Read the Docs build information Build id: 1974431 Project: institute-for-disease-modeling-pycomps Version: latest Commit: adfa211c16de96035c44e1138fc1a9fc44897c25 Date: 2024-01-26T01:05:44.107326Z State: finished Success: True [rtd-command-info] start-time: 2024-01-26T01:05:45.362089Z, end-time: 2024-01-26T01:05:46.906937Z, duration: 1, exit-code: 0 git clone --depth 1 git@github.com:InstituteforDiseaseModeling/pyCOMPS.git . Cloning into '.'... Warning: Permanently added 'github.com' (ED25519) to the list of known hosts. [rtd-command-info] start-time: 2024-01-26T01:05:46.981982Z, end-time: 2024-01-26T01:05:50.409577Z, duration: 3, exit-code: 0 git fetch origin --force --prune --prune-tags --depth 50 Warning: Permanently added 'github.com' (ED25519) to the list of known hosts. 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.readthedocs.yml # .readthedocs.yml # Read the Docs configuration file # See https://docs.readthedocs.io/en/stable/config-file/v2.html for details # Required version: 2 # Set the version of Python and other tools you might need build: os: ubuntu-20.04 tools: python: "3.9" # Build documentation in the docs/ directory with Sphinx sphinx: configuration: docs/conf.py fail_on_warning: true # Build documentation with MkDocs #mkdocs: # configuration: mkdocs.yml # Optionally build your docs in additional formats such as PDF formats: - htmlzip # Optionally set the version of Python and requirements required to build your docs python: install: - requirements: docs/requirements.txt - method: setuptools path: . # Optionally rank topics in search results, between -10 (lower) and 10 (higher). # 0 is normal rank, not no rank # search: # ranking: [rtd-command-info] start-time: 2024-01-26T01:05:56.486811Z, end-time: 2024-01-26T01:05:56.582747Z, duration: 0, exit-code: 0 asdf global python 3.9.18 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babel, alabaster, requests, Jinja2, importlib-metadata, sphinx, readthedocs-sphinx-ext Successfully installed Jinja2-3.1.3 MarkupSafe-2.1.4 Pygments-2.17.2 alabaster-0.7.16 babel-2.14.0 certifi-2023.11.17 charset-normalizer-3.3.2 docutils-0.20.1 idna-3.6 imagesize-1.4.1 importlib-metadata-7.0.1 packaging-23.2 readthedocs-sphinx-ext-2.2.5 requests-2.31.0 snowballstemmer-2.2.0 sphinx-7.2.6 sphinxcontrib-applehelp-1.0.8 sphinxcontrib-devhelp-1.0.6 sphinxcontrib-htmlhelp-2.0.5 sphinxcontrib-jsmath-1.0.1 sphinxcontrib-qthelp-1.0.7 sphinxcontrib-serializinghtml-1.1.10 urllib3-2.1.0 zipp-3.17.0 [rtd-command-info] start-time: 2024-01-26T01:06:12.880989Z, end-time: 2024-01-26T01:06:34.547596Z, duration: 21, exit-code: 0 python -m pip install --exists-action=w --no-cache-dir -r docs/requirements.txt Collecting py-make (from -r docs/requirements.txt (line 1)) Downloading py_make-0.1.1-py2.py3-none-any.whl (9.4 kB) Collecting pygit2~=1.4.0 (from -r docs/requirements.txt (line 2)) Downloading 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Building wheel for docopt (setup.py): started Building wheel for docopt (setup.py): finished with status 'done' Created wheel for docopt: filename=docopt-0.6.2-py2.py3-none-any.whl size=13707 sha256=088bd04d397f70405c5a09f534b101861768e7c5e50232fef798e2808eae182b Stored in directory: /tmp/pip-ephem-wheel-cache-oagiztn_/wheels/70/4a/46/1309fc853b8d395e60bafaf1b6df7845bdd82c95fd59dd8d2b Successfully built docopt Installing collected packages: webencodings, wcwidth, pure-eval, ptyprocess, json5, fastjsonschema, docopt, cached-property, wrapt, websocket-client, webcolors, uri-template, typing-extensions, types-python-dateutil, traitlets, tornado, tomli, tinycss2, soupsieve, sniffio, six, send2trash, rpds-py, rfc3986-validator, readthedocs-sphinx-search, pyzmq, pyyaml, python-json-logger, pyjwt, pycparser, py-make, psutil, prompt-toolkit, prometheus-client, platformdirs, pexpect, parso, pandocfilters, overrides, nest-asyncio, mistune, mdurl, jupyterlab-pygments, jsonpointer, fqdn, executing, exceptiongroup, docutils, defusedxml, decorator, debugpy, attrs, terminado, sphinxext.remoteliteralinclude, sphinx, rfc3339-validator, referencing, python-dateutil, pockets, plantweb, matplotlib-inline, markdown-it-py, jupyter-core, jedi, deprecated, comm, cffi, bleach, beautifulsoup4, async-lru, asttokens, anyio, stack-data, sphinxcontrib-programoutput, sphinxcontrib-napoleon, sphinxcontrib-jquery, sphinx-copybutton, pynacl, pygit2, mdit-py-plugins, jupyter-server-terminals, jupyter-client, jsonschema-specifications, cryptography, arrow, argon2-cffi-bindings, sphinx-rtd-theme, myst-parser, jsonschema, isoduration, ipython, argon2-cffi, pygithub, nbformat, ipykernel, nbclient, jupyter-events, nbconvert, nbsphinx, jupyter-server, notebook-shim, jupyterlab-server, jupyter-lsp, jupyterlab Attempting uninstall: docutils Found existing installation: docutils 0.20.1 Uninstalling docutils-0.20.1: Successfully uninstalled docutils-0.20.1 Attempting uninstall: sphinx Found existing installation: Sphinx 7.2.6 Uninstalling Sphinx-7.2.6: Successfully uninstalled Sphinx-7.2.6 Successfully installed anyio-4.2.0 argon2-cffi-23.1.0 argon2-cffi-bindings-21.2.0 arrow-1.3.0 asttokens-2.4.1 async-lru-2.0.4 attrs-23.2.0 beautifulsoup4-4.12.3 bleach-6.1.0 cached-property-1.5.2 cffi-1.16.0 comm-0.2.1 cryptography-42.0.1 debugpy-1.8.0 decorator-5.1.1 defusedxml-0.7.1 deprecated-1.2.14 docopt-0.6.2 docutils-0.18.1 exceptiongroup-1.2.0 executing-2.0.1 fastjsonschema-2.19.1 fqdn-1.5.1 ipykernel-6.29.0 ipython-8.18.1 isoduration-20.11.0 jedi-0.19.1 json5-0.9.14 jsonpointer-2.4 jsonschema-4.21.1 jsonschema-specifications-2023.12.1 jupyter-client-8.6.0 jupyter-core-5.7.1 jupyter-events-0.9.0 jupyter-lsp-2.2.2 jupyter-server-2.12.5 jupyter-server-terminals-0.5.2 jupyterlab-4.0.11 