralinclude',
    'myst_parser',
    'sphinx_search.extension',
    'sphinx.ext.viewcode', # link to view source code
    'myst_parser', # source files written in MD or RST
]

myst_enable_extensions = [
    "amsmath",
    "attrs_inline",
    "colon_fence",
    "deflist",
    "dollarmath",
    "fieldlist",
    "html_admonition",
    "html_image",
    "linkify",
    "replacements",
    "smartquotes",
    "strikethrough",
    "substitution",
    "tasklist",
]

plantuml = 'plantweb'

autodoc_default_options = {
    'member-order': 'bysource',
    'members': None,
    'exclude-members': '__all__'
}

autodoc_mock_imports = []

napoleon_google_docstring = True
# napoleon_numpy_docstring = True

# Add any paths that contain templates here, relative to this directory.
templates_path = ['_templates']

# The suffix(es) of source filenames.
# You can specify multiple suffix as a list of string:
#
source_suffix = ['.rst', '.md']

# The encoding of source files.
#
# source_encoding = 'utf-8-sig'

# The master toctree document.
master_doc = 'index'

# General information about the project.
project = u'emodpy-malaria'
copyright = f'1999 - {datetime.today().year}, Bill & Melinda Gates Foundation. All rights reserved.'
author = u'Institute for Disease Modeling'

# 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.
#current_path = os.path.dirname(__file__)
#version_path = os.path.join(current_path, '..', '.bumpversion.cfg')
#config = configparser.ConfigParser()
#config.read(version_path)

#version = config['bumpversion']['current_version']
# The full version, including alpha/beta/rc tags.
# release = u'1.0'

# The language for content autogenerated by Sphinx. Refer to docs
# 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'

# 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.
# This patterns also effect to html_static_path and html_extra_path
exclude_patterns = ['_build', 'Thumbs.db', '.DS_Store']

# 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

# 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

# RST epilog is added to the end of every topic. Useful for replace
# directives to use across the docset.

rst_epilog = "\n.. include:: /variables.txt"

# -- Options for HTML output ----------------------------------------------

# The theme to use for HTML and HTML Help pages.  See the docs for
# a list of builtin themes.
#
html_theme = 'pydata_sphinx_theme'

# 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
# docs.
# #
html_theme_options = {
    "collapse_navigation": False,
    "navigation_depth": 3,
    "show_prev_next": True,
    "icon_links": [
        {"name": "IDM docs", "url": "https://docs.idmod.org", "icon": "fas fa-home"},
        {
            "name": "GitHub",
            "url": "https://github.com/institutefordiseasemodeling/emodpy-malaria",
            "icon": "fab fa-github-square",
        },
    ],
    "navbar_end": ["theme-switcher", "navbar-icon-links"],
    "secondary_sidebar_items": ["navbar-side"],
    "header_links_before_dropdown": 5,
    "footer_start": ["copyright", "footer_start"],
    "footer_end": ["theme-version", "footer_end"],
}
html_sidebars = {
    "**": ["sidebar-nav-bs", "page-toc"],
}
html_logo = "images/idm-logo-transparent.png"
html_favicon = "images/favicon.ico"
html_static_path = ['_static']
html_baseurl = "https://docs.idmod.org/projects/emodpy-malaria/en/latest"
html_context = {
    'rtd_url': 'https://docs.idmod.org/projects/emodpy-malaria/en/latest',
    "versions_dropdown": {
        "latest": "devel (latest)",
        "stable": "current (stable)",
    },
    "default_mode": "light",
}

# Add customizations
def setup(app):
    app.add_css_file("theme_overrides.css")

# Add any paths that contain custom themes here, relative to this directory.
#html_theme_path = [sphinx_rtd_theme.get_html_theme_path()]

# The name for this set of Sphinx documents.
# "<project> v<release> docs" by default.
#
# html_title = u'Sphinx Demo v1.0'

# 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 = "images/IDM_white.png"

# The name of an image file (relative to this directory) to use as a favicon of
# the docs.  This file should be a Windows icon file (.ico) being 16x16 or 32x32
# pixels large.
#
html_favicon = "images/favicon.ico"

# 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 = ['theme_overrides.css']

html_js_files = ['show_block_by_os.js'] 

# 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 docs.
#
# html_extra_path = []

# If not None, a 'Last updated on:' timestamp is inserted at every page
# bottom, using the given strftime format.
# The empty string is equivalent to '%b %d, %Y'.
#
# html_last_updated_fmt = None

# 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 = False

# If true, "Created using Sphinx" is shown in the HTML footer. Default is True.
#
html_show_sphinx = False

# If true, "(C) Copyright ..." is shown in the HTML footer. Default is True.
#
# html_show_copyright = True

# -- RTD Sphinx search for searching across the entire domain -------------

if os.environ.get('READTHEDOCS') == 'True':

    search_project_parent = "institute-for-disease-modeling-idm"
    search_project = os.environ["READTHEDOCS_PROJECT"]
    search_version = os.environ["READTHEDOCS_VERSION"]

    rtd_sphinx_search_default_filter = f"subprojects:{search_project}/{search_version}"

    rtd_sphinx_search_filters = {
        "Search this project": f"project:{search_project}/{search_version}",
        "Search all IDM docs": f"subprojects:{search_project_parent}/{search_version}",
    }

# 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 = 'www.idmod.org/docs/'

# 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', 'zh'
#
# html_search_language = 'en'

# A dictionary with options for the search language support, empty by default.
# 'ja' uses this config value.
# 'zh' user can custom change `jieba` dictionary path.
#
# 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 = 'emodpy-malaria'

# -- 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, 'emodpy-malaria-docs.tex', u'emodpy-malaria',
     u'Institute for Disease Modeling', '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 = []

# It false, will not define \strong, \code,     itleref, \crossref ... but only
# \sphinxstrong, ..., \sphinxtitleref, ... To help avoid clash with user added
# packages.
#
# latex_keep_old_macro_names = True

# 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, 'emodpy-malaria-docs', u'emodpy-malaria',
     [author], 1)
]

# If true, show URL addresses after external links.
#
man_show_urls = True

# -- 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, 'emodpy-malaria-docs', u'emodpy-malaria',
     author, 'Institute for Disease Modeling', 'How to use emodpy for malaria simulations.',
     '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


