Read the Docs build information
Build id: 395651
Project: institute-for-disease-modeling-covasim
Version: latest
Commit: 34c53b3073682ee790d42f110ecdb46377633c7a
Date: 2020-08-14T18:18:32.925180Z
State: finished
Success: False


[rtd-command-info] start-time: 2020-08-14T18:18:34.351795Z, end-time: 2020-08-14T18:18:35.741050Z, 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: 2020-08-14T18:18:36.305916Z, end-time: 2020-08-14T18:18:36.377637Z, 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 <new-branch-name>

HEAD is now at 34c53b3 Clinton's improvements to autogenerated API topics

[rtd-command-info] start-time: 2020-08-14T18:18:36.546943Z, end-time: 2020-08-14T18:18:36.598064Z, duration: 0, exit-code: 0
git clean -d -f -f


[rtd-command-info] start-time: 2020-08-14T18:18:38.284568Z, end-time: 2020-08-14T18:18:42.212446Z, duration: 3, 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: 2020-08-14T18:18:42.371814Z, end-time: 2020-08-14T18:18:43.031069Z, 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: 2020-08-14T18:18:43.191140Z, end-time: 2020-08-14T18:18:50.661263Z, duration: 7, 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
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Building wheels for collected packages: mock, future
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  Created wheel for mock: filename=mock-1.0.1-py3-none-any.whl size=23754 sha256=94c485ba173c7e8c1b39f2f9904f10e06023018e4cbf637a2fbf40f186a2226d
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Successfully built mock future
Installing collected packages: Pygments, setuptools, docutils, mock, pillow, alabaster, future, commonmark, snowballstemmer, urllib3, certifi, idna, chardet, requests, imagesize, pytz, babel, sphinxcontrib-serializinghtml, sphinxcontrib-websupport, MarkupSafe, Jinja2, sphinx, recommonmark, sphinx-rtd-theme, readthedocs-sphinx-ext
  Attempting uninstall: setuptools
    Found existing installation: setuptools 49.6.0
    Uninstalling setuptools-49.6.0:
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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 pillow-5.4.1 pytz-2020.1 readthedocs-sphinx-ext-1.0.4 recommonmark-0.5.0 requests-2.24.0 setuptools-41.0.1 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: 2020-08-14T18:18:50.868310Z, end-time: 2020-08-14T18:19:34.878999Z, duration: 44, exit-code: 0
python -m pip install --exists-action=w --no-cache-dir -r requirements.txt
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  Downloading Send2Trash-1.5.0-py3-none-any.whl (12 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 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 pandocfilters>=1.4.1
  Downloading pandocfilters-1.4.2.tar.gz (14 kB)
Collecting entrypoints>=0.2.2
  Downloading entrypoints-0.3-py2.py3-none-any.whl (11 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)
Collecting bleach
  Downloading bleach-3.1.5-py2.py3-none-any.whl (151 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=fd6197c608cbb66bdd953bc8f49d513ee2afabeffd215a8c83fbcb5b122cf8e5
  Stored in directory: /tmp/pip-ephem-wheel-cache-vnbtj_31/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=88e1202611a2e08616bf89ae691664b85658f3acfce4097878710bed5de2941d
  Stored in directory: /tmp/pip-ephem-wheel-cache-vnbtj_31/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=283663 sha256=6bada8adfecca501f842cb1d012517a8fd814109ac143c16f500420db22c9afc
  Stored in directory: /tmp/pip-ephem-wheel-cache-vnbtj_31/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=78911 sha256=c50d73d1cfa1731d07d0bb6431b81199b6070bcb7727f3849e1431ebf547d999
  Stored in directory: /tmp/pip-ephem-wheel-cache-vnbtj_31/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=364062 sha256=711fa14fc7d279d8fc0f07ec96845089f405bb6d44be5b60d4e38c60f3d00a46
  Stored in directory: /tmp/pip-ephem-wheel-cache-vnbtj_31/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=11428 sha256=b53146ebf9947c94dd607747844e83c1b1c9d748f42082686983805be26712fe
  Stored in directory: /tmp/pip-ephem-wheel-cache-vnbtj_31/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=e2ce71a832d60eab928a5b577af363e1fff71f9e57e91bf96a7184222e5e0de6
  Stored in directory: /tmp/pip-ephem-wheel-cache-vnbtj_31/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=8914 sha256=9c8e438c7d734295ef8245e73cd080e51670133273e80e25b3e30e0d0245e206
  Stored in directory: /tmp/pip-ephem-wheel-cache-vnbtj_31/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=428561 sha256=a32dea2f9a752a963bf4a206e07cee11f81dd64c46c47646543cdec8ed902c5b
  Stored in directory: /tmp/pip-ephem-wheel-cache-vnbtj_31/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=116008 sha256=eaca15d2dd70da4aa2b8923542e742e7097dda266af3668c2c3d3805628b696a
  Stored in directory: /tmp/pip-ephem-wheel-cache-vnbtj_31/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=7856 sha256=bf24f4ab3e7ca518db9a718a86451b59ae879b95471782e0c7af52e941470d4c
  Stored in directory: /tmp/pip-ephem-wheel-cache-vnbtj_31/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, cycler, pillow, kiwisolver, matplotlib, patsy, statsmodels, llvmlite, numba, psutil, memory-profiler, xlrd, jellyfish, jdcal, et-xmlfile, openpyexcel, ptyprocess, pexpect, pickleshare, ipython-genutils, decorator, traitlets, parso, jedi, backcall, wcwidth, prompt-toolkit, ipython, line-profiler, zipp, importlib-metadata, jsonpickle, smmap, gitdb, gitpython, dill, xlsxwriter, sciris, sqlalchemy, click, werkzeug, itsdangerous, flask, flask-login, mpld3, pyasn1, pyasn1-modules, attrs, pycparser, cffi, cryptography, service-identity, cachelib, flask-session, billiard, vine, amqp, kombu, celery, Automat, constantly, PyHamcrest, incremental, hyperlink, zope.interface, twisted, redis, scirisweb, gunicorn, retrying, plotly, pyrsistent, jsonschema, jupyter-core, nbformat, pyzmq, tornado, jupyter-client, ipykernel, prometheus-client, defusedxml, pandocfilters, entrypoints, mistune, testpath, webencodings, bleach, nbconvert, Send2Trash, terminado, argon2-cffi, 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-19.3.0 backcall-0.2.0 billiard-3.6.3.0 bleach-3.1.5 cachelib-0.1.1 celery-4.4.7 cffi-1.14.1 click-7.1.2 constantly-15.1.0 cryptography-3.0 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-7.17.0 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-6.1.6 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-1.1.0 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-1.3.18 statsmodels-0.11.1 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: 2020-08-14T18:19:35.086529Z, end-time: 2020-08-14T18:19:35.691525Z, duration: 0, exit-code: 1
python -m pip install --exists-action=w --no-cache-dir -r covasim/requirements.txt
ERROR: Could not open requirements file: [Errno 2] No such file or directory: 'covasim/requirements.txt'