jupyterlab-pygments-0.3.0 jupyterlab-server-2.25.2 markdown-it-py-3.0.0 matplotlib-inline-0.1.6 mdit-py-plugins-0.4.0 mdurl-0.1.2 mistune-3.0.2 myst-parser-2.0.0 nbclient-0.9.0 nbconvert-7.14.2 nbformat-5.9.2 nbsphinx-0.9.3 nest-asyncio-1.6.0 notebook-shim-0.2.3 overrides-7.6.0 pandocfilters-1.5.1 parso-0.8.3 pexpect-4.9.0 plantweb-1.2.1 platformdirs-4.1.0 pockets-0.9.1 prometheus-client-0.19.0 prompt-toolkit-3.0.43 psutil-5.9.8 ptyprocess-0.7.0 pure-eval-0.2.2 py-make-0.1.1 pycparser-2.21 pygit2-1.4.0 pygithub-1.59.1 pyjwt-2.8.0 pynacl-1.5.0 python-dateutil-2.8.2 python-json-logger-2.0.7 pyyaml-6.0.1 pyzmq-25.1.2 readthedocs-sphinx-search-0.3.2 referencing-0.32.1 rfc3339-validator-0.1.4 rfc3986-validator-0.1.1 rpds-py-0.17.1 send2trash-1.8.2 six-1.16.0 sniffio-1.3.0 soupsieve-2.5 sphinx-6.2.1 sphinx-copybutton-0.5.2 sphinx-rtd-theme-1.2.2 sphinxcontrib-jquery-4.1 sphinxcontrib-napoleon-0.7 sphinxcontrib-programoutput-0.17 sphinxext.remoteliteralinclude-0.4.0 stack-data-0.6.3 terminado-0.18.0 tinycss2-1.2.1 tomli-2.0.1 tornado-6.4 traitlets-5.14.1 types-python-dateutil-2.8.19.20240106 typing-extensions-4.9.0 uri-template-1.3.0 wcwidth-0.2.13 webcolors-1.13 webencodings-0.5.1 websocket-client-1.7.0 wrapt-1.16.0 [rtd-command-info] start-time: 2024-01-26T01:06:34.649296Z, end-time: 2024-01-26T01:06:37.439958Z, duration: 2, exit-code: 0 python ./setup.py install --force running install /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-pycomps/envs/latest/lib/python3.9/site-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated. !! ******************************************************************************** Please avoid running ``setup.py`` directly. Instead, use pypa/build, pypa/installer or other standards-based tools. See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. ******************************************************************************** !! self.initialize_options() /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-pycomps/envs/latest/lib/python3.9/site-packages/setuptools/_distutils/cmd.py:66: EasyInstallDeprecationWarning: easy_install command is deprecated. !! ******************************************************************************** Please avoid running ``setup.py`` and ``easy_install``. Instead, use pypa/build, pypa/installer or other standards-based tools. See https://github.com/pypa/setuptools/issues/917 for details. ******************************************************************************** !! self.initialize_options() running bdist_egg running egg_info creating pyCOMPS.egg-info writing pyCOMPS.egg-info/PKG-INFO writing dependency_links to pyCOMPS.egg-info/dependency_links.txt writing entry points to pyCOMPS.egg-info/entry_points.txt writing requirements to pyCOMPS.egg-info/requires.txt writing top-level names to pyCOMPS.egg-info/top_level.txt writing manifest file 'pyCOMPS.egg-info/SOURCES.txt' reading manifest file 'pyCOMPS.egg-info/SOURCES.txt' adding license file 'LICENSE.txt' writing manifest file 'pyCOMPS.egg-info/SOURCES.txt' installing library code to build/bdist.linux-x86_64/egg running install_lib running build_py creating build creating build/lib creating build/lib/COMPS copying COMPS/__main__.py -> build/lib/COMPS copying COMPS/Client.py -> build/lib/COMPS copying COMPS/__init__.py -> build/lib/COMPS copying COMPS/CredentialPrompt.py -> build/lib/COMPS copying COMPS/AuthManager.py -> build/lib/COMPS creating build/lib/COMPS/Data copying COMPS/Data/AssetCollectionFile.py -> build/lib/COMPS/Data copying COMPS/Data/Simulation.py -> build/lib/COMPS/Data copying COMPS/Data/BaseEntity.py -> build/lib/COMPS/Data copying COMPS/Data/QueryCriteria.py -> build/lib/COMPS/Data copying COMPS/Data/AssetFile.py -> build/lib/COMPS/Data copying COMPS/Data/SerializableEntity.py -> build/lib/COMPS/Data copying COMPS/Data/Experiment.py -> build/lib/COMPS/Data copying COMPS/Data/Suite.py -> build/lib/COMPS/Data copying COMPS/Data/AssetManager.py -> build/lib/COMPS/Data copying COMPS/Data/Configuration.py -> build/lib/COMPS/Data copying COMPS/Data/WorkItemFile.py -> build/lib/COMPS/Data copying COMPS/Data/Priority.py -> build/lib/COMPS/Data copying COMPS/Data/HpcJob.py -> build/lib/COMPS/Data copying COMPS/Data/RelatableEntity.py -> build/lib/COMPS/Data copying COMPS/Data/AssetCollection.py -> build/lib/COMPS/Data copying COMPS/Data/WorkItem.py -> build/lib/COMPS/Data copying COMPS/Data/TaggableEntity.py -> build/lib/COMPS/Data copying COMPS/Data/__init__.py -> build/lib/COMPS/Data copying COMPS/Data/CommissionableEntity.py -> build/lib/COMPS/Data copying COMPS/Data/AssetType.py -> build/lib/COMPS/Data copying COMPS/Data/OutputFileMetadata.py -> build/lib/COMPS/Data copying COMPS/Data/SimulationFile.py -> build/lib/COMPS/Data creating build/lib/COMPS/utils copying COMPS/utils/get_output_files_for_workitem.py -> build/lib/COMPS/utils copying COMPS/utils/get_output_tail.py -> build/lib/COMPS/utils copying COMPS/utils/rerun_failed_simulations_for_experiment.py -> build/lib/COMPS/utils copying COMPS/utils/__example_utility_template__.py -> build/lib/COMPS/utils copying COMPS/utils/main.py -> build/lib/COMPS/utils copying COMPS/utils/create_asset_collection.py -> build/lib/COMPS/utils copying COMPS/utils/get_status.py -> build/lib/COMPS/utils copying COMPS/utils/__init__.py -> build/lib/COMPS/utils copying COMPS/utils/clone_simulation.py -> build/lib/COMPS/utils copying COMPS/utils/get_output_files_for_experiment.py -> build/lib/COMPS/utils creating build/lib/COMPS/Data/WorkItems copying COMPS/Data/WorkItems/BuilderWorkItem.py -> build/lib/COMPS/Data/WorkItems copying COMPS/Data/WorkItems/__init__.py -> build/lib/COMPS/Data/WorkItems copying COMPS/logging.ini -> build/lib/COMPS