Read the Docs build information Build id: 499373 Project: institute-for-disease-modeling-covasim Version: latest Commit: 0e4ae03a7b9d8dd0412ad09f3e68b20dfbff7eaf Date: 2020-12-06T22:07:42.965357Z State: finished Success: False [rtd-command-info] start-time: 2020-12-06T22:07:44.206426Z, end-time: 2020-12-06T22:07:46.039818Z, duration: 1, exit-code: 0 git clone --no-single-branch --depth 50 git@github.com:InstituteforDiseaseModeling/covasim.git . Cloning into '.'... Warning: Permanently added 'github.com,192.30.255.113' (RSA) to the list of known hosts. [rtd-command-info] start-time: 2020-12-06T22:07:46.370846Z, end-time: 2020-12-06T22:07:46.439529Z, duration: 0, exit-code: 0 git checkout --force origin/master Note: checking out 'origin/master'. 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 0e4ae03 Merge pull request #740 from amath-idm/update-docs [rtd-command-info] start-time: 2020-12-06T22:07:46.549672Z, end-time: 2020-12-06T22:07:46.603580Z, duration: 0, exit-code: 0 git clean -d -f -f [rtd-command-info] start-time: 2020-12-06T22:07:47.678014Z, end-time: 2020-12-06T22:07:59.072772Z, duration: 11, exit-code: 0 python3.8 -mvirtualenv --system-site-packages Using base prefix '/home/docs/.pyenv/versions/3.8.6' New python executable in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/bin/python3.8 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: 2020-12-06T22:07:59.189357Z, end-time: 2020-12-06T22:08:00.871190Z, duration: 1, exit-code: 0 python -m pip install --upgrade --no-cache-dir pip Requirement already satisfied: pip in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages (20.3.1) [rtd-command-info] start-time: 2020-12-06T22:08:00.980853Z, end-time: 2020-12-06T22:08:30.595894Z, duration: 29, exit-code: 0 python -m pip install --upgrade --no-cache-dir -I setuptools==41.0.1 docutils==0.14 mock==1.0.1 pillow==5.4.1 alabaster>=0.7,<0.8,!=0.7.5 six commonmark==0.8.1 recommonmark==0.5.0 sphinx<2 sphinx-rtd-theme<0.5 readthedocs-sphinx-ext<2.2 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 docutils==0.14 Downloading docutils-0.14-py3-none-any.whl (543 kB) Collecting mock==1.0.1 Downloading mock-1.0.1.zip (861 kB) Collecting pillow==5.4.1 Downloading Pillow-5.4.1.tar.gz (16.0 MB) Collecting readthedocs-sphinx-ext<2.2 Downloading readthedocs_sphinx_ext-2.1.1-py2.py3-none-any.whl (13 kB) Collecting recommonmark==0.5.0 Downloading recommonmark-0.5.0-py2.py3-none-any.whl (9.8 kB) Collecting setuptools==41.0.1 Downloading setuptools-41.0.1-py2.py3-none-any.whl (575 kB) Collecting six Downloading six-1.15.0-py2.py3-none-any.whl (10 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 babel!=2.0,>=1.3 Downloading Babel-2.9.0-py2.py3-none-any.whl (8.8 MB) Collecting future Downloading future-0.18.2.tar.gz (829 kB) Collecting imagesize Downloading imagesize-1.2.0-py2.py3-none-any.whl (4.8 kB) Collecting Jinja2>=2.9 Downloading Jinja2-2.11.2-py2.py3-none-any.whl (125 kB) Collecting MarkupSafe>=0.23 Downloading MarkupSafe-1.1.1-cp38-cp38-manylinux1_x86_64.whl (32 kB) Collecting packaging Downloading packaging-20.7-py2.py3-none-any.whl (35 kB) Collecting Pygments>=2.0 Downloading Pygments-2.7.3-py3-none-any.whl (950 kB) Collecting pyparsing>=2.0.2 Downloading pyparsing-2.4.7-py2.py3-none-any.whl (67 kB) Collecting pytz>=2015.7 Downloading pytz-2020.4-py2.py3-none-any.whl (509 kB) Collecting requests Downloading requests-2.25.0-py2.py3-none-any.whl (61 kB) Collecting certifi>=2017.4.17 Downloading certifi-2020.12.5-py2.py3-none-any.whl (147 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 snowballstemmer>=1.1 Downloading snowballstemmer-2.0.0-py2.py3-none-any.whl (97 kB) Collecting sphinxcontrib-websupport Downloading sphinxcontrib_websupport-1.2.4-py2.py3-none-any.whl (39 kB) Collecting sphinxcontrib-serializinghtml Downloading sphinxcontrib_serializinghtml-1.1.4-py2.py3-none-any.whl (89 kB) Collecting urllib3<1.27,>=1.21.1 Downloading urllib3-1.26.2-py2.py3-none-any.whl (136 kB) Building wheels for collected packages: mock, pillow, 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=33d4b10692261daf4b31d68a8e76818d9a5f6635dfb54df31b39624a0f95c4f4 Stored in directory: /tmp/pip-ephem-wheel-cache-xoq9lnq1/wheels/41/7c/21/90057f91c6ead7c77a90c52d6e85ca48bf82d8b0d3f8dfbb65 Building wheel for pillow (setup.py): started Building wheel for pillow (setup.py): finished with status 'done' Created wheel for pillow: filename=Pillow-5.4.1-cp38-cp38-linux_x86_64.whl size=1260072 sha256=2b203a670fcb1928914a1186ed217183af1aa21efbfc72dd9fece21cf7b35a05 Stored in directory: /tmp/pip-ephem-wheel-cache-xoq9lnq1/wheels/5f/a8/6b/5b7b3f764d879214eb03570f74d2b086201eb514e6ffa68d6d 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=491058 sha256=a6062d4f8b8deadcb92a91d32f6460d1e8901c271a5ad43db330461becd282a2 Stored in directory: /tmp/pip-ephem-wheel-cache-xoq9lnq1/wheels/8e/70/28/3d6ccd6e315f65f245da085482a2e1c7d14b90b30f239e2cf4 Successfully built mock pillow future Installing collected packages: urllib3, sphinxcontrib-serializinghtml, pytz, pyparsing, MarkupSafe, idna, chardet, certifi, sphinxcontrib-websupport, snowballstemmer, six, setuptools, requests, Pygments, packaging, Jinja2, imagesize, future, docutils, babel, alabaster, sphinx, commonmark, sphinx-rtd-theme, recommonmark, readthedocs-sphinx-ext, pillow, mock ERROR: pip's dependency resolver