Read the Docs build information Build id: 469083 Project: institute-for-disease-modeling-emod-api Version: latest Commit: a9d4b6459eddf1eb19883cab3471dc38a91c5051 Date: 2020-11-02T23:08:26.112362Z State: finished Success: True [rtd-command-info] start-time: 2020-11-02T23:08:28.242740Z, end-time: 2020-11-02T23:08:29.210168Z, duration: 0, exit-code: 0 git clone --no-single-branch --depth 50 git@github.com:InstituteforDiseaseModeling/emod-api.git . Cloning into '.'... Warning: Permanently added 'github.com,192.30.255.113' (RSA) to the list of known hosts. [rtd-command-info] start-time: 2020-11-02T23:08:29.977890Z, end-time: 2020-11-02T23:08:30.159111Z, 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 a9d4b64 Fixes #147 [rtd-command-info] start-time: 2020-11-02T23:08:30.285241Z, end-time: 2020-11-02T23:08:30.344293Z, duration: 0, exit-code: 0 git clean -d -f -f [rtd-command-info] start-time: 2020-11-02T23:08:32.388801Z, end-time: 2020-11-02T23:08:38.059216Z, duration: 5, exit-code: 0 python3.7 -mvirtualenv --system-site-packages Using base prefix '/home/docs/.pyenv/versions/3.7.9' New python executable in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emod-api/envs/latest/bin/python3.7 Also creating executable in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emod-api/envs/latest/bin/python Installing setuptools, pip, wheel... done. [rtd-command-info] start-time: 2020-11-02T23:08:38.274789Z, end-time: 2020-11-02T23:08:39.039243Z, duration: 0, exit-code: 0 python -m pip install --upgrade --no-cache-dir pip Requirement already up-to-date: pip in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emod-api/envs/latest/lib/python3.7/site-packages (20.2.4) [rtd-command-info] start-time: 2020-11-02T23:08:39.157755Z, end-time: 2020-11-02T23:08:47.818989Z, duration: 8, exit-code: 0 python -m pip install --upgrade --no-cache-dir -I 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<2.2 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-py3-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-cp37-cp37m-manylinux1_x86_64.whl (2.0 MB) Collecting alabaster!=0.7.5,<0.8,>=0.7 Downloading alabaster-0.7.12-py2.py3-none-any.whl (14 kB) Collecting commonmark==0.8.1 Downloading commonmark-0.8.1-py2.py3-none-any.whl (47 kB) Collecting recommonmark==0.5.0 Downloading recommonmark-0.5.0-py2.py3-none-any.whl (9.8 kB) Collecting sphinx<2 Downloading Sphinx-1.8.5-py2.py3-none-any.whl (3.1 MB) Collecting sphinx-rtd-theme<0.5 Downloading sphinx_rtd_theme-0.4.3-py2.py3-none-any.whl (6.4 MB) Collecting readthedocs-sphinx-ext<2.2 Downloading readthedocs_sphinx_ext-2.1.1-py2.py3-none-any.whl (13 kB) Collecting future Downloading future-0.18.2.tar.gz (829 kB) Collecting babel!=2.0,>=1.3 Downloading Babel-2.8.0-py2.py3-none-any.whl (8.6 MB) Collecting imagesize Downloading imagesize-1.2.0-py2.py3-none-any.whl (4.8 kB) Collecting six>=1.5 Downloading six-1.15.0-py2.py3-none-any.whl (10 kB) Collecting sphinxcontrib-websupport Downloading sphinxcontrib_websupport-1.2.4-py2.py3-none-any.whl (39 kB) Collecting Pygments>=2.0 Downloading Pygments-2.7.2-py3-none-any.whl (948 kB) Collecting snowballstemmer>=1.1 Downloading snowballstemmer-2.0.0-py2.py3-none-any.whl (97 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 requests>=2.0.0 Downloading requests-2.24.0-py2.py3-none-any.whl (61 kB) Collecting pytz>=2015.7 Downloading pytz-2020.4-py2.py3-none-any.whl (509 kB) Collecting sphinxcontrib-serializinghtml Downloading sphinxcontrib_serializinghtml-1.1.4-py2.py3-none-any.whl (89 kB) Collecting MarkupSafe>=0.23 Downloading MarkupSafe-1.1.1-cp37-cp37m-manylinux1_x86_64.whl (27 kB) Collecting pyparsing>=2.0.2 Downloading pyparsing-2.4.7-py2.py3-none-any.whl (67 kB) Collecting chardet<4,>=3.0.2 Downloading chardet-3.0.4-py2.py3-none-any.whl (133 kB) Collecting urllib3!=1.25.0,!=1.25.1,<1.26,>=1.21.1 Downloading urllib3-1.25.11-py2.py3-none-any.whl (127 kB) Collecting certifi>=2017.4.17 Downloading certifi-2020.6.20-py2.py3-none-any.whl (156 kB) Collecting idna<3,>=2.5 Downloading idna-2.10-py2.py3-none-any.whl (58 kB) Building wheels for collected packages: mock, future Building wheel for mock (setup.py): started Building wheel for mock (setup.py): finished with status 'done' Created wheel for mock: filename=mock-1.0.1-py3-none-any.whl size=23754 sha256=11eb01430a3928613d96e548416ef382075f68963595a3dc51105de417e59264 Stored in directory: /tmp/pip-ephem-wheel-cache-n5t_6vc6/wheels/16/03/37/f0a64ab894c9102906f192db1a4071b7592292ad661563c69b 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-py3-none-any.whl size=491059 sha256=43efb47c00c6367f3fba8f9b58c637458eb1cfff82e2a104afd49d633ce60664 Stored in directory: /tmp/pip-ephem-wheel-cache-n5t_6vc6/wheels/56/b0/fe/4410d17b32f1f0c3cf54cdfb2bc04d7b4b8f4ae377e2229ba0 Successfully built mock future Installing collected packages: setuptools, docutils, mock, pillow, alabaster, future, commonmark, pytz, babel, imagesize, six, sphinxcontrib-serializinghtml, sphinxcontrib-websupport, Pygments, snowballstemmer, MarkupSafe, Jinja2, pyparsing, packaging, chardet, urllib3, certifi, idna, requests, sphinx, recommonmark, sphinx-rtd-theme, readthedocs-sphinx-ext ERROR: After October 2020 you may experience errors when installing or updating packages. This is because pip will change the way that it resolves dependency conflicts. We recommend you use --use-feature=2020-resolver to test your packages with the new resolver before it becomes the default. matplotlib 3.3.2 requires pillow>=6.2.0, but you'll have pillow 5.4.1 which is incompatible. Successfully installed Jinja2-2.11.2 MarkupSafe-1.1.1 Pygments-2.7.2 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-2020.4 readthedocs-sphinx-ext-2.1.1 recommonmark-0.5.0 requests-2.24.0 setuptools-50.3.2 six-1.15.0 snowballstemmer-2.0.0 sphinx-1.8.5 sphinx-rtd-theme-0.4.3 sphinxcontrib-serializinghtml-1.1.4 sphinxcontrib-websupport-1.2.4 urllib3-1.25.11 [rtd-command-info] start-time: 2020-11-02T23:08:48.238835Z, end-time: 2020-11-02T23:08:56.962456Z, duration: 8, exit-code: 0 python -m pip install --exists-action=w --no-cache-dir -r docs/requirements.txt Collecting sphinx-rtd-theme~=0.5.0 Downloading sphinx_rtd_theme-0.5.0-py2.py3-none-any.whl (10.8 MB) Collecting sphinxcontrib-napoleon~=0.7 Downloading sphinxcontrib_napoleon-0.7-py2.py3-none-any.whl (17 kB) Collecting sphinx~=3.2.1 Downloading Sphinx-3.2.1-py3-none-any.whl (2.9 MB) Collecting plantweb~=1.2.1 Downloading plantweb-1.2.1-py3-none-any.whl (20 kB) Collecting sphinxcontrib-programoutput~=0.16 Downloading sphinxcontrib_programoutput-0.16-py2.py3-none-any.whl (21 kB) Collecting py-make Downloading py_make-0.1.1-py2.py3-none-any.whl (9.4 kB) Collecting PyGithub~=1.51 Downloading PyGithub-1.53-py3-none-any.whl (274 kB) Collecting pygit2~=1.2.1 Downloading pygit2-1.2.1-cp37-cp37m-manylinux2010_x86_64.whl (3.0 MB) Requirement already satisfied: six>=1.5.2 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emod-api/envs/latest/lib/python3.7/site-packages (from sphinxcontrib-napoleon~=0.7->-r docs/requirements.txt (line 2)) (1.15.0) Collecting pockets>=0.3 Downloading pockets-0.9.1-py2.py3-none-any.whl (26 kB) Requirement already satisfied: imagesize in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emod-api/envs/latest/lib/python3.7/site-packages (from sphinx~=3.2.1->-r docs/requirements.txt (line 3)) (1.2.0) Requirement already satisfied: requests>=2.5.0 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emod-api/envs/latest/lib/python3.7/site-packages (from sphinx~=3.2.1->-r docs/requirements.txt (line 3)) (2.24.0) Collecting sphinxcontrib-devhelp Downloading sphinxcontrib_devhelp-1.0.2-py2.py3-none-any.whl (84 kB) Requirement already satisfied: Jinja2>=2.3 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emod-api/envs/latest/lib/python3.7/site-packages (from sphinx~=3.2.1->-r docs/requirements.txt (line 3)) (2.11.2) Requirement already satisfied: sphinxcontrib-serializinghtml in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emod-api/envs/latest/lib/python3.7/site-packages (from sphinx~=3.2.1->-r docs/requirements.txt (line 3)) (1.1.4) Collecting sphinxcontrib-jsmath Downloading sphinxcontrib_jsmath-1.0.1-py2.py3-none-any.whl (5.1 kB) Requirement already satisfied: Pygments>=2.0 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emod-api/envs/latest/lib/python3.7/site-packages (from sphinx~=3.2.1->-r docs/requirements.txt (line 3)) (2.7.2) Requirement already satisfied: snowballstemmer>=1.1 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emod-api/envs/latest/lib/python3.7/site-packages (from sphinx~=3.2.1->-r docs/requirements.txt (line 3)) (2.0.0) Requirement already satisfied: alabaster<0.8,>=0.7 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emod-api/envs/latest/lib/python3.7/site-packages (from sphinx~=3.2.1->-r docs/requirements.txt (line 3)) (0.7.12) Requirement already satisfied: packaging in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emod-api/envs/latest/lib/python3.7/site-packages (from sphinx~=3.2.1->-r docs/requirements.txt (line 3)) (20.4) Requirement already satisfied: setuptools in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emod-api/envs/latest/lib/python3.7/site-packages (from sphinx~=3.2.1->-r docs/requirements.txt (line 3)) (50.3.2) Collecting sphinxcontrib-qthelp Downloading sphinxcontrib_qthelp-1.0.3-py2.py3-none-any.whl (90 kB) Requirement already satisfied: babel>=1.3 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emod-api/envs/latest/lib/python3.7/site-packages (from sphinx~=3.2.1->-r docs/requirements.txt (line 3)) (2.8.0) Requirement already satisfied: docutils>=0.12 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emod-api/envs/latest/lib/python3.7/site-packages (from sphinx~=3.2.1->-r docs/requirements.txt (line 3)) (0.14) Collecting sphinxcontrib-applehelp Downloading sphinxcontrib_applehelp-1.0.2-py2.py3-none-any.whl (121 kB) Collecting sphinxcontrib-htmlhelp Downloading sphinxcontrib_htmlhelp-1.0.3-py2.py3-none-any.whl (96 kB) Collecting docopt>=0.6.0 Downloading docopt-0.6.2.tar.gz (25 kB) Collecting deprecated Downloading Deprecated-1.2.10-py2.py3-none-any.whl (8.7 kB) Collecting pyjwt Downloading PyJWT-1.7.1-py2.py3-none-any.whl (18 kB) Collecting cffi>=1.4.0 Downloading cffi-1.14.3-cp37-cp37m-manylinux1_x86_64.whl (401 kB) Collecting cached-property Downloading cached_property-1.5.2-py2.py3-none-any.whl (7.6 kB) Requirement already satisfied: idna<3,>=2.5 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emod-api/envs/latest/lib/python3.7/site-packages (from requests>=2.5.0->sphinx~=3.2.1->-r docs/requirements.txt (line 3)) (2.10) Requirement already satisfied: chardet<4,>=3.0.2 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emod-api/envs/latest/lib/python3.7/site-packages (from requests>=2.5.0->sphinx~=3.2.1->-r docs/requirements.txt (line 3)) (3.0.4) Requirement already satisfied: urllib3!=1.25.0,!