creating build/bdist.linux-x86_64 creating build/bdist.linux-x86_64/egg creating build/bdist.linux-x86_64/egg/COMPS copying build/lib/COMPS/__main__.py -> build/bdist.linux-x86_64/egg/COMPS copying build/lib/COMPS/Client.py -> build/bdist.linux-x86_64/egg/COMPS creating build/bdist.linux-x86_64/egg/COMPS/Data copying build/lib/COMPS/Data/AssetCollectionFile.py -> build/bdist.linux-x86_64/egg/COMPS/Data copying build/lib/COMPS/Data/Simulation.py -> build/bdist.linux-x86_64/egg/COMPS/Data copying build/lib/COMPS/Data/BaseEntity.py -> build/bdist.linux-x86_64/egg/COMPS/Data copying build/lib/COMPS/Data/QueryCriteria.py -> build/bdist.linux-x86_64/egg/COMPS/Data copying build/lib/COMPS/Data/AssetFile.py -> build/bdist.linux-x86_64/egg/COMPS/Data copying build/lib/COMPS/Data/SerializableEntity.py -> build/bdist.linux-x86_64/egg/COMPS/Data copying build/lib/COMPS/Data/Experiment.py -> build/bdist.linux-x86_64/egg/COMPS/Data copying build/lib/COMPS/Data/Suite.py -> build/bdist.linux-x86_64/egg/COMPS/Data copying build/lib/COMPS/Data/AssetManager.py -> build/bdist.linux-x86_64/egg/COMPS/Data copying build/lib/COMPS/Data/Configuration.py -> build/bdist.linux-x86_64/egg/COMPS/Data copying build/lib/COMPS/Data/WorkItemFile.py -> build/bdist.linux-x86_64/egg/COMPS/Data copying build/lib/COMPS/Data/Priority.py -> build/bdist.linux-x86_64/egg/COMPS/Data copying build/lib/COMPS/Data/HpcJob.py -> build/bdist.linux-x86_64/egg/COMPS/Data copying build/lib/COMPS/Data/RelatableEntity.py -> build/bdist.linux-x86_64/egg/COMPS/Data copying build/lib/COMPS/Data/AssetCollection.py -> build/bdist.linux-x86_64/egg/COMPS/Data copying build/lib/COMPS/Data/WorkItem.py -> build/bdist.linux-x86_64/egg/COMPS/Data copying build/lib/COMPS/Data/TaggableEntity.py -> build/bdist.linux-x86_64/egg/COMPS/Data copying build/lib/COMPS/Data/__init__.py -> build/bdist.linux-x86_64/egg/COMPS/Data copying build/lib/COMPS/Data/CommissionableEntity.py -> build/bdist.linux-x86_64/egg/COMPS/Data copying build/lib/COMPS/Data/AssetType.py -> build/bdist.linux-x86_64/egg/COMPS/Data copying build/lib/COMPS/Data/OutputFileMetadata.py -> build/bdist.linux-x86_64/egg/COMPS/Data copying build/lib/COMPS/Data/SimulationFile.py -> build/bdist.linux-x86_64/egg/COMPS/Data creating build/bdist.linux-x86_64/egg/COMPS/Data/WorkItems copying build/lib/COMPS/Data/WorkItems/BuilderWorkItem.py -> build/bdist.linux-x86_64/egg/COMPS/Data/WorkItems copying build/lib/COMPS/Data/WorkItems/__init__.py -> build/bdist.linux-x86_64/egg/COMPS/Data/WorkItems copying build/lib/COMPS/__init__.py -> build/bdist.linux-x86_64/egg/COMPS creating build/bdist.linux-x86_64/egg/COMPS/utils copying build/lib/COMPS/utils/get_output_files_for_workitem.py -> build/bdist.linux-x86_64/egg/COMPS/utils copying build/lib/COMPS/utils/get_output_tail.py -> build/bdist.linux-x86_64/egg/COMPS/utils copying build/lib/COMPS/utils/rerun_failed_simulations_for_experiment.py -> build/bdist.linux-x86_64/egg/COMPS/utils copying build/lib/COMPS/utils/__example_utility_template__.py -> build/bdist.linux-x86_64/egg/COMPS/utils copying build/lib/COMPS/utils/main.py -> build/bdist.linux-x86_64/egg/COMPS/utils copying build/lib/COMPS/utils/create_asset_collection.py -> build/bdist.linux-x86_64/egg/COMPS/utils copying build/lib/COMPS/utils/get_status.py -> build/bdist.linux-x86_64/egg/COMPS/utils copying build/lib/COMPS/utils/__init__.py -> build/bdist.linux-x86_64/egg/COMPS/utils copying build/lib/COMPS/utils/clone_simulation.py -> build/bdist.linux-x86_64/egg/COMPS/utils copying build/lib/COMPS/utils/get_output_files_for_experiment.py -> build/bdist.linux-x86_64/egg/COMPS/utils copying build/lib/COMPS/logging.ini -> build/bdist.linux-x86_64/egg/COMPS copying build/lib/COMPS/CredentialPrompt.py -> build/bdist.linux-x86_64/egg/COMPS copying build/lib/COMPS/AuthManager.py -> build/bdist.linux-x86_64/egg/COMPS byte-compiling build/bdist.linux-x86_64/egg/COMPS/__main__.py to __main__.cpython-39.pyc byte-compiling build/bdist.linux-x86_64/egg/COMPS/Client.py to Client.cpython-39.pyc byte-compiling build/bdist.linux-x86_64/egg/COMPS/Data/AssetCollectionFile.py to AssetCollectionFile.cpython-39.pyc byte-compiling build/bdist.linux-x86_64/egg/COMPS/Data/Simulation.py to Simulation.cpython-39.pyc byte-compiling build/bdist.linux-x86_64/egg/COMPS/Data/BaseEntity.py to BaseEntity.cpython-39.pyc byte-compiling build/bdist.linux-x86_64/egg/COMPS/Data/QueryCriteria.py to QueryCriteria.cpython-39.pyc byte-compiling build/bdist.linux-x86_64/egg/COMPS/Data/AssetFile.py to AssetFile.cpython-39.pyc byte-compiling build/bdist.linux-x86_64/egg/COMPS/Data/SerializableEntity.py to SerializableEntity.cpython-39.pyc build/bdist.linux-x86_64/egg/COMPS/Data/SerializableEntity.py:111: SyntaxWarning: "is not" with a literal. Did you mean "!="? if name[0] is not '_' or include_hidden_props: byte-compiling build/bdist.linux-x86_64/egg/COMPS/Data/Experiment.py to Experiment.cpython-39.pyc byte-compiling build/bdist.linux-x86_64/egg/COMPS/Data/Suite.py to Suite.cpython-39.pyc byte-compiling build/bdist.linux-x86_64/egg/COMPS/Data/AssetManager.py to AssetManager.cpython-39.pyc byte-compiling build/bdist.linux-x86_64/egg/COMPS/Data/Configuration.py to Configuration.cpython-39.pyc byte-compiling build/bdist.linux-x86_64/egg/COMPS/Data/WorkItemFile.py to WorkItemFile.cpython-39.pyc byte-compiling build/bdist.linux-x86_64/egg/COMPS/Data/Priority.py to Priority.cpython-39.pyc byte-compiling build/bdist.linux-x86_64/egg/COMPS/Data/HpcJob.py to HpcJob.cpython-39.pyc byte-compiling build/bdist.linux-x86_64/egg/COMPS/Data/RelatableEntity.py to RelatableEntity.cpython-39.pyc byte-compiling build/bdist.linux-x86_64/egg/COMPS/Data/AssetCollection.py to AssetCollection.cpython-39.pyc