Read the Docs build information Build id: 407976 Project: institute-for-disease-modeling-covasim Version: latest Commit: 9257e17e85a0e8e7d49830bfa00eb099d65f9ee5 Date: 2020-08-28T21:36:35.534398Z State: finished Success: False [rtd-command-info] start-time: 2020-08-28T21:36:36.839059Z, end-time: 2020-08-28T21:36:38.777544Z, duration: 1, exit-code: 0 git clone --no-single-branch --depth 50 https://github.com/JSchripsema-IDM/covasim.git . Cloning into '.'... [rtd-command-info] start-time: 2020-08-28T21:36:39.062356Z, end-time: 2020-08-28T21:36:39.139727Z, duration: 0, exit-code: 0 git checkout --force origin/rtd Note: checking out 'origin/rtd'. 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 performing another checkout. If you want to create a new branch to retain commits you create, you may do so (now or later) by using -b with the checkout command again. Example: git checkout -b HEAD is now at 9257e17 added -rf to avoid errors when removing old autogenerated files [rtd-command-info] start-time: 2020-08-28T21:36:39.251890Z, end-time: 2020-08-28T21:36:39.306201Z, duration: 0, exit-code: 0 git clean -d -f -f [rtd-command-info] start-time: 2020-08-28T21:36:40.743628Z, end-time: 2020-08-28T21:36:45.032282Z, duration: 4, exit-code: 0 python3.7 -mvirtualenv Using base prefix '/home/docs/.pyenv/versions/3.7.3' New python executable in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/bin/python3.7 Also creating executable in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/bin/python Installing setuptools, pip, wheel... done. [rtd-command-info] start-time: 2020-08-28T21:36:45.269208Z, end-time: 2020-08-28T21:36:45.932616Z, duration: 0, exit-code: 0 python -m pip install --upgrade --no-cache-dir pip Requirement already up-to-date: pip in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages (20.2.2) [rtd-command-info] start-time: 2020-08-28T21:36:46.076608Z, end-time: 2020-08-28T21:36:54.192795Z, duration: 8, exit-code: 0 python -m pip install --upgrade --no-cache-dir Pygments==2.3.1 setuptools==41.0.1 docutils==0.14 mock==1.0.1 pillow==5.4.1 alabaster>=0.7,<0.8,!=0.7.5 commonmark==0.8.1 recommonmark==0.5.0 sphinx<2 sphinx-rtd-theme<0.5 readthedocs-sphinx-ext<1.1 Collecting Pygments==2.3.1 Downloading Pygments-2.3.1-py2.py3-none-any.whl (849 kB) Collecting setuptools==41.0.1 Downloading setuptools-41.0.1-py2.py3-none-any.whl (575 kB) Collecting docutils==0.14 Downloading docutils-0.14-py3-none-any.whl (543 kB) Collecting mock==1.0.1 Downloading mock-1.0.1.tar.gz (818 kB) Collecting pillow==5.4.1 Downloading Pillow-5.4.1-cp37-cp37m-manylinux1_x86_64.whl (2.0 MB) Collecting alabaster!=0.7.5,<0.8,>=0.7 Downloading alabaster-0.7.12-py2.py3-none-any.whl (14 kB) Collecting commonmark==0.8.1 Downloading commonmark-0.8.1-py2.py3-none-any.whl (47 kB) Collecting recommonmark==0.5.0 Downloading recommonmark-0.5.0-py2.py3-none-any.whl (9.8 kB) Collecting sphinx<2 Downloading Sphinx-1.8.5-py2.py3-none-any.whl (3.1 MB) Collecting sphinx-rtd-theme<0.5 Downloading sphinx_rtd_theme-0.4.3-py2.py3-none-any.whl (6.4 MB) Collecting readthedocs-sphinx-ext<1.1 Downloading readthedocs_sphinx_ext-1.0.4-py2.py3-none-any.whl (28 kB) Collecting future Downloading future-0.18.2.tar.gz (829 kB) Collecting babel!=2.0,>=1.3 Downloading Babel-2.8.0-py2.py3-none-any.whl (8.6 MB) Collecting imagesize Downloading imagesize-1.2.0-py2.py3-none-any.whl (4.8 kB) Collecting snowballstemmer>=1.1 Downloading snowballstemmer-2.0.0-py2.py3-none-any.whl (97 kB) Collecting requests>=2.0.0 Downloading requests-2.24.0-py2.py3-none-any.whl (61 kB) Collecting Jinja2>=2.3 Downloading Jinja2-2.11.2-py2.py3-none-any.whl (125 kB) Collecting six>=1.5 Downloading six-1.15.0-py2.py3-none-any.whl (10 kB) Collecting sphinxcontrib-websupport Downloading sphinxcontrib_websupport-1.2.4-py2.py3-none-any.whl (39 kB) Collecting packaging Downloading packaging-20.4-py2.py3-none-any.whl (37 kB) Collecting pytz>=2015.7 Downloading pytz-2020.1-py2.py3-none-any.whl (510 kB) Collecting certifi>=2017.4.17 Downloading certifi-2020.6.20-py2.py3-none-any.whl (156 kB) Collecting chardet<4,>=3.0.2 Downloading chardet-3.0.4-py2.py3-none-any.whl (133 kB) Collecting idna<3,>=2.5 Downloading idna-2.10-py2.py3-none-any.whl (58 kB) Collecting urllib3!=1.25.0,!=1.25.1,<1.26,>=1.21.1 Downloading urllib3-1.25.10-py2.py3-none-any.whl (127 kB) Collecting MarkupSafe>=0.23 Downloading MarkupSafe-1.1.1-cp37-cp37m-manylinux1_x86_64.whl (27 kB) Collecting sphinxcontrib-serializinghtml Downloading sphinxcontrib_serializinghtml-1.1.4-py2.py3-none-any.whl (89 kB) Collecting pyparsing>=2.0.2 Downloading pyparsing-2.4.7-py2.py3-none-any.whl (67 kB) Building wheels for collected packages: mock, future Building wheel for mock (setup.py): started Building wheel for mock (setup.py): finished with status 'done' Created wheel for mock: filename=mock-1.0.1-py3-none-any.whl size=23754 sha256=6cfdbd35a78b9ab0889c99d1e3d51769860cf92a5f89185125e1741a251548c4 Stored in directory: /tmp/pip-ephem-wheel-cache-8dh7qw1u/wheels/16/03/37/f0a64ab894c9102906f192db1a4071b7592292ad661563c69b Building wheel for future (setup.py): started Building wheel for future (setup.py): finished with status 'done' Created wheel for future: filename=future-0.18.2-py3-none-any.whl size=491059 sha256=82d831bf50eeb17903fc3e853c27d83322beaac07e380c6348b5b3cf868eb0b2 Stored in directory: /tmp/pip-ephem-wheel-cache-8dh7qw1u/wheels/56/b0/fe/4410d17b32f1f0c3cf54cdfb2bc04d7b4b8f4ae377e2229ba0 Successfully built mock future Installing collected packages: Pygments, setuptools, docutils, mock, pillow, alabaster, future, commonmark, pytz, babel, imagesize, snowballstemmer, certifi, chardet, idna, urllib3, requests, MarkupSafe, Jinja2, six, sphinxcontrib-serializinghtml, sphinxcontrib-websupport, pyparsing, packaging, sphinx, recommonmark, sphinx-rtd-theme, readthedocs-sphinx-ext Attempting uninstall: setuptools Found existing installation: setuptools 49.6.0 Uninstalling setuptools-49.6.0: Successfully uninstalled setuptools-49.6.0 Successfully installed Jinja2-2.11.2 MarkupSafe-1.1.1 Pygments-2.3.1 alabaster-0.7.12 babel-2.8.0 certifi-2020.6.20 chardet-3.0.4 commonmark-0.8.1 docutils-0.14 future-0.18.2 idna-2.10 imagesize-1.2.0 mock-1.0.1 packaging-20.4 pillow-5.4.1 pyparsing-2.4.7 pytz-2020.1 readthedocs-sphinx-ext-1.0.4 recommonmark-0.5.0 requests-2.24.0 setuptools-41.0.1 six-1.15.0 snowballstemmer-2.0.0 sphinx-1.8.5 sphinx-rtd-theme-0.4.3 sphinxcontrib-serializinghtml-1.1.4 sphinxcontrib-websupport-1.2.4 urllib3-1.25.10 [rtd-command-info] start-time: 2020-08-28T21:36:54.346693Z, end-time: 2020-08-28T21:37:40.894424Z, duration: 46, exit-code: 0 python -m pip install --exists-action=w --no-cache-dir -r requirements.txt Collecting numpy Downloading numpy-1.19.1-cp37-cp37m-manylinux2010_x86_64.whl (14.5 MB) Collecting pandas Downloading pandas-1.1.1-cp37-cp37m-manylinux1_x86_64.whl (10.5 MB) Collecting scipy Downloading scipy-1.5.2-cp37-cp37m-manylinux1_x86_64.whl (25.9 MB) Collecting matplotlib Downloading matplotlib-3.3.1-cp37-cp37m-manylinux1_x86_64.whl (11.6 MB) Collecting statsmodels Downloading statsmodels-0.12.0-cp37-cp37m-manylinux1_x86_64.whl (9.5 MB) Collecting numba==0.48 Downloading numba-0.48.0-1-cp37-cp37m-manylinux2014_x86_64.whl (3.5 MB) Collecting sciris>=0.17.0 Downloading sciris-0.17.4-py3-none-any.whl (99 kB) Collecting scirisweb>=0.17.0 Downloading scirisweb-0.17.0-py3-none-any.whl (37 kB) Collecting gunicorn Downloading gunicorn-20.0.4-py2.py3-none-any.whl (77 kB) Collecting plotly Downloading plotly-4.9.0-py2.py3-none-any.whl (12.9 MB) Collecting ipywidgets Downloading ipywidgets-7.5.1-py2.py3-none-any.whl (121 kB) Collecting fire Downloading fire-0.3.1.tar.gz (81 kB) Collecting python-dateutil>=2.7.3 Downloading python_dateutil-2.8.1-py2.py3-none-any.whl (227 kB) Requirement already satisfied: pytz>=2017.2 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages (from pandas->-r requirements.txt (line 2)) (2020.1) Collecting pillow>=6.2.0 Downloading Pillow-7.2.0-cp37-cp37m-manylinux1_x86_64.whl (2.2 MB) Requirement already satisfied: certifi>=2020.06.20 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages (from matplotlib->-r requirements.txt (line 4)) (2020.6.20) Requirement already satisfied: pyparsing!