Read the Docs build information
Build id: 757280
Project: cyverse-data-store-guide
Version: latest
Commit: f3b031e9ffbf22863a554a801f796b0ef2d75cc0
Date: 2021-10-27T15:19:14.243237Z
State: finished
Success: False


[rtd-command-info] start-time: 2021-10-27T15:19:16.143171Z, end-time: 2021-10-27T15:19:17.161583Z, duration: 1, exit-code: 0
git clone --no-single-branch --depth 50 https://github.com/CyVerse-learning-materials/data_store_guide.git .
Cloning into '.'...

[rtd-command-info] start-time: 2021-10-27T15:19:17.301796Z, end-time: 2021-10-27T15:19:17.408243Z, 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 <new-branch-name>

HEAD is now at f3b031e update

[rtd-command-info] start-time: 2021-10-27T15:19:17.542043Z, end-time: 2021-10-27T15:19:17.609019Z, duration: 0, exit-code: 0
git clean -d -f -f


[rtd-command-info] start-time: 2021-10-27T15:19:18.835078Z, end-time: 2021-10-27T15:19:23.152882Z, duration: 4, exit-code: 0
python2.7 -mvirtualenv 
New python executable in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-data-store-guide/envs/latest/bin/python2.7
Also creating executable in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-data-store-guide/envs/latest/bin/python
Installing setuptools, pip, wheel...
done.

[rtd-command-info] start-time: 2021-10-27T15:19:23.267654Z, end-time: 2021-10-27T15:19:24.948591Z, duration: 1, exit-code: 0
python -m pip install --upgrade --no-cache-dir pip setuptools
DEPRECATION: Python 2.7 reached the end of its life on January 1st, 2020. Please upgrade your Python as Python 2.7 is no longer maintained. pip 21.0 will drop support for Python 2.7 in January 2021. More details about Python 2 support in pip can be found at https://pip.pypa.io/en/latest/development/release-process/#python-2-support pip 21.0 will remove support for this functionality.
Requirement already up-to-date: pip in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-data-store-guide/envs/latest/lib/python2.7/site-packages (20.3.4)
Requirement already up-to-date: setuptools in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-data-store-guide/envs/latest/lib/python2.7/site-packages (44.1.1)

