Read the Docs build information
Build id: 1077446
Project: institute-for-disease-modeling-pycomps
Version: v2.8.0
Commit: 9c3d14bd0ba827de8f9b56a1ebac6570ed586cb5
Date: 2022-08-31T20:25:59.311277Z
State: finished
Success: False


[rtd-command-info] start-time: 2022-08-31T20:26:01.859574Z, end-time: 2022-08-31T20:26:04.910737Z, duration: 3, exit-code: 0
git clone --no-single-branch --depth 50 git@github.com:InstituteforDiseaseModeling/pyCOMPS.git .
Cloning into '.'...
Warning: Permanently added 'github.com,192.30.255.113' (ECDSA) to the list of known hosts.

[rtd-command-info] start-time: 2022-08-31T20:26:05.094064Z, end-time: 2022-08-31T20:26:05.245107Z, duration: 0, exit-code: 0
git checkout --force 9c3d14bd0ba827de8f9b56a1ebac6570ed586cb5
Note: switching to '9c3d14bd0ba827de8f9b56a1ebac6570ed586cb5'.

You are in 'detached HEAD' state. You can look around, make experimental
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Or undo this operation with:

  git switch -

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

HEAD is now at 9c3d14b Update version to 2.8.0

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git clean -d -f -f


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python3.7 -mvirtualenv 
Using base prefix '/home/docs/.pyenv/versions/3.7.9'
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Also creating executable in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-pycomps/envs/v2.8.0/bin/python
Installing setuptools, pip, wheel...
done.

[rtd-command-info] start-time: 2022-08-31T20:26:19.737109Z, end-time: 2022-08-31T20:26:21.703538Z, duration: 1, exit-code: 0
python -m pip install --upgrade --no-cache-dir pip setuptools<58.3.0
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python -m pip install --upgrade --no-cache-dir pillow==5.4.1 mock==1.0.1 alabaster>=0.7,<0.8,!=0.7.5 commonmark==0.9.1 recommonmark==0.5.0 sphinx<2 sphinx-rtd-theme<0.5 readthedocs-sphinx-ext<2.2 jinja2<3.1.0
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Building wheels for collected packages: mock
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Successfully installed MarkupSafe-2.1.1 Pygments-2.13.0 alabaster-0.7.12 babel-2.10.3 certifi-2022.6.15 charset-normalizer-2.1.1 commonmark-0.9.1 docutils-0.17.1 idna-3.3 imagesize-1.4.1 jinja2-3.0.3 mock-1.0.1 packaging-21.3 pillow-5.4.1 pyparsing-3.0.9 pytz-2022.2.1 readthedocs-sphinx-ext-2.1.8 recommonmark-0.5.0 requests-2.28.1 six-1.16.0 snowballstemmer-2.2.0 sphinx-1.8.6 sphinx-rtd-theme-0.4.3 sphinxcontrib-serializinghtml-1.1.5 sphinxcontrib-websupport-1.2.4 urllib3-1.26.12