=2.0.4,!=2.1.2,!=2.1.6,>=2.0.3 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages (from matplotlib->-r requirements.txt (line 4)) (2.4.7) Collecting cycler>=0.10 Downloading cycler-0.10.0-py2.py3-none-any.whl (6.5 kB) Collecting kiwisolver>=1.0.1 Downloading kiwisolver-1.2.0-cp37-cp37m-manylinux1_x86_64.whl (88 kB) Collecting patsy>=0.5 Downloading patsy-0.5.1-py2.py3-none-any.whl (231 kB) Requirement already satisfied: setuptools in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages (from numba==0.48->-r requirements.txt (line 6)) (41.0.1) Collecting llvmlite<0.32.0,>=0.31.0dev0 Downloading llvmlite-0.31.0-cp37-cp37m-manylinux1_x86_64.whl (20.2 MB) Collecting xlrd Downloading xlrd-1.2.0-py2.py3-none-any.whl (103 kB) Collecting line-profiler; platform_system == "Linux" Downloading line_profiler-3.0.2-cp37-cp37m-manylinux2010_x86_64.whl (68 kB) Collecting jellyfish Downloading jellyfish-0.8.2-cp37-cp37m-manylinux2014_x86_64.whl (90 kB) Requirement already satisfied: requests in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages (from sciris>=0.17.0->-r requirements.txt (line 7)) (2.24.0) Collecting memory-profiler; platform_system == "Linux" Downloading memory_profiler-0.57.0.tar.gz (34 kB) Collecting psutil Downloading psutil-5.7.2.tar.gz (460 kB) Collecting xlsxwriter Downloading XlsxWriter-1.3.3-py2.py3-none-any.whl (144 kB) Collecting dill Downloading dill-0.3.2.zip (177 kB) Collecting jsonpickle Downloading jsonpickle-1.4.1-py2.py3-none-any.whl (36 kB) Collecting gitpython Downloading GitPython-3.1.7-py3-none-any.whl (158 kB) Collecting openpyexcel>=2.5 Downloading openpyexcel-2.5.14-py2.py3-none-any.whl (244 kB) Collecting decorator>=4.1.2 Downloading decorator-4.4.2-py2.py3-none-any.whl (9.2 kB) Collecting flask>=1.0.0 Downloading Flask-1.1.2-py2.py3-none-any.whl (94 kB) Collecting flask-login>=0.4.1 Downloading Flask_Login-0.5.0-py2.py3-none-any.whl (16 kB) Collecting werkzeug Downloading Werkzeug-1.0.1-py2.py3-none-any.whl (298 kB) Collecting sqlalchemy Downloading SQLAlchemy-1.3.19-cp37-cp37m-manylinux2010_x86_64.whl (1.3 MB) Collecting flask-session>=0.3.1 Downloading Flask_Session-0.3.2-py2.py3-none-any.whl (7.4 kB) Collecting celery>=4.2 Downloading celery-4.4.7-py2.py3-none-any.whl (427 kB) Collecting twisted>=18.4.0 Downloading Twisted-20.3.0-cp37-cp37m-manylinux1_x86_64.whl (3.1 MB) Collecting pyasn1 Downloading pyasn1-0.4.8-py2.py3-none-any.whl (77 kB) Collecting redis==2.10.6 Downloading redis-2.10.6-py2.py3-none-any.whl (64 kB) Collecting mpld3 Downloading mpld3-0.5.1.tar.gz (1.0 MB) Collecting service-identity Downloading service_identity-18.1.0-py2.py3-none-any.whl (11 kB) Collecting retrying>=1.3.3 Downloading retrying-1.3.3.tar.gz (10 kB) Requirement already satisfied: six in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages (from plotly->-r requirements.txt (line 10)) (1.15.0) Collecting ipython>=4.0.0; python_version >= "3.3" Downloading ipython-7.18.0-py3-none-any.whl (786 kB) Collecting traitlets>=4.3.1 Downloading traitlets-4.3.3-py2.py3-none-any.whl (75 kB) Collecting nbformat>=4.2.0 Downloading nbformat-5.0.7-py3-none-any.whl (170 kB) Collecting ipykernel>=4.5.1 Downloading ipykernel-5.3.4-py3-none-any.whl (120 kB) Collecting widgetsnbextension~=3.5.0 Downloading widgetsnbextension-3.5.1-py2.py3-none-any.whl (2.2 MB) Collecting termcolor Downloading termcolor-1.1.0.tar.gz (3.9 kB) Requirement already satisfied: chardet<4,>=3.0.2 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages (from requests->sciris>=0.17.0->-r requirements.txt (line 7)) (3.0.4) Requirement already satisfied: urllib3!=1.25.0,!=1.25.1,<1.26,>=1.21.1 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages (from requests->sciris>=0.17.0->-r requirements.txt (line 7)) (1.25.10) Requirement already satisfied: idna<3,>=2.5 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages (from requests->sciris>=0.17.0->-r requirements.txt (line 7)) (2.10) Collecting importlib-metadata Downloading importlib_metadata-1.7.0-py2.py3-none-any.whl (31 kB) Collecting gitdb<5,>=4.0.1 Downloading gitdb-4.0.5-py3-none-any.whl (63 kB) Collecting et-xmlfile Downloading et_xmlfile-1.0.1.tar.gz (8.4 kB) Collecting jdcal Downloading jdcal-1.4.1-py2.py3-none-any.whl (9.5 kB) Requirement already satisfied: Jinja2>=2.10.1 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages (from flask>=1.0.0->scirisweb>=0.17.0->-r requirements.txt (line 8)) (2.11.2) Collecting click>=5.1 Downloading click-7.1.2-py2.py3-none-any.whl (82 kB) Collecting itsdangerous>=0.24 Downloading itsdangerous-1.1.0-py2.py3-none-any.whl (16 kB) Collecting cachelib Downloading cachelib-0.1.1-py3-none-any.whl (13 kB) Collecting billiard<4.0,>=3.6.3.0 Downloading billiard-3.6.3.0-py3-none-any.whl (89 kB) Collecting vine==1.3.0 Downloading vine-1.3.0-py2.py3-none-any.whl (14 kB) Collecting kombu<4.7,>=4.6.10 Downloading kombu-4.6.11-py2.py3-none-any.whl (184 kB) Collecting zope.interface>=4.4.2 Downloading zope.interface-5.1.0-cp37-cp37m-manylinux2010_x86_64.whl (235 kB) Collecting PyHamcrest!=1.10.0,>=1.9.0 Downloading PyHamcrest-2.0.2-py3-none-any.whl (52 kB) Collecting constantly>=15.1 Downloading constantly-15.1.0-py2.py3-none-any.whl (7.9 kB) Collecting attrs>=19.2.0 Downloading attrs-20.1.0-py2.py3-none-any.whl (49 kB) Collecting incremental>=16.10.1 Downloading incremental-17.5.0-py2.py3-none-any.whl (16 kB) Collecting Automat>=0.3.0 Downloading Automat-20.2.0-py2.py3-none-any.whl (31 kB) Collecting hyperlink>=17.1.1 Downloading hyperlink-20.0.1-py2.py3-none-any.whl (48 kB) Collecting cryptography Downloading cryptography-3.1-cp35-abi3-manylinux2010_x86_64.whl (2.6 MB) Collecting pyasn1-modules Downloading pyasn1_modules-0.2.8-py2.py3-none-any.whl (155 kB) Requirement already satisfied: pygments in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages (from ipython>=4.0.0; python_version >= "3.3"->ipywidgets->-r requirements.txt (line 11)) (2.3.1) Collecting pickleshare Downloading pickleshare-0.7.5-py2.py3-none-any.whl (6.9 kB) Collecting jedi>=0.16 Downloading jedi-0.17.2-py2.py3-none-any.whl (1.4 MB) Collecting backcall Downloading backcall-0.2.0-py2.py3-none-any.whl (11 kB) Collecting prompt-toolkit!=3.0.0,!=3.0.1,<3.1.0,>=2.0.0 Downloading prompt_toolkit-3.0.6-py3-none-any.whl (354 kB) Collecting pexpect>4.3; sys_platform != "win32" Downloading pexpect-4.8.0-py2.py3-none-any.whl (59 kB) Collecting ipython-genutils Downloading ipython_genutils-0.2.0-py2.py3-none-any.whl (26 kB) Collecting jupyter-core Downloading jupyter_core-4.6.3-py2.py3-none-any.whl (83 kB) Collecting jsonschema!=2.5.0,>=2.4 Downloading jsonschema-3.2.0-py2.py3-none-any.whl (56 kB) Collecting jupyter-client Downloading jupyter_client-6.1.7-py3-none-any.whl (108 kB) Collecting tornado>=4.2 Downloading tornado-6.0.4.tar.gz (496 kB) Collecting notebook>=4.4.1 Downloading notebook-6.1.3-py3-none-any.whl (9.4 MB) Collecting zipp>=0.5 Downloading zipp-3.1.0-py3-none-any.whl (4.9 kB) Collecting smmap<4,>=3.0.1 Downloading smmap-3.0.4-py2.py3-none-any.whl (25 kB) Requirement already satisfied: MarkupSafe>=0.23 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages (from Jinja2>=2.10.1->flask>=1.0.0->scirisweb>=0.17.0->-r requirements.txt (line 8)) (1.1.1) Collecting amqp<2.7,>=2.6.0 Downloading amqp-2.6.1-py2.py3-none-any.whl (48 kB) Collecting cffi!