[rtd-command-info] start-time: 2021-10-27T15:19:25.072599Z, end-time: 2021-10-27T15:19:33.251560Z, duration: 8, exit-code: 0
python -m pip install --upgrade --no-cache-dir 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<2.2
DEPRECATION: Python 2.7 reached the end of its life on January 1st, 2020. Please upgrade your Python as Python 2.7 is no longer maintained. pip 21.0 will drop support for Python 2.7 in January 2021. More details about Python 2 support in pip can be found at https://pip.pypa.io/en/latest/development/release-process/#python-2-support pip 21.0 will remove support for this functionality.
Collecting mock==1.0.1
  Downloading mock-1.0.1.tar.gz (818 kB)
Collecting pillow==5.4.1
  Downloading Pillow-5.4.1-cp27-cp27mu-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<2.2
  Downloading readthedocs_sphinx_ext-2.1.4-py2.py3-none-any.whl (29 kB)
Collecting future
  Downloading future-0.18.2.tar.gz (829 kB)
Collecting docutils>=0.11
  Downloading docutils-0.18-py2.py3-none-any.whl (569 kB)
Collecting imagesize
  Downloading imagesize-1.2.0-py2.py3-none-any.whl (4.8 kB)
Collecting typing; python_version < "3.5"
  Downloading typing-3.10.0.0-py2-none-any.whl (26 kB)
Collecting Pygments>=2.0
  Downloading Pygments-2.5.2-py2.py3-none-any.whl (896 kB)
Collecting Jinja2>=2.3
  Downloading Jinja2-2.11.3-py2.py3-none-any.whl (125 kB)
Collecting packaging
  Downloading packaging-20.9-py2.py3-none-any.whl (40 kB)
Collecting snowballstemmer>=1.1
  Downloading snowballstemmer-2.1.0-py2.py3-none-any.whl (93 kB)
Requirement already satisfied, skipping upgrade: setuptools in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-data-store-guide/envs/latest/lib/python2.7/site-packages (from sphinx<2) (44.1.1)
Collecting babel!=2.0,>=1.3
  Downloading Babel-2.9.1-py2.py3-none-any.whl (8.8 MB)
Collecting six>=1.5
  Downloading six-1.16.0-py2.py3-none-any.whl (11 kB)
Collecting requests>=2.0.0
  Downloading requests-2.26.0-py2.py3-none-any.whl (62 kB)
Collecting sphinxcontrib-websupport
  Downloading sphinxcontrib_websupport-1.1.2-py2.py3-none-any.whl (39 kB)
Collecting MarkupSafe>=0.23
  Downloading MarkupSafe-1.1.1-cp27-cp27mu-manylinux1_x86_64.whl (24 kB)
Collecting pyparsing>=2.0.2
  Downloading pyparsing-2.4.7-py2.py3-none-any.whl (67 kB)
Collecting pytz>=2015.7
  Downloading pytz-2021.3-py2.py3-none-any.whl (503 kB)
Collecting certifi>=2017.4.17
  Downloading certifi-2021.10.8-py2.py3-none-any.whl (149 kB)
Collecting urllib3<1.27,>=1.21.1
  Downloading urllib3-1.26.7-py2.py3-none-any.whl (138 kB)
Collecting chardet<5,>=3.0.2; python_version < "3"
  Downloading chardet-4.0.0-py2.py3-none-any.whl (178 kB)
Collecting idna<3,>=2.5; python_version < "3"
  Downloading idna-2.10-py2.py3-none-any.whl (58 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-py2-none-any.whl size=23754 sha256=6d7cc9714b9c6901bd2b7e4c4221af10bc4691f284dba49882788cabab3f17b0
  Stored in directory: /tmp/pip-ephem-wheel-cache-dZ7DGr/wheels/ad/62/e0/a06cc957652749e64c7904e899eca3ecb2ec47c60d52653660
  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-py2-none-any.whl size=502567 sha256=6b25fc405da496854bcb8c84a59ff271272a74ac88013392a9e4827599d8b710
  Stored in directory: /tmp/pip-ephem-wheel-cache-dZ7DGr/wheels/5f/11/0c/aad680baf5ef4fbcbab992c9f03e1130357e0c173a4fdabfff
Successfully built mock future
Installing collected packages: mock, pillow, alabaster, future, commonmark, imagesize, typing, Pygments, docutils, MarkupSafe, Jinja2, pyparsing, packaging, snowballstemmer, pytz, babel, six, certifi, urllib3, chardet, idna, requests, sphinxcontrib-websupport, sphinx, recommonmark, sphinx-rtd-theme, readthedocs-sphinx-ext
Successfully installed Jinja2-2.11.3 MarkupSafe-1.1.1 Pygments-2.5.2 alabaster-0.7.12 babel-2.9.1 certifi-2021.10.8 chardet-4.0.0 commonmark-0.8.1 docutils-0.18 future-0.18.2 idna-2.10 imagesize-1.2.0 mock-1.0.1 packaging-20.9 pillow-5.4.1 pyparsing-2.4.7 pytz-2021.3 readthedocs-sphinx-ext-2.1.4 recommonmark-0.5.0 requests-2.26.0 six-1.16.0 snowballstemmer-2.1.0 sphinx-1.8.5 sphinx-rtd-theme-0.4.3 sphinxcontrib-websupport-1.1.2 typing-3.10.0.0 urllib3-1.26.7

[rtd-command-info] start-time: 2021-10-27T15:19:34.167158Z, end-time: 2021-10-27T15:19:34.235662Z, duration: 0, exit-code: 0
cat conf.py
#!/usr/bin/env python3
# -*- coding: utf-8 -*-
#
# General information about the project.

import sys
import os
sys.path.insert(0, os.path.dirname(__file__))

from misc.cyverse_sphinx_conf import *  # noqa

project = 'Data Store Guide'
copyright = '2017, CyVerse'
author = 'CyVerse'
version = '1.0'
release = '1.0'

epub_title = project
epub_author = author
epub_publisher = author
epub_copyright = copyright