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python -m pip install --exists-action=w --no-cache-dir -r docs/requirements.txt
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[rtd-command-info] start-time: 2022-08-31T20:26:35.227241Z, end-time: 2022-08-31T20:26:37.795478Z, duration: 2, exit-code: 0
python ./setup.py install --force
running install
running bdist_egg
running egg_info
creating pyCOMPS.egg-info
writing pyCOMPS.egg-info/PKG-INFO
writing dependency_links to pyCOMPS.egg-info/dependency_links.txt
writing entry points to pyCOMPS.egg-info/entry_points.txt
writing requirements to pyCOMPS.egg-info/requires.txt
writing top-level names to pyCOMPS.egg-info/top_level.txt
writing manifest file 'pyCOMPS.egg-info/SOURCES.txt'
reading manifest file 'pyCOMPS.egg-info/SOURCES.txt'
adding license file 'LICENSE.txt'
writing manifest file 'pyCOMPS.egg-info/SOURCES.txt'
installing library code to build/bdist.linux-x86_64/egg
running install_lib
running build_py
creating build
creating build/lib
creating build/lib/COMPS
copying COMPS/Client.py -> build/lib/COMPS
copying COMPS/__main__.py -> build/lib/COMPS
copying COMPS/CredentialPrompt.py -> build/lib/COMPS
copying COMPS/__init__.py -> build/lib/COMPS
copying COMPS/AuthManager.py -> build/lib/COMPS
creating build/lib/COMPS/utils
copying COMPS/utils/main.py -> build/lib/COMPS/utils
copying COMPS/utils/__example_utility_template__.py -> build/lib/COMPS/utils
copying COMPS/utils/create_asset_collection.py -> build/lib/COMPS/utils
copying COMPS/utils/get_output_files_for_experiment.py -> build/lib/COMPS/utils
copying COMPS/utils/clone_simulation.py -> build/lib/COMPS/utils
copying COMPS/utils/__init__.py -> build/lib/COMPS/utils
copying COMPS/utils/get_status.py -> build/lib/COMPS/utils
copying COMPS/utils/rerun_failed_simulations_for_experiment.py -> build/lib/COMPS/utils
copying COMPS/utils/get_output_tail.py -> build/lib/COMPS/utils
copying COMPS/utils/get_output_files_for_workitem.py -> build/lib/COMPS/utils
creating build/lib/COMPS/Data
copying COMPS/Data/TaggableEntity.py -> build/lib/COMPS/Data
copying COMPS/Data/SimulationFile.py -> build/lib/COMPS/Data
copying COMPS/Data/Priority.py -> build/lib/COMPS/Data
copying COMPS/Data/CommissionableEntity.py -> build/lib/COMPS/Data
copying COMPS/Data/Experiment.py -> build/lib/COMPS/Data
copying COMPS/Data/AssetCollection.py -> build/lib/COMPS/Data
copying COMPS/Data/SerializableEntity.py -> build/lib/COMPS/Data
copying COMPS/Data/WorkItem.py -> build/lib/COMPS/Data
copying COMPS/Data/AssetFile.py -> build/lib/COMPS/Data
copying COMPS/Data/WorkItemFile.py -> build/lib/COMPS/Data
copying COMPS/Data/__init__.py -> build/lib/COMPS/Data
copying COMPS/Data/Simulation.py -> build/lib/COMPS/Data
copying COMPS/Data/QueryCriteria.py -> build/lib/COMPS/Data
copying COMPS/Data/AssetType.py -> build/lib/COMPS/Data
copying COMPS/Data/AssetManager.py -> build/lib/COMPS/Data
copying COMPS/Data/Configuration.py -> build/lib/COMPS/Data
copying COMPS/Data/BaseEntity.py -> build/lib/COMPS/Data
copying COMPS/Data/HpcJob.py -> build/lib/COMPS/Data
copying COMPS/Data/OutputFileMetadata.py -> build/lib/COMPS/Data
copying COMPS/Data/AssetCollectionFile.py -> build/lib/COMPS/Data
copying COMPS/Data/Suite.py -> build/lib/COMPS/Data
creating build/lib/COMPS/Data/WorkItems
copying COMPS/Data/WorkItems/BuilderWorkItem.py -> build/lib/COMPS/Data/WorkItems
copying COMPS/Data/WorkItems/__init__.py -> build/lib/COMPS/Data/WorkItems
copying COMPS/logging.ini -> build/lib/COMPS
creating build/bdist.linux-x86_64
creating build/bdist.linux-x86_64/egg
creating build/bdist.linux-x86_64/egg/COMPS
copying build/lib/COMPS/Client.py -> build/bdist.linux-x86_64/egg/COMPS
copying build/lib/COMPS/__main__.py -> build/bdist.linux-x86_64/egg/COMPS
copying build/lib/COMPS/CredentialPrompt.py -> build/bdist.linux-x86_64/egg/COMPS
copying build/lib/COMPS/__init__.py -> build/bdist.linux-x86_64/egg/COMPS
copying build/lib/COMPS/AuthManager.py -> build/bdist.linux-x86_64/egg/COMPS
creating build/bdist.linux-x86_64/egg/COMPS/utils
copying build/lib/COMPS/utils/main.py -> build/bdist.linux-x86_64/egg/COMPS/utils