=1.25.1,<1.26,>=1.21.1 in 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Requirement already satisfied: pytz>=2015.7 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emod-api/envs/latest/lib/python3.7/site-packages (from babel>=1.3->sphinx~=3.2.1->-r docs/requirements.txt (line 3)) (2020.4) Collecting wrapt<2,>=1.10 Downloading wrapt-1.12.1.tar.gz (27 kB) Collecting pycparser Downloading pycparser-2.20-py2.py3-none-any.whl (112 kB) Building wheels for collected packages: docopt, wrapt 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=13704 sha256=df8fa71710d2ca99f8f74bb4b78295b64177594b7b1a9eb7a29799dfad6e0ba9 Stored in directory: /tmp/pip-ephem-wheel-cache-7ziuho4i/wheels/72/b0/3f/1d95f96ff986c7dfffe46ce2be4062f38ebd04b506c77c81b9 Building wheel for wrapt (setup.py): started Building wheel for wrapt (setup.py): finished with status 'done' Created wheel for wrapt: filename=wrapt-1.12.1-cp37-cp37m-linux_x86_64.whl size=70994 sha256=6be05d13c2be16f32f4b1f0123a8ae997309cf3641c86a45d6d119df3315bd28 Stored in directory: /tmp/pip-ephem-wheel-cache-7ziuho4i/wheels/62/76/4c/aa25851149f3f6d9785f6c869387ad82b3fd37582fa8147ac6 Successfully built docopt wrapt Installing collected packages: sphinxcontrib-devhelp, sphinxcontrib-jsmath, sphinxcontrib-qthelp, sphinxcontrib-applehelp, sphinxcontrib-htmlhelp, sphinx, sphinx-rtd-theme, pockets, sphinxcontrib-napoleon, plantweb, sphinxcontrib-programoutput, docopt, py-make, wrapt, deprecated, pyjwt, PyGithub, pycparser, cffi, cached-property, pygit2 Attempting uninstall: sphinx Found existing installation: Sphinx 1.8.5 Uninstalling Sphinx-1.8.5: Successfully uninstalled Sphinx-1.8.5 Attempting uninstall: sphinx-rtd-theme Found existing installation: sphinx-rtd-theme 0.4.3 Uninstalling sphinx-rtd-theme-0.4.3: Successfully uninstalled sphinx-rtd-theme-0.4.3 Successfully installed PyGithub-1.53 cached-property-1.5.2 cffi-1.14.3 deprecated-1.2.10 docopt-0.6.2 plantweb-1.2.1 pockets-0.9.1 py-make-0.1.1 pycparser-2.20 pygit2-1.2.1 pyjwt-1.7.1 sphinx-3.2.1 sphinx-rtd-theme-0.5.0 sphinxcontrib-applehelp-1.0.2 sphinxcontrib-devhelp-1.0.2 sphinxcontrib-htmlhelp-1.0.3 sphinxcontrib-jsmath-1.0.1 sphinxcontrib-napoleon-0.7 sphinxcontrib-programoutput-0.16 sphinxcontrib-qthelp-1.0.3 wrapt-1.12.1 [rtd-command-info] start-time: 2020-11-02T23:08:57.182113Z, end-time: 2020-11-02T23:08:59.247713Z, duration: 2, exit-code: 0 python ./setup.py install --force running install running bdist_egg running egg_info creating emod_api.egg-info writing emod_api.egg-info/PKG-INFO writing dependency_links to emod_api.egg-info/dependency_links.txt writing requirements to emod_api.egg-info/requires.txt writing top-level names to emod_api.egg-info/top_level.txt writing manifest file 'emod_api.egg-info/SOURCES.txt' reading manifest file 'emod_api.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no directories found matching 'emod_api/tests/data/*' warning: no directories found matching 'emod_api/dtk_tools/serialization/test-data/*' writing manifest file 'emod_api.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/examples copying examples/serialized_file_mc_to_sc.py -> build/lib/examples copying examples/intervention_from_schema.py -> build/lib/examples copying examples/__init__.py -> build/lib/examples copying examples/weather_file.py -> build/lib/examples copying examples/insetchart.py -> build/lib/examples copying examples/write_config_from_default_and_params.py -> build/lib/examples copying examples/default_from_schema.py -> build/lib/examples copying examples/some_config_i_found.py -> build/lib/examples copying examples/spatial_report.py -> build/lib/examples creating build/lib/emod_api copying emod_api/campaign.py -> build/lib/emod_api copying emod_api/schema_to_class.py -> build/lib/emod_api copying emod_api/__init__.py -> build/lib/emod_api copying emod_api/__main__.py -> build/lib/emod_api creating build/lib/emod_api/serialization copying emod_api/serialization/CensusAndModPop.py -> build/lib/emod_api/serialization copying emod_api/serialization/SerializedPopulation.py -> build/lib/emod_api/serialization copying emod_api/serialization/dtkFileTools.py -> build/lib/emod_api/serialization copying emod_api/serialization/__init__.py -> build/lib/emod_api/serialization copying emod_api/serialization/__main__.py -> build/lib/emod_api/serialization copying emod_api/serialization/dtkFileSupport.py -> build/lib/emod_api/serialization copying emod_api/serialization/dtkFileUtility.py -> build/lib/emod_api/serialization creating build/lib/emod_api/tabularoutput copying emod_api/tabularoutput/__init__.py -> build/lib/emod_api/tabularoutput copying emod_api/tabularoutput/__main__.py -> build/lib/emod_api/tabularoutput creating build/lib/emod_api/schema copying emod_api/schema/get_schema.py -> build/lib/emod_api/schema copying emod_api/schema/__init__.py -> build/lib/emod_api/schema copying emod_api/schema/dtk_post_process_schema.py -> build/lib/emod_api/schema copying emod_api/schema/__main__.py -> build/lib/emod_api/schema creating build/lib/emod_api/channelreports copying emod_api/channelreports/__init__.py -> build/lib/emod_api/channelreports copying emod_api/channelreports/channels.py -> build/lib/emod_api/channelreports copying emod_api/channelreports/__main__.py -> build/lib/emod_api/channelreports creating build/lib/emod_api/config copying emod_api/config/from_overrides.py -> build/lib/emod_api/config copying emod_api/config/schema_to_config.py -> build/lib/emod_api/config copying emod_api/config/dtk_pre_process_adhocevents.py -> build/lib/emod_api/config copying emod_api/config/from_poi_and_binary.py -> build/lib/emod_api/config copying emod_api/config/default_from_schema_no_validation.py -> build/lib/emod_api/config copying emod_api/config/dtk_post_process_adhocevents.py -> build/lib/emod_api/config copying emod_api/config/__init__.py -> build/lib/emod_api/config copying emod_api/config/default_from_schema.py -> build/lib/emod_api/config copying emod_api/config/from_schema.py -> build/lib/emod_api/config copying emod_api/config/__main__.py -> build/lib/emod_api/config copying emod_api/config/dtk_pre_process_w5ml.py -> build/lib/emod_api/config creating build/lib/emod_api/weather copying emod_api/weather/__init__.py -> build/lib/emod_api/weather copying emod_api/weather/weather.py -> build/lib/emod_api/weather copying emod_api/weather/__main__.py -> build/lib/emod_api/weather creating build/lib/emod_api/interventions copying emod_api/interventions/__init__.py -> build/lib/emod_api/interventions copying emod_api/interventions/outbreak.py -> build/lib/emod_api/interventions copying emod_api/interventions/import_pressure.py -> build/lib/emod_api/interventions copying emod_api/interventions/__main__.py -> build/lib/emod_api/interventions copying emod_api/interventions/simple_vaccine.py -> build/lib/emod_api/interventions creating build/lib/emod_api/migration copying emod_api/migration/MigrationFile.py -> build/lib/emod_api/migration copying emod_api/migration/__init__.py -> build/lib/emod_api/migration copying emod_api/migration/Migration.py -> build/lib/emod_api/migration copying emod_api/migration/__main__.py -> build/lib/emod_api/migration creating build/lib/emod_api/spatialreports copying emod_api/spatialreports/__init__.py -> build/lib/emod_api/spatialreports copying emod_api/spatialreports/spatial.py -> build/lib/emod_api/spatialreports copying emod_api/spatialreports/__main__.py -> build/lib/emod_api/spatialreports creating build/lib/emod_api/demographics copying emod_api/demographics/DemographicsGenerator.py -> build/lib/emod_api/demographics copying emod_api/demographics/demographics_utils.py -> build/lib/emod_api/demographics copying emod_api/demographics/__init__.py -> build/lib/emod_api/demographics copying emod_api/demographics/DemographicsTemplates.py -> build/lib/emod_api/demographics copying emod_api/demographics/Demographics.py -> build/lib/emod_api/demographics copying emod_api/demographics/__main__.py -> build/lib/emod_api/demographics copying emod_api/demographics/BaseInputFile.py -> build/lib/emod_api/demographics copying emod_api/demographics/DemographicsInputDataParsers.py -> build/lib/emod_api/demographics copying emod_api/demographics/Node.py -> build/lib/emod_api/demographics creating build/bdist.linux-x86_64 creating build/bdist.linux-x86_64/egg creating build/bdist.linux-x86_64/egg/examples copying build/lib/examples/serialized_file_mc_to_sc.py -> build/bdist.linux-x86_64/egg/examples copying build/lib/examples/intervention_from_schema.py -> build/bdist.linux-x86_64/egg/examples copying build/lib/examples/__init__.py -> build/bdist.linux-x86_64/egg/examples copying build/lib/examples/weather_file.py -> build/bdist.linux-x86_64/egg/examples copying build/lib/examples/insetchart.py -> build/bdist.linux-x86_64/egg/examples copying build/lib/examples/write_config_from_default_and_params.py -> build/bdist.linux-x86_64/egg/examples copying build/lib/examples/default_from_schema.py -> build/bdist.linux-x86_64/egg/examples copying build/lib/examples/some_config_i_found.py -> build/bdist.linux-x86_64/egg/examples copying build/lib/examples/spatial_report.py -> build/bdist.linux-x86_64/egg/examples creating build/bdist.linux-x86_64/egg/emod_api creating build/bdist.linux-x86_64/egg/emod_api/serialization copying build/lib/emod_api/serialization/CensusAndModPop.py -> build/bdist.linux-x86_64/egg/emod_api/serialization copying build/lib/emod_api/serialization/SerializedPopulation.py -> build/bdist.linux-x86_64/egg/emod_api/serialization copying build/lib/emod_api/serialization/dtkFileTools.py -> build/bdist.linux-x86_64/egg/emod_api/serialization copying build/lib/emod_api/serialization/__init__.py -> build/bdist.linux-x86_64/egg/emod_api/serialization copying build/lib/emod_api/serialization/__main__.py -> build/bdist.linux-x86_64/egg/emod_api/serialization copying build/lib/emod_api/serialization/dtkFileSupport.py -> build/bdist.linux-x86_64/egg/emod_api/serialization copying build/lib/emod_api/serialization/dtkFileUtility.py -> build/bdist.linux-x86_64/egg/emod_api/serialization creating build/bdist.linux-x86_64/egg/emod_api/tabularoutput copying build/lib/emod_api/tabularoutput/__init__.py -> build/bdist.linux-x86_64/egg/emod_api/tabularoutput copying build/lib/emod_api/tabularoutput/__main__.py -> build/bdist.linux-x86_64/egg/emod_api/tabularoutput creating build/bdist.linux-x86_64/egg/emod_api/schema copying build/lib/emod_api/schema/get_schema.py -> build/bdist.linux-x86_64/egg/emod_api/schema copying build/lib/emod_api/schema/__init__.py -> build/bdist.linux-x86_64/egg/emod_api/schema copying build/lib/emod_api/schema/dtk_post_process_schema.py -> build/bdist.linux-x86_64/egg/emod_api/schema copying build/lib/emod_api/schema/__main__.py -> build/bdist.linux-x86_64/egg/emod_api/schema copying build/lib/emod_api/campaign.py -> build/bdist.linux-x86_64/egg/emod_api copying build/lib/emod_api/schema_to_class.py -> build/bdist.linux-x86_64/egg/emod_api copying build/lib/emod_api/__init__.py -> build/bdist.linux-x86_64/egg/emod_api creating build/bdist.linux-x86_64/egg/emod_api/channelreports copying build/lib/emod_api/channelreports/__init__.py -> build/bdist.linux-x86_64/egg/emod_api/channelreports copying build/lib/emod_api/channelreports/channels.py -> build/bdist.linux-x86_64/egg/emod_api/channelreports copying build/lib/emod_api/channelreports/__main__.py -> build/bdist.linux-x86_64/egg/emod_api/channelreports creating build/bdist.linux-x86_64/egg/emod_api/config copying build/lib/emod_api/config/from_overrides.py -> build/bdist.linux-x86_64/egg/emod_api/config copying build/lib/emod_api/config/schema_to_config.py -> build/bdist.linux-x86_64/egg/emod_api/config copying build/lib/emod_api/config/dtk_pre_process_adhocevents.py -> build/bdist.linux-x86_64/egg/emod_api/config copying build/lib/emod_api/config/from_poi_and_binary.py -> build/bdist.linux-x86_64/egg/emod_api/config copying build/lib/emod_api/config/default_from_schema_no_validation.py -> build/bdist.linux-x86_64/egg/emod_api/config copying build/lib/emod_api/config/dtk_post_process_adhocevents.py -> build/bdist.linux-x86_64/egg/emod_api/config copying build/lib/emod_api/config/__init__.py -> build/bdist.linux-x86_64/egg/emod_api/config copying build/lib/emod_api/config/default_from_schema.py -> build/bdist.linux-x86_64/egg/emod_api/config copying build/lib/emod_api/config/from_schema.py -> build/bdist.linux-x86_64/egg/emod_api/config copying build/lib/emod_api/config/__main__.py -> build/bdist.linux-x86_64/egg/emod_api/config copying build/lib/emod_api/config/dtk_pre_process_w5ml.py -> build/bdist.linux-x86_64/egg/emod_api/config creating build/bdist.linux-x86_64/egg/emod_api/weather copying build/lib/emod_api/weather/__init__.py -> build/bdist.linux-x86_64/egg/emod_api/weather copying build/lib/emod_api/weather/weather.py -> build/bdist.linux-x86_64/egg/emod_api/weather copying build/lib/emod_api/weather/__main__.py -> build/bdist.linux-x86_64/egg/emod_api/weather creating build/bdist.linux-x86_64/egg/emod_api/interventions copying build/lib/emod_api/interventions/__init__.py -> build/bdist.linux-x86_64/egg/emod_api/interventions copying build/lib/emod_api/interventions/outbreak.py -> build/bdist.linux-x86_64/egg/emod_api/interventions copying build/lib/emod_api/interventions/import_pressure.py -> build/bdist.linux-x86_64/egg/emod_api/interventions copying build/lib/emod_api/interventions/__main__.py -> build/bdist.linux-x86_64/egg/emod_api/interventions copying build/lib/emod_api/interventions/simple_vaccine.py -> build/bdist.linux-x86_64/egg/emod_api/interventions creating build/bdist.linux-x86_64/egg/emod_api/migration copying build/lib/emod_api/migration/MigrationFile.py -> build/bdist.linux-x86_64/egg/emod_api/migration copying build/lib/emod_api/migration/__init__.py -> build/bdist.linux-x86_64/egg/emod_api/migration copying build/lib/emod_api/migration/Migration.py -> build/bdist.linux-x86_64/egg/emod_api/migration copying build/lib/emod_api/migration/__main__.py -> build/bdist.linux-x86_64/egg/emod_api/migration creating build/bdist.linux-x86_64/egg/emod_api/spatialreports copying build/lib/emod_api/spatialreports/__init__.py -> build/bdist.linux-x86_64/egg/emod_api/spatialreports copying build/lib/emod_api/spatialreports/spatial.py -> build/bdist.linux-x86_64/egg/emod_api/spatialreports copying build/lib/emod_api/spatialreports/__main__.py -> build/bdist.linux-x86_64/egg/emod_api/spatialreports copying build/lib/emod_api/__main__.py -> build/bdist.linux-x86_64/egg/emod_api creating build/bdist.linux-x86_64/egg/emod_api/demographics copying build/lib/emod_api/demographics/DemographicsGenerator.py -> build/bdist.linux-x86_64/egg/emod_api/demographics copying build/lib/emod_api/demographics/demographics_utils.py -> build/bdist.linux-x86_64/egg/emod_api/demographics copying build/lib/emod_api/demographics/__init__.py -> build/bdist.linux-x86_64/egg/emod_api/demographics copying build/lib/emod_api/demographics/DemographicsTemplates.py -> build/bdist.linux-x86_64/egg/emod_api/demographics copying build/lib/emod_api/demographics/Demographics.py -> build/bdist.linux-x86_64/egg/emod_api/demographics copying build/lib/emod_api/demographics/__main__.py -> build/bdist.linux-x86_64/egg/emod_api/demographics copying build/lib/emod_api/demographics/BaseInputFile.py -> build/bdist.linux-x86_64/egg/emod_api/demographics copying build/lib/emod_api/demographics/DemographicsInputDataParsers.py -> build/bdist.linux-x86_64/egg/emod_api/demographics copying build/lib/emod_api/demographics/Node.py -> build/bdist.linux-x86_64/egg/emod_api/demographics byte-compiling build/bdist.linux-x86_64/egg/examples/serialized_file_mc_to_sc.py to serialized_file_mc_to_sc.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/examples/intervention_from_schema.py to intervention_from_schema.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/examples/__init__.py to __init__.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/examples/weather_file.py to weather_file.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/examples/insetchart.py to insetchart.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/examples/write_config_from_default_and_params.py to write_config_from_default_and_params.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/examples/default_from_schema.py to default_from_schema.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/examples/some_config_i_found.py to some_config_i_found.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/examples/spatial_report.py to spatial_report.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/serialization/CensusAndModPop.py to CensusAndModPop.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/serialization/SerializedPopulation.py to SerializedPopulation.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/serialization/dtkFileTools.py to dtkFileTools.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/serialization/__init__.py to __init__.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/serialization/__main__.py to __main__.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/serialization/dtkFileSupport.py to dtkFileSupport.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/serialization/dtkFileUtility.py to dtkFileUtility.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/tabularoutput/__init__.py to __init__.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/tabularoutput/__main__.py to __main__.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/schema/get_schema.py to get_schema.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/schema/__init__.py to __init__.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/schema/dtk_post_process_schema.py to dtk_post_process_schema.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/schema/__main__.py to __main__.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/campaign.py to campaign.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/schema_to_class.py to schema_to_class.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/__init__.py to __init__.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/channelreports/__init__.py to __init__.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/channelreports/channels.py to channels.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/channelreports/__main__.py to __main__.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/config/from_overrides.py to from_overrides.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/config/schema_to_config.py to schema_to_config.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/config/dtk_pre_process_adhocevents.py to dtk_pre_process_adhocevents.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/config/from_poi_and_binary.py to from_poi_and_binary.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/config/default_from_schema_no_validation.py to default_from_schema_no_validation.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/config/dtk_post_process_adhocevents.py to dtk_post_process_adhocevents.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/config/__init__.py to __init__.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/config/default_from_schema.py to default_from_schema.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/config/from_schema.py to from_schema.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/config/__main__.py to __main__.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/config/dtk_pre_process_w5ml.py to dtk_pre_process_w5ml.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/weather/__init__.py to __init__.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/weather/weather.py to weather.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/weather/__main__.py to __main__.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/interventions/__init__.py to __init__.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/interventions/outbreak.py to outbreak.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/interventions/import_pressure.py to import_pressure.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/interventions/__main__.py to __main__.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/interventions/simple_vaccine.py to simple_vaccine.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/migration/MigrationFile.py to MigrationFile.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/migration/__init__.py to __init__.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/migration/Migration.py to Migration.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/migration/__main__.py to __main__.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/spatialreports/__init__.py to __init__.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/spatialreports/spatial.py to spatial.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/spatialreports/__main__.py to __main__.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/__main__.py to __main__.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/demographics/DemographicsGenerator.py to DemographicsGenerator.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/demographics/demographics_utils.py to demographics_utils.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/demographics/__init__.py to __init__.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/demographics/DemographicsTemplates.py to DemographicsTemplates.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/demographics/Demographics.py to Demographics.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/demographics/__main__.py to __main__.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/demographics/BaseInputFile.py to BaseInputFile.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/demographics/DemographicsInputDataParsers.py to DemographicsInputDataParsers.cpython-37.pyc byte-compiling build/bdist.linux-x86_64/egg/emod_api/demographics/Node.py to Node.cpython-37.pyc creating build/bdist.linux-x86_64/egg/EGG-INFO copying emod_api.egg-info/PKG-INFO -> build/bdist.linux-x86_64/egg/EGG-INFO copying emod_api.egg-info/SOURCES.txt -> build/bdist.linux-x86_64/egg/EGG-INFO copying emod_api.egg-info/dependency_links.txt -> build/bdist.linux-x86_64/egg/EGG-INFO copying emod_api.egg-info/requires.txt -> build/bdist.linux-x86_64/egg/EGG-INFO copying emod_api.egg-info/top_level.txt -> build/bdist.linux-x86_64/egg/EGG-INFO zip_safe flag not set; analyzing archive contents... emod_api.config.__pycache__.from_poi_and_binary.cpython-37: module references __file__ emod_api.serialization.__pycache__.dtkFileTools.cpython-37: module references __file__ emod_api.serialization.__pycache__.dtkFileUtility.cpython-37: module references __file__ examples.__pycache__.insetchart.cpython-37: module references __file__ examples.__pycache__.spatial_report.cpython-37: module references __file__ examples.