Read the Docs build information Build id: 425640 Project: cyverse-doi-request-quickstart Version: latest Commit: 420c0bc955b60c40ae4f0675ce9e4cdfed1edd73 Date: 2020-09-18T15:40:28.068373Z State: finished Success: True [rtd-command-info] start-time: 2020-09-18T15:40:30.120974Z, end-time: 2020-09-18T15:40:31.917475Z, duration: 1, exit-code: 0 git clone --no-single-branch --depth 50 https://github.com/CyVerse-learning-materials/DOI_request_quickstart.git . Cloning into '.'... [rtd-command-info] start-time: 2020-09-18T15:40:33.048428Z, end-time: 2020-09-18T15:40:33.144014Z, 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 420c0bc add triage issue template [rtd-command-info] start-time: 2020-09-18T15:40:33.665157Z, end-time: 2020-09-18T15:40:33.719453Z, duration: 0, exit-code: 0 git clean -d -f -f [rtd-command-info] start-time: 2020-09-18T15:40:35.398660Z, end-time: 2020-09-18T15:40:38.640458Z, duration: 3, exit-code: 0 python2.7 -mvirtualenv New python executable in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/envs/latest/bin/python2.7 Also creating executable in /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/envs/latest/bin/python Installing setuptools, pip, wheel... done. [rtd-command-info] start-time: 2020-09-18T15:40:38.971763Z, end-time: 2020-09-18T15:40:39.632653Z, duration: 0, exit-code: 0 python -m pip install --upgrade --no-cache-dir pip 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 Please upgrade your Python as Python 2.7 is no longer maintained.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-doi-request-quickstart/envs/latest/lib/python2.7/site-packages (20.2.3) [rtd-command-info] start-time: 2020-09-18T15:40:39.824007Z, end-time: 2020-09-18T15:40:48.061268Z, duration: 8, exit-code: 0 python -m pip install --upgrade --no-cache-dir 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 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 Pygments==2.3.1 Downloading Pygments-2.3.1-py2.py3-none-any.whl (849 kB) Collecting setuptools==41.0.1 Downloading setuptools-41.0.1-py2.py3-none-any.whl (575 kB) Collecting docutils==0.14 Downloading docutils-0.14-py2-none-any.whl (543 kB) 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<1.1 Downloading readthedocs_sphinx_ext-1.0.4-py2.py3-none-any.whl (28 kB) 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 typing; python_version < "3.5" Downloading typing-3.7.4.3-py2-none-any.whl (26 kB) Collecting Jinja2>=2.3 Downloading Jinja2-2.11.2-py2.py3-none-any.whl (125 kB) Collecting packaging Downloading packaging-20.4-py2.py3-none-any.whl (37 kB) Collecting snowballstemmer>=1.1 Downloading snowballstemmer-2.0.0-py2.py3-none-any.whl (97 kB) Collecting babel!=2.0,>=1.3 Downloading Babel-2.8.0-py2.py3-none-any.whl (8.6 MB) Collecting six>=1.5 Downloading six-1.15.0-py2.py3-none-any.whl (10 kB) Collecting requests>=2.0.0 Downloading requests-2.24.0-py2.py3-none-any.whl (61 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-2020.1-py2.py3-none-any.whl (510 kB) Collecting certifi>=2017.4.17 Downloading certifi-2020.6.20-py2.py3-none-any.whl (156 kB) Collecting urllib3!=1.25.0,!=1.25.1,<1.26,>=1.21.1 Downloading urllib3-1.25.10-py2.py3-none-any.whl (127 kB) Collecting idna<3,>=2.5 Downloading idna-2.10-py2.py3-none-any.whl (58 kB) Collecting chardet<4,>=3.0.2 Downloading chardet-3.0.4-py2.py3-none-any.whl (133 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=9ccd30933bb1866e89f3d7fec8eda3ec23b272a726f69c6ea666ce28a082689f Stored in directory: /tmp/pip-ephem-wheel-cache-zvddrK/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=502566 sha256=d816caf24f5367ba50e4b7eeeff057b7f2435234edde2d66600a85f0a28c0530 Stored in directory: /tmp/pip-ephem-wheel-cache-zvddrK/wheels/5f/11/0c/aad680baf5ef4fbcbab992c9f03e1130357e0c173a4fdabfff Successfully built mock future Installing collected packages: Pygments, setuptools, docutils, mock, pillow, alabaster, future, commonmark, imagesize, typing, MarkupSafe, Jinja2, six, pyparsing, packaging, snowballstemmer, pytz, babel, certifi, urllib3, idna, chardet, requests, sphinxcontrib-websupport, sphinx, recommonmark, sphinx-rtd-theme, readthedocs-sphinx-ext Attempting uninstall: setuptools Found existing installation: setuptools 44.1.1 Uninstalling setuptools-44.1.1: Successfully uninstalled setuptools-44.1.1 Successfully installed Jinja2-2.11.2 MarkupSafe-1.1.1 Pygments-2.3.1 alabaster-0.7.12 babel-2.8.0 certifi-2020.6.20 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-20.4 pillow-5.4.1 pyparsing-2.4.7 pytz-2020.1 readthedocs-sphinx-ext-1.0.4 recommonmark-0.5.0 requests-2.24.0 setuptools-41.0.1 six-1.15.0 snowballstemmer-2.0.0 sphinx-1.8.5 sphinx-rtd-theme-0.4.3 sphinxcontrib-websupport-1.1.2 typing-3.7.4.3 urllib3-1.25.10 [rtd-command-info] start-time: 2020-09-18T15:40:49.609237Z, end-time: 2020-09-18T15:40:49.682003Z, duration: 0, exit-code: 0 cat conf.py #!/usr/bin/env python3 # Version 2.0, May 2020 # -*- 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 = 'YOUR GUIDE NAME HERE' copyright = '2020, CyVerse' author = 'your_name' version = '2.0' release = '2.0' 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 # 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://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': [ ("master", "/en/master/"), ("latest", "/en/latest/"), ], 'downloads': [ ("html", "//learning.cyverse.org/_/downloads/cyverse-doi-request-quickstart/en/latest/htmlzip/"), ], 'subprojects': [ ], 'slug': 'cyverse-doi-request-quickstart', 'name': u'DOI_request_quickstart', 'rtd_language': u'en', 'programming_language': u'words', 'canonical_url': 'https://learning.cyverse.org/projects/cyverse-doi-request-quickstart/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': 