=1.11.3,>=1.8 Downloading cffi-1.14.2-cp37-cp37m-manylinux1_x86_64.whl (401 kB) Collecting parso<0.8.0,>=0.7.0 Downloading parso-0.7.1-py2.py3-none-any.whl (109 kB) Collecting wcwidth Downloading wcwidth-0.2.5-py2.py3-none-any.whl (30 kB) Collecting ptyprocess>=0.5 Downloading ptyprocess-0.6.0-py2.py3-none-any.whl (39 kB) Collecting pyrsistent>=0.14.0 Downloading pyrsistent-0.16.0.tar.gz (108 kB) Collecting pyzmq>=13 Downloading pyzmq-19.0.2-cp37-cp37m-manylinux1_x86_64.whl (1.1 MB) Collecting prometheus-client Downloading prometheus_client-0.8.0-py2.py3-none-any.whl (53 kB) Collecting terminado>=0.8.3 Downloading terminado-0.8.3-py2.py3-none-any.whl (33 kB) Collecting argon2-cffi Downloading argon2_cffi-20.1.0-cp35-abi3-manylinux1_x86_64.whl (97 kB) Collecting nbconvert Downloading nbconvert-5.6.1-py2.py3-none-any.whl (455 kB) Collecting Send2Trash Downloading Send2Trash-1.5.0-py3-none-any.whl (12 kB) Collecting pycparser Downloading pycparser-2.20-py2.py3-none-any.whl (112 kB) Collecting defusedxml Downloading defusedxml-0.6.0-py2.py3-none-any.whl (23 kB) Collecting entrypoints>=0.2.2 Downloading entrypoints-0.3-py2.py3-none-any.whl (11 kB) Collecting pandocfilters>=1.4.1 Downloading pandocfilters-1.4.2.tar.gz (14 kB) Collecting bleach Downloading bleach-3.1.5-py2.py3-none-any.whl (151 kB) Collecting mistune<2,>=0.8.1 Downloading mistune-0.8.4-py2.py3-none-any.whl (16 kB) Collecting testpath Downloading testpath-0.4.4-py2.py3-none-any.whl (163 kB) Requirement already satisfied: packaging in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages (from bleach->nbconvert->notebook>=4.4.1->widgetsnbextension~=3.5.0->ipywidgets->-r requirements.txt (line 11)) (20.4) Collecting webencodings Downloading webencodings-0.5.1-py2.py3-none-any.whl (11 kB) Building wheels for collected packages: fire, memory-profiler, psutil, dill, mpld3, retrying, termcolor, et-xmlfile, tornado, pyrsistent, pandocfilters Building wheel for fire (setup.py): started Building wheel for fire (setup.py): finished with status 'done' Created wheel for fire: filename=fire-0.3.1-py2.py3-none-any.whl size=111005 sha256=96d8a05cf1ca5020ce2a3cd83f1fb33684ec97f533a13a7437ce211c8f8d158a Stored in directory: /tmp/pip-ephem-wheel-cache-klgtgz81/wheels/95/38/e1/8b62337a8ecf5728bdc1017e828f253f7a9cf25db999861bec Building wheel for memory-profiler (setup.py): started Building wheel for memory-profiler (setup.py): finished with status 'done' Created wheel for memory-profiler: filename=memory_profiler-0.57.0-py3-none-any.whl size=28993 sha256=4f567dcd3e2d93df418de8e45518cf9ed4282c0df9dad593c27001a804f3f377 Stored in directory: /tmp/pip-ephem-wheel-cache-klgtgz81/wheels/0c/84/4a/8afc0620ec149b2c0a4ed08b021e3a2dc7063fa08e1fcb40c8 Building wheel for psutil (setup.py): started Building wheel for psutil (setup.py): finished with status 'done' Created wheel for psutil: filename=psutil-5.7.2-cp37-cp37m-linux_x86_64.whl size=283643 sha256=49a01a0dacbc055fe12db833b9ffbb26c2fccae188b541a0a5b08d5e3f6ed23b Stored in directory: /tmp/pip-ephem-wheel-cache-klgtgz81/wheels/2d/43/97/00701864a7bee6d9e1a52dd682537dcbf1d013d0e2e6f0c1f1 Building wheel for dill (setup.py): started Building wheel for dill (setup.py): finished with status 'done' Created wheel for dill: filename=dill-0.3.2-py3-none-any.whl size=78912 sha256=687c44940df4ec3ebb8249b4cf7bd208b0d1649ae6722bbb569b2f6ac75c6a55 Stored in directory: /tmp/pip-ephem-wheel-cache-klgtgz81/wheels/72/6b/d5/5548aa1b73b8c3d176ea13f9f92066b02e82141549d90e2100 Building wheel for mpld3 (setup.py): started Building wheel for mpld3 (setup.py): finished with status 'done' Created wheel for mpld3: filename=mpld3-0.5.1-py3-none-any.whl size=364063 sha256=b36dcd154d992c155e5a5b039a6bb3ed61b102fc17b46d28ed8091c5d7bd5bfe Stored in directory: /tmp/pip-ephem-wheel-cache-klgtgz81/wheels/b9/36/27/d61b9f1327012961fa31f05a20b190f836dd3fcb1c0264177b Building wheel for retrying (setup.py): started Building wheel for retrying (setup.py): finished with status 'done' Created wheel for retrying: filename=retrying-1.3.3-py3-none-any.whl size=11429 sha256=87e8dad499b2b33e58e0c63c11e25fa8fe73fa3c628be092255206c0a6091f57 Stored in directory: /tmp/pip-ephem-wheel-cache-klgtgz81/wheels/f9/8d/8d/f6af3f7f9eea3553bc2fe6d53e4b287dad18b06a861ac56ddf Building wheel for termcolor (setup.py): started Building wheel for termcolor (setup.py): finished with status 'done' Created wheel for termcolor: filename=termcolor-1.1.0-py3-none-any.whl size=4830 sha256=62ee5d0567396be2d692128be8fa6582e6b37b22a2004369f164e8a86dbcae8d Stored in directory: /tmp/pip-ephem-wheel-cache-klgtgz81/wheels/3f/e3/ec/8a8336ff196023622fbcb36de0c5a5c218cbb24111d1d4c7f2 Building wheel for et-xmlfile (setup.py): started Building wheel for et-xmlfile (setup.py): finished with status 'done' Created wheel for et-xmlfile: filename=et_xmlfile-1.0.1-py3-none-any.whl size=8917 sha256=d10e721e46b7fc743a0827b06b2672688795b12ce684747a860d7654d979fded Stored in directory: /tmp/pip-ephem-wheel-cache-klgtgz81/wheels/e2/bd/55/048b4fd505716c4c298f42ee02dffd9496bb6d212b266c7f31 Building wheel for tornado (setup.py): started Building wheel for tornado (setup.py): finished with status 'done' Created wheel for tornado: filename=tornado-6.0.4-cp37-cp37m-linux_x86_64.whl size=428562 sha256=2efc26f18920e13f43bd9522e8e32fd257274cdc233ace1d3a6c65bedc86cc5c Stored in directory: /tmp/pip-ephem-wheel-cache-klgtgz81/wheels/7d/14/fa/d88fb5da77d813ea0ffca38a2ab2a052874e9e1142bad0b348 Building wheel for pyrsistent (setup.py): started Building wheel for pyrsistent (setup.py): finished with status 'done' Created wheel for pyrsistent: filename=pyrsistent-0.16.0-cp37-cp37m-linux_x86_64.whl size=116004 sha256=44a0e0b5bd6a81695f6902f943a251f913e9852508a5f0ade94b6ce9f6931aa9 Stored in directory: /tmp/pip-ephem-wheel-cache-klgtgz81/wheels/22/52/11/f0920f95c23ed7d2d0b05f2b7b2f4509e87a20cfe8ea43d987 Building wheel for pandocfilters (setup.py): started Building wheel for pandocfilters (setup.py): finished with status 'done' Created wheel for pandocfilters: filename=pandocfilters-1.4.2-py3-none-any.whl size=7855 sha256=b05dcfb31e2184b9f44d5576b40241702a1e29c10b0809015454254a8c0bc48e Stored in directory: /tmp/pip-ephem-wheel-cache-klgtgz81/wheels/63/99/01/9fe785b86d1e091a6b2a61e06ddb3d8eb1bc9acae5933d4740 Successfully built fire memory-profiler psutil dill mpld3 retrying termcolor et-xmlfile tornado pyrsistent pandocfilters Installing collected packages: numpy, python-dateutil, pandas, scipy, pillow, cycler, kiwisolver, matplotlib, patsy, statsmodels, llvmlite, numba, xlrd, ipython-genutils, decorator, traitlets, pickleshare, parso, jedi, backcall, wcwidth, prompt-toolkit, ptyprocess, pexpect, ipython, line-profiler, jellyfish, psutil, memory-profiler, xlsxwriter, dill, zipp, importlib-metadata, jsonpickle, smmap, gitdb, gitpython, et-xmlfile, jdcal, openpyexcel, sciris, werkzeug, click, itsdangerous, flask, flask-login, sqlalchemy, cachelib, flask-session, billiard, vine, amqp, kombu, celery, zope.interface, PyHamcrest, constantly, attrs, incremental, Automat, hyperlink, twisted, pyasn1, redis, mpld3, pycparser, cffi, cryptography, pyasn1-modules, service-identity, scirisweb, gunicorn, retrying, plotly, jupyter-core, pyrsistent, jsonschema, nbformat, pyzmq, tornado, jupyter-client, ipykernel, prometheus-client, terminado, argon2-cffi, defusedxml, entrypoints, pandocfilters, webencodings, bleach, mistune, testpath, nbconvert, Send2Trash, notebook, widgetsnbextension, ipywidgets, termcolor, fire Attempting uninstall: pillow Found existing installation: Pillow 5.4.1 Uninstalling Pillow-5.4.1: Successfully uninstalled Pillow-5.4.1 Successfully installed Automat-20.2.0 PyHamcrest-2.0.2 Send2Trash-1.5.0 amqp-2.6.1 argon2-cffi-20.1.0 attrs-20.1.0 backcall-0.2.0 billiard-3.6.3.0 bleach-3.1.5 cachelib-0.1.1 celery-4.4.7 cffi-1.14.2 click-7.1.2 constantly-15.1.0 cryptography-3.1 cycler-0.10.0 decorator-4.4.2 defusedxml-0.6.0 dill-0.3.2 entrypoints-0.3 et-xmlfile-1.0.1 fire-0.3.1 flask-1.1.2 flask-login-0.5.0 flask-session-0.3.2 gitdb-4.0.5 gitpython-3.1.7 gunicorn-20.0.4 hyperlink-20.0.1 importlib-metadata-1.7.0 incremental-17.5.0 ipykernel-5.3.4 ipython-7.18.0 ipython-genutils-0.2.0 ipywidgets-7.5.1 itsdangerous-1.1.0 jdcal-1.4.1 jedi-0.17.2 jellyfish-0.8.2 jsonpickle-1.4.1 jsonschema-3.2.0 jupyter-client-6.1.7 jupyter-core-4.6.3 kiwisolver-1.2.0 kombu-4.6.11 line-profiler-3.0.2 llvmlite-0.31.0 matplotlib-3.3.1 memory-profiler-0.57.0 mistune-0.8.4 