does not currently take into account all the packages that are installed. This behaviour is the source of the following dependency conflicts. matplotlib 3.3.2 requires pillow>=6.2.0, but you have pillow 5.4.1 which is incompatible. Successfully installed Jinja2-2.11.2 MarkupSafe-1.1.1 Pygments-2.7.3 alabaster-0.7.12 babel-2.9.0 certifi-2020.12.5 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-20.7 pillow-5.4.1 pyparsing-2.4.7 pytz-2020.4 readthedocs-sphinx-ext-2.1.1 recommonmark-0.5.0 requests-2.25.0 setuptools-50.3.2 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 urllib3-1.26.2 [rtd-command-info] start-time: 2020-12-06T22:08:30.705342Z, end-time: 2020-12-06T22:08:57.785366Z, duration: 27, exit-code: 0 python -m pip install --exists-action=w --no-cache-dir -r docs/requirements.txt Requirement already satisfied: sphinx-rtd-theme in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages (from -r docs/requirements.txt (line 2)) (0.4.3) Requirement already satisfied: sphinx in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages (from -r docs/requirements.txt (line 4)) (1.8.5) Collecting ipykernel Downloading ipykernel-5.3.4-py3-none-any.whl (120 kB) Collecting nbsphinx Downloading nbsphinx-0.8.0-py3-none-any.whl (24 kB) Requirement already satisfied: docutils in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages (from nbsphinx->-r docs/requirements.txt (line 7)) (0.14) Requirement already satisfied: sphinx in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages (from -r docs/requirements.txt (line 4)) (1.8.5) Requirement already satisfied: jinja2 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages (from nbsphinx->-r docs/requirements.txt (line 7)) (2.11.2) Collecting optuna Downloading optuna-2.3.0.tar.gz (258 kB) Installing build dependencies: started Installing build dependencies: finished with status 'done' Getting requirements to build wheel: started Getting requirements to build wheel: finished with status 'done' Preparing wheel metadata: started Preparing wheel metadata: finished with status 'done' Requirement already satisfied: packaging>=20.0 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages (from optuna->-r docs/requirements.txt (line 10)) (20.7) Requirement already satisfied: numpy in /home/docs/.pyenv/versions/3.8.6/lib/python3.8/site-packages (from optuna->-r docs/requirements.txt (line 10)) (1.19.2) Collecting pandoc Downloading pandoc-1.0.2.tar.gz (488 kB) Collecting plantweb Downloading plantweb-1.2.1-py3-none-any.whl (20 kB) Requirement already satisfied: docutils in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages (from nbsphinx->-r docs/requirements.txt (line 7)) (0.14) Requirement already satisfied: requests in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages (from plantweb->-r docs/requirements.txt (line 5)) (2.25.0) Requirement already satisfied: six in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages (from plantweb->-r docs/requirements.txt (line 5)) (1.15.0) Collecting pypandoc Downloading pypandoc-1.5.tar.gz (26 kB) Requirement already satisfied: setuptools in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages (from pypandoc->-r docs/requirements.txt (line 9)) (50.3.2) Requirement already satisfied: pip>=8.1.0 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages (from pypandoc->-r docs/requirements.txt (line 9)) (20.3.1) Requirement already satisfied: wheel>=0.25.0 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages (from pypandoc->-r docs/requirements.txt (line 9)) (0.36.1) Collecting pytest Downloading pytest-6.1.2-py3-none-any.whl (272 kB) Requirement already satisfied: packaging>=20.0 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages (from optuna->-r docs/requirements.txt (line 10)) (20.7) Requirement already satisfied: six in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages (from plantweb->-r docs/requirements.txt (line 5)) (1.15.0) Requirement already satisfied: sphinxcontrib-websupport in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages (from sphinx->-r docs/requirements.txt (line 4)) (1.2.4) Requirement already satisfied: docutils in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages (from nbsphinx->-r docs/requirements.txt (line 7)) (0.14) Requirement already satisfied: jinja2 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages (from nbsphinx->-r docs/requirements.txt (line 7)) (2.11.2) Requirement already satisfied: requests in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages (from plantweb->-r docs/requirements.txt (line 5)) (2.25.0) Requirement already satisfied: setuptools in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages (from pypandoc->-r docs/requirements.txt (line 9)) (50.3.2) Requirement already satisfied: imagesize in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages (from sphinx->-r docs/requirements.txt (line 4)) (1.2.0) Requirement already satisfied: snowballstemmer>=1.1 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages (from sphinx->-r docs/requirements.txt (line 4)) (2.0.0) Requirement already satisfied: packaging>=20.0 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages (from optuna->-r docs/requirements.txt (line 10)) (20.7) Requirement already satisfied: Pygments>=2.0 in 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7)) (1.1.1) Collecting joblib Downloading joblib-0.17.0-py3-none-any.whl (301 kB) Collecting jupyter-client Downloading jupyter_client-6.1.7-py3-none-any.whl (108 kB) Requirement already satisfied: python-dateutil in /home/docs/.pyenv/versions/3.8.6/lib/python3.8/site-packages (from alembic->optuna->-r docs/requirements.txt (line 10)) (2.8.1) Collecting jupyter-core>=4.6.0 Downloading jupyter_core-4.7.0-py3-none-any.whl (82 kB) Collecting Mako Downloading Mako-1.1.3-py2.py3-none-any.whl (75 kB) Requirement already satisfied: MarkupSafe>=0.23 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages (from jinja2->nbsphinx->-r docs/requirements.txt (line 7)) (1.1.1) Collecting nbconvert!