'DOI_request_quickstart', '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': '420c0bc9', } 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' # Make sure our build directory is always excluded exclude_patterns = globals().get('exclude_patterns', []) exclude_patterns.extend(['_build']) [rtd-command-info] start-time: 2020-09-18T15:40:50.101511Z, end-time: 2020-09-18T15:40:51.789052Z, duration: 1, 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 14 source files that are out of date updating environment: 14 added, 0 changed, 0 removed reading sources... [ 7%] .github/ISSUE_TEMPLATE/triage-for-2-0-release /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/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... [ 14%] Additional/doi_faq reading sources... [ 21%] Additional/naming reading sources... [ 28%] Additional/right4me reading sources... [ 35%] Contributors_maintainers reading sources... [ 42%] License reading sources... [ 50%] README reading sources... [ 57%] after reading sources... [ 64%] before reading sources... [ 71%] index reading sources... [ 78%] metadata reading sources... [ 85%] organize reading sources... [ 92%] slides/README reading sources... [100%] submit /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/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-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:1: WARNING: Problems with "include" directive path: InputError: [Errno 2] No such file or directory: 'Additional/cyverse_rst_defined_substitutions.txt'. /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:10: WARNING: Title underline too short. DOI Frequently Asked Questions ---------------- /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:12: WARNING: Title underline too short. Why should I publish my data in CyVerse Curated Data? =================================================== /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:32: WARNING: Title underline too short. Can I publish to the Data Commons if my data is not static and curated by CyVerse? ============================================================================ /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:32: WARNING: Title underline too short. Can I publish to the Data Commons if my data is not static and curated by CyVerse? ============================================================================ /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:38: WARNING: Title underline too short. What is a DOI ? =========== /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:38: WARNING: Title underline too short. What is a DOI ? =========== /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:44: WARNING: Title underline too short. Do I need to contact CyVerse before requesting a DOI? ============================================ /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:44: WARNING: Title underline too short. Do I need to contact CyVerse before requesting a DOI? ============================================ /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:52: WARNING: Title underline too short. How much does a CyVerse permanent identifier cost? ============================================ /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:52: WARNING: Title underline too short. How much does a CyVerse permanent identifier cost? ============================================ /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:58: WARNING: Title underline too short. How long will it take to obtain a permanent identifier and publish my data? ========================================================================= /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:58: WARNING: Title underline too short. How long will it take to obtain a permanent identifier and publish my data? ========================================================================= /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:70: WARNING: Title underline too short. How small or big should my data be to be published? ============================================ /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:70: WARNING: Title underline too short. How small or big should my data be to be published? ============================================ /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:76: WARNING: Title underline too short. What is the policy for submitting compressed data to CyVerse Curated Data? ======================================================================== /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:76: WARNING: Title underline too short. What is the policy for submitting compressed data to CyVerse Curated Data? ======================================================================== /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:82: WARNING: Title underline too short. Can I publish data in CyVerse if I am not a CyVerse user? ============================================ /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:82: WARNING: Title underline too short. Can I publish data in CyVerse if I am not a CyVerse user? ============================================ /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:88: WARNING: Title underline too short. How secure is the data in the Curated Data site? ============================================ /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:88: WARNING: Title underline too short. How secure is the data in the Curated Data site? ============================================ /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:94: WARNING: Title underline too short. What is CyVerse Data Commons? long-term commitment to hosting public data? ============================================ /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:94: WARNING: Title underline too short. What is CyVerse Data Commons? long-term commitment to hosting public data? ============================================ /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:100: WARNING: Title underline too short. What if in the future I want to move my data to another repository? ============================================ /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:100: WARNING: Title underline too short. What if in the future I want to move my data to another repository? ============================================ /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:106: WARNING: Title underline too short. How can I make it easier for people to give me (and my co-creators) credit for using my dataset? ======================================================================================== /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:106: WARNING: Title underline too short. How can I make it easier for people to give me (and my co-creators) credit for using my dataset? ======================================================================================== /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:119: WARNING: Title underline too short. Whom do I choose for the creator versus contributor? ============================================ /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:119: WARNING: Title underline too short. Whom do I choose for the creator versus contributor? ============================================ /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:146: WARNING: Title underline too short. What metadata standards does CyVerse support for data publication? ================================================== /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:146: WARNING: Title underline too short. What metadata standards does CyVerse support for data publication? ================================================== /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:152: WARNING: Title underline too short. How can I organize and package my dataset for publication in the CyVerse Curated Data site? ======================================================================================== /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:152: WARNING: Title underline too short. How can I organize and package my dataset for publication in the CyVerse Curated Data site? ======================================================================================== /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:158: WARNING: Title underline too short. What if I want to change or add metadata to my public data? ============================================ /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:158: WARNING: Title underline too short. What if I want to change or add metadata to my public data? ============================================ /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:164: WARNING: Title underline too short. Where can I go for help on permanent identifiers? ============================================ /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:164: WARNING: Title underline too short. Where can I go for help on permanent identifiers? ============================================ /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/naming.rst:1: WARNING: Problems with "include" directive path: InputError: [Errno 2] No such file or directory: 'Additional/cyverse_rst_defined_substitutions.txt'. /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/naming.rst:10: WARNING: Title underline too short. Data Commons Naming Conventions ======================== /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/naming.rst:14: WARNING: Title underline too short. General guidelines ------------- /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/naming.rst:32: WARNING: Bullet list ends without a blank line; unexpected unindent. /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/right4me.rst:1: WARNING: Problems with "include" directive path: InputError: [Errno 2] No such file or directory: 'Additional/cyverse_rst_defined_substitutions.txt'. /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/right4me.rst:10: WARNING: Title underline too short. Is the CyVerse Curated Data Repository right for my data? ---------------- /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/right4me.rst:16: WARNING: Title underline too short. Question 1: Do you have a CyVerse account? ===================== /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/right4me.rst:23: WARNING: Title underline too short. Question 2: Is your data ready for publication? ============================== /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/right4me.rst:23: WARNING: Title underline too short. Question 2: Is your data ready for publication? ============================== /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/right4me.rst:27: WARNING: Bullet list ends without a blank line; unexpected unindent. /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/right4me.rst:35: WARNING: Title underline too short. Question 3: Is your data suitable for reuse in scientific analyses? ======================================== /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/right4me.rst:35: WARNING: Title underline too short. Question 3: Is your data suitable for reuse in scientific analyses? ======================================== /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/right4me.rst:42: WARNING: Title underline too short. Question 4: Is there a canonical repository for your data? ======================================== /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/right4me.rst:42: WARNING: Title underline too short. Question 4: Is there a canonical repository for your data? ======================================== cyverse_rst_defined_substitutions.txt:123: WARNING: image file not readable: ./img/cyverse_learning.png /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/before.rst:40: WARNING: Document or section may not begin with a transition. cyverse_rst_defined_substitutions.txt:123: WARNING: image file not readable: ./img/cyverse_learning.png /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/index.rst:8: WARNING: Undefined substitution referenced: "Data_Commons_logo". /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/index.rst:8: WARNING: Unknown target name: "data_commons_logo". cyverse_rst_defined_substitutions.txt:123: WARNING: image file not readable: ./img/cyverse_learning.png cyverse_rst_defined_substitutions.txt:123: WARNING: image file not readable: ./img/cyverse_learning.png cyverse_rst_defined_substitutions.txt:123: WARNING: image file not readable: ./img/cyverse_learning.png cyverse_rst_defined_substitutions.txt:123: WARNING: image file not readable: ./img/cyverse_learning.png looking for now-outdated files... none found pickling environment... done checking consistency... /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/.github/ISSUE_TEMPLATE/triage-for-2-0-release.md: WARNING: document isn't included in any toctree /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Contributors_maintainers.md: WARNING: document isn't included in any toctree /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/License.md: WARNING: document isn't included in any toctree /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/README.md: WARNING: document isn't included in any toctree /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/slides/README.md: WARNING: document isn't included in any toctree done preparing documents... done writing output... [ 7%] .github/ISSUE_TEMPLATE/triage-for-2-0-release writing output... [ 14%] Additional/doi_faq writing output... [ 21%] Additional/naming writing output... [ 28%] Additional/right4me writing output... [ 35%] Contributors_maintainers writing output... [ 42%] License writing output... [ 50%] README writing output... [ 57%] after writing output... [ 64%] before writing output... [ 71%] index writing output... [ 78%] metadata writing output... [ 85%] organize writing output... [ 92%] slides/README writing output... [100%] submit generating indices... genindex writing additional pages... search copying images... [ 25%] Additional/../img/cyverse_rgb.png copying images... [ 50%] Additional/../img/homeicon.png copying images... [ 75%] ./img/homeicon.png copying images... [100%] ./img/intercom.png copying static files... WARNING: html_static_path entry u'/home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/_static' does not exist done copying readthedocs static files... done copying searchtools... done copying extra files... done dumping search index in English (code: en) ... done dumping object inventory... done build succeeded, 67 warnings. The HTML pages are in _build/html. [rtd-command-info] start-time: 2020-09-18T15:40:52.680703Z, end-time: 2020-09-18T15:40:54.014519Z, duration: 1, exit-code: 0 python sphinx-build -T -b readthedocssinglehtmllocalmedia -d _build/doctrees-readthedocssinglehtmllocalmedia -D language=en . _build/localmedia 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 [readthedocssinglehtmllocalmedia]: all documents updating environment: 14 added, 0 changed, 0 removed reading sources... [ 7%] .github/ISSUE_TEMPLATE/triage-for-2-0-release /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/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... [ 14%] Additional/doi_faq reading sources... [ 21%] Additional/naming reading sources... [ 28%] Additional/right4me reading sources... [ 35%] Contributors_maintainers reading sources... [ 42%] License reading sources... [ 50%] README reading sources... [ 57%] after reading sources... [ 64%] before reading sources... [ 71%] index reading sources... [ 78%] metadata reading sources... [ 85%] organize reading sources... [ 92%] slides/README reading sources... [100%] submit /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/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-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:1: WARNING: Problems with "include" directive path: InputError: [Errno 2] No such file or directory: 'Additional/cyverse_rst_defined_substitutions.txt'. /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:10: WARNING: Title underline too short. DOI Frequently Asked Questions ---------------- /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:12: WARNING: Title underline too short. Why should I publish my data in CyVerse Curated Data? =================================================== /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:32: WARNING: Title underline too short. Can I publish to the Data Commons if my data is not static and curated by CyVerse? ============================================================================ /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:32: WARNING: Title underline too short. Can I publish to the Data Commons if my data is not static and curated by CyVerse? ============================================================================ /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:38: WARNING: Title underline too short. What is a DOI ? =========== /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:38: WARNING: Title underline too short. What is a DOI ? =========== /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:44: WARNING: Title underline too short. Do I