# Example configuration for intersphinx: refer to the Python standard library.

intersphinx_mapping = {'python': ('https://docs.python.org/3', None),
                       'emod_api': ('https://docs.idmod.org/projects/emod-api/en/latest/', None),
                       'emodpy': ('https://docs.idmod.org/projects/emodpy/en/latest/', None),
                       'idmtools': ('https://docs.idmod.org/projects/idmtools/en/latest/', None),
                       'pycomps': ('https://docs.idmod.org/projects/pycomps/en/latest/', None),
                       'emod-generic': ('https://docs.idmod.org/projects/emod-generic/en/latest/', None),
                       'emod': ('https://docs.idmod.org/projects/emod/en/latest/', None)
                       }

[rtd-command-info] start-time: 2024-12-14T21:54:54.389263Z, end-time: 2024-12-14T21:56:02.965793Z, duration: 68, exit-code: 0
python -m sphinx -T -W --keep-going -b html -d _build/doctrees -D language=en . $READTHEDOCS_OUTPUT/html
Running Sphinx v7.4.7
loading translations [en]... done
making output directory... done
Converting `source_suffix = ['.rst', '.md']` to `source_suffix = {'.rst': 'restructuredtext', '.md': 'restructuredtext'}`.
loading intersphinx inventory 'python' from https://docs.python.org/3/objects.inv...
loading intersphinx inventory 'emod_api' from https://docs.idmod.org/projects/emod-api/en/latest/objects.inv...
loading intersphinx inventory 'emodpy' from https://docs.idmod.org/projects/emodpy/en/latest/objects.inv...
loading intersphinx inventory 'idmtools' from https://docs.idmod.org/projects/idmtools/en/latest/objects.inv...
loading intersphinx inventory 'pycomps' from https://docs.idmod.org/projects/pycomps/en/latest/objects.inv...
loading intersphinx inventory 'emod-generic' from https://docs.idmod.org/projects/emod-generic/en/latest/objects.inv...
loading intersphinx inventory 'emod' from https://docs.idmod.org/projects/emod/en/latest/objects.inv...
myst v2.0.0: MdParserConfig(commonmark_only=False, gfm_only=False, enable_extensions={'replacements', 'smartquotes', 'fieldlist', 'colon_fence', 'html_image', 'dollarmath', 'strikethrough', 'deflist', 'substitution', 'html_admonition', 'tasklist', 'linkify', 'attrs_inline', 'amsmath'}, 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)
building [mo]: targets for 0 po files that are out of date
writing output... 
building [html]: targets for 247 source files that are out of date
updating environment: [new config] 247 added, 0 changed, 0 removed
reading sources... [  0%] emod/install-linux
reading sources... [  1%] emod/install-overview
reading sources... [  1%] emod/install-windows
reading sources... [  2%] emod/malaria-model-antimalarial-drugs
reading sources... [  2%] emod/malaria-model-infection-immunity
reading sources... [  2%] emod/malaria-model-overview
reading sources... [  3%] emod/malaria-model-symptoms-diagnosis
reading sources... [  3%] emod/malaria-overview
reading sources... [  4%] emod/malaria-scenarios
reading sources... [  4%] emod/model-campaign
reading sources... [  4%] emod/model-care-cascade
reading sources... [  5%] emod/model-heterogeneity
reading sources... [  5%] emod/model-migration
reading sources... [  6%] emod/model-outbreak
reading sources... [  6%] emod/model-overview
reading sources... [  6%] emod/model-population-density
reading sources... [  7%] emod/model-properties
reading sources... [  7%] emod/model-targeted-interventions
reading sources... [  8%] emod/model-vaccination
reading sources... [  8%] emod/parameter-campaign
reading sources... [  9%] emod/parameter-campaign-event-broadcastcoordinatorevent
reading sources... [  9%] emod/parameter-campaign-event-calendareventcoordinator
reading sources... [  9%] emod/parameter-campaign-event-campaignevent
reading sources... [ 10%] emod/parameter-campaign-event-communityhealthworkereventcoordinator
reading sources... [ 10%] emod/parameter-campaign-event-coordinators
reading sources... [ 11%] emod/parameter-campaign-event-coveragebynodeeventcoordinator
reading sources... [ 11%] emod/parameter-campaign-event-delayeventcoordinator
reading sources... [ 11%] emod/parameter-campaign-event-incidenceeventcoordinator
reading sources... [ 12%] emod/parameter-campaign-event-list
reading sources... [ 12%] emod/parameter-campaign-event-nchoosereventcoordinator
reading sources... [ 13%] emod/parameter-campaign-event-standardinterventiondistributioneventcoordinator
reading sources... [ 13%] emod/parameter-campaign-event-surveillanceeventcoordinator
reading sources... [ 13%] emod/parameter-campaign-event-triggeredeventcoordinator
reading sources... [ 14%] emod/parameter-campaign-individual-adherentdrug
reading sources... [ 14%] emod/parameter-campaign-individual-antimalarialdrug
reading sources... [ 15%] emod/parameter-campaign-individual-bitingrisk
reading sources... [ 15%] emod/parameter-campaign-individual-broadcastevent
reading sources... [ 15%] emod/parameter-campaign-individual-broadcasteventtoothernodes
reading sources... [ 16%] emod/parameter-campaign-individual-controlledvaccine
reading sources... [ 16%] emod/parameter-campaign-individual-delayedintervention
reading sources... [ 17%] emod/parameter-campaign-individual-humanhostseekingtrap
reading sources... [ 17%] emod/parameter-campaign-individual-immunitybloodtest
reading sources... [ 17%] emod/parameter-campaign-individual-individualimmunitychanger
reading sources... [ 18%] emod/parameter-campaign-individual-individualnondiseasedeathratemodifier
reading sources... [ 18%] emod/parameter-campaign-individual-interventions
reading sources... [ 19%] emod/parameter-campaign-individual-irshousingmodification
reading sources... [ 19%] emod/parameter-campaign-individual-ivcalendar
reading sources... [ 19%] emod/parameter-campaign-individual-ivermectin
reading sources... [ 20%] emod/parameter-campaign-individual-malariadiagnostic
reading sources... [ 20%] emod/parameter-campaign-individual-migrateindividuals
reading sources... [ 21%] emod/parameter-campaign-individual-multieffectboostervaccine
reading sources... [ 21%] emod/parameter-campaign-individual-multieffectvaccine
reading sources... [ 21%] emod/parameter-campaign-individual-multiinsecticideirshousingmodification
reading sources... [ 22%] emod/parameter-campaign-individual-multiinsecticideusagedependentbednet
