Read the Docs build information
Build id: 508724
Project: institute-for-disease-modeling-emodpy-malaria
Version: latest
Commit: 1d4a136e95ac7a6719d1aabf65b9f61896699547
Date: 2020-12-15T23:17:45.293853Z
State: finished
Success: False


[rtd-command-info] start-time: 2020-12-15T23:17:46.990471Z, end-time: 2020-12-15T23:17:47.624176Z, duration: 0, exit-code: 0
git clone --no-single-branch --depth 50 git@github.com:InstituteforDiseaseModeling/emodpy-malaria.git .
Cloning into '.'...
Warning: Permanently added 'github.com,192.30.255.113' (RSA) to the list of known hosts.

[rtd-command-info] start-time: 2020-12-15T23:17:47.927852Z, end-time: 2020-12-15T23:17:47.996066Z, duration: 0, exit-code: 0
git checkout --force origin/main
Note: checking out 'origin/main'.

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 1d4a136 Bump version: 0.0.7 → 0.0.8

[rtd-command-info] start-time: 2020-12-15T23:17:48.155305Z, end-time: 2020-12-15T23:17:48.205209Z, duration: 0, exit-code: 0
git clean -d -f -f


[rtd-command-info] start-time: 2020-12-15T23:17:49.382562Z, end-time: 2020-12-15T23:17:54.241760Z, duration: 4, exit-code: 0
python3.7 -mvirtualenv 
Using base prefix '/home/docs/.pyenv/versions/3.7.9'
New python executable in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/bin/python3.7
Also creating executable in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/bin/python
Installing setuptools, pip, wheel...
done.

[rtd-command-info] start-time: 2020-12-15T23:17:54.445105Z, end-time: 2020-12-15T23:17:57.308113Z, duration: 2, exit-code: 0
python -m pip install --upgrade --no-cache-dir pip
Looking in indexes: https://pypi.org/simple, https://packages.idmod.org/artifactory/api/pypi/pypi-production/simple
Requirement already satisfied: pip in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.7/site-packages (20.3.3)

[rtd-command-info] start-time: 2020-12-15T23:17:57.490409Z, end-time: 2020-12-15T23:18:26.545031Z, duration: 29, exit-code: 2
python -m pip install --upgrade --no-cache-dir 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
Looking in indexes: https://pypi.org/simple, https://packages.idmod.org/artifactory/api/pypi/pypi-production/simple
Collecting commonmark==0.8.1
  Downloading https://packages.idmod.org/artifactory/api/pypi/pypi-production/packages/packages/ab/ca/439c88039583a29564a0043186875258e9a4f041fb5c422cd387b8e10175/commonmark-0.8.1-py2.py3-none-any.whl (47 kB)
Collecting docutils==0.14
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Collecting mock==1.0.1
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Collecting pillow==5.4.1
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Collecting recommonmark==0.5.0
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Collecting alabaster!=0.7.5,<0.8,>=0.7
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Collecting sphinx-rtd-theme<0.5
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Collecting babel!=2.0,>=1.3
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Collecting Jinja2>=2.9
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Collecting MarkupSafe>=0.23
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Collecting Pygments>=2.0
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Collecting pytz>=2015.7
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Collecting requests
  Downloading https://packages.idmod.org/artifactory/api/pypi/pypi-production/packages/packages/39/fc/f91eac5a39a65f75a7adb58eac7fa78871ea9872283fb9c44e6545998134/requests-2.25.0-py2.py3-none-any.whl (61 kB)
Collecting certifi>=2017.4.17
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Collecting chardet<4,>=3.0.2
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Collecting idna<3,>=2.5
  Downloading https://packages.idmod.org/artifactory/api/pypi/pypi-production/packages/packages/a2/38/928ddce2273eaa564f6f50de919327bf3a00f091b5baba8dfa9460f3a8a8/idna-2.10-py2.py3-none-any.whl (58 kB)
Collecting snowballstemmer>=1.1
  Downloading https://packages.idmod.org/artifactory/api/pypi/pypi-production/packages/packages/7d/4b/cdf1113a0e88b641893b814e9c36f69a6fda28cd88b62c7f0d858cde3166/snowballstemmer-2.0.0-py2.py3-none-any.whl (97 kB)
Collecting urllib3<1.27,>=1.21.1
  Downloading https://packages.idmod.org/artifactory/api/pypi/pypi-production/packages/packages/f5/71/45d36a8df68f3ebb098d6861b2c017f3d094538c0fb98fa61d4dc43e69b9/urllib3-1.26.2-py2.py3-none-any.whl (136 kB)
Collecting future
  Downloading https://packages.idmod.org/artifactory/api/pypi/pypi-production/packages/packages/45/0b/38b06fd9b92dc2b68d58b75f900e97884c45bedd2ff83203d933cf5851c9/future-0.18.2.tar.gz (829 kB)
Collecting imagesize
  Downloading https://packages.idmod.org/artifactory/api/pypi/pypi-production/packages/packages/31/b2/b5522a0c8d11e4aff83f8342f3f0dea68c2fb25aa44403e420587f0ce204/imagesize-1.2.0-py2.py3-none-any.whl (4.8 kB)
Collecting packaging
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Collecting pyparsing>=2.0.2
  Downloading https://packages.idmod.org/artifactory/api/pypi/pypi-production/packages/packages/8a/bb/488841f56197b13700afd5658fc279a2025a39e22449b7cf29864669b15d/pyparsing-2.4.7-py2.py3-none-any.whl (67 kB)
Collecting sphinxcontrib-websupport
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Collecting sphinxcontrib-serializinghtml
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Collecting setuptools==41.0.1
  Downloading https://packages.idmod.org/artifactory/api/pypi/pypi-production/packages/packages/ec/51/f45cea425fd5cb0b0380f5b0f048ebc1da5b417e48d304838c02d6288a1e/setuptools-41.0.1-py2.py3-none-any.whl (575 kB)
ERROR: Exception:
Traceback (most recent call last):
  File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.7/site-packages/pip/_vendor/urllib3/response.py", line 438, in _error_catcher
    yield
  File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.7/site-packages/pip/_vendor/urllib3/response.py", line 519, in read
    data = self._fp.read(amt) if not fp_closed else b""
  File "/home/docs/.pyenv/versions/3.7.9/lib/python3.7/http/client.py", line 461, in read
    n = self.readinto(b)
  File "/home/docs/.pyenv/versions/3.7.9/lib/python3.7/http/client.py", line 505, in readinto
    n = self.fp.readinto(b)
  File "/home/docs/.pyenv/versions/3.7.9/lib/python3.7/socket.py", line 589, in readinto
    return self._sock.recv_into(b)
  File "/home/docs/.pyenv/versions/3.7.9/lib/python3.7/ssl.py", line 1071, in recv_into
    return self.read(nbytes, buffer)
  File "/home/docs/.pyenv/versions/3.7.9/lib/python3.7/ssl.py", line 929, in read
    return self._sslobj.read(len, buffer)
socket.timeout: The read operation timed out