need to contact CyVerse before requesting a DOI? ============================================ /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:44: WARNING: Title underline too short. Do I need to contact CyVerse before requesting a DOI? ============================================ /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:52: WARNING: Title underline too short. How much does a CyVerse permanent identifier cost? ============================================ /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:52: WARNING: Title underline too short. How much does a CyVerse permanent identifier cost? ============================================ /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:58: WARNING: Title underline too short. How long will it take to obtain a permanent identifier and publish my data? ========================================================================= /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:58: WARNING: Title underline too short. How long will it take to obtain a permanent identifier and publish my data? ========================================================================= /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:70: WARNING: Title underline too short. How small or big should my data be to be published? ============================================ /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:70: WARNING: Title underline too short. How small or big should my data be to be published? ============================================ /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:76: WARNING: Title underline too short. What is the policy for submitting compressed data to CyVerse Curated Data? ======================================================================== /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:76: WARNING: Title underline too short. What is the policy for submitting compressed data to CyVerse Curated Data? ======================================================================== /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:82: WARNING: Title underline too short. Can I publish data in CyVerse if I am not a CyVerse user? ============================================ /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:82: WARNING: Title underline too short. Can I publish data in CyVerse if I am not a CyVerse user? ============================================ /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:88: WARNING: Title underline too short. How secure is the data in the Curated Data site? ============================================ /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:88: WARNING: Title underline too short. How secure is the data in the Curated Data site? ============================================ /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:94: WARNING: Title underline too short. What is CyVerse Data Commons? long-term commitment to hosting public data? ============================================ /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:94: WARNING: Title underline too short. What is CyVerse Data Commons? long-term commitment to hosting public data? ============================================ /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:100: WARNING: Title underline too short. What if in the future I want to move my data to another repository? ============================================ /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:100: WARNING: Title underline too short. What if in the future I want to move my data to another repository? ============================================ /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:106: WARNING: Title underline too short. How can I make it easier for people to give me (and my co-creators) credit for using my dataset? ======================================================================================== /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:106: WARNING: Title underline too short. How can I make it easier for people to give me (and my co-creators) credit for using my dataset? ======================================================================================== /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:119: WARNING: Title underline too short. Whom do I choose for the creator versus contributor? ============================================ /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:119: WARNING: Title underline too short. Whom do I choose for the creator versus contributor? ============================================ /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:146: WARNING: Title underline too short. What metadata standards does CyVerse support for data publication? ================================================== /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:146: WARNING: Title underline too short. What metadata standards does CyVerse support for data publication? ================================================== /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:152: WARNING: Title underline too short. How can I organize and package my dataset for publication in the CyVerse Curated Data site? ======================================================================================== /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:152: WARNING: Title underline too short. How can I organize and package my dataset for publication in the CyVerse Curated Data site? ======================================================================================== /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:158: WARNING: Title underline too short. What if I want to change or add metadata to my public