Read the Docs build information
Build id: 255167
Project: cyverse-visual-interactive-computing-environment
Version: latest
Commit: 910fa3c515d78b50b04fb54a05b2603f06d1be40
Date: 2019-10-31T18:01:35.930503Z
State: finished
Success: True
[rtd-command-info] start-time: 2019-10-31T18:01:36.513972Z, end-time: 2019-10-31T18:01:36.534746Z, duration: 0, exit-code: 0
git remote set-url origin https://github.com/CyVerse-learning-materials/Visual_Interactive_Computing_Environment.git
[rtd-command-info] start-time: 2019-10-31T18:01:36.626076Z, end-time: 2019-10-31T18:01:38.901442Z, duration: 2, exit-code: 0
git fetch origin --force --tags --prune --prune-tags --depth 50
From https://github.com/CyVerse-learning-materials/Visual_Interactive_Computing_Environment
6f5b80b..910fa3c master -> origin/master
[rtd-command-info] start-time: 2019-10-31T18:01:39.124329Z, end-time: 2019-10-31T18:01:39.198416Z, duration: 0, exit-code: 0
git checkout --force origin/master
Previous HEAD position was 6f5b80b Update adding.rst
HEAD is now at 910fa3c Update examples.rst
[rtd-command-info] start-time: 2019-10-31T18:01:39.277875Z, end-time: 2019-10-31T18:01:39.317786Z, duration: 0, exit-code: 0
git clean -d -f -f
[rtd-command-info] start-time: 2019-10-31T18:01:41.191564Z, end-time: 2019-10-31T18:01:45.306416Z, duration: 4, exit-code: 0
python2.7 -mvirtualenv --no-site-packages --no-download
New python executable in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/bin/python2.7
Not overwriting existing python script /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/bin/python (you must use /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/bin/python2.7)
Installing setuptools, pip, wheel...
done.
[rtd-command-info] start-time: 2019-10-31T18:01:45.981989Z, end-time: 2019-10-31T18:01:46.969017Z, duration: 0, exit-code: 0
python -m pip install --upgrade --cache-dir /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/.cache/pip pip
Requirement already up-to-date: pip in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (19.3.1)
[rtd-command-info] start-time: 2019-10-31T18:01:47.059259Z, end-time: 2019-10-31T18:01:49.352810Z, duration: 2, exit-code: 0
python -m pip install --upgrade --cache-dir /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/.cache/pip Pygments==2.3.1 setuptools==41.0.1 docutils==0.14 mock==1.0.1 pillow==5.4.1 alabaster>=0.7,<0.8,!=0.7.5 commonmark==0.8.1 recommonmark==0.5.0 sphinx<2 sphinx-rtd-theme<0.5 readthedocs-sphinx-ext<1.1
Requirement already up-to-date: Pygments==2.3.1 in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (2.3.1)
Requirement already up-to-date: setuptools==41.0.1 in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (41.0.1)
Requirement already up-to-date: docutils==0.14 in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (0.14)
Requirement already up-to-date: mock==1.0.1 in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (1.0.1)
Requirement already up-to-date: pillow==5.4.1 in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (5.4.1)
Requirement already up-to-date: alabaster!=0.7.5,<0.8,>=0.7 in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (0.7.12)
Requirement already up-to-date: commonmark==0.8.1 in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (0.8.1)
Requirement already up-to-date: recommonmark==0.5.0 in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (0.5.0)
Requirement already up-to-date: sphinx<2 in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (1.8.5)
Requirement already up-to-date: sphinx-rtd-theme<0.5 in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (0.4.3)
Requirement already up-to-date: readthedocs-sphinx-ext<1.1 in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (1.0.0)
Requirement already satisfied, skipping upgrade: future in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (from commonmark==0.8.1) (0.18.1)
Requirement already satisfied, skipping upgrade: snowballstemmer>=1.1 in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (from sphinx<2) (2.0.0)
Requirement already satisfied, skipping upgrade: sphinxcontrib-websupport in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (from sphinx<2) (1.1.2)
Requirement already satisfied, skipping upgrade: babel!=2.0,>=1.3 in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (from sphinx<2) (2.7.0)
Requirement already satisfied, skipping upgrade: requests>=2.0.0 in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (from sphinx<2) (2.22.0)