=5.4 Downloading nbconvert-6.0.7-py3-none-any.whl (552 kB) Requirement already satisfied: jinja2 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages (from 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/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages (from pypandoc->-r docs/requirements.txt (line 9)) (50.3.2) Requirement already satisfied: six in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages (from plantweb->-r docs/requirements.txt (line 5)) (1.15.0) Collecting nest-asyncio Downloading nest_asyncio-1.4.3-py3-none-any.whl (5.3 kB) Requirement already satisfied: pyparsing>=2.1.0 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages (from cliff->optuna->-r docs/requirements.txt (line 10)) (2.4.7) Collecting pandocfilters>=1.4.1 Downloading pandocfilters-1.4.3.tar.gz (16 kB) Collecting parso<0.8.0,>=0.7.0 Downloading parso-0.7.1-py2.py3-none-any.whl (109 kB) Collecting pbr!=2.1.0,>=2.0.0 Downloading pbr-5.5.1-py2.py3-none-any.whl (106 kB) Collecting pexpect>4.3 Downloading pexpect-4.8.0-py2.py3-none-any.whl (59 kB) Collecting pickleshare Downloading pickleshare-0.7.5-py2.py3-none-any.whl (6.9 kB) Collecting pluggy<1.0,>=0.12 Downloading pluggy-0.13.1-py2.py3-none-any.whl (18 kB) Collecting ply Downloading ply-3.11-py2.py3-none-any.whl (49 kB) Collecting pockets>=0.3 Downloading pockets-0.9.1-py2.py3-none-any.whl (26 kB) Requirement already satisfied: six in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages (from plantweb->-r docs/requirements.txt (line 5)) (1.15.0) Collecting PrettyTable<0.8,>=0.7.2 Downloading prettytable-0.7.2.zip (28 kB) Collecting prompt-toolkit!=3.0.0,!=3.0.1,<3.1.0,>=2.0.0 Downloading prompt_toolkit-3.0.8-py3-none-any.whl (355 kB) Collecting ptyprocess>=0.5 Downloading ptyprocess-0.6.0-py2.py3-none-any.whl (39 kB) Collecting py>=1.8.2 Downloading py-1.9.0-py2.py3-none-any.whl (99 kB) Collecting pyperclip>=1.6 Downloading 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/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages (from requests->plantweb->-r docs/requirements.txt (line 5)) (2020.12.5) Requirement already satisfied: idna<3,>=2.5 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages (from requests->plantweb->-r docs/requirements.txt (line 5)) (2.10) Requirement already satisfied: chardet<4,>=3.0.2 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages (from requests->plantweb->-r docs/requirements.txt (line 5)) (3.0.4) Collecting scipy!=1.4.0 Downloading scipy-1.5.4-cp38-cp38-manylinux1_x86_64.whl (25.8 MB) Requirement already satisfied: numpy in /home/docs/.pyenv/versions/3.8.6/lib/python3.8/site-packages (from optuna->-r docs/requirements.txt (line 10)) (1.19.2) Requirement already satisfied: sphinxcontrib-serializinghtml in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages (from sphinxcontrib-websupport->sphinx->-r docs/requirements.txt (line 4)) (1.1.4) Collecting sqlalchemy>=1.1.0 Downloading SQLAlchemy-1.3.20-cp38-cp38-manylinux2010_x86_64.whl (1.3 MB) Collecting stevedore>=2.0.1 Downloading stevedore-3.3.0-py3-none-any.whl (49 kB) Collecting testpath Downloading testpath-0.4.4-py2.py3-none-any.whl (163 kB) Collecting toml Downloading toml-0.10.2-py2.py3-none-any.whl (16 kB) Collecting tornado>=4.2 Downloading tornado-6.1-cp38-cp38-manylinux2010_x86_64.whl (427 kB) Collecting tqdm Downloading tqdm-4.54.1-py2.py3-none-any.whl (69 kB) Collecting traitlets>=4.1.0 Downloading traitlets-5.0.5-py3-none-any.whl (100 kB) Collecting wcwidth>=0.1.7 Downloading wcwidth-0.2.5-py2.py3-none-any.whl (30 kB) Collecting webencodings Downloading webencodings-0.5.1-py2.py3-none-any.whl (11 kB) Building wheels for collected packages: optuna, pandoc, pypandoc, pandocfilters, PrettyTable, pyperclip, pyrsistent, PyYAML Building wheel for optuna (PEP 517): started Building wheel for optuna (PEP 517): finished with status 'done' Created wheel for optuna: filename=optuna-2.3.0-py3-none-any.whl size=359706 sha256=e76c0c06a6e03b6e1c1e05e1d409be32298267f9ce56ee4d7a6de947997d21bd Stored in directory: /tmp/pip-ephem-wheel-cache-ow4yy3rs/wheels/90/cf/2a/6326fab045ea048eba2ebf4ffeb477b74e1c37639435ba0d0d Building wheel for pandoc (setup.py): started Building wheel for pandoc (setup.py): finished with status 'done' Created wheel for pandoc: filename=pandoc-1.0.2-py3-none-any.whl size=19992 sha256=84aebba7f7c97c3f18457a7131debb24c2b5172e3b54f9e5f02d7e29974f92e0 Stored in directory: /tmp/pip-ephem-wheel-cache-ow4yy3rs/wheels/a4/b9/34/3e82b9444401c2199d721240a388499a262d2e2ad37f6f3fa7 Building wheel for pypandoc (setup.py): started Building wheel for pypandoc (setup.py): finished with status 'done' Created wheel for