###########################################################################
#          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
#
# Note: this file shouldn't rely on extra dependencies.

import importlib
import sys
import os.path

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

from sphinx import version_info

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

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

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

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


#Add project information to the template context.
context = {
    'using_theme': using_rtd_theme,
    'html_theme': html_theme,
    'current_version': "latest",
    'version_slug': "latest",
    'MEDIA_URL': "https://media.readthedocs.com/media/",
    'STATIC_URL': "https://assets.readthedocs.com/",
    'PRODUCTION_DOMAIN': "readthedocs.com",
    'versions': [
    ("latest", "/en/latest/"),
    ],
    'downloads': [ 
    ("html", "//learning.cyverse.org/_/downloads/data_store_guide/en/latest/htmlzip/"),
    ],
    'subprojects': [ 
    ],
    'slug': 'cyverse-data-store-guide',
    'name': u'data_store_guide',
    'rtd_language': u'en',
    'programming_language': u'words',
    'canonical_url': 'https://learning.cyverse.org/projects/data_store_guide/en/latest/',
    'analytics_code': 'UA-72224033-6',
    'single_version': False,
    'conf_py_path': '/',
    'api_host': 'https://readthedocs.com',
    'github_user': 'CyVerse-learning-materials',
    'proxied_api_host': '/_',
    'github_repo': 'data_store_guide',
    'github_version': 'master',
    'display_github': True,
    'bitbucket_user': 'None',
    'bitbucket_repo': 'None',
    'bitbucket_version': 'master',
    'display_bitbucket': False,
    'gitlab_user': 'None',
    'gitlab_repo': 'None',
    'gitlab_version': 'master',
    '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-72224033-6',
    'global_analytics_code': 'UA-17997319-2',
    'commit': 'f3b031e9',
}

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





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

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

# Add External version warning banner to the external version documentation
if 'branch' == 'external':
    extensions.insert(1, "readthedocs_ext.external_version_warning")
    readthedocs_vcs_url = 'None'
    readthedocs_build_url = 'https://readthedocs.com/projects/cyverse-data-store-guide/builds/757280/'

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: 2021-10-27T15:19:34.365969Z, end-time: 2021-10-27T15:19:35.214352Z, duration: 0, exit-code: 2
python -m sphinx -T -E -b html -d _build/doctrees -D language=en . _build/html
Running Sphinx v1.8.5
loading translations [en]... done
making output directory...
building [mo]: targets for 0 po files that are out of date
building [html]: targets for 11 source files that are out of date
updating environment: 11 added, 0 changed, 0 removed
reading sources... [  9%] .github/ISSUE_TEMPLATE/triage-for-2-0-release
/home/docs/checkouts/readthedocs.org/user_builds/cyverse-data-store-guide/envs/latest/lib/python2.7/site-packages/recommonmark/parser.py:65: UserWarning: Container node skipped: type=document
  warn("Container node skipped: type={0}".format(mdnode.t))
reading sources... [ 18%] Contributors_maintainers
reading sources... [ 27%] License
reading sources... [ 36%] README
reading sources... [ 45%] index
reading sources... [ 54%] slides/README
reading sources... [ 63%] step1
reading sources... [ 72%] step2
reading sources... [ 81%] step3
/home/docs/checkouts/readthedocs.org/user_builds/cyverse-data-store-guide/checkouts/latest/.github/ISSUE_TEMPLATE/triage-for-2-0-release.md:0: WARNING: Document or section may not begin with a transition.
/home/docs/checkouts/readthedocs.org/user_builds/cyverse-data-store-guide/checkouts/latest/step2.rst:48: WARNING: Cannot analyze code. No Pygments lexer found for "base".
/home/docs/checkouts/readthedocs.org/user_builds/cyverse-data-store-guide/checkouts/latest/step2.rst:65: WARNING: Title underline too short.

**iCommands Installation for Mac OS X**
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/home/docs/checkouts/readthedocs.org/user_builds/cyverse-data-store-guide/checkouts/latest/step2.rst:65: WARNING: Title underline too short.