reading sources... [ 22%] emod/parameter-campaign-individual-multiinterventiondistributor
reading sources... [ 23%] emod/parameter-campaign-individual-multipackcombodrug
reading sources... [ 23%] emod/parameter-campaign-individual-outbreakindividual
reading sources... [ 23%] emod/parameter-campaign-individual-outbreakindividualmalariagenetics
reading sources... [ 24%] emod/parameter-campaign-individual-outbreakindividualmalariavargenes
reading sources... [ 24%] emod/parameter-campaign-individual-propertyvaluechanger
reading sources... [ 25%] emod/parameter-campaign-individual-rtssvaccine
reading sources... [ 25%] emod/parameter-campaign-individual-screeninghousingmodification
reading sources... [ 26%] emod/parameter-campaign-individual-simplebednet
reading sources... [ 26%] emod/parameter-campaign-individual-simpleboostervaccine
reading sources... [ 26%] emod/parameter-campaign-individual-simplediagnostic
reading sources... [ 27%] emod/parameter-campaign-individual-simplehealthseekingbehavior
reading sources... [ 27%] emod/parameter-campaign-individual-simplehousingmodification
reading sources... [ 28%] emod/parameter-campaign-individual-simpleindividualrepellent
reading sources... [ 28%] emod/parameter-campaign-individual-simplevaccine
reading sources... [ 28%] emod/parameter-campaign-individual-spatialrepellenthousingmodification
reading sources... [ 29%] emod/parameter-campaign-individual-standarddiagnostic
reading sources... [ 29%] emod/parameter-campaign-individual-usagedependentbednet
reading sources... [ 30%] emod/parameter-campaign-node-animalfeedkill
reading sources... [ 30%] emod/parameter-campaign-node-artificialdiet
reading sources... [ 30%] emod/parameter-campaign-node-broadcastcoordinatoreventfromnode
reading sources... [ 31%] emod/parameter-campaign-node-broadcastnodeevent
reading sources... [ 31%] emod/parameter-campaign-node-firstnodewithnodepropertyeventcoordinator
reading sources... [ 32%] emod/parameter-campaign-node-indoorspacespraying
reading sources... [ 32%] emod/parameter-campaign-node-inputeir
reading sources... [ 32%] emod/parameter-campaign-node-interventions
reading sources... [ 33%] emod/parameter-campaign-node-larvicides
reading sources... [ 33%] emod/parameter-campaign-node-malariachallenge
reading sources... [ 34%] emod/parameter-campaign-node-migratefamily
reading sources... [ 34%] emod/parameter-campaign-node-mosquitorelease
reading sources... [ 34%] emod/parameter-campaign-node-multiinsecticideindoorspacespraying
reading sources... [ 35%] emod/parameter-campaign-node-multiinsecticidespacespraying
reading sources... [ 35%] emod/parameter-campaign-node-multinodeinterventiondistributor
reading sources... [ 36%] emod/parameter-campaign-node-nlhtivnode
reading sources... [ 36%] emod/parameter-campaign-node-nodelevelhealthtriggerediv
reading sources... [ 36%] emod/parameter-campaign-node-nodepropertyvaluechanger
reading sources... [ 37%] emod/parameter-campaign-node-outbreak
reading sources... [ 37%] emod/parameter-campaign-node-outdoorrestkill
reading sources... [ 38%] emod/parameter-campaign-node-ovipositiontrap
reading sources... [ 38%] emod/parameter-campaign-node-scalelarvalhabitat
reading sources... [ 38%] emod/parameter-campaign-node-spacespraying
reading sources... [ 39%] emod/parameter-campaign-node-spatialrepellent
reading sources... [ 39%] emod/parameter-campaign-node-sugartrap
reading sources... [ 40%] emod/parameter-campaign-targeting-config
reading sources... [ 40%] emod/parameter-campaign-waningeffects
reading sources... [ 40%] emod/parameter-configuration
reading sources... [ 41%] emod/parameter-configuration-drugs
reading sources... [ 41%] emod/parameter-configuration-enable
reading sources... [ 42%] emod/parameter-configuration-env
reading sources... [ 42%] emod/parameter-configuration-general-disease
reading sources... [ 43%] emod/parameter-configuration-immunity
reading sources... [ 43%] emod/parameter-configuration-incubation
reading sources... [ 43%] emod/parameter-configuration-infectivity
reading sources... [ 44%] emod/parameter-configuration-input
reading sources... [ 44%] emod/parameter-configuration-larval
reading sources... [ 45%] emod/parameter-configuration-migration
reading sources... [ 45%] emod/parameter-configuration-mortality
reading sources... [ 45%] emod/parameter-configuration-output
reading sources... [ 46%] emod/parameter-configuration-parasite
reading sources... [ 46%] emod/parameter-configuration-population
reading sources... [ 47%] emod/parameter-configuration-sampling
reading sources... [ 47%] emod/parameter-configuration-scalars
reading sources... [ 47%] emod/parameter-configuration-setup
reading sources... [ 48%] emod/parameter-configuration-symptoms
reading sources... [ 48%] emod/parameter-configuration-vector-control
reading sources... [ 49%] emod/parameter-configuration-vector-lifecycle
reading sources... [ 49%] emod/parameter-demographics
reading sources... [ 49%] emod/parameter-overview
reading sources... [ 50%] emod/parameter-schema
reading sources... [ 50%] emod/software-campaign
reading sources... [ 51%] emod/software-campaign-overlay
reading sources... [ 51%] emod/software-climate
reading sources... [ 51%] emod/software-configuration
reading sources... [ 52%] emod/software-configuration-overlay
reading sources... [ 52%] emod/software-custom-reporter
reading sources... [ 53%] emod/software-demographics
reading sources... [ 53%] emod/software-demographics-overlay
reading sources... [ 53%] emod/software-error-logging
reading sources... [ 54%] emod/software-inputs
reading sources... [ 54%] emod/software-load-balancing
reading sources... [ 55%] emod/software-migration
reading sources... [ 55%] emod/software-migration-creation
reading sources... [ 55%] emod/software-migration-creation-vector
reading sources... [ 56%] emod/software-migration-vector
reading sources... [ 56%] emod/software-outputs
reading sources... [ 57%] emod/software-overview
reading sources... [ 57%] emod/software-parameter-sweep
reading sources... [ 57%] emod/software-report-binned
reading sources... [ 58%] emod/software-report-demographic-summary
reading sources... [ 58%] emod/software-report-drug-status
reading sources... [ 59%] emod/software-report-event-counter