mpld3-0.5.1 nbconvert-5.6.1 nbformat-5.0.7 notebook-6.1.3 numba-0.48.0 numpy-1.19.1 openpyexcel-2.5.14 pandas-1.1.1 pandocfilters-1.4.2 parso-0.7.1 patsy-0.5.1 pexpect-4.8.0 pickleshare-0.7.5 pillow-7.2.0 plotly-4.9.0 prometheus-client-0.8.0 prompt-toolkit-3.0.6 psutil-5.7.2 ptyprocess-0.6.0 pyasn1-0.4.8 pyasn1-modules-0.2.8 pycparser-2.20 pyrsistent-0.16.0 python-dateutil-2.8.1 pyzmq-19.0.2 redis-2.10.6 retrying-1.3.3 scipy-1.5.2 sciris-0.17.4 scirisweb-0.17.0 service-identity-18.1.0 smmap-3.0.4 sqlalchemy-1.3.19 statsmodels-0.12.0 termcolor-1.1.0 terminado-0.8.3 testpath-0.4.4 tornado-6.0.4 traitlets-4.3.3 twisted-20.3.0 vine-1.3.0 wcwidth-0.2.5 webencodings-0.5.1 werkzeug-1.0.1 widgetsnbextension-3.5.1 xlrd-1.2.0 xlsxwriter-1.3.3 zipp-3.1.0 zope.interface-5.1.0 [rtd-command-info] start-time: 2020-08-28T21:37:40.999307Z, end-time: 2020-08-28T21:37:45.683510Z, duration: 4, exit-code: 0 python -m pip install --exists-action=w --no-cache-dir -r docs/requirements.txt Collecting sphinx-rtd-theme~=0.5.0 Downloading sphinx_rtd_theme-0.5.0-py2.py3-none-any.whl (10.8 MB) Collecting sphinxcontrib-napoleon~=0.7 Downloading sphinxcontrib_napoleon-0.7-py2.py3-none-any.whl (17 kB) Collecting sphinx~=3.2.0 Downloading Sphinx-3.2.1-py3-none-any.whl (2.9 MB) Collecting plantweb~=1.2.1 Downloading plantweb-1.2.1-py3-none-any.whl (20 kB) Collecting pytest Downloading pytest-6.0.1-py3-none-any.whl (270 kB) Requirement already satisfied: six>=1.5.2 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages (from sphinxcontrib-napoleon~=0.7->-r docs/requirements.txt (line 2)) (1.15.0) Collecting pockets>=0.3 Downloading pockets-0.9.1-py2.py3-none-any.whl (26 kB) Requirement already satisfied: snowballstemmer>=1.1 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages (from sphinx~=3.2.0->-r docs/requirements.txt (line 3)) (2.0.0) Collecting sphinxcontrib-devhelp Downloading sphinxcontrib_devhelp-1.0.2-py2.py3-none-any.whl (84 kB) Requirement already satisfied: sphinxcontrib-serializinghtml in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages (from sphinx~=3.2.0->-r docs/requirements.txt (line 3)) (1.1.4) Collecting sphinxcontrib-htmlhelp Downloading sphinxcontrib_htmlhelp-1.0.3-py2.py3-none-any.whl (96 kB) Requirement already satisfied: setuptools in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages (from sphinx~=3.2.0->-r docs/requirements.txt (line 3)) (41.0.1) Requirement already satisfied: packaging in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages (from sphinx~=3.2.0->-r docs/requirements.txt (line 3)) (20.4) Requirement already satisfied: babel>=1.3 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages (from sphinx~=3.2.0->-r docs/requirements.txt (line 3)) (2.8.0) Requirement already satisfied: alabaster<0.8,>=0.7 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages (from sphinx~=3.2.0->-r docs/requirements.txt (line 3)) (0.7.12) Collecting sphinxcontrib-jsmath Downloading sphinxcontrib_jsmath-1.0.1-py2.py3-none-any.whl (5.1 kB) Collecting sphinxcontrib-applehelp Downloading sphinxcontrib_applehelp-1.0.2-py2.py3-none-any.whl (121 kB) Requirement already satisfied: requests>=2.5.0 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages (from sphinx~=3.2.0->-r docs/requirements.txt (line 3)) (2.24.0) Collecting sphinxcontrib-qthelp Downloading sphinxcontrib_qthelp-1.0.3-py2.py3-none-any.whl (90 kB) Requirement already satisfied: Jinja2>=2.3 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages (from sphinx~=3.2.0->-r docs/requirements.txt (line 3)) (2.11.2) Requirement already satisfied: docutils>=0.12 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages (from sphinx~=3.2.0->-r docs/requirements.txt (line 3)) (0.14) Requirement already satisfied: Pygments>=2.0 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages (from sphinx~=3.2.0->-r docs/requirements.txt (line 3)) (2.3.1) Requirement already satisfied: imagesize in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages (from sphinx~=3.2.0->-r docs/requirements.txt (line 3)) (1.2.0) Collecting toml Downloading toml-0.10.1-py2.py3-none-any.whl (19 kB) Collecting more-itertools>=4.0.0 Downloading more_itertools-8.5.0-py3-none-any.whl (44 kB) Collecting py>=1.8.2 Downloading py-1.9.0-py2.py3-none-any.whl (99 kB) Collecting iniconfig Downloading iniconfig-1.0.1-py3-none-any.whl (4.2 kB) Requirement already satisfied: importlib-metadata>=0.12; python_version < "3.8" in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages (from pytest->-r docs/requirements.txt (line 5)) (1.7.0) Requirement already satisfied: attrs>=17.4.0 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages (from pytest->-r docs/requirements.txt (line 5)) (20.1.0) Collecting pluggy<1.0,>=0.12 Downloading pluggy-0.13.1-py2.py3-none-any.whl (18 kB) Requirement already satisfied: pyparsing>=2.0.2 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages (from packaging->sphinx~=3.2.0->-r docs/requirements.txt (line 3)) (2.4.7) Requirement already satisfied: pytz>=2015.7 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages (from babel>=1.3->sphinx~=3.2.0->-r docs/requirements.txt (line 3)) (2020.1) Requirement already satisfied: chardet<4,>=3.0.2 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages (from requests>=2.5.0->sphinx~=3.2.0->-r docs/requirements.txt (line 3)) (3.0.4) Requirement already satisfied: urllib3!=1.25.0,!=1.25.1,<1.26,>=1.21.1 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages (from requests>=2.5.0->sphinx~=3.2.0->-r docs/requirements.txt (line 3)) (1.25.10) Requirement already satisfied: idna<3,>=2.5 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages (from requests>=2.5.0->sphinx~=3.2.0->-r docs/requirements.txt (line 3)) (2.10) Requirement already satisfied: certifi>=2017.4.17 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages (from requests>=2.5.0->sphinx~=3.2.0->-r docs/requirements.txt (line 3)) (2020.6.20) Requirement already satisfied: MarkupSafe>=0.23 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages (from Jinja2>=2.3->sphinx~=3.2.0->-r docs/requirements.txt (line 3)) (1.1.1) Requirement already satisfied: zipp>=0.5 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages (from importlib-metadata>=0.12; python_version < "3.8"->pytest->-r docs/requirements.txt (line 5)) (3.1.0) Installing collected packages: sphinxcontrib-devhelp, sphinxcontrib-htmlhelp, sphinxcontrib-jsmath, sphinxcontrib-applehelp, sphinxcontrib-qthelp, sphinx, sphinx-rtd-theme, pockets, sphinxcontrib-napoleon, plantweb, toml, more-itertools, py, iniconfig, pluggy, pytest Attempting uninstall: sphinx Found existing installation: Sphinx 1.8.5 Uninstalling Sphinx-1.8.5: Successfully uninstalled Sphinx-1.8.5 Attempting uninstall: sphinx-rtd-theme Found existing installation: sphinx-rtd-theme 0.4.3 Uninstalling sphinx-rtd-theme-0.4.3: Successfully uninstalled sphinx-rtd-theme-0.4.3 Successfully installed iniconfig-1.0.1 more-itertools-8.5.0 plantweb-1.2.1 pluggy-0.13.1 pockets-0.9.1 py-1.9.0 pytest-6.0.1 sphinx-3.2.1 sphinx-rtd-theme-0.5.0 sphinxcontrib-applehelp-1.0.2 sphinxcontrib-devhelp-1.0.2 sphinxcontrib-htmlhelp-1.0.3 sphinxcontrib-jsmath-1.0.1 sphinxcontrib-napoleon-0.7 sphinxcontrib-qthelp-1.0.3 toml-0.10.1 [rtd-command-info] start-time: 2020-08-28T21:37:45.786721Z, end-time: 2020-08-28T21:37:47.228975Z, duration: 1, exit-code: 0 python ./setup.py install --force running install running bdist_egg running egg_info creating covasim.egg-info writing covasim.egg-info/PKG-INFO writing dependency_links to covasim.egg-info/dependency_links.txt writing requirements to covasim.egg-info/requires.txt writing top-level names to covasim.egg-info/top_level.txt writing manifest file 'covasim.egg-info/SOURCES.txt' reading manifest file 'covasim.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: manifest_maker: MANIFEST.in, line 3: 'recursive-include' expects ... warning: no previously-included files matching '*.py[cod]' found anywhere in distribution warning: no previously-included files matching '__pycache__' found anywhere in distribution writing manifest file 'covasim.