Read the Docs build information
Build id: 1393753
Project: cyverse-learning-materials-home
Version: latest
Commit: 39bc686a62e014c99aa8b03ccce9559abb285714
Date: 2023-04-04T20:18:12.253606Z
State: cancelled
Success: False


[rtd-command-info] start-time: 2023-04-04T20:18:14.199551Z, end-time: 2023-04-04T20:18:17.645485Z, duration: 3, exit-code: 0
git clone --no-single-branch --depth 50 https://github.com/CyVerse-learning-materials/learning-materials-home.git .
Cloning into '.'...

[rtd-command-info] start-time: 2023-04-04T20:18:17.846795Z, end-time: 2023-04-04T20:18:18.358038Z, duration: 0, exit-code: 0
git checkout --force origin/main
Note: switching to '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 switching back to a branch.

If you want to create a new branch to retain commits you create, you may
do so (now or later) by using -c with the switch command. Example:

  git switch -c <new-branch-name>

Or undo this operation with:

  git switch -

Turn off this advice by setting config variable advice.detachedHead to false

HEAD is now at 39bc686 Delete share_dav.png

[rtd-command-info] start-time: 2023-04-04T20:18:18.570781Z, end-time: 2023-04-04T20:18:18.640343Z, duration: 0, exit-code: 0
git clean -d -f -f


[rtd-command-info] start-time: 2023-04-04T20:18:19.816012Z, end-time: 2023-04-04T20:18:23.344019Z, duration: 3, exit-code: 0
python2.7 -mvirtualenv $READTHEDOCS_VIRTUALENV_PATH
New python executable in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-learning-materials-home/envs/latest/bin/python2.7
Also creating executable in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-learning-materials-home/envs/latest/bin/python
Installing setuptools, pip, wheel...
done.

[rtd-command-info] start-time: 2023-04-04T20:18:23.541839Z, end-time: 2023-04-04T20:18:25.391276Z, duration: 1, exit-code: 0
python -m pip install --upgrade --no-cache-dir pip setuptools<58.3.0
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 Please upgrade your Python as Python 2.7 is no longer maintained.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-learning-materials-home/envs/latest/lib/python2.7/site-packages (20.3.4)
Requirement already up-to-date: setuptools<58.3.0 in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-learning-materials-home/envs/latest/lib/python2.7/site-packages (44.1.1)