reading sources... [ 59%] emod/software-report-event-recorder
reading sources... [ 60%] emod/software-report-filtered-malaria
reading sources... [ 60%] emod/software-report-human-migration
reading sources... [ 60%] emod/software-report-inset-chart
reading sources... [ 61%] emod/software-report-intervention-population-average
reading sources... [ 61%] emod/software-report-malaria-immunity
reading sources... [ 62%] emod/software-report-malaria-node-demographics
reading sources... [ 62%] emod/software-report-malaria-node-demographics-genetics
reading sources... [ 62%] emod/software-report-malaria-patient
reading sources... [ 63%] emod/software-report-malaria-spatial
reading sources... [ 63%] emod/software-report-malaria-sql
reading sources... [ 64%] emod/software-report-malaria-summary
reading sources... [ 64%] emod/software-report-malaria-survey
reading sources... [ 64%] emod/software-report-node-demographics
reading sources... [ 65%] emod/software-report-property
reading sources... [ 65%] emod/software-report-simple-malaria-transmission
reading sources... [ 66%] emod/software-report-spatial
reading sources... [ 66%] emod/software-report-vector-genetics
reading sources... [ 66%] emod/software-report-vector-habitat
reading sources... [ 67%] emod/software-report-vector-migration
reading sources... [ 67%] emod/software-report-vector-species
reading sources... [ 68%] emod/software-report-vector-stats
reading sources... [ 68%] emod/software-report-vector-stats-malaria-genetics
reading sources... [ 68%] emod/software-run-simulation
reading sources... [ 69%] emod/software-serialized
reading sources... [ 69%] emod/software-serializing-change-campaign
reading sources... [ 70%] emod/software-serializing-change-climate
reading sources... [ 70%] emod/software-serializing-change-config
reading sources... [ 70%] emod/software-serializing-change-demog
reading sources... [ 71%] emod/software-serializing-change-migration
reading sources... [ 71%] emod/software-serializing-change-reports
reading sources... [ 72%] emod/software-serializing-create
reading sources... [ 72%] emod/software-serializing-pops
reading sources... [ 72%] emod/software-simulation-cli
reading sources... [ 73%] emod/software-simulation-mpiexec
reading sources... [ 73%] emod/software-simulation-performance
reading sources... [ 74%] emod/tips-biting-risk
reading sources... [ 74%] emod/tips-tricks
reading sources... [ 74%] emod/troubleshooting
reading sources... [ 75%] emod/tutorials
reading sources... [ 75%] emod/vector-model-climate-demographics
reading sources... [ 76%] emod/vector-model-larval-habitat
reading sources... [ 76%] emod/vector-model-overview
reading sources... [ 77%] emod/vector-model-transmission
reading sources... [ 77%] emod/vector-scenarios
reading sources... [ 77%] emodpy_malaria
reading sources... [ 78%] emodpy_malaria.demographics
reading sources... [ 78%] emodpy_malaria.demographics.MalariaDemographics
reading sources... [ 79%] emodpy_malaria.interventions
reading sources... [ 79%] emodpy_malaria.interventions.adherentdrug
reading sources... [ 79%] emodpy_malaria.interventions.bednet
reading sources... [ 80%] emodpy_malaria.interventions.common
reading sources... [ 80%] emodpy_malaria.interventions.community_health_worker
reading sources... [ 81%] emodpy_malaria.interventions.diag_survey
reading sources... [ 81%] emodpy_malaria.interventions.drug
reading sources... [ 81%] emodpy_malaria.interventions.drug_campaign
reading sources... [ 82%] emodpy_malaria.interventions.inputeir
reading sources... [ 82%] emodpy_malaria.interventions.irs
reading sources... [ 83%] emodpy_malaria.interventions.ivermectin
reading sources... [ 83%] emodpy_malaria.interventions.larvicide
reading sources... [ 83%] emodpy_malaria.interventions.malaria_challenge
reading sources... [ 84%] emodpy_malaria.interventions.mosquitorelease
reading sources... [ 84%] emodpy_malaria.interventions.outbreak
reading sources... [ 85%] emodpy_malaria.interventions.outdoorrestkill
reading sources... [ 85%] emodpy_malaria.interventions.scale_larval_habitats
reading sources... [ 85%] emodpy_malaria.interventions.spacespraying
reading sources... [ 86%] emodpy_malaria.interventions.sugartrap
reading sources... [ 86%] emodpy_malaria.interventions.treatment_seeking
reading sources... [ 87%] emodpy_malaria.interventions.usage_dependent_bednet
reading sources... [ 87%] emodpy_malaria.interventions.vaccine
reading sources... [ 87%] emodpy_malaria.interventions.vector_surveillance
reading sources... [ 88%] emodpy_malaria.malaria_config
reading sources... [ 88%] emodpy_malaria.malaria_vector_species_params
reading sources... [ 89%] emodpy_malaria.migration
reading sources... [ 89%] emodpy_malaria.migration.convert_csv_to_bin_vector_migration
reading sources... [ 89%] emodpy_malaria.migration.convert_json_to_bin
reading sources... [ 90%] emodpy_malaria.migration.convert_txt_to_bin
reading sources... [ 90%] emodpy_malaria.migration.vector_migration
reading sources... [ 91%] emodpy_malaria.reporters
reading sources... [ 91%] emodpy_malaria.reporters.builtin
reading sources... [ 91%] emodpy_malaria.serialization
reading sources... [ 92%] emodpy_malaria.serialization.replace_genomes
reading sources... [ 92%] emodpy_malaria.serialization.replace_genomes_get_next_barcode
reading sources... [ 93%] emodpy_malaria.serialization.serialization_support
reading sources... [ 93%] emodpy_malaria.serialization.zero_infections
reading sources... [ 94%] emodpy_malaria.vector_config
reading sources... [ 94%] emodpy_malaria.weather
reading sources... [ 94%] emodpy_malaria.weather.data_sources
reading sources... [ 95%] emodpy_malaria.weather.weather_data
reading sources... [ 95%] emodpy_malaria.weather.weather_metadata
reading sources... [ 96%] emodpy_malaria.weather.weather_request
reading sources... [ 96%] emodpy_malaria.weather.weather_set
reading sources... [ 96%] emodpy_malaria.weather.weather_utils
reading sources... [ 97%] emodpy_malaria.weather.weather_variable
reading sources... [ 97%] faq
reading sources... [ 98%] glossary
reading sources... [ 98%] index
reading sources... [ 98%] installation
reading sources... [ 99%] installation-basic
reading sources... [ 99%] modules
reading sources... [100%] overview
reading sources... [100%] reference