pypandoc: filename=pypandoc-1.5-py3-none-any.whl size=17039 sha256=8ef2255985ae2aa28c4e947ae0b533a96d037249dab79c7aee222a9012bc49bf Stored in directory: /tmp/pip-ephem-wheel-cache-ow4yy3rs/wheels/27/01/d8/dde8d4ae5c2a6e6dda11cee8c4fb855c9f60f1f8cdc1332cef Building wheel for pandocfilters (setup.py): started Building wheel for pandocfilters (setup.py): finished with status 'done' Created wheel for pandocfilters: filename=pandocfilters-1.4.3-py3-none-any.whl size=7991 sha256=4121983d3849cde6233f00e35d0ada9d9249a0a962e65fddd9c46bb00bbe035d Stored in directory: /tmp/pip-ephem-wheel-cache-ow4yy3rs/wheels/fc/39/52/8d6f3cec1cca4ceb44d658427c35711b19d89dbc4914af657f Building wheel for PrettyTable (setup.py): started Building wheel for PrettyTable (setup.py): finished with status 'done' Created wheel for PrettyTable: filename=prettytable-0.7.2-py3-none-any.whl size=13699 sha256=7b448a3e8e06e0d5f9b54f8aade1eca440d43b92d95c8f878f023e11abe12b57 Stored in directory: /tmp/pip-ephem-wheel-cache-ow4yy3rs/wheels/48/6d/77/9517cb933af254f51a446f1a5ec9c2be3e45f17384940bce68 Building wheel for pyperclip (setup.py): started Building wheel for pyperclip (setup.py): finished with status 'done' Created wheel for pyperclip: filename=pyperclip-1.8.1-py3-none-any.whl size=11118 sha256=436b86a3850508ed16cc93ecf87631edca73baf8c554dd78dacc75636194c594 Stored in directory: /tmp/pip-ephem-wheel-cache-ow4yy3rs/wheels/67/0c/ba/1468f38115898442e13f99a19a8dcf1e0ca73488053ef7b388 Building wheel for pyrsistent (setup.py): started Building wheel for pyrsistent (setup.py): finished with status 'done' Created wheel for pyrsistent: filename=pyrsistent-0.17.3-cp38-cp38-linux_x86_64.whl size=119670 sha256=b2ba5a36c78aac41b925095b5619dee0c0ce3e7f45342a91866473d05a30f633 Stored in directory: /tmp/pip-ephem-wheel-cache-ow4yy3rs/wheels/3d/22/08/7042eb6309c650c7b53615d5df5cc61f1ea9680e7edd3a08d2 Building wheel for PyYAML (setup.py): started Building wheel for PyYAML (setup.py): finished with status 'done' Created wheel for PyYAML: filename=PyYAML-5.3.1-cp38-cp38-linux_x86_64.whl size=44618 sha256=e07f4dd8dc96ee9124aa4075db5303e0c9eb07191384a3e892ff6fda5903635f Stored in directory: /tmp/pip-ephem-wheel-cache-ow4yy3rs/wheels/13/90/db/290ab3a34f2ef0b5a0f89235dc2d40fea83e77de84ed2dc05c Successfully built optuna pandoc pypandoc pandocfilters PrettyTable pyperclip pyrsistent PyYAML Installing collected packages: ipython-genutils, traitlets, pyrsistent, attrs, tornado, pyzmq, jupyter-core, jsonschema, webencodings, wcwidth, pyperclip, ptyprocess, pbr, parso, nest-asyncio, nbformat, jupyter-client, colorama, async-generator, testpath, stevedore, sqlalchemy, PyYAML, python-editor, prompt-toolkit, PrettyTable, pickleshare, pexpect, pandocfilters, nbclient, mistune, Mako, jupyterlab-pygments, jedi, entrypoints, defusedxml, decorator, cmd2, bleach, backcall, tqdm, toml, scipy, py, pockets, ply, pluggy, nbconvert, joblib, ipython, iniconfig, colorlog, cmaes, cliff, alembic, sphinxcontrib-napoleon, pytest, pypandoc, plantweb, pandoc, optuna, nbsphinx, ipykernel Successfully installed Mako-1.1.3 PrettyTable-0.7.2 PyYAML-5.3.1 alembic-1.4.3 async-generator-1.10 attrs-20.3.0 backcall-0.2.0 bleach-3.2.1 cliff-3.5.0 cmaes-0.7.0 cmd2-1.4.0 colorama-0.4.4 colorlog-4.6.2 decorator-4.4.2 defusedxml-0.6.0 entrypoints-0.3 iniconfig-1.1.1 ipykernel-5.3.4 ipython-7.19.0 ipython-genutils-0.2.0 jedi-0.17.2 joblib-0.17.0 jsonschema-3.2.0 jupyter-client-6.1.7 jupyter-core-4.7.0 jupyterlab-pygments-0.1.2 mistune-0.8.4 nbclient-0.5.1 nbconvert-6.0.7 nbformat-5.0.8 nbsphinx-0.8.0 nest-asyncio-1.4.3 optuna-2.3.0 pandoc-1.0.2 pandocfilters-1.4.3 parso-0.7.1 pbr-5.5.1 pexpect-4.8.0 pickleshare-0.7.5 plantweb-1.2.1 pluggy-0.13.1 ply-3.11 pockets-0.9.1 prompt-toolkit-3.0.8 ptyprocess-0.6.0 py-1.9.0 pypandoc-1.5 pyperclip-1.8.1 pyrsistent-0.17.3 pytest-6.1.2 python-editor-1.0.4 pyzmq-20.0.0 scipy-1.5.4 sphinxcontrib-napoleon-0.7 sqlalchemy-1.3.20 stevedore-3.3.0 testpath-0.4.4 toml-0.10.2 tornado-6.1 tqdm-4.54.1 traitlets-5.0.5 wcwidth-0.2.5 webencodings-0.5.1 [rtd-command-info] start-time: 2020-12-06T22:08:57.905268Z, end-time: 2020-12-06T22:09:28.380280Z, duration: 30, exit-code: 1 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: manifest_maker: MANIFEST.in, line 5: '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/settings.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/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 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/settings.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-38.pyc byte-compiling build/bdist.linux-x86_64/egg/covasim/people.py to people.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/covasim/analysis.py to analysis.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/covasim/parameters.py to parameters.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/covasim/misc.py to misc.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/covasim/data/loaders.py to loaders.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/covasim/data/household_size_data.py to household_size_data.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/covasim/data/__init__.py to __init__.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/covasim/data/state_age_data.py to state_age_data.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/covasim/data/country_age_data.py to country_age_data.