byte-compiling build/bdist.linux-x86_64/egg/COMPS/Data/WorkItem.py to WorkItem.cpython-39.pyc byte-compiling build/bdist.linux-x86_64/egg/COMPS/Data/TaggableEntity.py to TaggableEntity.cpython-39.pyc byte-compiling build/bdist.linux-x86_64/egg/COMPS/Data/__init__.py to __init__.cpython-39.pyc byte-compiling build/bdist.linux-x86_64/egg/COMPS/Data/CommissionableEntity.py to CommissionableEntity.cpython-39.pyc byte-compiling build/bdist.linux-x86_64/egg/COMPS/Data/AssetType.py to AssetType.cpython-39.pyc byte-compiling build/bdist.linux-x86_64/egg/COMPS/Data/OutputFileMetadata.py to OutputFileMetadata.cpython-39.pyc byte-compiling build/bdist.linux-x86_64/egg/COMPS/Data/SimulationFile.py to SimulationFile.cpython-39.pyc byte-compiling build/bdist.linux-x86_64/egg/COMPS/Data/WorkItems/BuilderWorkItem.py to BuilderWorkItem.cpython-39.pyc byte-compiling build/bdist.linux-x86_64/egg/COMPS/Data/WorkItems/__init__.py to __init__.cpython-39.pyc byte-compiling build/bdist.linux-x86_64/egg/COMPS/__init__.py to __init__.cpython-39.pyc byte-compiling build/bdist.linux-x86_64/egg/COMPS/utils/get_output_files_for_workitem.py to get_output_files_for_workitem.cpython-39.pyc byte-compiling build/bdist.linux-x86_64/egg/COMPS/utils/get_output_tail.py to get_output_tail.cpython-39.pyc byte-compiling build/bdist.linux-x86_64/egg/COMPS/utils/rerun_failed_simulations_for_experiment.py to rerun_failed_simulations_for_experiment.cpython-39.pyc byte-compiling build/bdist.linux-x86_64/egg/COMPS/utils/__example_utility_template__.py to __example_utility_template__.cpython-39.pyc byte-compiling build/bdist.linux-x86_64/egg/COMPS/utils/main.py to main.cpython-39.pyc byte-compiling build/bdist.linux-x86_64/egg/COMPS/utils/create_asset_collection.py to create_asset_collection.cpython-39.pyc byte-compiling build/bdist.linux-x86_64/egg/COMPS/utils/get_status.py to get_status.cpython-39.pyc byte-compiling build/bdist.linux-x86_64/egg/COMPS/utils/__init__.py to __init__.cpython-39.pyc byte-compiling build/bdist.linux-x86_64/egg/COMPS/utils/clone_simulation.py to clone_simulation.cpython-39.pyc byte-compiling build/bdist.linux-x86_64/egg/COMPS/utils/get_output_files_for_experiment.py to get_output_files_for_experiment.cpython-39.pyc byte-compiling build/bdist.linux-x86_64/egg/COMPS/CredentialPrompt.py to CredentialPrompt.cpython-39.pyc byte-compiling build/bdist.linux-x86_64/egg/COMPS/AuthManager.py to AuthManager.cpython-39.pyc creating build/bdist.linux-x86_64/egg/EGG-INFO copying pyCOMPS.egg-info/PKG-INFO -> build/bdist.linux-x86_64/egg/EGG-INFO copying pyCOMPS.egg-info/SOURCES.txt -> build/bdist.linux-x86_64/egg/EGG-INFO copying pyCOMPS.egg-info/dependency_links.txt -> build/bdist.linux-x86_64/egg/EGG-INFO copying pyCOMPS.egg-info/entry_points.txt -> build/bdist.linux-x86_64/egg/EGG-INFO copying pyCOMPS.egg-info/not-zip-safe -> build/bdist.linux-x86_64/egg/EGG-INFO copying pyCOMPS.egg-info/requires.txt -> build/bdist.linux-x86_64/egg/EGG-INFO copying pyCOMPS.egg-info/top_level.txt -> build/bdist.linux-x86_64/egg/EGG-INFO creating dist creating 'dist/pyCOMPS-2.10.0-py3.9.egg' and adding 'build/bdist.linux-x86_64/egg' to it removing 'build/bdist.linux-x86_64/egg' (and everything under it) Processing pyCOMPS-2.10.0-py3.9.egg creating /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-pycomps/envs/latest/lib/python3.9/site-packages/pyCOMPS-2.10.0-py3.9.egg Extracting pyCOMPS-2.10.0-py3.9.egg to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-pycomps/envs/latest/lib/python3.9/site-packages /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-pycomps/envs/latest/lib/python3.9/site-packages/pyCOMPS-2.10.0-py3.9.egg/COMPS/Data/SerializableEntity.py:111: SyntaxWarning: "is not" with a literal. Did you mean "!="? if name[0] is not '_' or include_hidden_props: Adding pyCOMPS 2.10.0 to easy-install.pth file Installing comps-util script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-pycomps/envs/latest/bin Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-pycomps/envs/latest/lib/python3.9/site-packages/pyCOMPS-2.10.0-py3.9.egg Processing dependencies for pyCOMPS==2.10.0 Searching for xdg>=4.0.1 Reading https://pypi.org/simple/xdg/ Downloading https://files.pythonhosted.org/packages/dd/54/3516c1cf349060fc3578686d271eba242f10ec00b4530c2985af9faac49b/xdg-6.0.0-py3-none-any.whl#sha256=df3510755b4395157fc04fc3b02467c777f3b3ca383257397f09ab0d4c16f936 Best match: xdg 6.0.0 Processing xdg-6.0.0-py3-none-any.whl Installing xdg-6.0.0-py3-none-any.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-pycomps/envs/latest/lib/python3.9/site-packages Adding xdg 6.0.0 to easy-install.pth file detected new path './pyCOMPS-2.10.0-py3.9.egg' Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-pycomps/envs/latest/lib/python3.9/site-packages/xdg-6.0.0-py3.9.egg Searching for future>=0.16.0 Reading https://pypi.org/simple/future/ Downloading https://files.pythonhosted.org/packages/8f/2e/cf6accf7415237d6faeeebdc7832023c90e0282aa16fd3263db0eb4715ec/future-0.18.3.tar.gz#sha256=34a17436ed1e96697a86f9de3d15a3b0be01d8bc8de9c1dffd59fb8234ed5307 Best match: future 0.18.3 Processing future-0.18.3.tar.gz Writing /tmp/easy_install-34g10ome/future-0.18.3/setup.cfg Running future-0.18.3/setup.py -q bdist_egg --dist-dir /tmp/easy_install-34g10ome/future-0.18.3/egg-dist-tmp-2o28irnq warning: no files found matching '*.au' under directory 'tests' warning: no files found matching '*.gif' under directory 'tests' warning: no files found matching '*.txt' under directory 'tests' /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-pycomps/envs/latest/lib/python3.9/site-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated. !! ******************************************************************************** Please avoid running ``setup.py`` directly. Instead, use pypa/build, pypa/installer or other standards-based tools. See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. ******************************************************************************** !! self.initialize_options() zip_safe flag not set; analyzing archive contents... future.backports.test.