__pycache__.weather_file.cpython-37: module references __file__ creating dist creating 'dist/emod_api-1.2.3-py3.7.egg' and adding 'build/bdist.linux-x86_64/egg' to it removing 'build/bdist.linux-x86_64/egg' (and everything under it) Processing emod_api-1.2.3-py3.7.egg creating /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emod-api/envs/latest/lib/python3.7/site-packages/emod_api-1.2.3-py3.7.egg Extracting emod_api-1.2.3-py3.7.egg to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emod-api/envs/latest/lib/python3.7/site-packages Adding emod-api 1.2.3 to easy-install.pth file Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emod-api/envs/latest/lib/python3.7/site-packages/emod_api-1.2.3-py3.7.egg Processing dependencies for emod-api==1.2.3 Searching for pyyaml Reading https://pypi.org/simple/pyyaml/ Downloading https://files.pythonhosted.org/packages/64/c2/b80047c7ac2478f9501676c988a5411ed5572f35d1beff9cae07d321512c/PyYAML-5.3.1.tar.gz#sha256=b8eac752c5e14d3eca0e6dd9199cd627518cb5ec06add0de9d32baeee6fe645d Best match: PyYAML 5.3.1 Processing PyYAML-5.3.1.tar.gz Writing /tmp/easy_install-hm_xjh8z/PyYAML-5.3.1/setup.cfg Running PyYAML-5.3.1/setup.py -q bdist_egg --dist-dir /tmp/easy_install-hm_xjh8z/PyYAML-5.3.1/egg-dist-tmp-i8ygzrfa In file included from ext/_yaml.c:596:0: ext/_yaml.h:2:10: fatal error: yaml.h: No such file or directory #include ^~~~~~~~ compilation terminated. Error compiling module, falling back to pure Python zip_safe flag not set; analyzing archive contents... Moving PyYAML-5.3.1-py3.7-linux-x86_64.egg to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emod-api/envs/latest/lib/python3.7/site-packages Adding PyYAML 5.3.1 to easy-install.pth file Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emod-api/envs/latest/lib/python3.7/site-packages/PyYAML-5.3.1-py3.7-linux-x86_64.egg Searching for lz4 Reading https://pypi.org/simple/lz4/ Downloading https://files.pythonhosted.org/packages/28/fd/c414b26c9f76f8dc45fbad92dbec7a2c12ca439434e9877f4140d22cf599/lz4-3.1.0-cp37-cp37m-manylinux1_x86_64.whl#sha256=90d275e08e532a91297fe243041bcc16d4166f84134051580ee181990ae0a3ce Best match: lz4 3.1.0 Processing lz4-3.1.0-cp37-cp37m-manylinux1_x86_64.whl Installing lz4-3.1.0-cp37-cp37m-manylinux1_x86_64.whl to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emod-api/envs/latest/lib/python3.7/site-packages writing requirements to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emod-api/envs/latest/lib/python3.7/site-packages/lz4-3.1.0-py3.7-linux-x86_64.egg/EGG-INFO/requires.txt Adding lz4 3.1.0 to easy-install.pth file Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emod-api/envs/latest/lib/python3.7/site-packages/lz4-3.1.0-py3.7-linux-x86_64.egg Searching for scipy==1.5.3 Best match: scipy 1.5.3 Adding scipy 1.5.3 to easy-install.pth file Using /home/docs/.pyenv/versions/3.7.9/lib/python3.7/site-packages Searching for pandas==1.1.3 Best match: pandas 1.1.3 pandas 1.1.3 is already the active version in easy-install.pth Using /home/docs/.pyenv/versions/3.7.9/lib/python3.7/site-packages Searching for numpy==1.19.2 Best match: numpy 1.19.2 numpy 1.19.2 is already the active version in easy-install.pth Installing f2py script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emod-api/envs/latest/bin Installing f2py3 script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emod-api/envs/latest/bin Installing f2py3.7 script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emod-api/envs/latest/bin Using /home/docs/.pyenv/versions/3.7.9/lib/python3.7/site-packages Searching for python-dateutil==2.8.1 Best match: python-dateutil 2.8.1 python-dateutil 2.8.1 is already the active version in easy-install.pth Using /home/docs/.pyenv/versions/3.7.9/lib/python3.7/site-packages Searching for pytz==2020.4 Best match: pytz 2020.4 Adding pytz 2020.4 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emod-api/envs/latest/lib/python3.7/site-packages Searching for six==1.15.0 Best match: six 1.15.0 Adding six 1.15.0 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emod-api/envs/latest/lib/python3.7/site-packages Finished processing dependencies for emod-api==1.2.3 [rtd-command-info] start-time: 2020-11-02T23:09:01.438940Z, end-time: 2020-11-02T23:09:01.514879Z, duration: 0, exit-code: 0 cat docs/conf.py # -*- coding: utf-8 -*- # # Sphinx Demo docs 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 # docs root, use os.path.abspath to make it absolute, like shown here. # import os import subprocess import sys import sphinx_rtd_theme import configparser 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 docs 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' ] plantuml = 'plantweb' autodoc_default_options = { 'member-order': 'bysource', 'members': None, 'exclude-members': '__all__' } autodoc_mock_imports = ['emod_api.dtk_tools'] napoleon_google_docstring = True # napoleon_numpy_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'] source_suffix = '.rst' # The encoding of source files. # # source_encoding = 'utf-8-sig' # The master toctree document. master_doc = 'index' # General information about the project. project = u'EMOD-API' copyright = u'2020, 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. #current_path = os.path.dirname(__file__) #version_path = os.path.join(current_path, '..', '.bumpversion.cfg') #config = configparser.ConfigParser() #config.read(version_path) #version = config['bumpversion']['current_version'] # The full version, including alpha/beta/rc tags. # release = u'1.0' # The language for content autogenerated by Sphinx. Refer to docs # 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 = None # 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 docs 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 # docs. # # # 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 docs" 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_context = { 'css_files': [ '_static/theme_overrides.css' ] } # 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 docs. # # 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 = 'EMOD-API' # -- 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, 'emod-api-docs.tex', u'emod-api', 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, 'emod-api-docs', u'emod-api', [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, 'emod-api-docs', u'emod-api', author, 'Institute for Disease Modeling', 'How to use emodpy for disease 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} ########################################################################### # 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': [ ], 'downloads': [ ("pdf", "//docs.idmod.org/_/downloads/emod-api/en/latest/pdf/"), ("html", "//docs.idmod.org/_/downloads/emod-api/en/latest/htmlzip/"), ], 'subprojects': [ ], 'slug': 'institute-for-disease-modeling-emod-api', 'name': u'emod-api', 'rtd_language': u'en', 'programming_language': u'py', 'canonical_url': 'https://docs.idmod.org/projects/emod-api/en/latest/', 'analytics_code': 'UA-87656833-3', 'single_version': False, 'conf_py_path': '/docs/', 'api_host': 'https://readthedocs.com', 'github_user': 'InstituteforDiseaseModeling', 'proxied_api_host': '/_', 'github_repo': 'emod-api', '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-87656833-3', 'global_analytics_code': 'UA-17997319-2', 'commit': 'a9d4b645', } 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: 2020-11-02T23:09:01.661119Z, end-time: 2020-11-02T23:09:24.108656Z, duration: 22, exit-code: 0 python sphinx-build -T -E -W --keep-going -b readthedocs -d _build/doctrees-readthedocs -D language=en . _build/html Running Sphinx v3.2.1 rm: cannot remove 'emod_api_index.rst': No such file or directory rm: cannot remove 'modules.rst': No such file or directory make: [generate-api] Error 1 (ignored) loading translations [en]... done making output directory... done building [mo]: targets for 0 po files that are out of date building [readthedocs]: targets for 47 source files that are out of date updating environment: [new config] 47 added, 0 changed, 0 removed reading sources... [ 2%] emod_api reading sources... [ 4%] emod_api.campaign reading sources... [ 6%] emod_api.channelreports reading sources... [ 8%] emod_api.channelreports.channels reading sources... [ 10%] emod_api.config reading sources... [ 12%] emod_api.config.default_from_schema reading sources... [ 14%] emod_api.config.default_from_schema_no_validation reading sources... [ 17%] emod_api.config.dtk_post_process_adhocevents reading sources... [ 19%] emod_api.config.dtk_pre_process_adhocevents reading sources... [ 21%] emod_api.config.dtk_pre_process_w5ml reading sources... [ 23%] emod_api.config.from_overrides reading sources... [ 25%] emod_api.config.from_poi_and_binary reading sources... [ 27%] emod_api.config.from_schema reading sources... [ 29%] emod_api.config.schema_to_config emod_api.config.schema_to_config is deprecated. Please use emod_api.config.from_schema. reading sources... [ 31%] emod_api.demographics reading sources... [ 34%] emod_api.demographics.BaseInputFile reading sources... [ 36%] emod_api.demographics.Demographics reading sources... [ 38%] emod_api.demographics.DemographicsGenerator reading sources... [ 40%] emod_api.demographics.DemographicsInputDataParsers reading sources... [ 42%] emod_api.demographics.DemographicsTemplates reading sources... [ 44%] emod_api.demographics.Node reading sources... [ 46%] emod_api.demographics.demographics_utils reading sources... [ 48%] emod_api.interventions reading sources... [ 51%] emod_api.interventions.import_pressure reading sources... [ 53%] emod_api.interventions.outbreak reading sources... [ 55%] emod_api.interventions.simple_vaccine reading sources... [ 57%] emod_api.migration reading sources... [ 59%] emod_api.migration.Migration reading sources... [ 61%] emod_api.migration.MigrationFile reading sources... [ 63%] emod_api.schema reading sources... [ 65%] emod_api.schema.dtk_post_process_schema reading sources... [ 68%] emod_api.schema.get_schema reading sources... 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[ 6%] emod_api.channelreports writing output... [ 8%] emod_api.channelreports.channels writing output... [ 10%] emod_api.config writing output... [ 12%] emod_api.config.default_from_schema writing output... [ 14%] emod_api.config.default_from_schema_no_validation writing output... [ 17%] emod_api.config.dtk_post_process_adhocevents writing output... [ 19%] emod_api.config.dtk_pre_process_adhocevents writing output... [ 21%] emod_api.config.dtk_pre_process_w5ml writing output... [ 23%] emod_api.config.from_overrides writing output... [ 25%] emod_api.config.from_poi_and_binary writing output... [ 27%] emod_api.config.from_schema writing output... [ 29%] emod_api.config.schema_to_config writing output... [ 31%] emod_api.demographics writing output... [ 34%] emod_api.demographics.BaseInputFile writing output... [ 36%] emod_api.demographics.Demographics writing output... [ 38%] emod_api.demographics.DemographicsGenerator writing output... [ 40%] emod_api.demographics.DemographicsInputDataParsers writing output... [ 42%] emod_api.demographics.DemographicsTemplates writing output... [ 44%] emod_api.demographics.Node writing output... [ 46%] emod_api.demographics.demographics_utils writing output... [ 48%] emod_api.interventions writing output... [ 51%] emod_api.interventions.import_pressure writing output... [ 53%] emod_api.interventions.outbreak writing output... [ 55%] emod_api.interventions.simple_vaccine writing output... [ 57%] emod_api.migration writing output... [ 59%] emod_api.migration.Migration writing output... [ 61%] emod_api.migration.MigrationFile writing output... [ 63%] emod_api.schema writing output... [ 65%] emod_api.schema.dtk_post_process_schema writing output... [ 68%] emod_api.schema.get_schema writing output... [ 70%] emod_api.schema_to_class writing output... [ 72%] emod_api.serialization writing output... [ 74%] emod_api.serialization.CensusAndModPop