Requirement already satisfied, skipping upgrade: Jinja2>=2.3 in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (from sphinx<2) (2.10.3)
Requirement already satisfied, skipping upgrade: typing; python_version < "3.5" in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (from sphinx<2) (3.7.4.1)
Requirement already satisfied, skipping upgrade: packaging in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (from sphinx<2) (19.2)
Requirement already satisfied, skipping upgrade: imagesize in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (from sphinx<2) (1.1.0)
Requirement already satisfied, skipping upgrade: six>=1.5 in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (from sphinx<2) (1.12.0)
Requirement already satisfied, skipping upgrade: pytz>=2015.7 in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (from babel!=2.0,>=1.3->sphinx<2) (2019.3)
Requirement already satisfied, skipping upgrade: urllib3!=1.25.0,!=1.25.1,<1.26,>=1.21.1 in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (from requests>=2.0.0->sphinx<2) (1.25.6)
Requirement already satisfied, skipping upgrade: certifi>=2017.4.17 in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (from requests>=2.0.0->sphinx<2) (2019.9.11)
Requirement already satisfied, skipping upgrade: chardet<3.1.0,>=3.0.2 in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (from requests>=2.0.0->sphinx<2) (3.0.4)
Requirement already satisfied, skipping upgrade: idna<2.9,>=2.5 in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (from requests>=2.0.0->sphinx<2) (2.8)
Requirement already satisfied, skipping upgrade: MarkupSafe>=0.23 in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (from Jinja2>=2.3->sphinx<2) (1.1.1)
Requirement already satisfied, skipping upgrade: pyparsing>=2.0.2 in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (from packaging->sphinx<2) (2.4.2)
[rtd-command-info] start-time: 2019-10-31T18:01:49.432233Z, end-time: 2019-10-31T18:01:50.320914Z, duration: 0, exit-code: 0
python -m pip install --exists-action=w --cache-dir /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/.cache/pip -r requirements.txt
Requirement already satisfied: sphinx in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (from -r requirements.txt (line 1)) (1.8.5)
Requirement already satisfied: recommonmark in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (from -r requirements.txt (line 2)) (0.5.0)
Requirement already satisfied: sphinxcontrib-images in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (from -r requirements.txt (line 3)) (0.8.0)
Requirement already satisfied: sphinx_bootstrap_theme in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (from -r requirements.txt (line 4)) (0.7.1)
Requirement already satisfied: guzzle_sphinx_theme==0.7.11 in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (from -r requirements.txt (line 5)) (0.7.11)
Requirement already satisfied: alabaster<0.8,>=0.7 in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (from sphinx->-r requirements.txt (line 1)) (0.7.12)
Requirement already satisfied: snowballstemmer>=1.1 in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (from sphinx->-r requirements.txt (line 1)) (2.0.0)
Requirement already satisfied: Pygments>=2.0 in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (from sphinx->-r requirements.txt (line 1)) (2.3.1)
Requirement already satisfied: sphinxcontrib-websupport in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (from sphinx->-r requirements.txt (line 1)) (1.1.2)
Requirement already satisfied: babel!=2.0,>=1.3 in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (from sphinx->-r requirements.txt (line 1)) (2.7.0)
Requirement already satisfied: requests>=2.0.0 in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (from sphinx->-r requirements.txt (line 1)) (2.22.0)
Requirement already satisfied: setuptools in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (from sphinx->-r requirements.txt (line 1)) (41.0.1)
Requirement already satisfied: docutils>=0.11 in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (from sphinx->-r requirements.txt (line 1)) (0.14)
Requirement already satisfied: packaging in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (from sphinx->-r requirements.txt (line 1)) (19.2)
Requirement already satisfied: Jinja2>=2.3 in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (from sphinx->-r requirements.txt (line 1)) (2.10.3)