copying build/lib/COMPS/utils/__example_utility_template__.py -> build/bdist.linux-x86_64/egg/COMPS/utils
copying build/lib/COMPS/utils/create_asset_collection.py -> build/bdist.linux-x86_64/egg/COMPS/utils
copying build/lib/COMPS/utils/get_output_files_for_experiment.py -> build/bdist.linux-x86_64/egg/COMPS/utils
copying build/lib/COMPS/utils/clone_simulation.py -> build/bdist.linux-x86_64/egg/COMPS/utils
copying build/lib/COMPS/utils/__init__.py -> build/bdist.linux-x86_64/egg/COMPS/utils
copying build/lib/COMPS/utils/get_status.py -> build/bdist.linux-x86_64/egg/COMPS/utils
copying build/lib/COMPS/utils/rerun_failed_simulations_for_experiment.py -> build/bdist.linux-x86_64/egg/COMPS/utils
copying build/lib/COMPS/utils/get_output_tail.py -> build/bdist.linux-x86_64/egg/COMPS/utils
copying build/lib/COMPS/utils/get_output_files_for_workitem.py -> build/bdist.linux-x86_64/egg/COMPS/utils
copying build/lib/COMPS/logging.ini -> build/bdist.linux-x86_64/egg/COMPS
creating build/bdist.linux-x86_64/egg/COMPS/Data
copying build/lib/COMPS/Data/TaggableEntity.py -> build/bdist.linux-x86_64/egg/COMPS/Data
copying build/lib/COMPS/Data/SimulationFile.py -> build/bdist.linux-x86_64/egg/COMPS/Data
copying build/lib/COMPS/Data/Priority.py -> build/bdist.linux-x86_64/egg/COMPS/Data
copying build/lib/COMPS/Data/CommissionableEntity.py -> build/bdist.linux-x86_64/egg/COMPS/Data
copying build/lib/COMPS/Data/Experiment.py -> build/bdist.linux-x86_64/egg/COMPS/Data
copying build/lib/COMPS/Data/AssetCollection.py -> build/bdist.linux-x86_64/egg/COMPS/Data
creating build/bdist.linux-x86_64/egg/COMPS/Data/WorkItems
copying build/lib/COMPS/Data/WorkItems/BuilderWorkItem.py -> build/bdist.linux-x86_64/egg/COMPS/Data/WorkItems
copying build/lib/COMPS/Data/WorkItems/__init__.py -> build/bdist.linux-x86_64/egg/COMPS/Data/WorkItems
copying build/lib/COMPS/Data/SerializableEntity.py -> build/bdist.linux-x86_64/egg/COMPS/Data
copying build/lib/COMPS/Data/WorkItem.py -> build/bdist.linux-x86_64/egg/COMPS/Data
copying build/lib/COMPS/Data/AssetFile.py -> build/bdist.linux-x86_64/egg/COMPS/Data
copying build/lib/COMPS/Data/WorkItemFile.py -> build/bdist.linux-x86_64/egg/COMPS/Data
copying build/lib/COMPS/Data/__init__.py -> build/bdist.linux-x86_64/egg/COMPS/Data
copying build/lib/COMPS/Data/Simulation.py -> build/bdist.linux-x86_64/egg/COMPS/Data
copying build/lib/COMPS/Data/QueryCriteria.py -> build/bdist.linux-x86_64/egg/COMPS/Data
copying build/lib/COMPS/Data/AssetType.py -> build/bdist.linux-x86_64/egg/COMPS/Data
copying build/lib/COMPS/Data/AssetManager.py -> build/bdist.linux-x86_64/egg/COMPS/Data
copying build/lib/COMPS/Data/Configuration.py -> build/bdist.linux-x86_64/egg/COMPS/Data
copying build/lib/COMPS/Data/BaseEntity.py -> build/bdist.linux-x86_64/egg/COMPS/Data
copying build/lib/COMPS/Data/HpcJob.py -> build/bdist.linux-x86_64/egg/COMPS/Data
copying build/lib/COMPS/Data/OutputFileMetadata.py -> build/bdist.linux-x86_64/egg/COMPS/Data
copying build/lib/COMPS/Data/AssetCollectionFile.py -> build/bdist.linux-x86_64/egg/COMPS/Data
copying build/lib/COMPS/Data/Suite.py -> build/bdist.linux-x86_64/egg/COMPS/Data
byte-compiling build/bdist.linux-x86_64/egg/COMPS/Client.py to Client.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/COMPS/__main__.py to __main__.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/COMPS/CredentialPrompt.py to CredentialPrompt.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/COMPS/__init__.py to __init__.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/COMPS/AuthManager.py to AuthManager.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/COMPS/utils/main.py to main.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/COMPS/utils/__example_utility_template__.py to __example_utility_template__.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/COMPS/utils/create_asset_collection.py to create_asset_collection.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/COMPS/utils/get_output_files_for_experiment.py to get_output_files_for_experiment.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/COMPS/utils/clone_simulation.py to clone_simulation.