__pycache__.ssl_servers.cpython-39: module references __file__ future.backports.test.__pycache__.support.cpython-39: module references __file__ future.standard_library.__pycache__.__init__.cpython-39: module references __file__ future.standard_library.__pycache__.__init__.cpython-39: module references __path__ future.utils.__pycache__.__init__.cpython-39: module MAY be using inspect.stack past.builtins.__pycache__.misc.cpython-39: module MAY be using inspect.stack past.translation.__pycache__.__init__.cpython-39: module references __file__ past.translation.__pycache__.__init__.cpython-39: module references __path__ Adding future 0.18.3 to easy-install.pth file detected new path './xdg-6.0.0-py3.9.egg' Installing futurize script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-pycomps/envs/latest/bin Installing pasteurize script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-pycomps/envs/latest/bin Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-pycomps/envs/latest/lib/python3.9/site-packages/future-0.18.3-py3.9.egg Searching for pytz>=2016.3 Reading https://pypi.org/simple/pytz/ Downloading https://files.pythonhosted.org/packages/32/4d/aaf7eff5deb402fd9a24a1449a8119f00d74ae9c2efa79f8ef9994261fc2/pytz-2023.3.post1-py2.py3-none-any.whl#sha256=ce42d816b81b68506614c11e8937d3aa9e41007ceb50bfdcb0749b921bf646c7 Best match: pytz 2023.3.post1 Processing pytz-2023.3.post1-py2.py3-none-any.whl Installing pytz-2023.3.post1-py2.py3-none-any.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-pycomps/envs/latest/lib/python3.9/site-packages Adding pytz 2023.3.post1 to easy-install.pth file detected new path './future-0.18.3-py3.9.egg' Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-pycomps/envs/latest/lib/python3.9/site-packages/pytz-2023.3.post1-py3.9.egg Searching for requests==2.31.0 Best match: requests 2.31.0 Adding requests 2.31.0 to easy-install.pth file detected new path './pytz-2023.3.post1-py3.9.egg' Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-pycomps/envs/latest/lib/python3.9/site-packages Searching for certifi==2023.11.17 Best match: certifi 2023.11.17 Adding certifi 2023.11.17 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-pycomps/envs/latest/lib/python3.9/site-packages Searching for urllib3==2.1.0 Best match: urllib3 2.1.0 Adding urllib3 2.1.0 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-pycomps/envs/latest/lib/python3.9/site-packages Searching for idna==3.6 Best match: idna 3.6 Adding idna 3.6 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-pycomps/envs/latest/lib/python3.9/site-packages Searching for charset-normalizer==3.3.2 Best match: charset-normalizer 3.3.2 Adding charset-normalizer 3.3.2 to easy-install.pth file Installing normalizer script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-pycomps/envs/latest/bin Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-pycomps/envs/latest/lib/python3.9/site-packages Finished processing dependencies for pyCOMPS==2.10.0 [rtd-command-info] start-time: 2024-01-26T01:06:38.080407Z, end-time: 2024-01-26T01:06:38.141914Z, duration: 0, exit-code: 0 cat docs/conf.py # -*- coding: utf-8 -*- # # Sphinx Demo documentation build configuration file, created by # sphinx-quickstart on Fri Aug 26 16:52:16 2016. # # This file is execfile()d with the current directory set to its # containing dir. # # Note that not all possible configuration values are present in this # autogenerated file. # # All configuration values have a default; values that are commented out # serve to show the default. # If extensions (or modules to document with autodoc) are in another directory, # add these directories to sys.path here. If the directory is relative to the # documentation root, use os.path.abspath to make it absolute, like shown here. # import os import subprocess import sys import sphinx_rtd_theme import configparser from datetime import datetime if sys.platform in ["linux", "darwin"]: subprocess.check_output(["make", "generate-api"], cwd=os.path.dirname(os.path.abspath(__file__))) else: subprocess.check_output(["make.bat", "generate-api"], cwd=os.path.dirname(os.path.abspath(__file__))) # -- General configuration ------------------------------------------------ # If your documentation needs a minimal Sphinx version, state it here. # # needs_sphinx = '1.0' # Add any Sphinx extension module names here, as strings. They can be # extensions coming with Sphinx (named 'sphinx.ext.*') or your custom # ones. extensions = [ 'sphinx.ext.mathjax', 'sphinx.ext.githubpages', 'sphinx.ext.autodoc', 'sphinxcontrib.napoleon', 'sphinx.ext.todo', 'plantweb.directive', 'sphinxcontrib.programoutput', 'sphinx_copybutton', 'sphinx.ext.intersphinx', 'sphinxext.remoteliteralinclude', 'sphinx_search.extension', # search across multiple docsets in domain 'sphinx.ext.viewcode', # link to view source code 'myst_parser', # source files written in MD or RST ] myst_enable_extensions = [ "amsmath", "attrs_inline", "colon_fence", "deflist", "dollarmath", "fieldlist", "html_admonition", "html_image", "linkify", "replacements", "smartquotes", "strikethrough", "substitution", "tasklist", ] plantuml = 'plantweb' autodoc_default_options = { 'member-order': 'bysource', 'members': None, 'exclude-members': '__all__' } napoleon_google_docstring = True # Add any paths that contain