Requirement already satisfied: typing; python_version < "3.5" in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (from sphinx->-r requirements.txt (line 1)) (3.7.4.1)
Requirement already satisfied: imagesize in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (from sphinx->-r requirements.txt (line 1)) (1.1.0)
Requirement already satisfied: six>=1.5 in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (from sphinx->-r requirements.txt (line 1)) (1.12.0)
Requirement already satisfied: commonmark>=0.7.3 in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (from recommonmark->-r requirements.txt (line 2)) (0.8.1)
Requirement already satisfied: pytz>=2015.7 in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (from babel!=2.0,>=1.3->sphinx->-r requirements.txt (line 1)) (2019.3)
Requirement already satisfied: urllib3!=1.25.0,!=1.25.1,<1.26,>=1.21.1 in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (from requests>=2.0.0->sphinx->-r requirements.txt (line 1)) (1.25.6)
Requirement already satisfied: certifi>=2017.4.17 in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (from requests>=2.0.0->sphinx->-r requirements.txt (line 1)) (2019.9.11)
Requirement already satisfied: chardet<3.1.0,>=3.0.2 in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (from requests>=2.0.0->sphinx->-r requirements.txt (line 1)) (3.0.4)
Requirement already satisfied: idna<2.9,>=2.5 in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (from requests>=2.0.0->sphinx->-r requirements.txt (line 1)) (2.8)
Requirement already satisfied: pyparsing>=2.0.2 in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (from packaging->sphinx->-r requirements.txt (line 1)) (2.4.2)
Requirement already satisfied: MarkupSafe>=0.23 in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (from Jinja2>=2.3->sphinx->-r requirements.txt (line 1)) (1.1.1)
Requirement already satisfied: future in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/envs/latest/lib/python2.7/site-packages (from commonmark>=0.7.3->recommonmark->-r requirements.txt (line 2)) (0.18.1)
[rtd-command-info] start-time: 2019-10-31T18:01:50.974288Z, end-time: 2019-10-31T18:01:51.316966Z, 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 = 'Visual Interactive Computing Environment'
copyright = '2018, CyVerse'
author = 'CyVerse'
version = '1.0'
release = '1.0'
epub_title = project
epub_author = author
epub_publisher = author
epub_copyright = copyright
exclude_patterns = ['README.md', 'License.md', 'Contributors_maintainers.md']
###########################################################################
# 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
#
import importlib
import sys
import os.path
from six import string_types
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://media.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://media.readthedocs.com/",
'PRODUCTION_DOMAIN': "readthedocs.com",
'versions': [
("latest", "/en/latest/"),
],
'downloads': [
("pdf", "//readthedocs.com/projects/cyverse-visual-interactive-computing-environment/downloads/pdf/latest/"),
("html", "//readthedocs.com/projects/cyverse-visual-interactive-computing-environment/downloads/htmlzip/latest/"),
("epub", "//readthedocs.com/projects/cyverse-visual-interactive-computing-environment/downloads/epub/latest/"),
],
'subprojects': [
],
'slug': 'cyverse-visual-interactive-computing-environment',
'name': u'Visual_Interactive_Computing_Environment',
'rtd_language': u'en',
'programming_language': u'words',
'canonical_url': 'https://learning.cyverse.org/projects/vice/en/latest/',
'analytics_code': '',
'single_version': False,
'conf_py_path': '/',
'api_host': 'https://readthedocs.com',
'github_user': 'CyVerse-learning-materials',
'github_repo': 'Visual_Interactive_Computing_Environment',
'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,
'user_analytics_code': '',
'global_analytics_code': 'UA-17997319-2',
'commit': '910fa3c5',
}
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")
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'
[rtd-command-info] start-time: 2019-10-31T18:01:51.419274Z, end-time: 2019-10-31T18:02:02.049169Z, duration: 10, exit-code: 0
python sphinx-build -T -E -b readthedocs -d _build/doctrees-readthedocs -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 [readthedocs]: targets for 48 source files that are out of date
updating environment: 48 added, 0 changed, 0 removed
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**Contact**
----------
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4. What is Ubuntu Desktop?