writing output... [ 76%] emod_api.serialization.SerializedPopulation writing output... [ 78%] emod_api.serialization.dtkFileSupport writing output... [ 80%] emod_api.serialization.dtkFileTools writing output... [ 82%] emod_api.serialization.dtkFileUtility writing output... [ 85%] emod_api.spatialreports writing output... [ 87%] emod_api.spatialreports.spatial writing output... [ 89%] emod_api.tabularoutput writing output... [ 91%] emod_api.weather writing output... [ 93%] emod_api.weather.weather writing output... [ 95%] emod_api_index writing output... [ 97%] glossary writing output... [100%] index generating indices... genindex py-modindexdone writing additional pages... search opensearchdone copying static files... ... done copying extra files... done dumping search index in English (code: en)... done dumping object inventory... done build succeeded. The HTML pages are in _build/html. Updating searchtools for Read the Docs search... /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emod-api/envs/latest/lib/python3.7/importlib/_bootstrap.py:219: RuntimeWarning: numpy.ufunc size changed, may indicate binary incompatibility. Expected 192 from C header, got 216 from PyObject return f(*args, **kwds) [rtd-command-info] start-time: 2020-11-02T23:09:24.579681Z, end-time: 2020-11-02T23:09:30.047846Z, duration: 5, exit-code: 0 python sphinx-build -T -W --keep-going -b readthedocssinglehtmllocalmedia -d _build/doctrees-readthedocssinglehtmllocalmedia -D language=en . _build/localmedia Running Sphinx v3.2.1 rm: cannot remove 'modules.rst': No such file or directory make: [generate-api] Error 1 (ignored) loading translations [en]... done making output directory... done building [mo]: targets for 0 po files that are out of date building [readthedocssinglehtmllocalmedia]: all documents updating environment: [new config] 47 added, 0 changed, 0 removed reading sources... [ 2%] emod_api reading sources... [ 4%] emod_api.campaign reading sources... [ 6%] emod_api.channelreports reading sources... [ 8%] emod_api.channelreports.channels reading sources... [ 10%] emod_api.config reading sources... [ 12%] emod_api.config.default_from_schema reading sources... [ 14%] emod_api.config.default_from_schema_no_validation reading sources... [ 17%] emod_api.config.dtk_post_process_adhocevents reading sources... [ 19%] emod_api.config.dtk_pre_process_adhocevents reading sources... [ 21%] emod_api.config.dtk_pre_process_w5ml reading sources... [ 23%] emod_api.config.from_overrides reading sources... [ 25%] emod_api.config.from_poi_and_binary reading sources... [ 27%] emod_api.config.from_schema reading sources... [ 29%] emod_api.config.schema_to_config emod_api.config.schema_to_config is deprecated. Please use emod_api.config.from_schema. reading sources... [ 31%] emod_api.demographics reading sources... [ 34%] emod_api.demographics.BaseInputFile reading sources... [ 36%] emod_api.demographics.Demographics reading sources... [ 38%] emod_api.demographics.DemographicsGenerator reading sources... [ 40%] emod_api.demographics.DemographicsInputDataParsers reading sources... [ 42%] emod_api.demographics.DemographicsTemplates reading sources... [ 44%] emod_api.demographics.Node reading sources... [ 46%] emod_api.demographics.demographics_utils reading sources... [ 48%] emod_api.interventions reading sources... [ 51%] emod_api.interventions.import_pressure reading sources... [ 53%] emod_api.interventions.outbreak reading sources... [ 55%] emod_api.interventions.simple_vaccine reading sources... [ 57%] emod_api.migration reading sources... [ 59%] emod_api.migration.Migration reading sources... [ 61%] emod_api.migration.MigrationFile reading sources... [ 63%] emod_api.schema reading sources... [ 65%] emod_api.schema.dtk_post_process_schema reading sources... [ 68%] emod_api.schema.get_schema reading sources... [ 70%] emod_api.schema_to_class reading sources... [ 72%] emod_api.serialization reading sources... [ 74%] emod_api.serialization.CensusAndModPop reading sources... [ 76%] emod_api.serialization.SerializedPopulation reading sources... [ 78%] emod_api.serialization.dtkFileSupport reading sources... [ 80%] emod_api.serialization.dtkFileTools reading sources... [ 82%] emod_api.serialization.dtkFileUtility reading sources... [ 85%] emod_api.spatialreports reading sources... [ 87%] emod_api.spatialreports.spatial reading sources... [ 89%] emod_api.tabularoutput reading sources... [ 91%] emod_api.weather reading sources... [ 93%] emod_api.weather.weather reading sources... [ 95%] emod_api_index reading sources... [ 97%] glossary reading sources... [100%] index looking for now-outdated files... none found pickling environment... done checking consistency... done preparing documents... done assembling single document... emod_api_index emod_api emod_api.channelreports emod_api.channelreports.channels emod_api.config emod_api.config.default_from_schema emod_api.config.default_from_schema_no_validation emod_api.config.dtk_post_process_adhocevents emod_api.config.dtk_pre_process_adhocevents emod_api.config.dtk_pre_process_w5ml emod_api.config.from_overrides emod_api.config.from_poi_and_binary emod_api.config.from_schema emod_api.config.schema_to_config emod_api.demographics emod_api.demographics.BaseInputFile emod_api.demographics.Demographics emod_api.demographics.DemographicsGenerator emod_api.demographics.DemographicsInputDataParsers emod_api.demographics.DemographicsTemplates emod_api.demographics.Node emod_api.demographics.demographics_utils emod_api.interventions emod_api.interventions.import_pressure emod_api.interventions.outbreak emod_api.interventions.simple_vaccine emod_api.migration emod_api.migration.Migration emod_api.migration.MigrationFile emod_api.schema emod_api.schema.dtk_post_process_schema emod_api.schema.get_schema emod_api.serialization emod_api.serialization.CensusAndModPop emod_api.serialization.SerializedPopulation emod_api.serialization.dtkFileSupport emod_api.serialization.dtkFileTools emod_api.serialization.dtkFileUtility emod_api.spatialreports emod_api.spatialreports.spatial emod_api.tabularoutput emod_api.weather emod_api.weather.weather emod_api.campaign emod_api.schema_to_class glossary done writing... done writing additional files... opensearchdone copying static files... ... done copying extra files... done dumping object inventory... done build succeeded. The HTML page is in _build/localmedia. Updating searchtools for Read the Docs search... /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emod-api/envs/latest/lib/python3.7/importlib/_bootstrap.py:219: RuntimeWarning: numpy.ufunc size changed, may indicate binary incompatibility. Expected 192 from C header, got 216 from PyObject return f(*args, **kwds) [rtd-command-info] start-time: 2020-11-02T23:09:30.239973Z, end-time: 2020-11-02T23:09:35.646527Z, duration: 5, exit-code: 0 python sphinx-build -b latex -D language=en -d _build/doctrees . _build/latex Running Sphinx v3.2.1 rm: cannot remove 'modules.rst': No such file or directory make: [generate-api] Error 1 (ignored) loading translations [en]... done making output directory... done building [mo]: targets for 0 po files that are out of date building [latex]: all documents updating environment: [new config] 47 added, 0 changed, 0 removed reading sources... [ 2%] emod_api reading sources... [ 4%] emod_api.campaign reading sources... [ 6%] emod_api.channelreports reading sources... [ 8%] emod_api.channelreports.channels reading sources... [ 10%] emod_api.config reading sources... [ 12%] emod_api.config.default_from_schema reading sources... [ 14%] emod_api.config.default_from_schema_no_validation reading sources... [ 17%] emod_api.config.dtk_post_process_adhocevents reading sources... [ 19%] emod_api.config.dtk_pre_process_adhocevents reading sources... [ 21%] emod_api.config.dtk_pre_process_w5ml reading sources... [ 23%] emod_api.config.from_overrides reading sources... [ 25%] emod_api.config.from_poi_and_binary reading sources... [ 27%] emod_api.config.from_schema reading sources... [ 29%] emod_api.config.schema_to_config emod_api.config.schema_to_config is deprecated. Please use emod_api.config.from_schema. reading sources... [ 31%] emod_api.demographics reading sources... [ 34%] emod_api.demographics.BaseInputFile reading sources... [ 36%] emod_api.demographics.Demographics reading sources... [ 38%] emod_api.demographics.DemographicsGenerator reading sources... [ 40%] emod_api.demographics.DemographicsInputDataParsers reading sources... [ 42%] emod_api.demographics.DemographicsTemplates reading sources... [ 44%] emod_api.demographics.Node reading sources... [ 46%] emod_api.demographics.demographics_utils reading sources... [ 48%] emod_api.interventions reading sources... [ 51%] emod_api.interventions.import_pressure reading sources... [ 53%] emod_api.interventions.outbreak reading sources... [ 55%] emod_api.interventions.simple_vaccine reading sources... [ 57%] emod_api.migration reading sources... [ 59%] emod_api.migration.Migration reading sources... [ 61%] emod_api.migration.MigrationFile reading sources... [ 63%] emod_api.schema reading sources... [ 65%] emod_api.schema.dtk_post_process_schema reading sources... [ 68%] emod_api.schema.get_schema reading sources... [ 70%] emod_api.schema_to_class reading sources... [ 72%] emod_api.serialization reading sources... [ 74%] emod_api.serialization.CensusAndModPop reading sources... [ 76%] emod_api.serialization.SerializedPopulation reading sources... [ 78%] emod_api.serialization.dtkFileSupport reading sources... [ 80%] emod_api.serialization.dtkFileTools reading sources... [ 82%] emod_api.serialization.dtkFileUtility reading sources... [ 85%] emod_api.spatialreports reading sources... [ 87%] emod_api.spatialreports.spatial reading sources... [ 89%] emod_api.tabularoutput reading sources... [ 91%] emod_api.weather reading sources... [ 93%] emod_api.weather.weather reading sources... [ 95%] emod_api_index reading sources... [ 97%] glossary reading sources... [100%] index looking for now-outdated files... none found pickling environment... done checking consistency... done processing emod-api-docs.tex... index emod_api_index emod_api emod_api.channelreports emod_api.channelreports.channels emod_api.config emod_api.config.default_from_schema emod_api.config.default_from_schema_no_validation emod_api.config.dtk_post_process_adhocevents emod_api.config.dtk_pre_process_adhocevents emod_api.config.dtk_pre_process_w5ml emod_api.config.from_overrides emod_api.config.from_poi_and_binary emod_api.config.from_schema emod_api.config.schema_to_config emod_api.demographics emod_api.demographics.BaseInputFile emod_api.demographics.Demographics emod_api.demographics.DemographicsGenerator emod_api.demographics.DemographicsInputDataParsers emod_api.demographics.DemographicsTemplates emod_api.demographics.Node emod_api.demographics.demographics_utils emod_api.interventions emod_api.interventions.import_pressure emod_api.interventions.outbreak emod_api.interventions.simple_vaccine emod_api.migration emod_api.migration.Migration emod_api.migration.MigrationFile emod_api.schema emod_api.schema.dtk_post_process_schema emod_api.schema.get_schema emod_api.serialization emod_api.serialization.CensusAndModPop emod_api.serialization.SerializedPopulation emod_api.serialization.dtkFileSupport emod_api.serialization.dtkFileTools emod_api.serialization.dtkFileUtility emod_api.spatialreports emod_api.spatialreports.spatial