templates here, relative to this directory. templates_path = ['_templates'] # The suffix(es) of source filenames. # You can specify multiple suffix as a list of string: # source_suffix = ['.rst', '.md'] # The encoding of source files. # # source_encoding = 'utf-8-sig' # The master toctree document. master_doc = 'index' # General information about the project. project = u'pyCOMPS' copyright = f'1999 - {datetime.today().year}, Bill & Melinda Gates Foundation. All rights reserved' author = u'Institute for Disease Modeling' # The version info for the project you're documenting, acts as replacement for # |version| and |release|, also used in various other places throughout the # built documents. # # The short X.Y version. # version = u'1.0' # The full version, including alpha/beta/rc tags. # release = u'1.0' # The language for content autogenerated by Sphinx. Refer to documentation # for a list of supported languages. # # This is also used if you do content translation via gettext catalogs. # Usually you set "language" from the command line for these cases. language = 'en' # There are two options for replacing |today|: either, you set today to some # non-false value, then it is used: # # today = '' # # Else, today_fmt is used as the format for a strftime call. # # today_fmt = '%B %d, %Y' # List of patterns, relative to source directory, that match files and # directories to ignore when looking for source files. # This patterns also effect to html_static_path and html_extra_path exclude_patterns = ['_build', 'Thumbs.db', '.DS_Store'] # The reST default role (used for this markup: `text`) to use for all # documents. # # default_role = None # If true, '()' will be appended to :func: etc. cross-reference text. # # add_function_parentheses = True # If true, the current module name will be prepended to all description # unit titles (such as .. function::). # # add_module_names = True # If true, sectionauthor and moduleauthor directives will be shown in the # output. They are ignored by default. # # show_authors = False # The name of the Pygments (syntax highlighting) style to use. pygments_style = 'sphinx' # A list of ignored prefixes for module index sorting. # modindex_common_prefix = [] # If true, keep warnings as "system message" paragraphs in the built documents. # keep_warnings = False # If true, `todo` and `todoList` produce output, else they produce nothing. todo_include_todos = False # RST epilog is added to the end of every topic. Useful for replace # directives to use across the docset. rst_epilog = "\n.. include:: /variables.txt" # -- Options for HTML output ---------------------------------------------- # The theme to use for HTML and HTML Help pages. See the documentation for # a list of builtin themes. # html_theme = 'sphinx_rtd_theme' # Theme options are theme-specific and customize the look and feel of a theme # further. For a list of options available for each theme, see the # documentation. # # # html_theme_options = { # } # Add any paths that contain custom themes here, relative to this directory. html_theme_path = [sphinx_rtd_theme.get_html_theme_path()] # The name for this set of Sphinx documents. # " v documentation" by default. # # html_title = u'Sphinx Demo v1.0' # A shorter title for the navigation bar. Default is the same as html_title. # # html_short_title = None # The name of an image file (relative to this directory) to place at the top # of the sidebar. # html_logo = "images/IDM_white.png" # The name of an image file (relative to this directory) to use as a favicon of # the docs. This file should be a Windows icon file (.ico) being 16x16 or 32x32 # pixels large. # html_favicon = "images/favicon.ico" # Add any paths that contain custom static files (such as style sheets) here, # relative to this directory. They are copied after the builtin static files, # so a file named "default.css" will overwrite the builtin "default.css". html_static_path = ['_static'] html_css_files = ['theme_overrides.css'] html_js_files = ['show_block_by_os.js'] # Add any extra paths that contain custom files (such as robots.txt or # .htaccess) here, relative to this directory. These files are copied # directly to the root of the documentation. # # html_extra_path = [] # If not None, a 'Last updated on:' timestamp is inserted at every page # bottom, using the given strftime format. # The empty string is equivalent to '%b %d, %Y'. # # html_last_updated_fmt = None # If true, SmartyPants will be used to convert quotes and dashes to # typographically correct entities. # # html_use_smartypants = True # Custom sidebar templates, maps document names to template names. # # html_sidebars = {} # Additional templates that should be rendered to pages, maps page names to # template names. # # html_additional_pages = {} # If false, no module index is generated. # # html_domain_indices = True # If false, no index is generated. # # html_use_index = True # If true, the index is split into individual pages for each letter. # # html_split_index = False # If true, links to the reST sources are added to the pages. # html_show_sourcelink = False # If true, "Created using Sphinx" is shown in the HTML footer. Default is True. # html_show_sphinx = False # If true, "(C) Copyright ..." is shown in the HTML footer. Default is True. # # html_show_copyright = True # If true, an OpenSearch description file will be output, and all pages will # contain a tag referring to it. The value of this option must be the # base URL from which the finished HTML is served. # html_use_opensearch = 'www.idmod.org/docs' # This is the file name suffix for HTML files (e.g. ".xhtml"). # html_file_suffix = None # Language to be used for generating the HTML full-text