looking for now-outdated files... none found
pickling environment... done
checking consistency... done
preparing documents... done
copying assets... 
copying static files... done
copying extra files... done
copying assets: done
writing output... [  0%] emod/install-linux
writing output... [  1%] emod/install-overview
writing output... [  1%] emod/install-windows
writing output... [  2%] emod/malaria-model-antimalarial-drugs
writing output... [  2%] emod/malaria-model-infection-immunity
writing output... [  2%] emod/malaria-model-overview
writing output... [  3%] emod/malaria-model-symptoms-diagnosis
writing output... [  3%] emod/malaria-overview
writing output... [  4%] emod/malaria-scenarios
writing output... [  4%] emod/model-campaign
writing output... [  4%] emod/model-care-cascade
writing output... [  5%] emod/model-heterogeneity
writing output... [  5%] emod/model-migration
writing output... [  6%] emod/model-outbreak
writing output... [  6%] emod/model-overview
writing output... [  6%] emod/model-population-density
writing output... [  7%] emod/model-properties
writing output... [  7%] emod/model-targeted-interventions
writing output... [  8%] emod/model-vaccination
writing output... [  8%] emod/parameter-campaign
writing output... [  9%] emod/parameter-campaign-event-broadcastcoordinatorevent
writing output... [  9%] emod/parameter-campaign-event-calendareventcoordinator
writing output... [  9%] emod/parameter-campaign-event-campaignevent
writing output... [ 10%] emod/parameter-campaign-event-communityhealthworkereventcoordinator
writing output... [ 10%] emod/parameter-campaign-event-coordinators
writing output... [ 11%] emod/parameter-campaign-event-coveragebynodeeventcoordinator
writing output... [ 11%] emod/parameter-campaign-event-delayeventcoordinator
writing output... [ 11%] emod/parameter-campaign-event-incidenceeventcoordinator
writing output... [ 12%] emod/parameter-campaign-event-list
writing output... [ 12%] emod/parameter-campaign-event-nchoosereventcoordinator
writing output... [ 13%] emod/parameter-campaign-event-standardinterventiondistributioneventcoordinator
writing output... [ 13%] emod/parameter-campaign-event-surveillanceeventcoordinator
writing output... [ 13%] emod/parameter-campaign-event-triggeredeventcoordinator
writing output... [ 14%] emod/parameter-campaign-individual-adherentdrug
writing output... [ 14%] emod/parameter-campaign-individual-antimalarialdrug
writing output... [ 15%] emod/parameter-campaign-individual-bitingrisk
writing output... [ 15%] emod/parameter-campaign-individual-broadcastevent
writing output... [ 15%] emod/parameter-campaign-individual-broadcasteventtoothernodes
writing output... [ 16%] emod/parameter-campaign-individual-controlledvaccine
writing output... [ 16%] emod/parameter-campaign-individual-delayedintervention
writing output... [ 17%] emod/parameter-campaign-individual-humanhostseekingtrap
writing output... [ 17%] emod/parameter-campaign-individual-immunitybloodtest
writing output... [ 17%] emod/parameter-campaign-individual-individualimmunitychanger
writing output... [ 18%] emod/parameter-campaign-individual-individualnondiseasedeathratemodifier
writing output... [ 18%] emod/parameter-campaign-individual-interventions
writing output... [ 19%] emod/parameter-campaign-individual-irshousingmodification
writing output... [ 19%] emod/parameter-campaign-individual-ivcalendar
writing output... [ 19%] emod/parameter-campaign-individual-ivermectin
writing output... [ 20%] emod/parameter-campaign-individual-malariadiagnostic
writing output... [ 20%] emod/parameter-campaign-individual-migrateindividuals
writing output... [ 21%] emod/parameter-campaign-individual-multieffectboostervaccine
writing output... [ 21%] emod/parameter-campaign-individual-multieffectvaccine
writing output... [ 21%] emod/parameter-campaign-individual-multiinsecticideirshousingmodification
writing output... [ 22%] emod/parameter-campaign-individual-multiinsecticideusagedependentbednet
writing output... [ 22%] emod/parameter-campaign-individual-multiinterventiondistributor
writing output... [ 23%] emod/parameter-campaign-individual-multipackcombodrug
writing output... [ 23%] emod/parameter-campaign-individual-outbreakindividual
writing output... [ 23%] emod/parameter-campaign-individual-outbreakindividualmalariagenetics
writing output... [ 24%] emod/parameter-campaign-individual-outbreakindividualmalariavargenes
writing output... [ 24%] emod/parameter-campaign-individual-propertyvaluechanger
writing output... [ 25%] emod/parameter-campaign-individual-rtssvaccine
writing output... [ 25%] emod/parameter-campaign-individual-screeninghousingmodification
writing output... [ 26%] emod/parameter-campaign-individual-simplebednet
writing output... [ 26%] emod/parameter-campaign-individual-simpleboostervaccine
writing output... [ 26%] emod/parameter-campaign-individual-simplediagnostic
writing output... [ 27%] emod/parameter-campaign-individual-simplehealthseekingbehavior
writing output... [ 27%] emod/parameter-campaign-individual-simplehousingmodification
writing output... [ 28%] emod/parameter-campaign-individual-simpleindividualrepellent
writing output... [ 28%] emod/parameter-campaign-individual-simplevaccine
writing output... [ 28%] emod/parameter-campaign-individual-spatialrepellenthousingmodification
writing output... [ 29%] emod/parameter-campaign-individual-standarddiagnostic
writing output... [ 29%] emod/parameter-campaign-individual-usagedependentbednet
writing output... [ 30%] emod/parameter-campaign-node-animalfeedkill
writing output... [ 30%] emod/parameter-campaign-node-artificialdiet
writing output... [ 30%] emod/parameter-campaign-node-broadcastcoordinatoreventfromnode
writing output... [ 31%] emod/parameter-campaign-node-broadcastnodeevent
writing output... [ 31%] emod/parameter-campaign-node-firstnodewithnodepropertyeventcoordinator
writing output... [ 32%] emod/parameter-campaign-node-indoorspacespraying
writing output... [ 32%] emod/parameter-campaign-node-inputeir
writing output... [ 32%] emod/parameter-campaign-node-interventions
writing output... [ 33%] emod/parameter-campaign-node-larvicides
writing output... [ 33%] emod/parameter-campaign-node-malariachallenge
writing output... [ 34%] emod/parameter-campaign-node-migratefamily
writing output... [ 34%] emod/parameter-campaign-node-mosquitorelease
writing output... [ 34%] emod/parameter-campaign-node-multiinsecticideindoorspacespraying
writing output... [ 35%] emod/parameter-campaign-node-multiinsecticidespacespraying
writing output... [ 35%] emod/parameter-campaign-node-multinodeinterventiondistributor
writing output... [ 36%] emod/parameter-campaign-node-nlhtivnode
writing output... [ 36%] emod/parameter-campaign-node-nodelevelhealthtriggerediv
writing output... [ 36%] emod/parameter-campaign-node-nodepropertyvaluechanger
writing output... [ 37%] emod/parameter-campaign-node-outbreak
writing output... [ 37%] emod/parameter-campaign-node-outdoorrestkill
writing output... [ 38%] emod/parameter-campaign-node-ovipositiontrap
writing output... [ 38%] emod/parameter-campaign-node-scalelarvalhabitat
writing output... [ 38%] emod/parameter-campaign-node-spacespraying
writing output... [ 39%] emod/parameter-campaign-node-spatialrepellent
writing output... [ 39%] emod/parameter-campaign-node-sugartrap
writing output... [ 40%] emod/parameter-campaign-targeting-config
writing output... [ 40%] emod/parameter-campaign-waningeffects
writing output... [ 40%] emod/parameter-configuration
writing output... [ 41%] emod/parameter-configuration-drugs
writing output... [ 41%] emod/parameter-configuration-enable
writing output... [ 42%] emod/parameter-configuration-env
writing output... [ 42%] emod/parameter-configuration-general-disease
writing output... [ 43%] emod/parameter-configuration-immunity
writing output... [ 43%] emod/parameter-configuration-incubation
writing output... [ 43%] emod/parameter-configuration-infectivity
writing output... [ 44%] emod/parameter-configuration-input
writing output... [ 44%] emod/parameter-configuration-larval
writing output... [ 45%] emod/parameter-configuration-migration