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/covasim copying covasim/run.py -> build/lib/covasim copying covasim/people.py -> build/lib/covasim copying covasim/analysis.py -> build/lib/covasim copying covasim/parameters.py -> build/lib/covasim copying covasim/misc.py -> build/lib/covasim copying covasim/defaults.py -> build/lib/covasim copying covasim/__init__.py -> build/lib/covasim copying covasim/base.py -> build/lib/covasim copying covasim/interventions.py -> build/lib/covasim copying covasim/version.py -> build/lib/covasim copying covasim/utils.py -> build/lib/covasim copying covasim/population.py -> build/lib/covasim copying covasim/requirements.py -> build/lib/covasim copying covasim/sim.py -> build/lib/covasim copying covasim/plotting.py -> build/lib/covasim creating build/lib/covasim/data copying covasim/data/loaders.py -> build/lib/covasim/data copying covasim/data/household_size_data.py -> build/lib/covasim/data copying covasim/data/__init__.py -> build/lib/covasim/data copying covasim/data/state_age_data.py -> build/lib/covasim/data copying covasim/data/country_age_data.py -> build/lib/covasim/data creating build/lib/covasim/webapp copying covasim/webapp/cova_app.py -> build/lib/covasim/webapp copying covasim/webapp/__init__.py -> build/lib/covasim/webapp creating build/bdist.linux-x86_64 creating build/bdist.linux-x86_64/egg creating build/bdist.linux-x86_64/egg/covasim copying build/lib/covasim/run.py -> build/bdist.linux-x86_64/egg/covasim copying build/lib/covasim/people.py -> build/bdist.linux-x86_64/egg/covasim copying build/lib/covasim/analysis.py -> build/bdist.linux-x86_64/egg/covasim copying build/lib/covasim/parameters.py -> build/bdist.linux-x86_64/egg/covasim copying build/lib/covasim/misc.py -> build/bdist.linux-x86_64/egg/covasim creating build/bdist.linux-x86_64/egg/covasim/data copying build/lib/covasim/data/loaders.py -> build/bdist.linux-x86_64/egg/covasim/data copying build/lib/covasim/data/household_size_data.py -> build/bdist.linux-x86_64/egg/covasim/data copying build/lib/covasim/data/__init__.py -> build/bdist.linux-x86_64/egg/covasim/data copying build/lib/covasim/data/state_age_data.py -> build/bdist.linux-x86_64/egg/covasim/data copying build/lib/covasim/data/country_age_data.py -> build/bdist.linux-x86_64/egg/covasim/data copying build/lib/covasim/defaults.py -> build/bdist.linux-x86_64/egg/covasim copying build/lib/covasim/__init__.py -> build/bdist.linux-x86_64/egg/covasim creating build/bdist.linux-x86_64/egg/covasim/webapp copying build/lib/covasim/webapp/cova_app.py -> build/bdist.linux-x86_64/egg/covasim/webapp copying build/lib/covasim/webapp/__init__.py -> build/bdist.linux-x86_64/egg/covasim/webapp copying build/lib/covasim/base.py -> build/bdist.linux-x86_64/egg/covasim copying build/lib/covasim/interventions.py -> build/bdist.linux-x86_64/egg/covasim copying build/lib/covasim/version.py -> build/bdist.linux-x86_64/egg/covasim copying build/lib/covasim/utils.py -> build/bdist.linux-x86_64/egg/covasim copying build/lib/covasim/population.py -> build/bdist.linux-x86_64/egg/covasim copying build/lib/covasim/requirements.py -> build/bdist.linux-x86_64/egg/covasim copying build/lib/covasim/sim.py -> build/bdist.linux-x86_64/egg/covasim copying build/lib/covasim/plotting.py -> build/bdist.linux-x86_64/egg/covasim byte-compiling build/bdist.linux-x86_64/egg/covasim/run.py to run.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/covasim/people.py to people.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/covasim/analysis.py to analysis.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/covasim/parameters.py to parameters.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/covasim/misc.py to misc.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/covasim/data/loaders.py to loaders.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/covasim/data/household_size_data.py to household_size_data.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/covasim/data/__init__.py to __init__.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/covasim/data/state_age_data.py to state_age_data.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/covasim/data/country_age_data.py to country_age_data.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/covasim/defaults.py to defaults.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/covasim/__init__.py to __init__.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/covasim/webapp/cova_app.py to cova_app.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/covasim/webapp/__init__.py to __init__.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/covasim/base.py to base.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/covasim/interventions.py to interventions.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/covasim/version.py to version.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/covasim/utils.py to utils.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/covasim/population.py to population.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/covasim/requirements.py to requirements.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/covasim/sim.py to sim.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/covasim/plotting.py to plotting.cpython-37.pyc creating build/bdist.linux-x86_64/egg/EGG-INFO copying covasim.egg-info/PKG-INFO -> build/bdist.linux-x86_64/egg/EGG-INFO copying covasim.egg-info/SOURCES.txt -> build/bdist.linux-x86_64/egg/EGG-INFO copying covasim.egg-info/dependency_links.txt -> build/bdist.linux-x86_64/egg/EGG-INFO copying covasim.egg-info/requires.txt -> build/bdist.linux-x86_64/egg/EGG-INFO copying covasim.egg-info/top_level.txt -> build/bdist.linux-x86_64/egg/EGG-INFO zip_safe flag not set; analyzing archive contents... covasim.__pycache__.interventions.cpython-37: module MAY be using inspect.getouterframes covasim.__pycache__.interventions.cpython-37: module MAY be using inspect.trace covasim.__pycache__.misc.cpython-37: module references __file__ covasim.__pycache__.misc.cpython-37: module MAY be using inspect.getouterframes covasim.webapp.__pycache__.cova_app.cpython-37: module references __file__ creating dist creating 'dist/covasim-1.4.7-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 covasim-1.4.7-py3.7.egg creating /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages/covasim-1.4.7-py3.7.egg Extracting covasim-1.4.7-py3.7.egg to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Adding covasim 1.4.7 to easy-install.pth file Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages/covasim-1.4.7-py3.7.egg Processing dependencies for covasim==1.4.7 Searching for fire==0.3.1 Best match: fire 0.3.1 Adding fire 0.3.1 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for ipywidgets==7.5.1 Best match: ipywidgets 7.5.1 Adding ipywidgets 7.5.1 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for plotly==4.9.0 Best match: plotly 4.9.0 Adding plotly 4.9.0 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for gunicorn==20.0.4 Best match: gunicorn 20.0.4 Adding gunicorn 20.0.4 to easy-install.pth file Installing gunicorn script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/bin Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for scirisweb==0.17.0 Best match: scirisweb 0.17.0 Adding scirisweb 0.17.0 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for sciris==0.17.4 Best match: sciris 0.17.4 Adding sciris 0.17.4 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for numba==0.48.0 Best match: numba 0.48.0 Adding numba 0.48.0 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for statsmodels==0.12.0 Best match: statsmodels 0.12.0 Adding statsmodels 0.12.0 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for matplotlib==3.3.1 Best match: matplotlib 3.3.1 Adding matplotlib 3.3.1 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for scipy==1.5.2 Best match: scipy 1.5.2 Adding scipy 