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/covasim/defaults.py to defaults.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/covasim/__init__.py to __init__.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/covasim/base.py to base.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/covasim/interventions.py to interventions.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/covasim/version.py to version.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/covasim/utils.py to utils.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/covasim/population.py to population.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/covasim/settings.py to settings.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/covasim/requirements.py to requirements.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/covasim/sim.py to sim.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/covasim/plotting.py to plotting.cpython-38.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-38: module MAY be using inspect.getouterframes covasim.__pycache__.misc.cpython-38: module references __file__ creating dist creating 'dist/covasim-2.0.0-py3.8.egg' and adding 'build/bdist.linux-x86_64/egg' to it removing 'build/bdist.linux-x86_64/egg' (and everything under it) Processing covasim-2.0.0-py3.8.egg creating /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages/covasim-2.0.0-py3.8.egg Extracting covasim-2.0.0-py3.8.egg to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages Adding covasim 2.0.0 to easy-install.pth file Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages/covasim-2.0.0-py3.8.egg Processing dependencies for covasim==2.0.0 Searching for sciris>=1.0.0 Reading https://pypi.org/simple/sciris/ Downloading https://files.pythonhosted.org/packages/4d/c6/a61bf5405a640fa42d8897b795bfb04ab1eb406e07e2d72c1b44cce6f651/sciris-1.0.0-py3-none-any.whl#sha256=42b04033ceb5ee0c09617ffa83f7bb63c511b06ecbe40b142f1c44844fd37a24 Best match: sciris 1.0.0 Processing sciris-1.0.0-py3-none-any.whl Installing sciris-1.0.0-py3-none-any.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages writing requirements to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages/sciris-1.0.0-py3.8.egg/EGG-INFO/requires.txt Adding sciris 1.0.0 to easy-install.pth file Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages/sciris-1.0.0-py3.8.egg Searching for numba Reading https://pypi.org/simple/numba/ Downloading https://files.pythonhosted.org/packages/46/e1/cbbc7c7967d9b10e54c852bf5bece0222a63bfb809d3354014c957ef1bda/numba-0.52.0.tar.gz#sha256=44661c5bd85e3d3619be0a40eedee34e397e9ccb3d4c458b70e10bf95d1ce933 Best match: numba 0.52.0 Processing numba-0.52.0.tar.gz Writing /tmp/easy_install-ilit75qs/numba-0.52.0/setup.cfg Running numba-0.52.0/setup.py -q bdist_egg --dist-dir /tmp/easy_install-ilit75qs/numba-0.52.0/egg-dist-tmp-soo5nkij TBB not found Using OpenMP from: True warning: no files found matching '*.inc' under directory 'numba' warning: no files found matching '*.ipynb' under directory 'docs' warning: no files found matching '*.py' under directory 'examples' no previously-included directories found matching 'docs/_build' no previously-included directories found matching 'docs/gh-pages' zip_safe flag not set; analyzing archive contents... numba.__pycache__._dispatcher.cpython-38: module references __file__ numba.__pycache__._dynfunc.cpython-38: module references __file__ numba.__pycache__._helperlib.cpython-38: module references __file__ numba.__pycache__.mviewbuf.cpython-38: module references __file__ numba.cext.__pycache__.__init__.cpython-38: module references __file__ numba.core.__pycache__.caching.cpython-38: module MAY be using inspect.getsource numba.core.__pycache__.decorators.cpython-38: module MAY be using inspect.stack numba.core.__pycache__.errors.cpython-38: module references __file__ numba.core.__pycache__.extending.cpython-38: module references __file__ numba.core.__pycache__.tracing.cpython-38: module MAY be using inspect.trace numba.core.annotations.__pycache__.type_annotations.cpython-38: module references __file__ numba.core.runtime.__pycache__._nrt_python.cpython-38: module references __file__ numba.core.typeconv.__pycache__._typeconv.cpython-38: module references __file__ numba.core.typing.__pycache__.templates.cpython-38: module references __file__ numba.core.typing.__pycache__.templates.cpython-38: module MAY be using inspect.getsourcefile numba.cuda.__pycache__.compiler.cpython-38: module references __file__ numba.cuda.__pycache__.compiler.cpython-38: module MAY be using inspect.getsourcefile numba.cuda.cudadrv.__pycache__._extras.cpython-38: module references __file__ numba.cuda.tests.__pycache__.__init__.cpython-38: module references __file__ numba.cuda.tests.cudadrv.__pycache__.__init__.cpython-38: module references __file__ numba.cuda.tests.cudadrv.__pycache__.test_linker.cpython-38: module references __file__ numba.cuda.tests.cudapy.__pycache__.__init__.cpython-38: module references __file__ numba.cuda.tests.cudasim.__pycache__.__init__.cpython-38: module references __file__ numba.cuda.tests.nocuda.__pycache__.__init__.cpython-38: module references __file__ numba.experimental.jitclass.__pycache__._box.cpython-38: module references __file__ numba.misc.