writing output... [ 45%] emod/parameter-configuration-mortality
writing output... [ 45%] emod/parameter-configuration-output
writing output... [ 46%] emod/parameter-configuration-parasite
writing output... [ 46%] emod/parameter-configuration-population
writing output... [ 47%] emod/parameter-configuration-sampling
writing output... [ 47%] emod/parameter-configuration-scalars
writing output... [ 47%] emod/parameter-configuration-setup
writing output... [ 48%] emod/parameter-configuration-symptoms
writing output... [ 48%] emod/parameter-configuration-vector-control
writing output... [ 49%] emod/parameter-configuration-vector-lifecycle
writing output... [ 49%] emod/parameter-demographics
writing output... [ 49%] emod/parameter-overview
writing output... [ 50%] emod/parameter-schema
writing output... [ 50%] emod/software-campaign
writing output... [ 51%] emod/software-campaign-overlay
writing output... [ 51%] emod/software-climate
writing output... [ 51%] emod/software-configuration
writing output... [ 52%] emod/software-configuration-overlay
writing output... [ 52%] emod/software-custom-reporter
writing output... [ 53%] emod/software-demographics
writing output... [ 53%] emod/software-demographics-overlay
writing output... [ 53%] emod/software-error-logging
writing output... [ 54%] emod/software-inputs
writing output... [ 54%] emod/software-load-balancing
writing output... [ 55%] emod/software-migration
writing output... [ 55%] emod/software-migration-creation
writing output... [ 55%] emod/software-migration-creation-vector
writing output... [ 56%] emod/software-migration-vector
writing output... [ 56%] emod/software-outputs
writing output... [ 57%] emod/software-overview
writing output... [ 57%] emod/software-parameter-sweep
writing output... [ 57%] emod/software-report-binned
writing output... [ 58%] emod/software-report-demographic-summary
writing output... [ 58%] emod/software-report-drug-status
writing output... [ 59%] emod/software-report-event-counter
writing output... [ 59%] emod/software-report-event-recorder
writing output... [ 60%] emod/software-report-filtered-malaria
writing output... [ 60%] emod/software-report-human-migration
writing output... [ 60%] emod/software-report-inset-chart
writing output... [ 61%] emod/software-report-intervention-population-average
writing output... [ 61%] emod/software-report-malaria-immunity
writing output... [ 62%] emod/software-report-malaria-node-demographics
writing output... [ 62%] emod/software-report-malaria-node-demographics-genetics
writing output... [ 62%] emod/software-report-malaria-patient
writing output... [ 63%] emod/software-report-malaria-spatial
writing output... [ 63%] emod/software-report-malaria-sql
writing output... [ 64%] emod/software-report-malaria-summary
writing output... [ 64%] emod/software-report-malaria-survey
writing output... [ 64%] emod/software-report-node-demographics
writing output... [ 65%] emod/software-report-property
writing output... [ 65%] emod/software-report-simple-malaria-transmission
writing output... [ 66%] emod/software-report-spatial
writing output... [ 66%] emod/software-report-vector-genetics
writing output... [ 66%] emod/software-report-vector-habitat
writing output... [ 67%] emod/software-report-vector-migration
writing output... [ 67%] emod/software-report-vector-species
writing output... [ 68%] emod/software-report-vector-stats
writing output... [ 68%] emod/software-report-vector-stats-malaria-genetics
writing output... [ 68%] emod/software-run-simulation
writing output... [ 69%] emod/software-serialized
writing output... [ 69%] emod/software-serializing-change-campaign
writing output... [ 70%] emod/software-serializing-change-climate
writing output... [ 70%] emod/software-serializing-change-config
writing output... [ 70%] emod/software-serializing-change-demog
writing output... [ 71%] emod/software-serializing-change-migration
writing output... [ 71%] emod/software-serializing-change-reports
writing output... [ 72%] emod/software-serializing-create
writing output... [ 72%] emod/software-serializing-pops
writing output... [ 72%] emod/software-simulation-cli
writing output... [ 73%] emod/software-simulation-mpiexec
writing output... [ 73%] emod/software-simulation-performance
writing output... [ 74%] emod/tips-biting-risk
writing output... [ 74%] emod/tips-tricks
writing output... [ 74%] emod/troubleshooting
writing output... [ 75%] emod/tutorials
writing output... [ 75%] emod/vector-model-climate-demographics
writing output... [ 76%] emod/vector-model-larval-habitat
writing output... [ 76%] emod/vector-model-overview
writing output... [ 77%] emod/vector-model-transmission
writing output... [ 77%] emod/vector-scenarios
writing output... [ 77%] emodpy_malaria
writing output... [ 78%] emodpy_malaria.demographics
writing output... [ 78%] emodpy_malaria.demographics.MalariaDemographics
writing output... [ 79%] emodpy_malaria.interventions
writing output... [ 79%] emodpy_malaria.interventions.adherentdrug
writing output... [ 79%] emodpy_malaria.interventions.bednet
writing output... [ 80%] emodpy_malaria.interventions.common
writing output... [ 80%] emodpy_malaria.interventions.community_health_worker
writing output... [ 81%] emodpy_malaria.interventions.diag_survey
writing output... [ 81%] emodpy_malaria.interventions.drug
writing output... [ 81%] emodpy_malaria.interventions.drug_campaign
writing output... [ 82%] emodpy_malaria.interventions.inputeir
writing output... [ 82%] emodpy_malaria.interventions.irs
writing output... [ 83%] emodpy_malaria.interventions.ivermectin
writing output... [ 83%] emodpy_malaria.interventions.larvicide
writing output... [ 83%] emodpy_malaria.interventions.malaria_challenge
writing output... [ 84%] emodpy_malaria.interventions.mosquitorelease
writing output... [ 84%] emodpy_malaria.interventions.outbreak
writing output... [ 85%] emodpy_malaria.interventions.outdoorrestkill
writing output... [ 85%] emodpy_malaria.interventions.scale_larval_habitats
writing output... [ 85%] emodpy_malaria.interventions.spacespraying
writing output... [ 86%] emodpy_malaria.interventions.sugartrap
writing output... [ 86%] emodpy_malaria.interventions.treatment_seeking
writing output... [ 87%] emodpy_malaria.interventions.usage_dependent_bednet
writing output... [ 87%] emodpy_malaria.interventions.vaccine
writing output... [ 87%] emodpy_malaria.interventions.vector_surveillance
writing output... [ 88%] emodpy_malaria.malaria_config
writing output... [ 88%] emodpy_malaria.malaria_vector_species_params
writing output... [ 89%] emodpy_malaria.migration
writing output... [ 89%] emodpy_malaria.migration.convert_csv_to_bin_vector_migration
writing output... [ 89%] emodpy_malaria.migration.convert_json_to_bin
writing output... [ 90%] emodpy_malaria.migration.convert_txt_to_bin
writing output... [ 90%] emodpy_malaria.migration.vector_migration
writing output... [ 91%] emodpy_malaria.reporters
writing output... [ 91%] emodpy_malaria.reporters.builtin
writing output... [ 91%] emodpy_malaria.serialization
writing output... [ 92%] emodpy_malaria.serialization.replace_genomes
writing output... [ 92%] emodpy_malaria.serialization.replace_genomes_get_next_barcode
writing output... [ 93%] emodpy_malaria.serialization.serialization_support
writing output... [ 93%] emodpy_malaria.serialization.zero_infections
writing output... [ 94%] emodpy_malaria.vector_config
writing output... [ 94%] emodpy_malaria.weather
writing output... [ 94%] emodpy_malaria.weather.data_sources
writing output... [ 95%] emodpy_malaria.weather.weather_data
writing output... [ 95%] emodpy_malaria.weather.weather_metadata
writing output... [ 96%] emodpy_malaria.weather.weather_request
writing output... [ 96%] emodpy_malaria.weather.weather_set
writing output... [ 96%] emodpy_malaria.weather.weather_utils
writing output... [ 97%] emodpy_malaria.weather.weather_variable
writing output... [ 97%] faq
writing output... [ 98%] glossary
writing output... [ 98%] index
writing output... [ 98%] installation
writing output... [ 99%] installation-basic
writing output... [ 99%] modules
writing output... [100%] overview
writing output... [100%] reference