1.5.2 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for pandas==1.1.1 Best match: pandas 1.1.1 Adding pandas 1.1.1 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for numpy==1.19.1 Best match: numpy 1.19.1 Adding numpy 1.19.1 to easy-install.pth file Installing f2py script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/bin Installing f2py3 script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/bin Installing f2py3.7 script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/bin Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for six==1.15.0 Best match: six 1.15.0 Adding six 1.15.0 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for termcolor==1.1.0 Best match: termcolor 1.1.0 Adding termcolor 1.1.0 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for ipykernel==5.3.4 Best match: ipykernel 5.3.4 Adding ipykernel 5.3.4 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for nbformat==5.0.7 Best match: nbformat 5.0.7 Adding nbformat 5.0.7 to easy-install.pth file Installing jupyter-trust script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/bin Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for traitlets==4.3.3 Best match: traitlets 4.3.3 Adding traitlets 4.3.3 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for widgetsnbextension==3.5.1 Best match: widgetsnbextension 3.5.1 Adding widgetsnbextension 3.5.1 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for ipython==7.18.0 Best match: ipython 7.18.0 Adding ipython 7.18.0 to easy-install.pth file Installing iptest script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/bin Installing iptest3 script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/bin Installing ipython script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/bin Installing ipython3 script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/bin Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for retrying==1.3.3 Best match: retrying 1.3.3 Adding retrying 1.3.3 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for setuptools==41.0.1 Best match: setuptools 41.0.1 Adding setuptools 41.0.1 to easy-install.pth file Installing easy_install script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/bin Installing easy_install-3.6 script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/bin Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for pyparsing==2.4.7 Best match: pyparsing 2.4.7 Adding pyparsing 2.4.7 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for pyasn1==0.4.8 Best match: pyasn1 0.4.8 Adding pyasn1 0.4.8 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for redis==2.10.6 Best match: redis 2.10.6 Adding redis 2.10.6 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for Twisted==20.3.0 Best match: Twisted 20.3.0 Adding Twisted 20.3.0 to easy-install.pth file Installing cftp script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/bin Installing ckeygen script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/bin Installing conch script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/bin Installing mailmail script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/bin Installing pyhtmlizer script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/bin Installing tkconch script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/bin Installing trial script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/bin Installing twist script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/bin Installing twistd script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/bin Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for Flask==1.1.2 Best match: Flask 1.1.2 Adding Flask 1.1.2 to easy-install.pth file Installing flask script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/bin Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for Flask-Session==0.3.2 Best match: Flask-Session 0.3.2 Adding Flask-Session 0.3.2 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for mpld3==0.5.1 Best match: mpld3 0.5.1 Adding mpld3 0.5.1 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for decorator==4.4.2 Best match: decorator 4.4.2 Adding decorator 4.4.2 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for Werkzeug==1.0.1 Best match: Werkzeug 1.0.1 Adding Werkzeug 1.0.1 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for Flask-Login==0.5.0 Best match: Flask-Login 0.5.0 Adding Flask-Login 0.5.0 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for SQLAlchemy==1.3.19 Best match: SQLAlchemy 1.3.19 Adding SQLAlchemy 1.3.19 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for service-identity==18.1.0 Best match: service-identity 18.1.0 Adding service-identity 18.1.0 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for celery==4.4.7 Best match: celery 4.4.7 Adding celery 4.4.7 to easy-install.pth file Installing celery script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/bin Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for dill==0.3.2 Best match: dill 0.3.2 Adding dill 0.3.2 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for psutil==5.7.2 Best match: psutil 5.7.2 Adding psutil 5.7.2 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for line-profiler==3.0.2 Best match: line-profiler 3.0.2 Adding line-profiler 3.0.2 to easy-install.pth file Installing kernprof script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/bin Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for xlrd==1.2.0 Best match: xlrd 1.2.0 Adding xlrd 1.2.0 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for GitPython==3.1.7 Best match: GitPython 3.1.7 Adding GitPython 3.1.7 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for openpyexcel==2.5.14 Best match: openpyexcel 2.5.14 Adding openpyexcel 2.5.14 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for jsonpickle==1.4.1 Best match: jsonpickle 1.4.1 Adding jsonpickle 1.4.1 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for requests==2.24.0 Best match: requests 2.24.0 Adding requests 2.24.0 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for memory-profiler==0.57.0 Best match: memory-profiler 0.57.0 Adding memory-profiler 0.57.0 to easy-install.pth file Installing mprof script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/bin Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for XlsxWriter==1.3.3 Best match: XlsxWriter 1.3.3 Adding XlsxWriter 1.3.3 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for jellyfish==0.8.2 Best match: jellyfish 0.8.2 Adding jellyfish 0.8.2 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for llvmlite==0.31.0 Best match: llvmlite 0.31.0 Adding llvmlite 0.31.0 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for patsy==0.5.1 Best match: patsy 0.5.1 Adding patsy 0.5.1 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for kiwisolver==1.2.0 Best match: kiwisolver 1.2.0 Adding kiwisolver 1.2.0 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for cycler==0.10.0 Best match: cycler 0.10.0 Adding cycler 0.10.0 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for Pillow==7.2.0 Best match: Pillow 7.2.0 Adding Pillow 7.2.0 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for python-dateutil==2.8.1 Best match: python-dateutil 2.8.1 Adding python-dateutil 2.8.1 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for certifi==2020.6.20 Best match: certifi 2020.6.20 Adding certifi 2020.6.20 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for pytz==2020.1 Best match: pytz 2020.1 Adding pytz 2020.1 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for tornado==6.0.4 Best match: tornado 6.0.4 Adding tornado 6.0.4 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for jupyter-client==6.1.7 Best match: jupyter-client 6.1.7 Adding jupyter-client 6.1.7 to easy-install.pth file Installing jupyter-kernel script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/bin Installing jupyter-kernelspec script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/bin Installing jupyter-run