__pycache__.gdb_hook.cpython-38: module references __file__ numba.misc.help.__pycache__.inspector.cpython-38: module references __path__ numba.np.ufunc.__pycache__._internal.cpython-38: module references __file__ numba.np.ufunc.__pycache__._num_threads.cpython-38: module references __file__ numba.np.ufunc.__pycache__.omppool.cpython-38: module references __file__ numba.np.ufunc.__pycache__.workqueue.cpython-38: module references __file__ numba.parfors.__pycache__.parfor.cpython-38: module MAY be using inspect.getsource numba.pycc.__pycache__.cc.cpython-38: module references __file__ numba.roc.tests.__pycache__.__init__.cpython-38: module references __file__ numba.roc.tests.hsadrv.__pycache__.__init__.cpython-38: module references __file__ numba.roc.tests.hsapy.__pycache__.__init__.cpython-38: module references __file__ numba.roc.tests.hsapy.__pycache__.test_large_code.cpython-38: module references __file__ numba.scripts.__pycache__.generate_lower_listing.cpython-38: module references __file__ numba.scripts.__pycache__.generate_lower_listing.cpython-38: module MAY be using inspect.getsourcefile numba.testing.__pycache__.loader.cpython-38: module references __file__ numba.testing.__pycache__.main.cpython-38: module references __file__ numba.testing.__pycache__.main.cpython-38: module MAY be using inspect.getsourcefile numba.tests.__pycache__.__init__.cpython-38: module references __file__ numba.tests.__pycache__.cffi_usecases.cpython-38: module references __file__ numba.tests.__pycache__.ctypes_usecases.cpython-38: module references __file__ numba.tests.__pycache__.support.cpython-38: module references __file__ numba.tests.__pycache__.test_cfunc.cpython-38: module references __file__ numba.tests.__pycache__.test_dispatcher.cpython-38: module references __file__ numba.tests.__pycache__.test_jit_module.cpython-38: module references __file__ numba.tests.__pycache__.test_parallel_backend.cpython-38: module references __file__ numba.tests.__pycache__.test_parfors_caching.cpython-38: module references __file__ numba.tests.__pycache__.test_pycc.cpython-38: module references __file__ numba.tests.__pycache__.test_stencils.cpython-38: module MAY be using inspect.getsource numba.tests.__pycache__.test_types.cpython-38: module references __file__ numba.tests.doc_examples.__pycache__.__init__.cpython-38: module references __file__ numba.tests.npyufunc.__pycache__.__init__.cpython-38: module references __file__ numba.tests.npyufunc.__pycache__.test_caching.cpython-38: module references __file__ creating /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages/numba-0.52.0-py3.8-linux-x86_64.egg Extracting numba-0.52.0-py3.8-linux-x86_64.egg to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages Adding numba 0.52.0 to easy-install.pth file Installing numba script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/bin Installing pycc script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/bin Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages/numba-0.52.0-py3.8-linux-x86_64.egg Searching for statsmodels Reading https://pypi.org/simple/statsmodels/ Downloading https://files.pythonhosted.org/packages/03/bf/a485c84da9b84bd571331152f8b2f5a47aa4aae07b1d0bfec06f3af02b4b/statsmodels-0.12.1-cp38-cp38-manylinux1_x86_64.whl#sha256=02679bf39d35a2aceb2d9f6d332b4e1cda1797157df792fe867b45f2a14d20d3 Best match: statsmodels 0.12.1 Processing statsmodels-0.12.1-cp38-cp38-manylinux1_x86_64.whl Installing statsmodels-0.12.1-cp38-cp38-manylinux1_x86_64.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages writing requirements to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages/statsmodels-0.12.1-py3.8-linux-x86_64.egg/EGG-INFO/requires.txt Adding statsmodels 0.12.1 to easy-install.pth file Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages/statsmodels-0.12.1-py3.8-linux-x86_64.egg Searching for xlsxwriter Reading https://pypi.org/simple/xlsxwriter/ Downloading https://files.pythonhosted.org/packages/6b/41/bf1aae04932d1eaffee1fc5f8b38ca47bbbf07d765129539bc4bcce1ce0c/XlsxWriter-1.3.7-py2.py3-none-any.whl#sha256=b807c2d3e379bf6a925f472955beef3e07495c1bac708640696876e68675b49b Best match: XlsxWriter 1.3.7 Processing XlsxWriter-1.3.7-py2.py3-none-any.whl Installing XlsxWriter-1.3.7-py2.py3-none-any.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages Adding XlsxWriter 1.3.7 to easy-install.pth file Installing vba_extract.py script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/bin Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages/XlsxWriter-1.3.7-py3.8.egg Searching for xlrd Reading https://pypi.org/simple/xlrd/ Downloading https://files.pythonhosted.org/packages/b0/16/63576a1a001752e34bf8ea62e367997530dc553b689356b9879339cf45a4/xlrd-1.2.0-py2.py3-none-any.whl#sha256=e551fb498759fa3a5384a94ccd4c3c02eb7c00ea424426e212ac0c57be9dfbde Best match: xlrd 1.2.0 Processing xlrd-1.2.0-py2.py3-none-any.whl Installing xlrd-1.2.0-py2.py3-none-any.