[rtd-command-info] start-time: 2023-04-04T20:18:25.587298Z, end-time: 2023-04-04T20:18:34.582941Z, duration: 8, exit-code: 0
python -m pip install --upgrade --no-cache-dir pillow mock==1.0.1 alabaster>=0.7,<0.8,!=0.7.5 commonmark==0.9.1 recommonmark==0.5.0 sphinx<2 sphinx-rtd-theme<0.5 readthedocs-sphinx-ext<2.3 jinja2<3.1.0
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 pillow
  Downloading Pillow-6.2.2-cp27-cp27mu-manylinux1_x86_64.whl (2.1 MB)
Collecting mock==1.0.1
  Downloading mock-1.0.1.tar.gz (818 kB)
Collecting alabaster!=0.7.5,<0.8,>=0.7
  Downloading alabaster-0.7.12-py2.py3-none-any.whl (14 kB)
Collecting commonmark==0.9.1
  Downloading commonmark-0.9.1-py2.py3-none-any.whl (51 kB)
Collecting recommonmark==0.5.0
  Downloading recommonmark-0.5.0-py2.py3-none-any.whl (9.8 kB)
Collecting sphinx<2
  Downloading Sphinx-1.8.6-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<2.3
  Downloading readthedocs_sphinx_ext-2.2.0-py2.py3-none-any.whl (11 kB)
Collecting jinja2<3.1.0
  Downloading Jinja2-2.11.3-py2.py3-none-any.whl (125 kB)
Collecting future>=0.14.0; python_version < "3"
  Downloading future-0.18.3.tar.gz (840 kB)
Collecting docutils>=0.11
  Downloading docutils-0.18.1-py2.py3-none-any.whl (570 kB)
Collecting imagesize
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Collecting typing; python_version < "3.5"
  Downloading typing-3.10.0.0-py2-none-any.whl (26 kB)
Collecting Pygments>=2.0
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Collecting packaging
  Downloading packaging-20.9-py2.py3-none-any.whl (40 kB)
Collecting snowballstemmer>=1.1
  Downloading snowballstemmer-2.2.0-py2.py3-none-any.whl (93 kB)
Requirement already satisfied, skipping upgrade: setuptools in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-learning-materials-home/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-2.27.1-py2.py3-none-any.whl (63 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-2023.3-py2.py3-none-any.whl (502 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 urllib3-1.26.15-py2.py3-none-any.whl (140 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=92ef55c739c7092267067d3874a68d77ff8ed55225a962c1877bf59bbf901db5
  Stored in directory: /tmp/pip-ephem-wheel-cache-N_o1jh/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-0.18.3-py2-none-any.whl size=503537 sha256=f917a9e6b422b9146b28903b2f25e3eeacfc28dd3f44d21c8b0a8a05a8ca9c25
  Stored in directory: /tmp/pip-ephem-wheel-cache-N_o1jh/wheels/f4/cf/68/6299b44fe0ce2dcccb3e9de34443da085c6da93a204ef3130f
Successfully built mock future
Installing collected packages: pillow, mock, alabaster, future, commonmark, imagesize, typing, Pygments, MarkupSafe, jinja2, docutils, pyparsing, packaging, snowballstemmer, pytz, babel, six, certifi, urllib3, chardet, idna, requests, sphinxcontrib-websupport, sphinx, recommonmark, sphinx-rtd-theme, readthedocs-sphinx-ext
ERROR: pip's legacy dependency resolver does not consider dependency conflicts when selecting packages. This behaviour is the source of the following dependency conflicts.
sphinx 1.8.6 requires docutils<0.18,>=0.11, but you'll have docutils 0.18.1 which is incompatible.
Successfully installed 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-0.9.1 docutils-0.18.1 future-0.18.3 idna-2.10 imagesize-1.4.1 jinja2-2.11.3 mock-1.0.1 packaging-20.9 pillow-6.2.2 pyparsing-2.4.7 pytz-2023.3 readthedocs-sphinx-ext-2.2.0 recommonmark-0.5.0 requests-2.27.1 six-1.16.0 snowballstemmer-2.2.0 sphinx-1.8.6 sphinx-rtd-theme-0.4.3 sphinxcontrib-websupport-1.1.2 typing-3.10.0.0 urllib3-1.26.15

[rtd-command-info] start-time: 2023-04-04T20:18:36.570198Z, end-time: 2023-04-04T20:18:36.633490Z, duration: 0, exit-code: 0
cat docs/conf.py
# -*- coding: utf-8 -*-

from __future__ import division, print_function, unicode_literals

from datetime import datetime

from recommonmark.parser import CommonMarkParser

extensions = []
templates_path = ['templates', '_templates', '.templates']
source_suffix = ['.rst', '.md']
source_parsers = {
            '.md': CommonMarkParser,
        }
master_doc = 'index'
project = u'learning-materials-home'
copyright = str(datetime.now().year)
version = 'latest'
release = 'latest'
exclude_patterns = ['_build']
pygments_style = 'sphinx'
htmlhelp_basename = 'cyverse-learning-materials-home'
html_theme = 'sphinx_rtd_theme'
file_insertion_enabled = False
latex_documents = [
  ('index', 'cyverse-learning-materials-home.tex', u'learning-materials-home Documentation',
   u'', 'manual'),
]




###########################################################################
#          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/main/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:
    html_theme = 'sphinx_rtd_theme'
    html_style = None
    html_theme_options = {}


# This following legacy behavior will gradually be sliced out until its deprecated and removed.
# Skipped for Sphinx 6+
# Skipped by internal Feature flag SKIP_SPHINX_HTML_THEME_PATH
# Skipped by all new projects since SKIP_SPHINX_HTML_THEME_PATH's introduction (jan 2023)
if (
        using_rtd_theme
        and version_info < (6,0)
        and not False
    ):
    theme = importlib.import_module('sphinx_rtd_theme')
    if 'html_theme_path' in globals():
        html_theme_path.append(theme.get_html_theme_path())
    else:
        html_theme_path = [theme.get_html_theme_path()]