generating indices... genindex py-modindex done
highlighting module code... [  2%] emodpy_malaria.demographics.MalariaDemographics
highlighting module code... [  5%] emodpy_malaria.interventions.adherentdrug
highlighting module code... [  7%] emodpy_malaria.interventions.bednet
highlighting module code... [ 10%] emodpy_malaria.interventions.common
highlighting module code... [ 12%] emodpy_malaria.interventions.community_health_worker
highlighting module code... [ 14%] emodpy_malaria.interventions.diag_survey
highlighting module code... [ 17%] emodpy_malaria.interventions.drug
highlighting module code... [ 19%] emodpy_malaria.interventions.drug_campaign
highlighting module code... [ 21%] emodpy_malaria.interventions.inputeir
highlighting module code... [ 24%] emodpy_malaria.interventions.irs
highlighting module code... [ 26%] emodpy_malaria.interventions.ivermectin
highlighting module code... [ 29%] emodpy_malaria.interventions.larvicide
highlighting module code... [ 31%] emodpy_malaria.interventions.malaria_challenge
highlighting module code... [ 33%] emodpy_malaria.interventions.mosquitorelease
highlighting module code... [ 36%] emodpy_malaria.interventions.outbreak
highlighting module code... [ 38%] emodpy_malaria.interventions.outdoorrestkill
highlighting module code... [ 40%] emodpy_malaria.interventions.scale_larval_habitats
highlighting module code... [ 43%] emodpy_malaria.interventions.spacespraying
highlighting module code... [ 45%] emodpy_malaria.interventions.sugartrap
highlighting module code... [ 48%] emodpy_malaria.interventions.treatment_seeking
highlighting module code... [ 50%] emodpy_malaria.interventions.usage_dependent_bednet
highlighting module code... [ 52%] emodpy_malaria.interventions.vaccine
highlighting module code... [ 55%] emodpy_malaria.interventions.vector_surveillance
highlighting module code... [ 57%] emodpy_malaria.malaria_config
highlighting module code... [ 60%] emodpy_malaria.malaria_vector_species_params
highlighting module code... [ 62%] emodpy_malaria.migration.convert_csv_to_bin_vector_migration
highlighting module code... [ 64%] emodpy_malaria.migration.convert_json_to_bin
highlighting module code... [ 67%] emodpy_malaria.migration.convert_txt_to_bin
highlighting module code... [ 69%] emodpy_malaria.migration.vector_migration
highlighting module code... [ 71%] emodpy_malaria.reporters.builtin
highlighting module code... [ 74%] emodpy_malaria.serialization.replace_genomes
highlighting module code... [ 76%] emodpy_malaria.serialization.replace_genomes_get_next_barcode
highlighting module code... [ 79%] emodpy_malaria.serialization.serialization_support
highlighting module code... [ 81%] emodpy_malaria.serialization.zero_infections
highlighting module code... [ 83%] emodpy_malaria.vector_config
highlighting module code... [ 86%] emodpy_malaria.weather
highlighting module code... [ 88%] emodpy_malaria.weather.weather_data
highlighting module code... [ 90%] emodpy_malaria.weather.weather_metadata
highlighting module code... [ 93%] emodpy_malaria.weather.weather_request
highlighting module code... [ 95%] emodpy_malaria.weather.weather_set
highlighting module code... [ 98%] emodpy_malaria.weather.weather_utils
highlighting module code... [100%] emodpy_malaria.weather.weather_variable