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/COMPS/utils/__init__.py to __init__.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/COMPS/utils/get_status.py to get_status.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/COMPS/utils/rerun_failed_simulations_for_experiment.py to rerun_failed_simulations_for_experiment.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/COMPS/utils/get_output_tail.py to get_output_tail.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/COMPS/utils/get_output_files_for_workitem.py to get_output_files_for_workitem.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/COMPS/Data/TaggableEntity.py to TaggableEntity.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/COMPS/Data/SimulationFile.py to SimulationFile.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/COMPS/Data/Priority.py to Priority.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/COMPS/Data/CommissionableEntity.py to CommissionableEntity.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/COMPS/Data/Experiment.py to Experiment.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/COMPS/Data/AssetCollection.py to AssetCollection.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/COMPS/Data/WorkItems/BuilderWorkItem.py to BuilderWorkItem.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/COMPS/Data/WorkItems/__init__.py to __init__.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/COMPS/Data/SerializableEntity.py to SerializableEntity.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/COMPS/Data/WorkItem.py to WorkItem.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/COMPS/Data/AssetFile.py to AssetFile.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/COMPS/Data/WorkItemFile.py to WorkItemFile.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/COMPS/Data/__init__.py to __init__.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/COMPS/Data/Simulation.py to Simulation.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/COMPS/Data/QueryCriteria.py to QueryCriteria.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/COMPS/Data/AssetType.py to AssetType.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/COMPS/Data/AssetManager.py to AssetManager.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/COMPS/Data/Configuration.py to Configuration.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/COMPS/Data/BaseEntity.py to BaseEntity.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/COMPS/Data/HpcJob.py to HpcJob.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/COMPS/Data/OutputFileMetadata.py to OutputFileMetadata.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/COMPS/Data/AssetCollectionFile.py to AssetCollectionFile.cpython-37.pyc
byte-compiling build/bdist.linux-x86_64/egg/COMPS/Data/Suite.py to Suite.cpython-37.pyc
creating build/bdist.linux-x86_64/egg/EGG-INFO
copying pyCOMPS.egg-info/PKG-INFO -> build/bdist.linux-x86_64/egg/EGG-INFO
copying pyCOMPS.egg-info/SOURCES.txt -> build/bdist.linux-x86_64/egg/EGG-INFO
copying pyCOMPS.egg-info/dependency_links.txt -> build/bdist.linux-x86_64/egg/EGG-INFO
copying pyCOMPS.egg-info/entry_points.txt -> build/bdist.linux-x86_64/egg/EGG-INFO
copying pyCOMPS.egg-info/not-zip-safe -> build/bdist.linux-x86_64/egg/EGG-INFO
copying pyCOMPS.egg-info/requires.txt -> build/bdist.linux-x86_64/egg/EGG-INFO
copying pyCOMPS.egg-info/top_level.txt -> build/bdist.linux-x86_64/egg/EGG-INFO
creating dist
creating 'dist/pyCOMPS-2.8.0-py3.7.egg' and adding 'build/bdist.linux-x86_64/egg' to it
removing 'build/bdist.linux-x86_64/egg' (and everything under it)
Processing pyCOMPS-2.8.0-py3.7.egg
creating /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-pycomps/envs/v2.8.0/lib/python3.7/site-packages/pyCOMPS-2.8.0-py3.7.egg
Extracting pyCOMPS-2.8.0-py3.7.egg to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-pycomps/envs/v2.8.0/lib/python3.7/site-packages
Adding pyCOMPS 2.8.0 to easy-install.pth file
Installing comps-util script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-pycomps/envs/v2.8.0/bin

Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-pycomps/envs/v2.8.0/lib/python3.7/site-packages/pyCOMPS-2.8.0-py3.7.egg
Processing dependencies for pyCOMPS==2.8.0
Searching for xdg>=4.0.1
Reading https://pypi.org/simple/xdg/
Downloading https://files.pythonhosted.org/packages/ea/09/4a0f30aada49e142b94bbb232c023abcbc6ced7e2a9776533fb14977e9db/xdg-5.1.1-py3-none-any.whl#sha256=865a7b56ed1d4cd2fce2ead1eddf97360843619757f473cd90b75f1817ca541d
Best match: xdg 5.1.1
Processing xdg-5.1.1-py3-none-any.whl
Installing xdg-5.1.1-py3-none-any.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-pycomps/envs/v2.8.0/lib/python3.7/site-packages
Adding xdg 5.1.1 to easy-install.pth file

Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-pycomps/envs/v2.8.0/lib/python3.7/site-packages/xdg-5.1.1-py3.7.egg
Searching for future>=0.16.0
Reading https://pypi.org/simple/future/
Downloading https://files.pythonhosted.org/packages/45/0b/38b06fd9b92dc2b68d58b75f900e97884c45bedd2ff83203d933cf5851c9/future-0.18.2.tar.gz#sha256=b1bead90b70cf6ec3f0710ae53a525360fa360d306a86583adc6bf83a4db537d
Best match: future 0.18.2
Processing future-0.18.2.tar.gz
Writing /tmp/easy_install-5dvodx0a/future-0.18.2/setup.cfg
Running future-0.18.2/setup.py -q bdist_egg --dist-dir /tmp/easy_install-5dvodx0a/future-0.18.2/egg-dist-tmp-9uvfpfu6
warning: no files found matching '*.au' under directory 'tests'
warning: no files found matching '*.gif' under directory 'tests'
warning: no files found matching '*.txt' under directory 'tests'
zip_safe flag not set; analyzing archive contents...
future.backports.test.__pycache__.ssl_servers.cpython-37: module references __file__
future.backports.test.__pycache__.support.cpython-37: module references __file__
future.standard_library.__pycache__.__init__.cpython-37: module references __file__
future.standard_library.__pycache__.__init__.cpython-37: module references __path__
future.utils.__pycache__.__init__.cpython-37: module MAY be using inspect.stack
past.builtins.__pycache__.misc.cpython-37: module MAY be using inspect.stack
past.translation.__pycache__.__init__.cpython-37: module references __file__
past.translation.__pycache__.__init__.cpython-37: module references __path__
creating /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-pycomps/envs/v2.8.0/lib/python3.7/site-packages/future-0.18.2-py3.7.egg
Extracting future-0.18.2-py3.7.egg to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-pycomps/envs/v2.8.0/lib/python3.7/site-packages
Adding future 0.18.2 to easy-install.pth file
Installing futurize script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-pycomps/envs/v2.8.0/bin
Installing pasteurize script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-pycomps/envs/v2.8.0/bin

Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-pycomps/envs/v2.8.0/lib/python3.7/site-packages/future-0.18.2-py3.7.egg
Searching for pytz==2022.2.1
Best match: pytz 2022.2.1
Adding pytz 2022.2.1 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-pycomps/envs/v2.8.0/lib/python3.7/site-packages
Searching for requests==2.28.1
Best match: requests 2.28.1
Adding requests 2.28.1 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-pycomps/envs/v2.8.0/lib/python3.7/site-packages
Searching for idna==3.3
Best match: idna 3.3
Adding idna 3.3 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-pycomps/envs/v2.8.0/lib/python3.7/site-packages
Searching for certifi==2022.6.15
Best match: certifi 2022.6.15
Adding certifi 2022.6.15 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-pycomps/envs/v2.8.0/lib/python3.7/site-packages
Searching for charset-normalizer==2.1.1
Best match: charset-normalizer 2.1.1
Adding charset-normalizer 2.1.1 to easy-install.pth file
Installing normalizer script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-pycomps/envs/v2.8.0/bin

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-pycomps/envs/v2.8.0/lib/python3.7/site-packages
Searching for urllib3==1.26.12
Best match: urllib3 1.26.12
Adding urllib3 1.26.12 to easy-install.pth file

Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-pycomps/envs/v2.8.0/lib/python3.7/site-packages
Finished processing dependencies for pyCOMPS==2.8.0

[rtd-command-info] start-time: 2022-08-31T20:26:39.333847Z, end-time: 2022-08-31T20:26:39.428696Z, duration: 0, exit-code: 0
cat docs/conf.py
# -*- coding: utf-8 -*-
#
# Sphinx Demo documentation build configuration file, created by
# sphinx-quickstart on Fri Aug 26 16:52:16 2016.
#
# This file is execfile()d with the current directory set to its
# containing dir.
#
# Note that not all possible configuration values are present in this
# autogenerated file.
#
# All configuration values have a default; values that are commented out
# serve to show the default.

# If extensions (or modules to document with autodoc) are in another directory,
# add these directories to sys.path here. If the directory is relative to the
# documentation root, use os.path.abspath to make it absolute, like shown here.
#
import os
import subprocess
import sys
import sphinx_rtd_theme
import configparser
from datetime import datetime

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__)))


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

# If your documentation 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'
]


plantuml = 'plantweb'

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

napoleon_google_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']
source_suffix = '.rst'

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

# The master toctree document.
master_doc = 'index'

# General information about the project.
project = u'pyCOMPS'
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.
# version = u'1.0'
# The full version, including alpha/beta/rc tags.
# release = u'1.0'

# The language for content autogenerated by Sphinx. Refer to documentation
# for a list of supported languages.
#
# This is also used if you do content translation via gettext catalogs.
# Usually you set "language" from the command line for these cases.
language = None

# There are two options for replacing |today|: either, you set today to some
# non-false value, then it is used:
#
# today = ''
#
# Else, today_fmt is used as the format for a strftime call.
#
# today_fmt = '%B %d, %Y'

# List of patterns, relative to source directory, that match files and
# directories to ignore when looking for source files.
# 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 documentation for
# a list of builtin themes.
#
html_theme = 'sphinx_rtd_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
# documentation.
# #
# html_theme_options = {
# }

# 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> documentation" 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_context = {
    'css_files': [
        '_static/theme_overrides.css'
        ]
}
# Add any extra paths that contain custom files (such as robots.txt or
# .htaccess) here, relative to this directory. These files are copied
# directly to the root of the documentation.
#
# html_extra_path = []

# If not 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

# 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 = 'pyCOMPS'



# -- 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, 'pycomps-docs.tex', u'pyCOMPS',
     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, 'pycomps-docs', u'pyCOMPS',
     [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, 'pycomps-docs', u'pyCOMPS',
     author, 'Institute for Disease Modeling', 'How to use pyCOMPS for running 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 = {'https://docs.python.org/': None}

# 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),
                       'pycomps': ('https://docs.idmod.org/projects/pycomps/en/latest/', None),
                       'emod-generic': ('https://docs.idmod.org/projects/emod-generic/en/latest/', None)
                       }



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


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

import importlib
import sys
import os.path

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

from sphinx import version_info

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

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

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

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


#Add project information to the template context.
context = {
    'using_theme': using_rtd_theme,
    'html_theme': html_theme,
    'current_version': "v2.8.0",
    'version_slug': "v2.8.0",
    'MEDIA_URL': "https://media.readthedocs.com/media/",
    'STATIC_URL': "https://assets.readthedocs.com/",
    'PRODUCTION_DOMAIN': "readthedocs.com",
    'proxied_static_path': "/_/static/",
    'versions': [
    ("latest", "/en/latest/"),
    ],
    'downloads': [ 
    ],
    'subprojects': [ 
    ],
    'slug': 'institute-for-disease-modeling-pycomps',
    'name': u'pyCOMPS',
    'rtd_language': u'en',
    'programming_language': u'py',
    'canonical_url': 'https://docs.idmod.org/projects/pycomps/en/latest/',
    'analytics_code': 'UA-87656833-3',
    'single_version': False,
    'conf_py_path': '/docs/',
    'api_host': 'https://readthedocs.com',
    'github_user': 'InstituteforDiseaseModeling',
    'proxied_api_host': '/_',
    'github_repo': 'pyCOMPS',
    'github_version': 'v2.8.0',
    'display_github': True,
    'bitbucket_user': 'None',
    'bitbucket_repo': 'None',
    'bitbucket_version': 'v2.8.0',
    'display_bitbucket': False,
    'gitlab_user': 'None',
    'gitlab_repo': 'None',
    'gitlab_version': 'v2.8.0',
    'display_gitlab': False,
    'READTHEDOCS': True,
    'using_theme': (html_theme == "default"),
    'new_theme': (html_theme == "sphinx_rtd_theme"),
    'source_suffix': SUFFIX,
    'ad_free': False,
    'docsearch_disabled': False,
    'user_analytics_code': 'UA-87656833-3',
    'global_analytics_code': 'UA-17997319-2',
    'commit': '9c3d14bd',
}