search index. # Sphinx supports the following languages: # 'da', 'de', 'en', 'es', 'fi', 'fr', 'hu', 'it', 'ja' # 'nl', 'no', 'pt', 'ro', 'ru', 'sv', 'tr', 'zh' # # html_search_language = 'en' # A dictionary with options for the search language support, empty by default. # 'ja' uses this config value. # 'zh' user can custom change `jieba` dictionary path. # # html_search_options = {'type': 'default'} # The name of a javascript file (relative to the configuration directory) that # implements a search results scorer. If empty, the default will be used. # # html_search_scorer = 'scorer.js' # Output file base name for HTML help builder. htmlhelp_basename = 'pyCOMPS' # -- RTD Sphinx search for searching across the entire domain, default parent ------------- if os.environ.get('READTHEDOCS') == 'True': search_project_parent = "institute-for-disease-modeling-idm" search_project = os.environ["READTHEDOCS_PROJECT"] search_version = os.environ["READTHEDOCS_VERSION"] rtd_sphinx_search_default_filter = f"subprojects:{search_project}/{search_version}" rtd_sphinx_search_filters = { "Search this project": f"project:{search_project}/{search_version}", "Search all IDM docs": f"subprojects:{search_project_parent}/{search_version}", } # -- Options for LaTeX output --------------------------------------------- latex_elements = { # The paper size ('letterpaper' or 'a4paper'). # # 'papersize': 'letterpaper', # The font size ('10pt', '11pt' or '12pt'). # # 'pointsize': '10pt', # Additional stuff for the LaTeX preamble. # # 'preamble': '', # Latex figure (float) alignment # # 'figure_align': 'htbp', } # Grouping the document tree into LaTeX files. List of tuples # (source start file, target name, title, # author, documentclass [howto, manual, or own class]). latex_documents = [ (master_doc, 'pycomps-docs.tex', u'pyCOMPS', u'Institute for Disease Modeling', 'manual'), ] # The name of an image file (relative to this directory) to place at the top of # the title page. # # latex_logo = None # For "manual" documents, if this is true, then toplevel headings are parts, # not chapters. # # latex_use_parts = False # If true, show page references after internal links. # # latex_show_pagerefs = False # If true, show URL addresses after external links. # # latex_show_urls = False # Documents to append as an appendix to all manuals. # # latex_appendices = [] # It false, will not define \strong, \code, itleref, \crossref ... but only # \sphinxstrong, ..., \sphinxtitleref, ... To help avoid clash with user added # packages. # # latex_keep_old_macro_names = True # If false, no module index is generated. # # latex_domain_indices = True # -- Options for manual page output --------------------------------------- # One entry per manual page. List of tuples # (source start file, name, description, authors, manual section). man_pages = [ (master_doc, 'pycomps-docs', u'pyCOMPS', [author], 1) ] # If true, show URL addresses after external links. # man_show_urls = True # -- Options for Texinfo output ------------------------------------------- # Grouping the document tree into Texinfo files. List of tuples # (source start file, target name, title, author, # dir menu entry, description, category) texinfo_documents = [ (master_doc, 'pycomps-docs', u'pyCOMPS', author, 'Institute for Disease Modeling', 'How to use pyCOMPS for running simulations.', 'Miscellaneous'), ] # Documents to append as an appendix to all manuals. # # texinfo_appendices = [] # If false, no module index is generated. # # texinfo_domain_indices = True # How to display URL addresses: 'footnote', 'no', or 'inline'. # # texinfo_show_urls = 'footnote' # If true, do not generate a @detailmenu in the "Top" node's menu. # # texinfo_no_detailmenu = False # Example configuration for intersphinx: refer to the Python standard library. # intersphinx_mapping = {'https://docs.python.org/': None} # Example configuration for intersphinx: refer to the Python standard library. intersphinx_mapping = {'python': ('https://docs.python.org/3', None), 'emod_api': ('https://docs.idmod.org/projects/emod-api/en/latest/', None), 'emodpy': ('https://docs.idmod.org/projects/emodpy/en/latest/', None), 'pycomps': ('https://docs.idmod.org/projects/pycomps/en/latest/', None), 'emod-generic': ('https://docs.idmod.org/projects/emod-generic/en/latest/', None) } ########################################################################### # 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') # Define this variable in case it's not defined by the user. # It defaults to `alabaster` which is the default from Sphinx. # https://www.sphinx-doc.org/en/master/usage/configuration.html#confval-html_theme html_theme = globals().get('html_theme', 'alabaster') #Add project information to the template context. context = { '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/"), ("v2.10.0", "/en/v2.10.0/"), ("v2.9.1", "/en/v2.9.1/"), ("v2.9.0", "/en/v2.9.0/"), ("v2.8.0", "/en/v2.8.0/"), ("v2.7.3", "/en/v2.7.3/"), ("v2.7.2", "/en/v2.7.2/"), ("v2.7.1", "/en/v2.7.1/"), ("v2.7.0", "/en/v2.7.0/"), ("v2.6.0", "/en/v2.6.0/"), ("v2.5.0", "/en/v2.5.0/"), ], 'downloads': [ ("html", "//docs.idmod.org/_/downloads/pycomps/en/latest/htmlzip/"), ], 'subprojects': [ ], 'slug': 'institute-for-disease-modeling-pycomps', 'name': u'pyCOMPS', 'rtd_language': u'en', 'programming_language': u'py', 'canonical_url': '', 'analytics_code': 'None', 'single_version': False, 'conf_py_path': '/docs/', 'api_host': 'https://readthedocs.com', 'github_user': 'InstituteforDiseaseModeling', 'proxied_api_host': '/_', 'github_repo': 'pyCOMPS', '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': '', 'global_analytics_code': 'UA-17997319-2', 'commit': 'adfa211c', } # 