=========================
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4. What is Ubuntu Desktop?
=========================
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6. Complete and Save Outputs
===========================
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6. Complete and Save Outputs
===========================
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6. Complete your analysis
=======================
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6. Complete your analysis
=======================
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----
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|vice-share-7|
----
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.. list-table::
:header-rows: 1
* - Name
- Description
- Type
- Dockerfile
- Quick Launch
* - `RStudio Verse `_
- Rocker RStudio Verse latest
- RStudio
- `Dockerfile `_
-|rstudio-verse-latest|_
* - `RStudio Geospatial `_
- Rocker RStudio Geospatial latest
- RStudio
- `Dockerfile `_
- |rstudio-geospatial-latest|_
* - `Jupyter Lab SciPy `_
- Jupyter Lab w/ SciPy
- Jupyter
- `Dockerfile `_
- |jupyter-scipy-latest|_
* - `Jupyter Lab SQL `_
- Jupyter Lab w/ SQL
- Jupyter
- `Dockerfile `_
- |jupyter-sql-1.0.9|_
* - `Jupyter QIIME2 `_
- Jupyter Lab w/ QIIME2
- Jupyter
- `Dockerfile `_
- |jupyter-qiime2-2019.7|_
* - `JupyterLab-0.0.3 <../user_guide/quick-jupyter.html>`_
- JupyterLab base app in DE
- Jupyter
- `Dockerfile `_
- |jupyter logo|_
* - `JupyterLab-Qiime2-2018.11 `_
- JupyterLab based QIIME app in DE
- Jupyter
- `Dockerfile `_
- |qiime logo|_
* - `rstudio-3.5.0 <../user_guide/quick-rstudio.html>`_
- Rstudio base app in DE
- Rstudio
- `Dockerfile `_
- |rstudio logo|_
* - Rstudio-Ballgown
- JupyterLab base app in DE
- Rstudio
- `Dockerfile `_
- |rstudio ballgown logo|_
* - Rstudio-ClusterProfiler-3.8
- Rstudio based ClusterProfiler app in DE
- Rstudio
- `Dockerfile `_
- |rstudio cluster logo|_
* - Rstudio-TSIS-1.0
- Rstudio based TSIS app in DE
- Rstudio
- `Dockerfile `_
- |rstudio tsis logo|_
* - `shiny-0.10.2.2 <../user_guide/quick-rshiny.html>`_
- Shiny base app in DE
- Shiny
- `Dockerfile `_
- |shiny logo|_
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build succeeded, 78 warnings.
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[rtd-command-info] start-time: 2019-10-31T18:02:02.269997Z, end-time: 2019-10-31T18:02:07.203441Z, duration: 4, exit-code: 0
python sphinx-build -T -b readthedocssinglehtmllocalmedia -d _build/doctrees-readthedocssinglehtmllocalmedia -D language=en . _build/localmedia
Running Sphinx v1.8.5
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.. currentmodule:: {{ module }}
WARNING: invalid signature for autoclass (u'{{ objname }}')
WARNING: don't know which module to import for autodocumenting u'{{ objname }}' (try placing a "module" or "currentmodule" directive in the document, or giving an explicit module name)
WARNING: invalid signature for automodule (u'{{ fullname }}')
WARNING: don't know which module to import for autodocumenting u'{{ fullname }}' (try placing a "module" or "currentmodule" directive in the document, or giving an explicit module name)
/home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/checkouts/latest/buildenv/lib/python3.5/site-packages/sphinx_rtd_theme-0.2.4.dist-info/DESCRIPTION.rst:: WARNING: image file not readable: buildenv/lib/python3.5/site-packages/sphinx_rtd_theme-0.2.4.dist-info/screen_mobile.png
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**Contact**
----------
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4. What is Ubuntu Desktop?