emod_api.tabularoutput emod_api.weather emod_api.weather.weather emod_api.campaign emod_api.schema_to_class glossary resolving references... done writing... done copying TeX support files... copying TeX support files... done build succeeded. The LaTeX files are in _build/latex. Run 'make' in that directory to run these through (pdf)latex (use `make latexpdf' here to do that automatically). /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emod-api/envs/latest/lib/python3.7/importlib/_bootstrap.py:219: RuntimeWarning: numpy.ufunc size changed, may indicate binary incompatibility. Expected 192 from C header, got 216 from PyObject return f(*args, **kwds) WARNING: Missing searchtools: /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emod-api/checkouts/latest/docs/_build/latex/_static/searchtools.js [rtd-command-info] start-time: 2020-11-02T23:09:35.867533Z, end-time: 2020-11-02T23:09:35.932936Z, duration: 0, exit-code: 0 cat latexmkrc $latex = 'latex ' . $ENV{'LATEXOPTS'} . ' %O %S'; $pdflatex = 'pdflatex ' . $ENV{'LATEXOPTS'} . ' %O %S'; $lualatex = 'lualatex ' . $ENV{'LATEXOPTS'} . ' %O %S'; $xelatex = 'xelatex --no-pdf ' . $ENV{'LATEXOPTS'} . ' %O %S'; $makeindex = 'makeindex -s python.ist %O -o %D %S'; add_cus_dep( "glo", "gls", 0, "makeglo" ); sub makeglo { return system( "makeindex -s gglo.ist -o '$_[0].gls' '$_[0].glo'" ); } [rtd-command-info] start-time: 2020-11-02T23:09:36.193538Z, end-time: 2020-11-02T23:09:51.579609Z, duration: 15, exit-code: 0 latexmk -r latexmkrc -pdf -f -dvi- -ps- -jobname=institute-for-disease-modeling-emod-api -interaction=nonstopmode Use of uninitialized value $ENV{"LATEXOPTS"} in concatenation (.) or string at (eval 10) line 1, chunk 1. Use of uninitialized value $ENV{"LATEXOPTS"} in concatenation (.) or string at (eval 10) line 2, chunk 1. Use of uninitialized value $ENV{"LATEXOPTS"} in concatenation (.) or string at (eval 10) line 3, chunk 1. Use of uninitialized value $ENV{"LATEXOPTS"} in concatenation (.) or string at (eval 10) line 4, chunk 1. Subroutine makeglo redefined at (eval 11) line 7, chunk 1. Use of uninitialized value $ENV{"LATEXOPTS"} in concatenation (.) or string at (eval 11) line 1, chunk 1. Use of uninitialized value $ENV{"LATEXOPTS"} in concatenation (.) or string at (eval 11) line 2, chunk 1. Use of uninitialized value $ENV{"LATEXOPTS"} in concatenation (.) or string at (eval 11) line 3, chunk 1. Use of uninitialized value $ENV{"LATEXOPTS"} in concatenation (.) or string at (eval 11) line 4, chunk 1. Latexmk: This is Latexmk, John Collins, 1 January 2015, version: 4.41. File::Glob::glob() will disappear in perl 5.30. Use File::Glob::bsd_glob() instead. at /usr/bin/latexmk line 7482. Rule 'pdflatex': Rules & subrules not known to be previously run: pdflatex Rule 'pdflatex': The following rules & subrules became out-of-date: 'pdflatex' ------------ Run number 1 of rule 'pdflatex' ------------ Latexmk: applying rule 'pdflatex'... ------------ Running 'pdflatex -interaction=nonstopmode -recorder --jobname="institute-for-disease-modeling-emod-api" "emod-api-docs.tex"' ------------ This is pdfTeX, Version 3.14159265-2.6-1.40.18 (TeX Live 2017/Debian) (preloaded format=pdflatex) restricted \write18 enabled. entering extended mode (./emod-api-docs.tex LaTeX2e <2017-04-15> Babel <3.18> and hyphenation patterns for 84 language(s) loaded. 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(/usr/share/texlive/texmf-dist/tex/latex/url/url.sty)) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/hpdftex.def (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/rerunfilecheck.sty)) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/hypcap.sty) (./sphinxmessages.sty) Writing index file institute-for-disease-modeling-emod-api.idx (./institute-for-disease-modeling-emod-api.aux) (/usr/share/texlive/texmf-dist/tex/latex/base/ts1cmr.fd) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/t1ptm.fd) (/usr/share/texlive/texmf-dist/tex/context/base/mkii/supp-pdf.mkii [Loading MPS to PDF converter (version 2006.09.02).] ) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/epstopdf-base.sty (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/grfext.sty) (/usr/share/texlive/texmf-dist/tex/latex/latexconfig/epstopdf-sys.cfg)) *geometry* driver: auto-detecting *geometry* detected driver: pdftex (/usr/share/texlive/texmf-dist/tex/latex/hyperref/nameref.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/gettitlestring.sty)) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/t1phv.fd)<><><><> (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/umsa.fd) (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/umsb.fd) [1{/var/lib/texmf/fo nts/map/pdftex/updmap/pdftex.map}] [2] [1] [2] [1] [2] Chapter 1. Underfull \hbox (badness 10000) in paragraph at lines 105--107 []\T1/ptm/m/n/10 python -m Underfull \hbox (badness 10000) in paragraph at lines 108--110 []\T1/ptm/m/n/10 python -m (/usr/share/texlive/texmf-dist/tex/latex/psnfss/t1pcr.fd) [3] Underfull \hbox (badness 10000) in paragraph at lines 234--234 []\T1/ptm/m/it/10 filename: str = None\T1/ptm/m/n/10 , (/usr/share/texlive/texmf-dist/tex/latex/psnfss/ts1ptm.fd) [4] Overfull \hbox (79.14464pt too wide) in paragraph at lines 352--352 []\T1/ptm/m/it/10 path_to_schema\T1/ptm/m/n/10 , Overfull \hbox (96.61464pt too wide) in paragraph at lines 352--352 \T1/ptm/m/it/10 schema_node=True\T1/pcr/m/n/10 ) Overfull \hbox (47.68495pt too wide) in paragraph at lines 362--362 []\T1/ptm/m/it/10 config\T1/pcr/m/n/10 ) Overfull \hbox (114.96484pt too wide) in paragraph at lines 376--376 []\T1/ptm/m/it/10 config_path\T1/ptm/m/n/10 , Overfull \hbox (95.13463pt too wide) in paragraph at lines 376--376 \T1/ptm/m/it/10 set_fn\T1/pcr/m/n/10 ) Overfull \hbox (126.96484pt too wide) in paragraph at lines 402--402 []\T1/ptm/m/it/10 config_path\T1/ptm/m/n/10 , Overfull \hbox (103.63463pt too wide) in paragraph at lines 402--402 \T1/ptm/m/it/10 set_fn\T1/ptm/m/n/10 , Overfull \hbox (95.01491pt too wide) in paragraph at lines 402--402 \T1/ptm/m/it/10 con- Overfull \hbox (133.8048pt too wide) in paragraph at lines 402--402 \T1/ptm/m/it/10 fig_out_path\T1/pcr/m/n/10 ) Overfull \hbox (7.52466pt too wide) in paragraph at lines 440--440 \T1/ptm/m/it/10 hoc_events\T1/pcr/m/n/10 ) [5] Underfull \hbox (badness 10000) in paragraph at lines 470--470 []\T1/ptm/m/it/10 configjson_path\T1/ptm/m/n/10 , Overfull \hbox (63.52425pt too wide) in paragraph at lines 499--499 []\T1/ptm/m/it/10 start_config_dict\T1/ptm/m/n/10 , Overfull \hbox (71.87448pt too wide) in paragraph at lines 499--499 \T1/ptm/m/it/10 poi_set_param_fn\T1/pcr/m/n/10 ) Overfull \hbox (66.30441pt too wide) in paragraph at lines 508--508 []\T1/ptm/m/it/10 start_config_path\T1/ptm/m/n/10 , Overfull \hbox (71.87448pt too wide) in paragraph at lines 508--508 \T1/ptm/m/it/10 poi_set_param_fn\T1/pcr/m/n/10 ) Overfull \hbox (18.36475pt too wide) in paragraph at lines 517--517 []\T1/ptm/m/it/10 schema_path\T1/ptm/m/n/10 , Overfull \hbox (41.87448pt too wide) in paragraph at lines 517--517 \T1/ptm/m/it/10 poi_set_param_fn\T1/pcr/m/n/10 ) Underfull \hbox (badness 10000) in paragraph at lines 526--526 []\T1/ptm/m/it/10 eradication_path\T1/ptm/m/n/10 , [6] Underfull \hbox (badness 10000) in paragraph at lines 574--576 []\T1/ptm/m/n/10 builder = s2c.SchemaConfigBuilder( Underfull \hbox (badness 10000) in paragraph at lines 583--583 []\T1/ptm/m/it/10 schema_name=\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 schema.json\TS1 /ptm/m/it/10 '\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 583--583 \T1/ptm/m/it/10 model=\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 GENERIC_SIM\TS1/ptm/m/i t/10 '\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 583--583 \T1/ptm/m/it/10 con-fig_out=\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 config.json\TS1/p tm/m/it/10 '\T1/ptm/m/n/10 , Overfull \hbox (28.28418pt too wide) in paragraph at lines 594--594 []\T1/ptm/m/it/10 schema_name=\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 schema.json\TS1 /ptm/m/it/10 '\T1/ptm/m/n/10 , Overfull \hbox (11.09424pt too wide) in paragraph at lines 594--594 \T1/ptm/m/it/10 model=\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 GENERIC_SIM\TS1/ptm/m/i t/10 '\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 594--594 \T1/ptm/m/it/10 con- Underfull \hbox (badness 10000) in paragraph at lines 594--594 \T1/ptm/m/it/10 fig_out=\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 config.json\TS1/ptm/m /it/10 '\T1/ptm/m/n/10 , LaTeX Warning: Hyper reference `emod_api.config.from_schema:emod_api.config.fro m_schema.SchemaConfigBuilder' on page 7 undefined on input line 595. Underfull \hbox (badness 10000) in paragraph at lines 637--637 []\T1/ptm/m/it/10 lat=0\T1/ptm/m/n/10 , \T1/ptm/m/it/10 lon=0\T1/ptm/m/n/10 , \ T1/ptm/m/it/10 pop=1000000.0\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 637--637 \T1/ptm/m/it/10 name=1\T1/ptm/m/n/10 , \T1/ptm/m/it/10 forced_id=1\T1/ptm/m/n/1 0 , \T1/ptm/m/it/10 im- Underfull \hbox (badness 10000) in paragraph at lines 657--657 []\T1/ptm/m/it/10 tot_pop\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 657--657 \T1/ptm/m/it/10 num_nodes\T1/ptm/m/n/10 , [7] Underfull \hbox (badness 10000) in paragraph at lines 663--663 []\T1/ptm/m/it/10 tot_pop=1000000.0\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 663--663 \T1/ptm/m/it/10 num_nodes=100\T1/ptm/m/n/10 , \T1/ptm/m/it/10 frac_rural=0.3\T1 /ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 663--663 \T1/ptm/m/it/10 id_ref=\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 from_synth_pop\TS1/ptm /m/it/10 '\T1/ptm/m/n/10 , \T1/ptm/m/it/10 im-plic- Underfull \hbox (badness 10000) in paragraph at lines 681--681 []\T1/ptm/m/it/10 nodes\T1/ptm/m/n/10 , \T1/ptm/m/it/10 idref=\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 Gridded Underfull \hbox (badness 10000) in paragraph at lines 681--681 \T1/ptm/m/it/10 world grump2.5arcmin\TS1/ptm/m/it/10 '\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 681--681 \T1/ptm/m/it/10 base_file=None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 im-plic- LaTeX Warning: Hyper reference `emod_api.demographics.BaseInputFile:emod_api.de mographics.BaseInputFile.BaseInputFile' on page 8 undefined on input line 682. [8] (/usr/share/texlive/texmf-dist/tex/latex/psnfss/ts1pcr.fd) Overfull \hbox (18.60422pt too wide) in paragraph at lines 840--840 []\T1/ptm/m/it/10 res_in_arcsec\T1/pcr/m/n/10 ) Overfull \hbox (13.07484pt too wide) in paragraph at lines 859--859 []\T1/ptm/m/it/10 nodes\T1/ptm/m/n/10 , Overfull \hbox (5.01491pt too wide) in paragraph at lines 859--859 \T1/ptm/m/it/10 con- Overfull \hbox (12.23463pt too wide) in paragraph at lines 859--859 \T1/ptm/m/it/10 cerns: Overfull \hbox (2.79494pt too wide) in paragraph at lines 859--859 \T1/ptm/m/it/10 Op- Overfull \hbox (457.54115pt too wide) in paragraph at lines 859--859 \T1/ptm/m/it/10 tional[Union[emod_api.dtk_tools.demographics.DemographicsGenera torConcern.DemographicsGeneratorConcern, Overfull \hbox (429.49101pt too wide) in paragraph at lines 859--859 \T1/ptm/m/it/10 List[emod_api.dtk_tools.demographics.DemographicsGeneratorConce rn.DemographicsGeneratorConcern]]] Underfull \hbox (badness 10000) in paragraph at lines 859--859 \T1/ptm/m/it/10 = Overfull \hbox (10.85487pt too wide) in paragraph at lines 859--859 \T1/ptm/m/it/10 None\T1/ptm/m/n/10 , Overfull \hbox (84.4637pt too wide) in paragraph at