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(): for key in context: if key not in html_context: html_context[key] = context[key] 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/institute-for-disease-modeling-pycomps/builds/1974431/' 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: 2024-01-26T01:06:38.214394Z, end-time: 2024-01-26T01:06:46.123730Z, duration: 7, exit-code: 0 python -m sphinx -T -E -W --keep-going -b html -d _build/doctrees -D language=en . $READTHEDOCS_OUTPUT/html Running Sphinx v6.2.1 making output directory... done loading intersphinx inventory from https://docs.python.org/3/objects.inv... loading intersphinx inventory from https://docs.idmod.org/projects/emod-api/en/latest/objects.inv... loading intersphinx inventory from https://docs.idmod.org/projects/emodpy/en/latest/objects.inv... loading intersphinx inventory from https://docs.idmod.org/projects/pycomps/en/latest/objects.inv... loading intersphinx inventory from https://docs.idmod.org/projects/emod-generic/en/latest/objects.inv... myst v2.0.0: MdParserConfig(commonmark_only=False, gfm_only=False, enable_extensions={'tasklist', 'deflist', 'html_admonition', 'amsmath', 'colon_fence', 'html_image', 'replacements', 'strikethrough', 'linkify', 'substitution', 'fieldlist', 'dollarmath', 'smartquotes', 'attrs_inline'}, disable_syntax=[], all_links_external=False, url_schemes=('http', 'https', 'mailto', 'ftp'), ref_domains=None, fence_as_directive=set(), number_code_blocks=[], title_to_header=False, heading_anchors=0, heading_slug_func=None, html_meta={}, footnote_transition=True, words_per_minute=200, substitutions={}, linkify_fuzzy_links=True, dmath_allow_labels=True, dmath_allow_space=True, dmath_allow_digits=True, dmath_double_inline=False, update_mathjax=True, mathjax_classes='tex2jax_process|mathjax_process|math|output_area', enable_checkboxes=False, suppress_warnings=[], highlight_code_blocks=True) building [mo]: targets for 0 po files that are out of date writing output... building [html]: targets for 54 source files that are out of date updating environment: [new config] 54 added, 0 changed, 0 removed reading sources... 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[rtd-command-info] start-time: 2024-01-26T01:06:46.200810Z, end-time: 2024-01-26T01:06:51.960545Z, duration: 5, exit-code: 0 python -m sphinx -T -E -W --keep-going -b readthedocssinglehtmllocalmedia -d _build/doctrees -D language=en . $READTHEDOCS_OUTPUT/htmlzip Running Sphinx v6.2.1 making output directory... done loading intersphinx inventory from https://docs.python.org/3/objects.inv... loading intersphinx inventory from https://docs.idmod.org/projects/emod-api/en/latest/objects.inv... loading intersphinx inventory from https://docs.idmod.org/projects/emodpy/en/latest/objects.inv... loading intersphinx inventory from https://docs.idmod.org/projects/pycomps/en/latest/objects.inv... loading intersphinx inventory from https://docs.idmod.org/projects/emod-generic/en/latest/objects.inv... myst v2.0.0: MdParserConfig(commonmark_only=False, gfm_only=False, enable_extensions={'html_image', 'colon_fence', 'smartquotes', 'html_admonition', 'replacements', 'tasklist', 'dollarmath', 'fieldlist', 'amsmath', 'attrs_inline', 'linkify', 'strikethrough', 'deflist', 'substitution'}, disable_syntax=[], all_links_external=False, url_schemes=('http', 'https', 'mailto', 'ftp'), ref_domains=None, fence_as_directive=set(), number_code_blocks=[], title_to_header=False, heading_anchors=0, heading_slug_func=None, html_meta={}, footnote_transition=True, words_per_minute=200, substitutions={}, linkify_fuzzy_links=True, dmath_allow_labels=True, dmath_allow_space=True, dmath_allow_digits=True, dmath_double_inline=False, update_mathjax=True, mathjax_classes='tex2jax_process|mathjax_process|math|output_area', enable_checkboxes=False, suppress_warnings=[], highlight_code_blocks=True) building [mo]: targets for 0 po files that are out of date writing output... building [readthedocssinglehtmllocalmedia]: all documents updating environment: [new config] 54 added, 0 changed, 0 removed reading sources... 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[100%] overview-terminology looking for now-outdated files... none found pickling environment... done checking consistency... done preparing documents... done assembling single document... overview-comps overview-terminology create-workitems-simulations create-simulations howto-create-simulations howto-example-config howto-example-campaign create-climateinput howto-create-climateinput manage-workitems-simulations howto-dashboard howto-multichart-view howto-weather-view howto-cleanup architecture modules COMPS.Data COMPS.Data.WorkItems COMPS.Data.WorkItems.BuilderWorkItem COMPS.Data.AssetCollection COMPS.Data.AssetCollectionFile COMPS.Data.AssetFile COMPS.Data.AssetManager COMPS.Data.AssetType COMPS.Data.BaseEntity COMPS.Data.CommissionableEntity COMPS.Data.Configuration COMPS.Data.Experiment COMPS.Data.HpcJob COMPS.Data.OutputFileMetadata COMPS.Data.Priority COMPS.Data.QueryCriteria COMPS.Data.RelatableEntity COMPS.Data.SerializableEntity COMPS.Data.Simulation COMPS.Data.SimulationFile COMPS.Data.Suite COMPS.Data.TaggableEntity COMPS.Data.WorkItem COMPS.Data.WorkItemFile COMPS.utils COMPS.utils.clone_simulation COMPS.utils.create_asset_collection COMPS.utils.get_output_files_for_experiment COMPS.utils.get_output_files_for_workitem COMPS.utils.get_output_tail COMPS.utils.get_status COMPS.utils.main COMPS.utils.rerun_failed_simulations_for_experiment COMPS.AuthManager COMPS.Client COMPS.CredentialPrompt glossary done writing... done writing additional files... opensearchdone copying images... 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