**iCommands Installation for Mac OS X**
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Traceback (most recent call last):
  File "/home/docs/checkouts/readthedocs.org/user_builds/cyverse-data-store-guide/envs/latest/lib/python2.7/site-packages/sphinx/cmd/build.py", line 304, in build_main
    app.build(args.force_all, filenames)
  File "/home/docs/checkouts/readthedocs.org/user_builds/cyverse-data-store-guide/envs/latest/lib/python2.7/site-packages/sphinx/application.py", line 341, in build
    self.builder.build_update()
  File "/home/docs/checkouts/readthedocs.org/user_builds/cyverse-data-store-guide/envs/latest/lib/python2.7/site-packages/sphinx/builders/__init__.py", line 347, in build_update
    len(to_build))
  File "/home/docs/checkouts/readthedocs.org/user_builds/cyverse-data-store-guide/envs/latest/lib/python2.7/site-packages/sphinx/builders/__init__.py", line 360, in build
    updated_docnames = set(self.read())
  File "/home/docs/checkouts/readthedocs.org/user_builds/cyverse-data-store-guide/envs/latest/lib/python2.7/site-packages/sphinx/builders/__init__.py", line 468, in read
    self._read_serial(docnames)
  File "/home/docs/checkouts/readthedocs.org/user_builds/cyverse-data-store-guide/envs/latest/lib/python2.7/site-packages/sphinx/builders/__init__.py", line 490, in _read_serial
    self.read_doc(docname)
  File "/home/docs/checkouts/readthedocs.org/user_builds/cyverse-data-store-guide/envs/latest/lib/python2.7/site-packages/sphinx/builders/__init__.py", line 534, in read_doc
    doctree = read_doc(self.app, self.env, self.env.doc2path(docname))
  File "/home/docs/checkouts/readthedocs.org/user_builds/cyverse-data-store-guide/envs/latest/lib/python2.7/site-packages/sphinx/io.py", line 318, in read_doc
    pub.publish()
  File "/home/docs/checkouts/readthedocs.org/user_builds/cyverse-data-store-guide/envs/latest/lib/python2.7/site-packages/docutils/core.py", line 219, in publish
    self.apply_transforms()
  File "/home/docs/checkouts/readthedocs.org/user_builds/cyverse-data-store-guide/envs/latest/lib/python2.7/site-packages/docutils/core.py", line 200, in apply_transforms
    self.document.transformer.apply_transforms()
  File "/home/docs/checkouts/readthedocs.org/user_builds/cyverse-data-store-guide/envs/latest/lib/python2.7/site-packages/sphinx/transforms/__init__.py", line 90, in apply_transforms
    Transformer.apply_transforms(self)
  File "/home/docs/checkouts/readthedocs.org/user_builds/cyverse-data-store-guide/envs/latest/lib/python2.7/site-packages/docutils/transforms/__init__.py", line 171, in apply_transforms
    transform.apply(**kwargs)
  File "/home/docs/checkouts/readthedocs.org/user_builds/cyverse-data-store-guide/envs/latest/lib/python2.7/site-packages/sphinx/transforms/__init__.py", line 245, in apply
    apply_source_workaround(n)
  File "/home/docs/checkouts/readthedocs.org/user_builds/cyverse-data-store-guide/envs/latest/lib/python2.7/site-packages/sphinx/util/nodes.py", line 94, in apply_source_workaround
    for classifier in reversed(node.parent.traverse(nodes.classifier)):
TypeError: argument to reversed() must be a sequence

Exception occurred:
  File "/home/docs/checkouts/readthedocs.org/user_builds/cyverse-data-store-guide/envs/latest/lib/python2.7/site-packages/sphinx/util/nodes.py", line 94, in apply_source_workaround
    for classifier in reversed(node.parent.traverse(nodes.classifier)):
TypeError: argument to reversed() must be a sequence
The full traceback has been saved in /tmp/sphinx-err-COPvjc.log, if you want to report the issue to the developers.
Please also report this if it was a user error, so that a better error message can be provided next time.
A bug report can be filed in the tracker at <https://github.com/sphinx-doc/sphinx/issues>. Thanks!