lines 859--859 \T1/ptm/m/it/10 res_in_arcsec=\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 custom\TS1/ptm/ m/it/10 '\T1/ptm/m/n/10 , Overfull \hbox (115.46402pt too wide) in paragraph at lines 859--859 \T1/ptm/m/it/10 node_id_from_lat_long=False\T1/pcr/m/n/10 ) [9] Underfull \hbox (badness 10000) in paragraph at lines 944--944 []\T1/ptm/m/it/10 df\T1/ptm/m/n/10 , \T1/ptm/m/it/10 de-mo-graph- Underfull \hbox (badness 10000) in paragraph at lines 944--944 \T1/ptm/m/it/10 ics_filename: Op- Underfull \hbox (badness 10000) in paragraph at lines 944--944 \T1/ptm/m/it/10 tional[str] = None\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 944--944 \T1/ptm/m/it/10 con-cerns: Op- Overfull \hbox (379.54115pt too wide) in paragraph at lines 944--944 \T1/ptm/m/it/10 tional[Union[emod_api.dtk_tools.demographics.DemographicsGenera torConcern.DemographicsGeneratorConcern, Overfull \hbox (351.49101pt too wide) in paragraph at lines 944--944 \T1/ptm/m/it/10 List[emod_api.dtk_tools.demographics.DemographicsGeneratorConce rn.DemographicsGeneratorConcern]]] Underfull \hbox (badness 10000) in paragraph at lines 944--944 \T1/ptm/m/it/10 = None\T1/ptm/m/n/10 , Overfull \hbox (6.4637pt too wide) in paragraph at lines 944--944 \T1/ptm/m/it/10 res_in_arcsec=\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 custom\TS1/ptm/ m/it/10 '\T1/ptm/m/n/10 , Overfull \hbox (30.83415pt too wide) in paragraph at lines 944--944 \T1/ptm/m/it/10 node_id_from_lat_long=True\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 944--944 \T1/ptm/m/it/10 de-fault_population: Underfull \hbox (badness 10000) in paragraph at lines 944--944 \T1/ptm/m/it/10 int = 1000\T1/ptm/m/n/10 , Overfull \hbox (79.21327pt too wide) in paragraph at lines 944--944 \T1/ptm/m/it/10 load_other_columns_as_attributes=False\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 944--944 \T1/ptm/m/it/10 tional[List[str]] Underfull \hbox (badness 10000) in paragraph at lines 944--944 \T1/ptm/m/it/10 = None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 ex- Underfull \hbox (badness 10000) in paragraph at lines 944--944 \T1/ptm/m/it/10 clude_columns: Underfull \hbox (badness 10000) in paragraph at lines 944--944 \T1/ptm/m/it/10 Op-tional[List[str]] Underfull \hbox (badness 10000) in paragraph at lines 944--944 \T1/ptm/m/it/10 = None\T1/ptm/m/n/10 , Overfull \hbox (0.89452pt too wide) in paragraph at lines 944--944 \T1/ptm/m/it/10 nodeid_column_name: Underfull \hbox (badness 10000) in paragraph at lines 944--944 \T1/ptm/m/it/10 Op-tional[str] Underfull \hbox (badness 10000) in paragraph at lines 944--944 \T1/ptm/m/it/10 = None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 lat-i- Underfull \hbox (badness 10000) in paragraph at lines 944--944 \T1/ptm/m/it/10 tude_column_name: Underfull \hbox (badness 10000) in paragraph at lines 944--944 \T1/ptm/m/it/10 str = \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 lat\TS1/ptm/m/it/10 '\T 1/ptm/m/n/10 , \T1/ptm/m/it/10 lon-gi- Underfull \hbox (badness 10000) in paragraph at lines 944--944 \T1/ptm/m/it/10 tude_column_name: Underfull \hbox (badness 10000) in paragraph at lines 944--944 \T1/ptm/m/it/10 tion_column_name: [10] Overfull \hbox (54.94496pt too wide) in paragraph at lines 959--960 []\T1/pcr/b/n/10 apply. If not specified, we use the DefaultWorldBankEquilibriu mConcern Underfull \hbox (badness 10000) in paragraph at lines 1007--1007 []\T1/ptm/m/it/10 population_input_file: Underfull \hbox (badness 10000) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 str\T1/ptm/m/n/10 , \T1/ptm/m/it/10 de-mo-graph- Underfull \hbox (badness 7851) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 = None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 con-cerns: Op- Overfull \hbox (349.54115pt too wide) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 tional[Union[emod_api.dtk_tools.demographics.DemographicsGenera torConcern.DemographicsGeneratorConcern, Overfull \hbox (321.49101pt too wide) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 List[emod_api.dtk_tools.demographics.DemographicsGeneratorConce rn.DemographicsGeneratorConcern]]] Underfull \hbox (badness 10000) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 = None\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 res_in_arcsec=\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 custom\TS1/ptm/ m/it/10 '\T1/ptm/m/n/10 , Overfull \hbox (0.83415pt too wide) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 node_id_from_lat_long=True\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 de-fault_population: Underfull \hbox (badness 10000) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 int = 1000\T1/ptm/m/n/10 , Overfull \hbox (49.21327pt too wide) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 load_other_columns_as_attributes=False\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 in-clude_columns: Op- Underfull \hbox (badness 10000) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 tional[List[str]] = None\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 ex-clude_columns: Op- Underfull \hbox (badness 10000) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 tional[List[str]] = None\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 nodeid_column_name: Underfull \hbox (badness 10000) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 Op-tional[str] = None\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 lat-i-tude_column_name: Underfull \hbox (badness 10000) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 str = \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 lat\TS1/ptm/m/it/10 '\T 1/ptm/m/n/10 , \T1/ptm/m/it/10 lon-gi- Underfull \hbox (badness 10000) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 tude_column_name: Underfull \hbox (badness 10000) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 str = \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 lon\TS1/ptm/m/it/10 '\T 1/ptm/m/n/10 , \T1/ptm/m/it/10 pop-u-la- Underfull \hbox (badness 6236) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 tion_column_name: str = [11] Overfull \hbox (54.94496pt too wide) in paragraph at lines 1022--1023 []\T1/pcr/b/n/10 apply. If not specified, we use the DefaultWorldBankEquilibriu mConcern Overfull \hbox (6.3048pt too wide) in paragraph at lines 1078--1078 []\T1/ptm/m/it/10 lat\T1/ptm/m/n/10 , Overfull \hbox (13.5249pt too wide) in paragraph at lines 1078--1078 \T1/ptm/m/it/10 long\T1/ptm/m/n/10 , Overfull \hbox (115.34473pt too wide) in paragraph at lines 1078--1078 \T1/ptm/m/it/10 res=0.008333333333333333\T1/pcr/m/n/10 ) Overfull \hbox (37.09444pt too wide) in paragraph at lines 1084--1084 []\T1/ptm/m/it/10 nodelist\T1/pcr/m/n/10 ) Overfull \hbox (11.74474pt too wide) in paragraph at lines 1090--1090 []\T1/ptm/m/it/10 node_info\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 1090--1090 \T1/ptm/m/it/10 De- Underfull \hbox (badness 10000) in paragraph at lines 1090--1090 \T1/ptm/m/it/10 moDf\T1/ptm/m/n/10 , Overfull \hbox (91.34473pt too wide) in paragraph at lines 1090--1090 \T1/ptm/m/it/10 res=0.008333333333333333\T1/pcr/m/n/10 ) Overfull \hbox (71.74474pt too wide) in paragraph at lines 1096--1096 []\T1/ptm/m/it/10 node_info\T1/ptm/m/n/10 , Overfull \hbox (41.2549pt too wide) in paragraph at lines 1096--1096 \T1/ptm/m/it/10 ex- Overfull \hbox (118.90427pt too wide) in paragraph at lines 1096--1096 \T1/ptm/m/it/10 tra_data_columns=[]\T1/ptm/m/n/10 , Overfull \hbox (151.34473pt too wide) in paragraph at lines 1096--1096 \T1/ptm/m/it/10 res=0.008333333333333333\T1/pcr/m/n/10 ) [12] Underfull \hbox (badness 10000) in paragraph at lines 1169--1171 []\T1/ptm/m/n/10 json ob-ject aka python dict that can be di-rectly passed to D e-mo-graph- Overfull \hbox (25.80493pt too wide) in paragraph at lines 1207--1207 []\T1/ptm/m/it/10 demog\T1/pcr/m/n/10 ) Overfull \hbox (46.30493pt too wide) in paragraph at lines 1213--1213 []\T1/ptm/m/it/10 demog\T1/ptm/m/n/10 , Overfull \hbox (42.23488pt too wide) in paragraph at lines 1213--1213 \T1/ptm/m/it/10 mean- Overfull \hbox (44.91478pt too wide) in paragraph at lines 1213--1213 \T1/ptm/m/it/10 AgeAt- Overfull \hbox (28.90492pt too wide) in paragraph at lines 1213--1213 \T1/ptm/m/it/10 In- Overfull \hbox (32.23474pt too wide) in paragraph at lines 1213--1213 \T1/ptm/m/it/10 fec- Overfull \hbox (58.0548pt too wide) in paragraph at lines 1213--1213 \T1/ptm/m/it/10 tion=2.5\T1/pcr/m/n/10 ) Overfull \hbox (55.80493pt too wide) in paragraph at lines 1219--1219 []\T1/ptm/m/it/10 demog\T1/pcr/m/n/10 ) Underfull \hbox (badness 10000) in paragraph at lines 1225--1225 []\T1/ptm/m/it/10 AgeBins\T1/ptm/m/n/10 , \T1/ptm/m/it/10 Mor- [13] Overfull \hbox (88.30493pt too wide) in paragraph at lines 1257--1257 []\T1/ptm/m/it/10 demog\T1/ptm/m/n/10 , Overfull \hbox (87.57472pt too wide) in paragraph at lines 1257--1257 \T1/ptm/m/it/10 Crude- Overfull \hbox (124.88449pt too wide) in paragraph at lines 1257--1257 \T1/ptm/m/it/10 BirthRate=0.04\T1/ptm/m/n/10 , Overfull \hbox (87.57472pt too wide) in paragraph at lines 1257--1257 \T1/ptm/m/it/10 Crude- Overfull \hbox (79.59486pt too wide) in paragraph at lines 1257--1257 \T1/ptm/m/it/10 Mor- Overfull \hbox (110.60472pt too wide) in paragraph at lines 1257--1257 \T1/ptm/m/it/10 tRate=0.02\T1/pcr/m/n/10 ) Underfull \hbox (badness 10000) in paragraph at lines 1263--1263 []\T1/ptm/m/it/10 demog\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 1263--1263 \T1/ptm/m/it/10 start=100\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 1263--1263 \T1/ptm/m/it/10 end=330\T1/ptm/m/n/10 , \T1/ptm/m/it/10 fac- Underfull \hbox (badness 10000) in paragraph at lines 1266--1269 []\T1/ptm/m/n/10 Requires con-fig en-ables in-fec-tiv-ity scal-ing: e.g.: `En-a ble_Infectivity_Scaling': 1, `En- Overfull \hbox (22.9045pt too wide) in paragraph at lines 1350--1350 []\T1/ptm/m/it/10 nodeid\T1/ptm/m/n/10 , \T1/ptm/m/it/10 res_in_deg=0.041666666 666666664\T1/pcr/m/n/10 ) Underfull \hbox (badness 10000) in paragraph at lines 1356--1356 []\T1/ptm/m/it/10 lat\T1/ptm/m/n/10 , \T1/ptm/m/it/10 lon\T1/ptm/m/n/10 , Overfull \hbox (9.16464pt too 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Transcript written on institute-for-disease-modeling-emod-api.log. Latexmk: Index file 'institute-for-disease-modeling-emod-api.idx' was written Latexmk: Missing input file: 'institute-for-disease-modeling-emod-api.ind' from line 'No file institute-for-disease-modeling-emod-api.ind.' Latexmk: References changed. Latexmk: References changed. Latexmk: Log file says output to 'institute-for-disease-modeling-emod-api.pdf' Latexmk: Log file says output to 'institute-for-disease-modeling-emod-api.pdf' Latexmk: List of undefined refs and citations: Reference `emod_api.campaign:module-emod_api.campaign' on page 31 undefined on input line 2766 Reference `emod_api.channelreports.channels:module-emod_api.channelreports.channels' on page 31 undefined on input line 2768 Reference `emod_api.channelreports:module-emod_api.channelreports' on page 31 undefined on input line 2767 Reference `emod_api.config.default_from_schema:module-emod_api.config.default_from_schema' on page 31 undefined on input line 2770 Reference `emod_api.config.default_from_schema_no_validation:module-emod_api.config.default_from_schema_no_validation' on page 31 undefined on input line 2771 Reference `emod_api.config.dtk_post_process_adhocevents:module-emod_api.config.dtk_post_process_adhocevents' on page 31 undefined on