# Define websupport2_base_url and websupport2_static_url
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",
    'proxied_static_path': "/_/static/",
    'versions': [
    ("latest", "/en/latest/"),
    ],
    'downloads': [ 
    ("html", "//cyverse-learning-materials-home.readthedocs-hosted.com/_/downloads/en/latest/htmlzip/"),
    ],
    'subprojects': [ 
        ("cyverse-discovery-environment-guide", "https://cyverse-learning-materials-home.readthedocs-hosted.com/projects/discovery-environment-guide/en/latest/"),
        ("cyverse-account-creation-quickstart", "https://cyverse-learning-materials-home.readthedocs-hosted.com/projects/cyverse-account-creation-quickstart/en/latest/"),
        ("cyverse-importing-sradata-quickstart", "https://cyverse-learning-materials-home.readthedocs-hosted.com/projects/cyverse-importing-sradata-quickstart/en/latest/"),
        ("cyverse-dnasubway-guide", "https://cyverse-learning-materials-home.readthedocs-hosted.com/projects/dnasubway_guide/en/latest/"),
        ("cyverse-documentation-quickstart", "https://cyverse-learning-materials-home.readthedocs-hosted.com/projects/Documentation-Quickstart/en/latest/"),
        ("cyverse-group-project-quickstart", "https://cyverse-learning-materials-home.readthedocs-hosted.com/projects/cyverse-group-project-quickstart/en/latest/"),
        ("cyverse-creating-docker-containers-quickstart", "https://cyverse-learning-materials-home.readthedocs-hosted.com/projects/cyverse-creating-docker-containers-quickstart/en/latest/"),
        ("cyverse-learning-center-faq", "https://cyverse-learning-materials-home.readthedocs-hosted.com/projects/faq/en/latest/"),
        ("cyverse-cyverse-tools-and-services-workshop", "https://cyverse-learning-materials-home.readthedocs-hosted.com/projects/cyverse-cyverse-tools-and-services-workshop/en/latest/"),
        ("cyverse-sciapps-guide", "https://cyverse-learning-materials-home.readthedocs-hosted.com/projects/sciapps_guide/en/latest/"),
        ("cyverse-visual-interactive-computing-environment", "https://cyverse-learning-materials-home.readthedocs-hosted.com/projects/vice/en/latest/"),
        ("cyverse-doi-request-quickstart", "https://cyverse-learning-materials-home.readthedocs-hosted.com/projects/cyverse-doi-request-quickstart/en/latest/"),
        ("cyverse-tools-services-and-reproducible-science-workshop", "https://cyverse-learning-materials-home.readthedocs-hosted.com/projects/cyverse-tools-services-and-reproducible-science-workshop/en/latest/"),
        ("cyverse-de2-guide", "https://cyverse-learning-materials-home.readthedocs-hosted.com/projects/cyverse-de2-guide/en/latest/"),
        ("cyverse-glossary", "https://cyverse-learning-materials-home.readthedocs-hosted.com/projects/glossary/en/latest/"),
        ("cyverse-data-store-manual", "https://cyverse-learning-materials-home.readthedocs-hosted.com/projects/data-store-manual/en/latest/"),
        ("cyverse-change-password-quickstart", "https://cyverse-learning-materials-home.readthedocs-hosted.com/projects/change_password_quickstart/en/latest/"),
        ("cyverse-sra-submission-quickstart-2", "https://cyverse-learning-materials-home.readthedocs-hosted.com/projects/sra_submission_quickstart/en/latest/"),
    ],
    'slug': 'cyverse-learning-materials-home',
    'name': u'learning-materials-home',
    'rtd_language': u'en',
    'programming_language': u'words',
    'canonical_url': 'https://cyverse-learning-materials-home.readthedocs-hosted.com/en/latest/',
    'analytics_code': 'UA-72224033-6',
    'single_version': False,
    'conf_py_path': '/docs/',
    'api_host': 'https://readthedocs.com',
    'github_user': 'CyVerse-learning-materials',
    'proxied_api_host': '/_',
    'github_repo': 'learning-materials-home',
    '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': '39bc686a',
}

# 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-learning-materials-home/builds/1393753/'

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'])