=========================
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4. What is Ubuntu Desktop?
=========================
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6. Complete and Save Outputs
===========================
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6. Complete and Save Outputs
===========================
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6. Complete your analysis
=======================
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6. Complete your analysis
=======================
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|vice-share-7|
----
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|vice-share-7|
----
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/home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/checkouts/latest/vice_apps/examples.rst:16: WARNING: Error parsing content block for the "list-table" directive: two-level bullet list expected, but row 2 does not contain a second-level bullet list.
.. list-table::
:header-rows: 1
* - Name
- Description
- Type
- Dockerfile
- Quick Launch
* - `RStudio Verse `_
- Rocker RStudio Verse latest
- RStudio
- `Dockerfile `_
-|rstudio-verse-latest|_
* - `RStudio Geospatial `_
- Rocker RStudio Geospatial latest
- RStudio
- `Dockerfile `_
- |rstudio-geospatial-latest|_
* - `Jupyter Lab SciPy `_
- Jupyter Lab w/ SciPy
- Jupyter
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[rtd-command-info] start-time: 2019-10-31T18:02:07.391834Z, end-time: 2019-10-31T18:02:11.920563Z, duration: 4, exit-code: 0
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Running Sphinx v1.8.5
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maximum 1 argument(s) allowed, 3 supplied.
.. currentmodule:: {{ module }}
WARNING: invalid signature for autoclass (u'{{ objname }}')
looking for now-outdated files... none found
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WARNING: invalid signature for automodule (u'{{ fullname }}')
WARNING: don't know which module to import for autodocumenting u'{{ fullname }}' (try placing a "module" or "currentmodule" directive in the document, or giving an explicit module name)
/home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/checkouts/latest/buildenv/lib/python3.5/site-packages/sphinx_rtd_theme-0.2.4.dist-info/DESCRIPTION.rst:: WARNING: image file not readable: buildenv/lib/python3.5/site-packages/sphinx_rtd_theme-0.2.4.dist-info/screen_mobile.png
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**Contact**
----------
/home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/checkouts/latest/getting_started/apptypes.rst:85: WARNING: Title underline too short.
4. What is Ubuntu Desktop?
=========================
/home/docs/checkouts/readthedocs.org/user_builds/cyverse-visual-interactive-computing-environment/checkouts/latest/getting_started/apptypes.rst:85: WARNING: Title underline too short.
4. What is Ubuntu Desktop?
=========================
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InputError: [Errno 2] No such file or directory: 'cyverse_rst_defined_substitutions.txt'.
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6. Complete and Save Outputs
===========================
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6. Complete and Save Outputs
===========================
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6. Complete your analysis
=======================
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6. Complete your analysis
=======================
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|vice-share-7|
----
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|vice-share-7|
----
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.. list-table::