data? ============================================ /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:158: WARNING: Title underline too short. What if I want to change or add metadata to my public data? ============================================ /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:164: WARNING: Title underline too short. Where can I go for help on permanent identifiers? ============================================ /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/doi_faq.rst:164: WARNING: Title underline too short. Where can I go for help on permanent identifiers? ============================================ /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/naming.rst:1: WARNING: Problems with "include" directive path: InputError: [Errno 2] No such file or directory: 'Additional/cyverse_rst_defined_substitutions.txt'. /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/naming.rst:10: WARNING: Title underline too short. Data Commons Naming Conventions ======================== /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/naming.rst:14: WARNING: Title underline too short. General guidelines ------------- /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/naming.rst:32: WARNING: Bullet list ends without a blank line; unexpected unindent. /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/right4me.rst:1: WARNING: Problems with "include" directive path: InputError: [Errno 2] No such file or directory: 'Additional/cyverse_rst_defined_substitutions.txt'. /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/right4me.rst:10: WARNING: Title underline too short. Is the CyVerse Curated Data Repository right for my data? ---------------- /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/right4me.rst:16: WARNING: Title underline too short. Question 1: Do you have a CyVerse account? ===================== /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/right4me.rst:23: WARNING: Title underline too short. Question 2: Is your data ready for publication? ============================== /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/right4me.rst:23: WARNING: Title underline too short. Question 2: Is your data ready for publication? ============================== /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/right4me.rst:27: WARNING: Bullet list ends without a blank line; unexpected unindent. /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/right4me.rst:35: WARNING: Title underline too short. Question 3: Is your data suitable for reuse in scientific analyses? ======================================== /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/right4me.rst:35: WARNING: Title underline too short. Question 3: Is your data suitable for reuse in scientific analyses? ======================================== /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/right4me.rst:42: WARNING: Title underline too short. Question 4: Is there a canonical repository for your data? ======================================== /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Additional/right4me.rst:42: WARNING: Title underline too short. Question 4: Is there a canonical repository for your data? ======================================== cyverse_rst_defined_substitutions.txt:123: WARNING: image file not readable: ./img/cyverse_learning.png /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/before.rst:40: WARNING: Document or section may not begin with a transition. cyverse_rst_defined_substitutions.txt:123: WARNING: image file not readable: ./img/cyverse_learning.png /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/index.rst:8: WARNING: Undefined substitution referenced: "Data_Commons_logo". /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/index.rst:8: WARNING: Unknown target name: "data_commons_logo". cyverse_rst_defined_substitutions.txt:123: WARNING: image file not readable: ./img/cyverse_learning.png cyverse_rst_defined_substitutions.txt:123: WARNING: image file not readable: ./img/cyverse_learning.png cyverse_rst_defined_substitutions.txt:123: WARNING: image file not readable: ./img/cyverse_learning.png cyverse_rst_defined_substitutions.txt:123: WARNING: image file not readable: ./img/cyverse_learning.png looking for now-outdated files... none found pickling environment... done checking consistency... /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/.github/ISSUE_TEMPLATE/triage-for-2-0-release.md: WARNING: document isn't included in any toctree /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/Contributors_maintainers.md: WARNING: document isn't included in any toctree /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/License.md: WARNING: document isn't included in any toctree /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/README.md: WARNING: document isn't included in any toctree /home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/slides/README.md: WARNING: document isn't included in any toctree done preparing documents... done assembling single document... before organize metadata submit after Additional/right4me Additional/naming Additional/doi_faq writing... done writing additional files... copying images... [ 25%] Additional/../img/cyverse_rgb.png copying images... [ 50%] Additional/../img/homeicon.png copying images... [ 75%] ./img/homeicon.png copying images... [100%] ./img/intercom.png copying static files... WARNING: html_static_path entry u'/home/docs/checkouts/readthedocs.org/user_builds/cyverse-doi-request-quickstart/checkouts/latest/_static' does not exist done copying readthedocs static files... done copying extra files... done dumping object inventory... done build succeeded, 67 warnings. The HTML page is in _build/localmedia.