writing additional pages... search opensearch done
copying images... [  2%] images/vector-malaria/Antimalarial_Drugs__Box_PK_profile.png
copying images... [  3%] images/vector-malaria/Antimalarial_Drugs_Concentration_vs_time_PK_profile.png
copying images... [  5%] images/vector-malaria/Malaria_Infection_within_host_parasite_dynamics.png
copying images... [  7%] images/vector-malaria/Malaria_Infection_gametocyte_development.png
copying images... [  9%] images/vector-malaria/Malaria_Infection_parasite_strain_switching.png
copying images... [ 10%] images/vector-malaria/Malaria_Infection_immunity_effects_on_course_of_infection.png
copying images... [ 12%] images/vector-malaria/Malaria_Infection_immunity_innate_immune_response.png
copying images... [ 14%] images/vector-malaria/Malaria_Infection_immunity_adaptive_response_to_variable_epitopes.png
copying images... [ 16%] images/vector-malaria/Malaria_Infection_immunity_anti_MSP_immunity.png
copying images... [ 17%] images/vector-malaria/Malaria_Infection_immunity_anti_CSP_immunity.png
copying images... [ 19%] images/vector-malaria/malaria_network_schematic.png
copying images... [ 21%] images/vector-malaria/Malaria_Symptoms_fever_and_clinical_cases.png
copying images... [ 22%] images/vector-malaria/Malaria_Symptoms_anemia.png
copying images... [ 24%] images/vector-malaria/Malaria_Symptoms_severe_disease_and_mortality.png
copying images... [ 26%] images/vector-malaria/Malaria_Symptoms_diagnostics.png
copying images... [ 28%] images/vector-malaria/malaria_lifecycle.gif
copying images... [ 29%] images/vector-malaria/malaria-blood-smear.jpg
copying images... [ 31%] images/general/howto-multiple.png
copying images... [ 33%] images/general/Zoonosis_InsetChart_default.png
copying images... [ 34%] images/general/Zoonosis_AllCharts_default.png
copying images... [ 36%] images/intro/simulation-types.png
copying images... [ 38%] images/general/GenericModel_Flowchart.png
copying images... [ 40%] images/general/DensityScaling_orig_cropped.png
copying images... [ 41%] images/general/Density_default.png
copying images... [ 43%] images/general/Density_15.png
copying images... [ 45%] images/general/Density_3.png
copying images... [ 47%] images/general/howto-targeted-1.png
copying images... [ 48%] images/general/howto-targeted-2.png
copying images... [ 50%] images/general/howto-targeted-3.png
copying images... [ 52%] images/general/howto-targeted-4.png
copying images... [ 53%] images/general/howto-targeted-5.png
copying images... [ 55%] images/general/howto-targeted-6.png
copying images... [ 57%] images/general/HINT_AgeAndAccess_PropertyReport_agetargeted.png
copying images... [ 59%] images/general/HINT_AgeAndAccess_PropertyReport_accesstargeted.png
copying images... [ 60%] images/general/Vaccination_InsetChart_baseline.png
copying images... [ 62%] images/general/Vaccination_InsetChart_broad.png
copying images... [ 64%] images/general/Vaccination_InsetChart_access.png
copying images... [ 66%] images/file-structure/climate-by-data-binary.jpg
copying images... [ 67%] images/file-structure/climate-by-koppen-binary.jpg
copying images... [ 69%] images/dev/Reporters.png
copying images... [ 71%] images/file-structure/loadbalancingBFF.jpg
copying images... [ 72%] images/file-structure/localMigrationBFF.jpg
copying images... [ 74%] images/intro/output.png
copying images... [ 76%] images/intro/architecture.png
copying images... [ 78%] images/vector-malaria/malaria-inset-chart.png
copying images... [ 79%] images/vector-malaria/malaria-sql-report.png
copying images... [ 81%] images/file-structure/spatialOutputBFF.jpg
copying images... [ 83%] images/general/serialized_file_format.png
copying images... [ 84%] images/vector-malaria/Malaria-climate.png
copying images... [ 86%] images/vector-malaria/Vector_Transmission_abundance.png
copying images... [ 88%] images/vector-malaria/Vector_Transmission_larval_habitats.png
copying images... [ 90%] images/vector-malaria/Rainfall_Driven_Mortality_Flushing_of_Swamp.png
copying images... [ 91%] images/vector-malaria/Vary_Habitat_Scalar.png
copying images... [ 93%] images/vector-malaria/Vary_Temporary_Habitat_Scalar.png
copying images... [ 95%] images/vector-malaria/malariaSIR.png
copying images... [ 97%] images/vector-malaria/DTKSchematic_vectors.png
copying images... [ 98%] images/vector-malaria/5_Madagascar_Vector_Daily_Bites.gif
copying images... [100%] images/vector-malaria/Vector_Transmission_life_cycle.png

dumping search index in English (code: en)... done
dumping object inventory... done
build succeeded.

The HTML pages are in ../_readthedocs/html.