script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/bin Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for jupyter-core==4.6.3 Best match: jupyter-core 4.6.3 Adding jupyter-core 4.6.3 to easy-install.pth file Installing jupyter script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/bin Installing jupyter-migrate script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/bin Installing jupyter-troubleshoot script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/bin Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for ipython-genutils==0.2.0 Best match: ipython-genutils 0.2.0 Adding ipython-genutils 0.2.0 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for jsonschema==3.2.0 Best match: jsonschema 3.2.0 Adding jsonschema 3.2.0 to easy-install.pth file Installing jsonschema script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/bin Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for notebook==6.1.3 Best match: notebook 6.1.3 Adding notebook 6.1.3 to easy-install.pth file Installing jupyter-bundlerextension script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/bin Installing jupyter-nbextension script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/bin Installing jupyter-notebook script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/bin Installing jupyter-serverextension script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/bin Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for backcall==0.2.0 Best match: backcall 0.2.0 Adding backcall 0.2.0 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for jedi==0.17.2 Best match: jedi 0.17.2 Adding jedi 0.17.2 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for pickleshare==0.7.5 Best match: pickleshare 0.7.5 Adding pickleshare 0.7.5 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for Pygments==2.3.1 Best match: Pygments 2.3.1 Adding Pygments 2.3.1 to easy-install.pth file Installing pygmentize script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/bin Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for prompt-toolkit==3.0.6 Best match: prompt-toolkit 3.0.6 Adding prompt-toolkit 3.0.6 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for pexpect==4.8.0 Best match: pexpect 4.8.0 Adding pexpect 4.8.0 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for attrs==20.1.0 Best match: attrs 20.1.0 Adding attrs 20.1.0 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for Automat==20.2.0 Best match: Automat 20.2.0 Adding Automat 20.2.0 to easy-install.pth file Installing automat-visualize script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/bin Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for incremental==17.5.0 Best match: incremental 17.5.0 Adding incremental 17.5.0 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for PyHamcrest==2.0.2 Best match: PyHamcrest 2.0.2 Adding PyHamcrest 2.0.2 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for zope.interface==5.1.0 Best match: zope.interface 5.1.0 Adding zope.interface 5.1.0 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for hyperlink==20.0.1 Best match: hyperlink 20.0.1 Adding hyperlink 20.0.1 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for constantly==15.1.0 Best match: constantly 15.1.0 Adding constantly 15.1.0 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/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-covasim/envs/latest/lib/python3.7/site-packages Searching for Jinja2==2.11.2 Best match: Jinja2 2.11.2 Adding Jinja2 2.11.2 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for itsdangerous==1.1.0 Best match: itsdangerous 1.1.0 Adding itsdangerous 1.1.0 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for cachelib==0.1.1 Best match: cachelib 0.1.1 Adding cachelib 0.1.1 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for pyasn1-modules==0.2.8 Best match: pyasn1-modules 0.2.8 Adding pyasn1-modules 0.2.8 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for cryptography==3.1 Best match: cryptography 3.1 Adding cryptography 3.1 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for billiard==3.6.3.0 Best match: billiard 3.6.3.0 Adding billiard 3.6.3.0 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for vine==1.3.0 Best match: vine 1.3.0 Adding vine 1.3.0 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for kombu==4.6.11 Best match: kombu 4.6.11 Adding kombu 4.6.11 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for gitdb==4.0.5 Best match: gitdb 4.0.5 Adding gitdb 4.0.5 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for et-xmlfile==1.0.1 Best match: et-xmlfile 1.0.1 Adding et-xmlfile 1.0.1 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for jdcal==1.4.1 Best match: jdcal 1.4.1 Adding jdcal 1.4.1 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for importlib-metadata==1.7.0 Best match: importlib-metadata 1.7.0 Adding importlib-metadata 1.7.0 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for urllib3==1.25.10 Best match: urllib3 1.25.10 Adding urllib3 1.25.10 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for idna==2.10 Best match: idna 2.10 Adding idna 2.10 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for chardet==3.0.4 Best match: chardet 3.0.4 Adding chardet 3.0.4 to easy-install.pth file Installing chardetect script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/bin Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for pyzmq==19.0.2 Best match: pyzmq 19.0.2 Adding pyzmq 19.0.2 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for pyrsistent==0.16.0 Best match: pyrsistent 0.16.0 Adding pyrsistent 0.16.0 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for Send2Trash==1.5.0 Best match: Send2Trash 1.5.0 Adding Send2Trash 1.5.0 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for terminado==0.8.3 Best match: terminado 0.8.3 Adding terminado 0.8.3 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for nbconvert==5.6.1 Best match: nbconvert 5.6.1 Adding nbconvert 5.6.1 to easy-install.pth file Installing jupyter-nbconvert script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/bin Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for prometheus-client==0.8.0 Best match: prometheus-client 0.8.0 Adding prometheus-client 0.8.0 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for argon2-cffi==20.1.0 Best match: argon2-cffi 20.1.0 Adding argon2-cffi 20.1.0 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for parso==0.7.1 Best match: parso 0.7.1 Adding parso 0.7.1 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for wcwidth==0.2.5 Best match: wcwidth 0.2.5 Adding wcwidth 0.2.5 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for ptyprocess==0.6.0 Best match: ptyprocess 0.6.0 Adding ptyprocess 0.6.0 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for MarkupSafe==1.1.1 Best match: MarkupSafe 1.1.1 Adding MarkupSafe 1.1.1 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for cffi==1.14.2 Best match: cffi 1.14.2 Adding cffi 1.14.2 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for amqp==2.6.1 Best match: amqp 2.6.1 Adding amqp 2.6.1 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for smmap==3.0.4 Best match: smmap 3.0.4 Adding smmap 3.0.4 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for zipp==3.1.0 Best match: zipp 3.1.0 Adding zipp 3.1.0 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for defusedxml==0.6.0 Best match: defusedxml 0.6.0 Adding defusedxml 0.6.0 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for testpath==0.4.4 Best match: testpath 0.4.4 Adding testpath 0.4.4 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for bleach==3.1.5 Best match: bleach 3.1.5 Adding bleach 3.1.5 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for mistune==0.8.4 Best match: mistune 0.8.4 Adding mistune 0.8.4 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for pandocfilters==1.4.2 Best match: pandocfilters 1.4.2 Adding pandocfilters 1.4.2 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for entrypoints==0.3 Best match: entrypoints 0.3 Adding entrypoints 