:header-rows: 1
* - Name
- Description
- Type
- Dockerfile
- Quick Launch
* - `RStudio Verse `_
- Rocker RStudio Verse latest
- RStudio
- `Dockerfile `_
-|rstudio-verse-latest|_
* - `RStudio Geospatial `_
- Rocker RStudio Geospatial latest
- RStudio
- `Dockerfile `_
- |rstudio-geospatial-latest|_
* - `Jupyter Lab SciPy `_
- Jupyter Lab w/ SciPy
- Jupyter
- `Dockerfile `_
- |jupyter-scipy-latest|_
* - `Jupyter Lab SQL `_
- Jupyter Lab w/ SQL
- Jupyter
- `Dockerfile `_
- |jupyter-sql-1.0.9|_
* - `Jupyter QIIME2 `_
- Jupyter Lab w/ QIIME2
- Jupyter
- `Dockerfile `_
- |jupyter-qiime2-2019.7|_
* - `JupyterLab-0.0.3 <../user_guide/quick-jupyter.html>`_
- JupyterLab base app in DE
- Jupyter
- `Dockerfile `_
- |jupyter logo|_
* - `JupyterLab-Qiime2-2018.11 `_
- JupyterLab based QIIME app in DE
- Jupyter
- `Dockerfile `_
- |qiime logo|_
* - `rstudio-3.5.0 <../user_guide/quick-rstudio.html>`_
- Rstudio base app in DE
- Rstudio
- `Dockerfile `_
- |rstudio logo|_
* - Rstudio-Ballgown
- JupyterLab base app in DE
- Rstudio
- `Dockerfile `_
- |rstudio ballgown logo|_
* - Rstudio-ClusterProfiler-3.8
- Rstudio based ClusterProfiler app in DE
- Rstudio
- `Dockerfile `_
- |rstudio cluster logo|_
* - Rstudio-TSIS-1.0
- Rstudio based TSIS app in DE
- Rstudio
- `Dockerfile `_
- |rstudio tsis logo|_
* - `shiny-0.10.2.2 <../user_guide/quick-rshiny.html>`_
- Shiny base app in DE
- Shiny
- `Dockerfile `_
- |shiny logo|_
done
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done
processing CyVerseDocumentation.tex...index getting_started/about getting_started/prerequisites getting_started/apptypes user_guide/quick-jupyter user_guide/quick-rstudio user_guide/quick-rshiny user_guide/sharing developer_guide/workflow developer_guide/adding developer_guide/building vice_apps/examples getting_help/faq getting_help/bestpractices getting_help/tool_troubleshooting getting_help/contact
resolving references...
writing... done
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copying TeX support files...
done
build succeeded, 77 warnings.
The LaTeX files are in _build/latex.
Run 'make' in that directory to run these through (pdf)latex
(use `make latexpdf' here to do that automatically).
[rtd-command-info] start-time: 2019-10-31T18:02:35.370727Z, end-time: 2019-10-31T18:02:35.735183Z, duration: 0, exit-code: 0
cat latexmkrc
$latex = 'latex ' . $ENV{'LATEXOPTS'} . ' %O %S';
$pdflatex = 'pdflatex ' . $ENV{'LATEXOPTS'} . ' %O %S';
$lualatex = 'lualatex ' . $ENV{'LATEXOPTS'} . ' %O %S';
$xelatex = 'xelatex --no-pdf ' . $ENV{'LATEXOPTS'} . ' %O %S';
$makeindex = 'makeindex -s python.ist %O -o %D %S';
add_cus_dep( "glo", "gls", 0, "makeglo" );
sub makeglo {
return system( "makeindex -s gglo.ist -o '$_[0].gls' '$_[0].glo'" );
}
[rtd-command-info] start-time: 2019-10-31T18:02:35.811028Z, end-time: 2019-10-31T18:03:28.728916Z, duration: 52, exit-code: 0
latexmk -r latexmkrc -pdf -f -dvi- -ps- -jobname=cyverse-visual-interactive-computing-environment -interaction=nonstopmode
Use of uninitialized value $ENV{"LATEXOPTS"} in concatenation (.) or string at (eval 10) line 1, chunk 1.
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Use of uninitialized value $ENV{"LATEXOPTS"} in concatenation (.) or string at (eval 10) line 3, chunk 1.
Use of uninitialized value $ENV{"LATEXOPTS"} in concatenation (.) or string at (eval 10) line 4, chunk 1.
Subroutine makeglo redefined at (eval 11) line 7, chunk 1.
Use of uninitialized value $ENV{"LATEXOPTS"} in concatenation (.) or string at (eval 11) line 1, chunk 1.
Use of uninitialized value $ENV{"LATEXOPTS"} in concatenation (.) or string at (eval 11) line 2, chunk 1.
Use of uninitialized value $ENV{"LATEXOPTS"} in concatenation (.) or string at (eval 11) line 3, chunk 1.