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
  File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.7/site-packages/pip/_internal/cli/base_command.py", line 224, in _main
    status = self.run(options, args)
  File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.7/site-packages/pip/_internal/cli/req_command.py", line 180, in wrapper
    return func(self, options, args)
  File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.7/site-packages/pip/_internal/commands/install.py", line 321, in run
    reqs, check_supported_wheels=not options.target_dir
  File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.7/site-packages/pip/_internal/resolution/resolvelib/resolver.py", line 122, in resolve
    requirements, max_rounds=try_to_avoid_resolution_too_deep,
  File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.7/site-packages/pip/_vendor/resolvelib/resolvers.py", line 445, in resolve
    state = resolution.resolve(requirements, max_rounds=max_rounds)
  File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.7/site-packages/pip/_vendor/resolvelib/resolvers.py", line 339, in resolve
    failure_causes = self._attempt_to_pin_criterion(name, criterion)
  File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.7/site-packages/pip/_vendor/resolvelib/resolvers.py", line 207, in _attempt_to_pin_criterion
    criteria = self._get_criteria_to_update(candidate)
  File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.7/site-packages/pip/_vendor/resolvelib/resolvers.py", line 198, in _get_criteria_to_update
    for r in self._p.get_dependencies(candidate):
  File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.7/site-packages/pip/_internal/resolution/resolvelib/provider.py", line 172, in get_dependencies
    for r in candidate.iter_dependencies(with_requires)
  File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.7/site-packages/pip/_internal/resolution/resolvelib/provider.py", line 171, in <listcomp>
    r
  File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.7/site-packages/pip/_internal/resolution/resolvelib/candidates.py", line 257, in iter_dependencies
    requires = self.dist.requires() if with_requires else ()
  File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.7/site-packages/pip/_internal/resolution/resolvelib/candidates.py", line 239, in dist
    self._prepare()
  File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.7/site-packages/pip/_internal/resolution/resolvelib/candidates.py", line 226, in _prepare
    dist = self._prepare_distribution()
  File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.7/site-packages/pip/_internal/resolution/resolvelib/candidates.py", line 319, in _prepare_distribution
    self._ireq, parallel_builds=True,
  File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.7/site-packages/pip/_internal/operations/prepare.py", line 480, in prepare_linked_requirement
    return self._prepare_linked_requirement(req, parallel_builds)
  File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.7/site-packages/pip/_internal/operations/prepare.py", line 505, in _prepare_linked_requirement
    self.download_dir, hashes,
  File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.7/site-packages/pip/_internal/operations/prepare.py", line 257, in unpack_url
    hashes=hashes,
  File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.7/site-packages/pip/_internal/operations/prepare.py", line 130, in get_http_url
    from_path, content_type = download(link, temp_dir.path)
  File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.7/site-packages/pip/_internal/network/download.py", line 163, in __call__
    for chunk in chunks:
  File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.7/site-packages/pip/_internal/cli/progress_bars.py", line 168, in iter
    for x in it:
  File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.7/site-packages/pip/_internal/network/utils.py", line 88, in response_chunks
    decode_content=False,
  File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.7/site-packages/pip/_vendor/urllib3/response.py", line 576, in stream
    data = self.read(amt=amt, decode_content=decode_content)
  File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.7/site-packages/pip/_vendor/urllib3/response.py", line 541, in read
    raise IncompleteRead(self._fp_bytes_read, self.length_remaining)
  File "/home/docs/.pyenv/versions/3.7.9/lib/python3.7/contextlib.py", line 130, in __exit__
    self.gen.throw(type, value, traceback)
  File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.7/site-packages/pip/_vendor/urllib3/response.py", line 443, in _error_catcher
    raise ReadTimeoutError(self._pool, None, "Read timed out.")
pip._vendor.urllib3.exceptions.ReadTimeoutError: HTTPSConnectionPool(host='packages.idmod.org', port=443): Read timed out.