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages Adding xlrd 1.2.0 to easy-install.pth file Installing runxlrd.py script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/bin Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages/xlrd-1.2.0-py3.8.egg Searching for psutil Reading https://pypi.org/simple/psutil/ Downloading https://files.pythonhosted.org/packages/33/e0/82d459af36bda999f82c7ea86c67610591cf5556168f48fd6509e5fa154d/psutil-5.7.3.tar.gz#sha256=af73f7bcebdc538eda9cc81d19db1db7bf26f103f91081d780bbacfcb620dee2 Best match: psutil 5.7.3 Processing psutil-5.7.3.tar.gz Writing /tmp/easy_install-h231t_7q/psutil-5.7.3/setup.cfg Running psutil-5.7.3/setup.py -q bdist_egg --dist-dir /tmp/easy_install-h231t_7q/psutil-5.7.3/egg-dist-tmp-9jujd06h creating /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages/psutil-5.7.3-py3.8-linux-x86_64.egg Extracting psutil-5.7.3-py3.8-linux-x86_64.egg to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages Adding psutil 5.7.3 to easy-install.pth file Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages/psutil-5.7.3-py3.8-linux-x86_64.egg Searching for openpyexcel>=2.5 Reading https://pypi.org/simple/openpyexcel/ Downloading https://files.pythonhosted.org/packages/32/e1/722047fae7a46b658d7fa038cf5b952fbbb150c3c8a31012e4fb76eba27d/openpyexcel-2.5.14-py2.py3-none-any.whl#sha256=f18f4efadbc25a26870885f342e14b6cd6862ca1f4b8195b394fc2681ccdbaab Best match: openpyexcel 2.5.14 Processing openpyexcel-2.5.14-py2.py3-none-any.whl Installing openpyexcel-2.5.14-py2.py3-none-any.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages writing requirements to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages/openpyexcel-2.5.14-py3.8.egg/EGG-INFO/requires.txt Adding openpyexcel 2.5.14 to easy-install.pth file Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages/openpyexcel-2.5.14-py3.8.egg Searching for multiprocess Reading https://pypi.org/simple/multiprocess/ Downloading https://files.pythonhosted.org/packages/db/20/458ac043a57322365ac2ed86a911bf7598fc2e49bccb3f94ea810fbb6b9b/multiprocess-0.70.11.1-py37-none-any.whl#sha256=164c77448e357ebee0dc6abc7ee8c823e40e295e629a5fc6d31725109a3a7ee9 Best match: multiprocess 0.70.11.1 Processing multiprocess-0.70.11.1-py37-none-any.whl Installing multiprocess-0.70.11.1-py37-none-any.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages writing requirements to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages/multiprocess-0.70.11.1-py3.8.egg/EGG-INFO/requires.txt Adding multiprocess 0.70.11.1 to easy-install.pth file Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages/multiprocess-0.70.11.1-py3.8.egg Searching for memory-profiler Reading https://pypi.org/simple/memory-profiler/ Downloading https://files.pythonhosted.org/packages/8f/fd/d92b3295657f8837e0177e7b48b32d6651436f0293af42b76d134c3bb489/memory_profiler-0.58.0.tar.gz#sha256=01385ac0fec944fcf7969814ec4406c6d8a9c66c079d09276723c5a7680f44e5 Best match: memory-profiler 0.58.0 Processing memory_profiler-0.58.0.tar.gz Writing /tmp/easy_install-hkpe178t/memory_profiler-0.58.0/setup.cfg Running memory_profiler-0.58.0/setup.py -q bdist_egg --dist-dir /tmp/easy_install-hkpe178t/memory_profiler-0.58.0/egg-dist-tmp-vbibuqdo warning: no files found matching 'mprof.bat' build/bdist.linux-x86_64/egg/mprof.py:76: SyntaxWarning: "is" with a literal. Did you mean "=="? if args is "all": zip_safe flag not set; analyzing archive contents... __pycache__.memory_profiler.cpython-38: module MAY be using inspect.getsourcefile __pycache__.memory_profiler.cpython-38: module MAY be using inspect.stack __pycache__.memory_profiler.cpython-38: module MAY be using inspect.trace creating /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages/memory_profiler-0.58.0-py3.8.egg Extracting memory_profiler-0.58.0-py3.8.egg to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages Adding memory-profiler 0.58.0 to easy-install.pth file Installing mprof script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/bin Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages/memory_profiler-0.58.0-py3.8.egg Searching for line-profiler Reading https://pypi.org/simple/line-profiler/ Downloading https://files.pythonhosted.org/packages/57/bb/090216d371e6faea7960d03cbdbcbc1b53d6d675fcaae5078a7ac5d4a437/line_profiler-3.1.0-cp38-cp38-manylinux1_x86_64.whl#sha256=a66e089e6d98ab8a70b5f89c0367c6780abad0f0b1d624dbe5edd8f0083986c7 Best match: line-profiler 3.1.0 Processing line_profiler-3.1.0-cp38-cp38-manylinux1_x86_64.whl Installing line_profiler-3.1.0-cp38-cp38-manylinux1_x86_64.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages writing requirements to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages/line_profiler-3.1.0-py3.8-linux-x86_64.egg/EGG-INFO/requires.txt Adding line-profiler 3.1.0 to easy-install.pth file Installing kernprof script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/bin Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages/line_profiler-3.1.0-py3.8-linux-x86_64.egg Searching for jsonpickle Reading https://pypi.org/simple/jsonpickle/ Downloading https://files.pythonhosted.org/packages/ee/d5/1cc282dc23346a43aab461bf2e8c36593aacd34242bee1a13fa750db0cfe/jsonpickle-1.4.2-py2.py3-none-any.whl#sha256=2ac5863099864c63d7f0c367af5e512c94f3384977dd367f2eae5f2303f7b92c Best match: jsonpickle 1.4.2 Processing jsonpickle-1.4.2-py2.py3-none-any.whl Installing jsonpickle-1.4.2-py2.py3-none-any.