0.3 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for pycparser==2.20 Best match: pycparser 2.20 Adding pycparser 2.20 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for packaging==20.4 Best match: packaging 20.4 Adding packaging 20.4 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Searching for webencodings==0.5.1 Best match: webencodings 0.5.1 Adding webencodings 0.5.1 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.7/site-packages Finished processing dependencies for covasim==1.4.7 [rtd-command-info] start-time: 2020-08-28T21:37:48.286471Z, end-time: 2020-08-28T21:37:48.366542Z, duration: 0, exit-code: 0 cat docs/conf.py # 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 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.imgmath', 'sphinx.ext.githubpages', 'sphinx.ext.autodoc', 'sphinx.ext.napoleon', 'sphinx.ext.todo', 'plantweb.directive' ] plantuml = 'plantweb' autodoc_default_options = { 'member-order': 'bysource', 'members': None } 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' # The encoding of source files. # # source_encoding = 'utf-8-sig' # The master toctree document. master_doc = 'index' # General information about the project. project = 'Covasim' copyright = u'2020, Bill & Melinda Gates Foundation. All rights reserved.' author = '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. import covasim version = covasim.__version__ # The full version, including alpha/beta/rc tags. # release = '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'] # suppress warnings for multiple possible Python references in the namespace # suppress_warnings = ['ref.python'] # 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. # " v documentation" by default. # # html_title = '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 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 = 'Covasim' # -- 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': '%XeLaTeX packages' '\\usepackage{xltxtra}' '\\usepackage{fontspec} %%Font package' '\\usepackage{xunicode}' '%%Select fonts' '\\setmainfont[Mapping=tex-text]{nimbusserif}' '\\setsansfont[Mapping=tex-text]{nimbussans}' '\\setmonofont{nimbusmono}', # 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, 'covasim-docs.tex', 'Covasim', '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, 'covasim-docs', 'Covasim', [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, 'covasim-docs', 'Covasim', author, 'Institute for Disease Modeling', 'How to use IDM-Tools for disease 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} ########################################################################### # 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/master/readthedocs/doc_builder/templates/doc_builder/conf.py.tmpl # import importlib import sys import os.path from six import string_types 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': "latest", 'version_slug': "latest", 'MEDIA_URL': "https://media.readthedocs.com/media/", 'STATIC_URL': "https://assets.readthedocs.com/", 'PRODUCTION_DOMAIN': "readthedocs.com", 'versions': [ ], 'downloads': [ ("pdf", "//docs.idmod.org/_/downloads/covasim/en/latest/pdf/"), ("html", "//docs.idmod.org/_/downloads/covasim/en/latest/htmlzip/"), ], 'subprojects': [ ], 'slug': 'institute-for-disease-modeling-covasim', 'name': u'covasim', 'rtd_language': u'en', 'programming_language': u'py', 'canonical_url': 'https://docs.idmod.org/projects/covasim/en/latest/', 'analytics_code': 'UA-87656833-3', 'single_version': False, 'conf_py_path': '/docs/', 'api_host': 'https://readthedocs.com', 'github_user': 'JSchripsema-IDM', 'proxied_api_host': '/_', 'github_repo': 'covasim', 'github_version': 'rtd', 'display_github': True, 'bitbucket_user': 'None', 'bitbucket_repo': 'None', 'bitbucket_version': 'rtd', 'display_bitbucket': False, 'gitlab_user': 'None', 'gitlab_repo': 'None', 'gitlab_version': 'rtd', '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': '9257e17e', } 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 'branch' == 'external': extensions.insert(1, "readthedocs_ext.external_version_warning") 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: 2020-08-28T21:37:48.472473Z, end-time: 2020-08-28T21:38:03.173260Z, duration: 14, exit-code: 1 python sphinx-build -T -E -W --keep-going -b readthedocs -d _build/doctrees-readthedocs -D language=en . _build/html Running Sphinx v3.2.1 Covasim 1.4.7 (2020-06-02) — © 2020 by IDM loading translations [en]... done making output directory... done building [mo]: targets for 0 po files that are out of date building [readthedocs]: targets for 31 source files that are out of date updating environment: [new config] 31 added, 0 changed, 0 removed reading sources... [ 3%] conduct reading sources... [ 6%] contributing reading sources... [ 9%] covasim reading sources... [ 12%] covasim.analysis reading sources... [ 16%] covasim.base reading sources... [ 19%] covasim.data reading sources... [ 22%] covasim.data.country_age_data reading sources... [ 25%] covasim.data.household_size_data reading sources... [ 29%] covasim.data.loaders reading sources... [ 32%] covasim.data.state_age_data reading sources... [ 35%] covasim.defaults reading sources... [ 38%] covasim.interventions reading sources... [ 41%] covasim.misc reading sources... [ 45%] covasim.parameters reading sources... [ 48%] covasim.people reading sources... [ 51%] covasim.plotting reading sources... [ 54%] covasim.population reading sources... [ 58%] covasim.requirements reading sources... [ 61%] covasim.run reading sources... [ 64%] covasim.sim reading sources... [ 67%] covasim.utils reading sources... [ 70%] covasim.version reading sources... [ 74%] covasim.webapp reading sources... [ 77%] covasim.webapp.cova_app reading sources... [ 80%] covasim_index reading sources... [ 83%] data reading sources... [ 87%] docker reading sources... [ 90%] index reading sources... [ 93%] parameters reading sources... [ 96%] webapp reading sources... [100%] whatsnew /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/checkouts/latest/docs/index.rst:12: WARNING: toctree contains reference to nonexisting document 'modules' looking for now-outdated files... none found pickling environment... done checking consistency... /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/checkouts/latest/docs/covasim_index.rst: WARNING: document isn't included in any toctree done preparing documents... done writing output... [ 3%] conduct writing output... [ 6%] contributing writing output... [ 9%] covasim writing output... [ 12%] covasim.analysis writing output... [ 16%] covasim.base writing output... [ 19%] covasim.data writing output... [ 22%] covasim.data.country_age_data writing output... [ 25%] covasim.data.household_size_data writing output... [ 29%] covasim.data.loaders writing output... [ 32%] covasim.data.state_age_data writing output... [ 35%] covasim.defaults writing output... [ 38%] covasim.interventions writing output... [ 41%] covasim.misc writing output... [ 45%] covasim.parameters writing output... [ 48%] covasim.people writing output... [ 51%] covasim.plotting writing output... [ 54%] covasim.population writing output... [ 58%] covasim.requirements writing output... [ 61%] covasim.run writing output... [ 64%] covasim.sim writing output... [ 67%] covasim.utils writing output... [ 70%] covasim.version writing output... [ 74%] covasim.webapp writing output... [ 77%] covasim.webapp.cova_app writing output... [ 80%] covasim_index writing output... [ 83%] data writing output... [ 87%] docker writing output... [ 90%] index writing output... [ 93%] parameters writing output... [ 96%] webapp writing output... [100%] whatsnew generating indices... genindex py-modindexdone writing additional pages... search opensearchdone copying static files... ... done copying readthedocs static files... done copying searchtools... done copying extra files... done dumping search index in English (code: en)... done dumping object inventory... done build finished with problems, 2 warnings.