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





if 'html_context' in globals():
    
    html_context.update(context)
    
else:
    html_context = context

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

# Add External version warning banner to the external version documentation
if 'tag' == 'external':
    extensions.insert(1, "readthedocs_ext.external_version_warning")
    readthedocs_vcs_url = 'None'
    readthedocs_build_url = 'https://readthedocs.com/projects/institute-for-disease-modeling-pycomps/builds/1077446/'

project_language = 'en'

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

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

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

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

if chinese:
    latex_engine = latex_engine_user or 'xelatex'

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

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

[rtd-command-info] start-time: 2022-08-31T20:26:39.758663Z, end-time: 2022-08-31T20:26:46.772843Z, duration: 7, exit-code: 1
python -m sphinx -T -E -W --keep-going -b html -d _build/doctrees -D language=en . _build/html
Running Sphinx v3.3.1
loading translations [en]... done
making output directory... done
loading intersphinx inventory from https://docs.python.org/3/objects.inv...
loading intersphinx inventory from https://docs.idmod.org/projects/emod-api/en/latest/objects.inv...
loading intersphinx inventory from https://docs.idmod.org/projects/emodpy/en/latest/objects.inv...
loading intersphinx inventory from https://docs.idmod.org/projects/pycomps/en/latest/objects.inv...
loading intersphinx inventory from https://docs.idmod.org/projects/emod-generic/en/latest/objects.inv...
building [mo]: targets for 0 po files that are out of date
building [html]: targets for 53 source files that are out of date
updating environment: [new config] 53 added, 0 changed, 0 removed
reading sources... [  1%] COMPS.AuthManager
reading sources... [  3%] COMPS.Client
reading sources... [  5%] COMPS.CredentialPrompt
reading sources... [  7%] COMPS.Data
reading sources... [  9%] COMPS.Data.AssetCollection
reading sources... [ 11%] COMPS.Data.AssetCollectionFile
reading sources... [ 13%] COMPS.Data.AssetFile
reading sources... [ 15%] COMPS.Data.AssetManager
reading sources... [ 16%] COMPS.Data.AssetType
reading sources... [ 18%] COMPS.Data.BaseEntity
reading sources... [ 20%] COMPS.Data.CommissionableEntity
reading sources... [ 22%] COMPS.Data.Configuration
reading sources... [ 24%] COMPS.Data.Experiment
reading sources... [ 26%] COMPS.Data.HpcJob
reading sources... [ 28%] COMPS.Data.OutputFileMetadata
reading sources... [ 30%] COMPS.Data.Priority
reading sources... [ 32%] COMPS.Data.QueryCriteria
reading sources... [ 33%] COMPS.Data.SerializableEntity
reading sources... [ 35%] COMPS.Data.Simulation
reading sources... [ 37%] COMPS.Data.SimulationFile
reading sources... [ 39%] COMPS.Data.Suite
reading sources... [ 41%] COMPS.Data.TaggableEntity
reading sources... [ 43%] COMPS.Data.WorkItem
reading sources... [ 45%] COMPS.Data.WorkItemFile
reading sources... [ 47%] COMPS.Data.WorkItems
reading sources... [ 49%] COMPS.Data.WorkItems.BuilderWorkItem
reading sources... [ 50%] COMPS.utils
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WARNING: autodoc: failed to import module 'rerun_failed_simulations_for_experiment' from module 'COMPS.utils'; the following exception was raised:
No module named 'clone_simulation'
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build finished with problems, 1 warning.
Updating searchtools for Read the Docs search...