Use of uninitialized value $ENV{"LATEXOPTS"} in concatenation (.) or string at (eval 11) line 4, chunk 1.
Latexmk: This is Latexmk, John Collins, 1 January 2015, version: 4.41.
File::Glob::glob() will disappear in perl 5.30. Use File::Glob::bsd_glob() instead. at /usr/bin/latexmk line 7482.
Rule 'pdflatex': Rules & subrules not known to be previously run:
pdflatex
Rule 'pdflatex': The following rules & subrules became out-of-date:
'pdflatex'
------------
Run number 1 of rule 'pdflatex'
------------
------------
Running 'pdflatex -interaction=nonstopmode -recorder --jobname="cyverse-visual-interactive-computing-environment" "CyVerseDocumentation.tex"'
------------
Latexmk: applying rule 'pdflatex'...
This is pdfTeX, Version 3.14159265-2.6-1.40.18 (TeX Live 2017/Debian) (preloaded format=pdflatex)
restricted \write18 enabled.
entering extended mode
(./CyVerseDocumentation.tex
LaTeX2e <2017-04-15>
Babel <3.18> and hyphenation patterns for 84 language(s) loaded.
(./sphinxmanual.cls
Document Class: sphinxmanual 2018/12/22 v1.8.3 Document class (Sphinx manual)
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Chapter 12.
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Chapter 13.
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Chapter 14.
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Chapter 16.
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Chapter 1.
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**Contact**
----------
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4. What is Ubuntu Desktop?
=========================
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4. What is Ubuntu Desktop?
=========================
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6. Complete and Save Outputs
===========================
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6. Complete and Save Outputs
===========================
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6. Complete your analysis
=======================
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6. Complete your analysis
=======================
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----
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----
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.. list-table::
:header-rows: 1
* - Name
- Description
- Type
- Dockerfile
- Quick Launch
* - `RStudio Verse `_
- Rocker RStudio Verse latest
- RStudio
- `Dockerfile `_
-|rstudio-verse-latest|_
* - `RStudio Geospatial `_
- Rocker RStudio Geospatial latest
- RStudio
- `Dockerfile `_
- |rstudio-geospatial-latest|_
* - `Jupyter Lab SciPy `_
- Jupyter Lab w/ SciPy
- Jupyter
- `Dockerfile `_
- |jupyter-scipy-latest|_
* - `Jupyter Lab SQL `_
- Jupyter Lab w/ SQL
- Jupyter
- `Dockerfile `_
- |jupyter-sql-1.0.9|_
* - `Jupyter QIIME2 `_
- Jupyter Lab w/ QIIME2
- Jupyter
- `Dockerfile `_
- |jupyter-qiime2-2019.7|_
* - `JupyterLab-0.0.3 <../user_guide/quick-jupyter.html>`_
- JupyterLab base app in DE
- Jupyter
- `Dockerfile `_
- |jupyter logo|_
* - `JupyterLab-Qiime2-2018.11 `_
- JupyterLab based QIIME app in DE
- Jupyter
- `Dockerfile `_
- |qiime logo|_
* - `rstudio-3.5.0 <../user_guide/quick-rstudio.html>`_
- Rstudio base app in DE
- Rstudio
- `Dockerfile `_
- |rstudio logo|_
* - Rstudio-Ballgown
- JupyterLab base app in DE
- Rstudio
- `Dockerfile `_
- |rstudio ballgown logo|_
* - Rstudio-ClusterProfiler-3.8
- Rstudio based ClusterProfiler app in DE
- Rstudio
- `Dockerfile `_
- |rstudio cluster logo|_
* - Rstudio-TSIS-1.0
- Rstudio based TSIS app in DE
- Rstudio
- `Dockerfile `_
- |rstudio tsis logo|_
* - `shiny-0.10.2.2 <../user_guide/quick-rshiny.html>`_
- Shiny base app in DE
- Shiny
- `Dockerfile `_
- |shiny logo|_
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