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages writing requirements to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages/jsonpickle-1.4.2-py3.8.egg/EGG-INFO/requires.txt Adding jsonpickle 1.4.2 to easy-install.pth file Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages/jsonpickle-1.4.2-py3.8.egg Searching for jellyfish Reading https://pypi.org/simple/jellyfish/ Downloading https://files.pythonhosted.org/packages/04/3f/d03cb056f407ef181a45569255348457b1a0915fc4eb23daeceb930a68a4/jellyfish-0.8.2.tar.gz#sha256=a499741401512d05bbd3556e448e960bc908eba3879fb73d450e8e91566a030b Best match: jellyfish 0.8.2 Processing jellyfish-0.8.2.tar.gz Writing /tmp/easy_install-fig60639/jellyfish-0.8.2/setup.cfg Running jellyfish-0.8.2/setup.py -q bdist_egg --dist-dir /tmp/easy_install-fig60639/jellyfish-0.8.2/egg-dist-tmp-_0_f68yp /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages/memory_profiler-0.58.0-py3.8.egg/mprof.py:76: SyntaxWarning: "is" with a literal. Did you mean "=="? if args is "all": warning: no previously-included files matching '.git' found anywhere in distribution cjellyfish/soundex.c: In function ‘soundex’: cjellyfish/soundex.c:8:10: warning: ‘c’ may be used uninitialized in this function [-Wmaybe-uninitialized] char c, prev; ^ cjellyfish/porter.c: In function ‘m’: cjellyfish/porter.c:127:7: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (! cons(z, i)) break; i++; ^~ cjellyfish/porter.c:127:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if (! cons(z, i)) break; i++; ^ cjellyfish/porter.c: In function ‘step4’: cjellyfish/porter.c:339:17: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (ends(z, 4, "ence")) break; return; ^~ cjellyfish/porter.c:339:48: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if (ends(z, 4, "ence")) break; return; ^~~~~~ cjellyfish/porter.c:343:17: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (ends(z, 4, "ible")) break; return; ^~ cjellyfish/porter.c:343:48: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if (ends(z, 4, "ible")) break; return; ^~~~~~ cjellyfish/porter.c:347:17: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (ends(z, 3, "ent")) break; return; ^~ cjellyfish/porter.c:347:47: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if (ends(z, 3, "ent")) break; return; ^~~~~~ cjellyfish/porter.c:349:17: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (ends(z, 2, "ou")) break; return; ^~ cjellyfish/porter.c:349:46: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if (ends(z, 2, "ou")) break; return; ^~~~~~ cjellyfish/porter.c:353:17: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (ends(z, 3, "iti")) break; return; ^~ cjellyfish/porter.c:353:47: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ if (ends(z, 3, "iti")) break; return; ^~~~~~ zip_safe flag not set; analyzing archive contents... jellyfish.__pycache__.cjellyfish.cpython-38: module references __file__ creating /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages/jellyfish-0.8.2-py3.8-linux-x86_64.egg Extracting jellyfish-0.8.2-py3.8-linux-x86_64.egg to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages Adding jellyfish 0.8.2 to easy-install.pth file Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages/jellyfish-0.8.2-py3.8-linux-x86_64.egg Searching for gitpython Reading https://pypi.org/simple/gitpython/ Downloading https://files.pythonhosted.org/packages/24/d1/a7f8fe3df258549b303415157328bfcc63e9b11d06a7ad7a3327f3d32606/GitPython-3.1.11-py3-none-any.whl#sha256=6eea89b655917b500437e9668e4a12eabdcf00229a0df1762aabd692ef9b746b Best match: GitPython 3.1.11 Processing GitPython-3.1.11-py3-none-any.whl Installing GitPython-3.1.11-py3-none-any.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages writing requirements to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages/GitPython-3.1.11-py3.8.egg/EGG-INFO/requires.txt Adding GitPython 3.1.11 to easy-install.pth file Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages/GitPython-3.1.11-py3.8.egg Searching for dill Reading https://pypi.org/simple/dill/ Downloading https://files.pythonhosted.org/packages/52/d6/79f40d230895fa1ce3b6af0d22e0ac79c65175dc069c194b79cc8e05a033/dill-0.3.3-py2.py3-none-any.whl#sha256=78370261be6ea49037ace8c17e0b7dd06d0393af6513cc23f9b222d9367ce389 Best match: dill 0.3.3 Processing dill-0.3.3-py2.py3-none-any.whl Installing dill-0.3.3-py2.py3-none-any.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages writing requirements to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages/dill-0.3.3-py3.8.egg/EGG-INFO/requires.txt Adding dill 0.3.3 to easy-install.pth file Installing undill script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/bin Installing get_objgraph script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/bin Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-covasim/envs/latest/lib/python3.8/site-packages/dill-0.3.3-py3.8.egg Searching for llvmlite<0.36,>=0.35.0 Reading https://pypi.org/simple/llvmlite/ Downloading https://files.pythonhosted.org/packages/cd/3e/631087324bd3ffaf9a9c1c9d7d6675863e41afb31c818dd700019193e6b4/llvmlite-0.35.0.tar.gz#sha256=80e51d5aa02ad72da9870e89d21f9b152b0220ca551b4596a6c0614bcde336fc Best match: llvmlite 0.35.0 Processing llvmlite-0.35.0.tar.gz Writing /tmp/easy_install-og72eupw/llvmlite-0.35.0/setup.cfg Running llvmlite-0.35.0/setup.py -q bdist_egg --dist-dir /tmp/easy_install-og72eupw/llvmlite-0.35.0/egg-dist-tmp-vj99s9ih error: Setup script exited with setup.py disabled on readthedocs: called with ['/tmp/easy_install-og72eupw/llvmlite-0.35.0/setup.py', '-q', 'bdist_egg', '--dist-dir', '/tmp/easy_install-og72eupw/llvmlite-0.35.0/egg-dist-tmp-vj99s9ih']