input line 2772 Reference 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`emod_api.schema.get_schema:module-emod_api.schema.get_schema' on page 31 undefined on input line 2796 Reference `emod_api.schema:module-emod_api.schema' on page 31 undefined on input line 2794 Reference `emod_api.schema_to_class:module-emod_api.schema_to_class' on page 31 undefined on input line 2797 Reference `emod_api.serialization.CensusAndModPop:module-emod_api.serialization.CensusAndModPop' on page 31 undefined on input line 2799 Reference `emod_api.serialization.SerializedPopulation:module-emod_api.serialization.SerializedPopulation' on page 31 undefined on input line 2803 Reference `emod_api.serialization.dtkFileSupport:module-emod_api.serialization.dtkFileSupport' on page 31 undefined on input line 2800 Reference `emod_api.serialization.dtkFileTools:module-emod_api.serialization.dtkFileTools' on page 31 undefined on input line 2801 Reference `emod_api.serialization.dtkFileUtility:module-emod_api.serialization.dtkFileUtility' on page 31 undefined on input line 2802 Reference 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Overfull \hbox (71.87448pt too wide) in paragraph at lines 508--508 \T1/ptm/m/it/10 poi_set_param_fn\T1/pcr/m/n/10 ) Overfull \hbox (18.36475pt too wide) in paragraph at lines 517--517 []\T1/ptm/m/it/10 schema_path\T1/ptm/m/n/10 , Overfull \hbox (41.87448pt too wide) in paragraph at lines 517--517 \T1/ptm/m/it/10 poi_set_param_fn\T1/pcr/m/n/10 ) Underfull \hbox (badness 10000) in paragraph at lines 526--526 []\T1/ptm/m/it/10 eradication_path\T1/ptm/m/n/10 , [6] Underfull \hbox (badness 10000) in paragraph at lines 574--576 []\T1/ptm/m/n/10 builder = s2c.SchemaConfigBuilder( Underfull \hbox (badness 10000) in paragraph at lines 583--583 []\T1/ptm/m/it/10 schema_name=\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 schema.json\TS1 /ptm/m/it/10 '\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 583--583 \T1/ptm/m/it/10 model=\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 GENERIC_SIM\TS1/ptm/m/i t/10 '\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 583--583 \T1/ptm/m/it/10 con-fig_out=\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 config.json\TS1/p tm/m/it/10 '\T1/ptm/m/n/10 , Overfull \hbox (28.28418pt too wide) in paragraph at lines 594--594 []\T1/ptm/m/it/10 schema_name=\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 schema.json\TS1 /ptm/m/it/10 '\T1/ptm/m/n/10 , Overfull \hbox (11.09424pt too wide) in paragraph at lines 594--594 \T1/ptm/m/it/10 model=\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 GENERIC_SIM\TS1/ptm/m/i t/10 '\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 594--594 \T1/ptm/m/it/10 con- Underfull \hbox (badness 10000) in paragraph at lines 594--594 \T1/ptm/m/it/10 fig_out=\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 config.json\TS1/ptm/m /it/10 '\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 637--637 []\T1/ptm/m/it/10 lat=0\T1/ptm/m/n/10 , \T1/ptm/m/it/10 lon=0\T1/ptm/m/n/10 , \ T1/ptm/m/it/10 pop=1000000.0\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 637--637 \T1/ptm/m/it/10 name=1\T1/ptm/m/n/10 , \T1/ptm/m/it/10 forced_id=1\T1/ptm/m/n/1 0 , \T1/ptm/m/it/10 im- Underfull \hbox (badness 10000) in paragraph at lines 657--657 []\T1/ptm/m/it/10 tot_pop\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 657--657 \T1/ptm/m/it/10 num_nodes\T1/ptm/m/n/10 , [7] Underfull \hbox (badness 10000) in paragraph at lines 663--663 []\T1/ptm/m/it/10 tot_pop=1000000.0\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 663--663 \T1/ptm/m/it/10 num_nodes=100\T1/ptm/m/n/10 , \T1/ptm/m/it/10 frac_rural=0.3\T1 /ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 663--663 \T1/ptm/m/it/10 id_ref=\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 from_synth_pop\TS1/ptm /m/it/10 '\T1/ptm/m/n/10 , \T1/ptm/m/it/10 im-plic- Underfull \hbox (badness 10000) in paragraph at lines 681--681 []\T1/ptm/m/it/10 nodes\T1/ptm/m/n/10 , \T1/ptm/m/it/10 idref=\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 Gridded Underfull \hbox (badness 10000) in paragraph at lines 681--681 \T1/ptm/m/it/10 world grump2.5arcmin\TS1/ptm/m/it/10 '\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 681--681 \T1/ptm/m/it/10 base_file=None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 im-plic- [8] (/usr/share/texlive/texmf-dist/tex/latex/psnfss/ts1pcr.fd) Overfull \hbox (18.60422pt too wide) in paragraph at lines 840--840 []\T1/ptm/m/it/10 res_in_arcsec\T1/pcr/m/n/10 ) Overfull \hbox (13.07484pt too wide) in paragraph at lines 859--859 []\T1/ptm/m/it/10 nodes\T1/ptm/m/n/10 , Overfull \hbox (5.01491pt too wide) in paragraph at lines 859--859 \T1/ptm/m/it/10 con- Overfull \hbox (12.23463pt too wide) in paragraph at lines 859--859 \T1/ptm/m/it/10 cerns: Overfull \hbox (2.79494pt too wide) in paragraph at lines 859--859 \T1/ptm/m/it/10 Op- Overfull \hbox (457.54115pt too wide) in paragraph at lines 859--859 \T1/ptm/m/it/10 tional[Union[emod_api.dtk_tools.demographics.DemographicsGenera torConcern.DemographicsGeneratorConcern, Overfull \hbox (429.49101pt too wide) in paragraph at lines 859--859 \T1/ptm/m/it/10 List[emod_api.dtk_tools.demographics.DemographicsGeneratorConce rn.DemographicsGeneratorConcern]]] Underfull \hbox (badness 10000) in paragraph at lines 859--859 \T1/ptm/m/it/10 = Overfull \hbox (10.85487pt too wide) in paragraph at lines 859--859 \T1/ptm/m/it/10 None\T1/ptm/m/n/10 , Overfull \hbox (84.4637pt too wide) in paragraph at lines 859--859 \T1/ptm/m/it/10 res_in_arcsec=\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 custom\TS1/ptm/ m/it/10 '\T1/ptm/m/n/10 , Overfull \hbox (115.46402pt too wide) in paragraph at lines 859--859 \T1/ptm/m/it/10 node_id_from_lat_long=False\T1/pcr/m/n/10 ) [9] Underfull \hbox (badness 10000) in paragraph at lines 944--944 []\T1/ptm/m/it/10 df\T1/ptm/m/n/10 , \T1/ptm/m/it/10 de-mo-graph- Underfull \hbox (badness 10000) in paragraph at lines 944--944 \T1/ptm/m/it/10 ics_filename: Op- Underfull \hbox (badness 10000) in paragraph at lines 944--944 \T1/ptm/m/it/10 tional[str] = None\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 944--944 \T1/ptm/m/it/10 con-cerns: Op- Overfull \hbox (379.54115pt too wide) in paragraph at lines 944--944 \T1/ptm/m/it/10 tional[Union[emod_api.dtk_tools.demographics.DemographicsGenera torConcern.DemographicsGeneratorConcern, Overfull \hbox (351.49101pt too wide) in paragraph at lines 944--944 \T1/ptm/m/it/10 List[emod_api.dtk_tools.demographics.DemographicsGeneratorConce rn.DemographicsGeneratorConcern]]] Underfull \hbox (badness 10000) in paragraph at lines 944--944 \T1/ptm/m/it/10 = None\T1/ptm/m/n/10 , Overfull \hbox (6.4637pt too wide) in paragraph at lines 944--944 \T1/ptm/m/it/10 res_in_arcsec=\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 custom\TS1/ptm/ m/it/10 '\T1/ptm/m/n/10 , Overfull \hbox (30.83415pt too wide) in paragraph at lines 944--944 \T1/ptm/m/it/10 node_id_from_lat_long=True\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 944--944 \T1/ptm/m/it/10 de-fault_population: Underfull \hbox (badness 10000) in paragraph at lines 944--944 \T1/ptm/m/it/10 int = 1000\T1/ptm/m/n/10 , Overfull \hbox (79.21327pt too wide) in paragraph at lines 944--944 \T1/ptm/m/it/10 load_other_columns_as_attributes=False\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 944--944 \T1/ptm/m/it/10 tional[List[str]] Underfull \hbox (badness 10000) in paragraph at lines 944--944 \T1/ptm/m/it/10 = None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 ex- Underfull \hbox (badness 10000) in paragraph at lines 944--944 \T1/ptm/m/it/10 clude_columns: Underfull \hbox (badness 10000) in paragraph at lines 944--944 \T1/ptm/m/it/10 Op-tional[List[str]] Underfull \hbox (badness 10000) in paragraph at lines 944--944 \T1/ptm/m/it/10 = None\T1/ptm/m/n/10 , Overfull \hbox (0.89452pt too wide) in paragraph at lines 944--944 \T1/ptm/m/it/10 nodeid_column_name: Underfull \hbox (badness 10000) in paragraph at lines 944--944 \T1/ptm/m/it/10 Op-tional[str] Underfull \hbox (badness 10000) in paragraph at lines 944--944 \T1/ptm/m/it/10 = None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 lat-i- Underfull \hbox (badness 10000) in paragraph at lines 944--944 \T1/ptm/m/it/10 tude_column_name: Underfull \hbox (badness 10000) in paragraph at lines 944--944 \T1/ptm/m/it/10 str = \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 lat\TS1/ptm/m/it/10 '\T 1/ptm/m/n/10 , \T1/ptm/m/it/10 lon-gi- Underfull \hbox (badness 10000) in paragraph at lines 944--944 \T1/ptm/m/it/10 tude_column_name: Underfull \hbox (badness 10000) in paragraph at lines 944--944 \T1/ptm/m/it/10 tion_column_name: [10] Overfull \hbox (54.94496pt too wide) in paragraph at lines 959--960 []\T1/pcr/b/n/10 apply. If not specified, we use the DefaultWorldBankEquilibriu mConcern Underfull \hbox (badness 10000) in paragraph at lines 1007--1007 []\T1/ptm/m/it/10 population_input_file: Underfull \hbox (badness 10000) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 str\T1/ptm/m/n/10 , \T1/ptm/m/it/10 de-mo-graph- Underfull \hbox (badness 7851) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 = None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 con-cerns: Op- Overfull \hbox (349.54115pt too wide) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 tional[Union[emod_api.dtk_tools.demographics.DemographicsGenera torConcern.DemographicsGeneratorConcern, Overfull \hbox (321.49101pt too wide) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 List[emod_api.dtk_tools.demographics.DemographicsGeneratorConce rn.DemographicsGeneratorConcern]]] Underfull \hbox (badness 10000) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 = None\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 res_in_arcsec=\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 custom\TS1/ptm/ m/it/10 '\T1/ptm/m/n/10 , Overfull \hbox (0.83415pt too wide) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 node_id_from_lat_long=True\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 de-fault_population: Underfull \hbox (badness 10000) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 int = 1000\T1/ptm/m/n/10 , Overfull \hbox (49.21327pt too wide) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 load_other_columns_as_attributes=False\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 in-clude_columns: Op- Underfull \hbox (badness 10000) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 tional[List[str]] = None\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 ex-clude_columns: Op- Underfull \hbox (badness 10000) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 tional[List[str]] = None\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 nodeid_column_name: Underfull \hbox (badness 10000) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 Op-tional[str] = None\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 lat-i-tude_column_name: Underfull \hbox (badness 10000) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 str = \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 lat\TS1/ptm/m/it/10 '\T 1/ptm/m/n/10 , \T1/ptm/m/it/10 lon-gi- Underfull \hbox (badness 10000) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 tude_column_name: Underfull \hbox (badness 10000) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 str = \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 lon\TS1/ptm/m/it/10 '\T 1/ptm/m/n/10 , \T1/ptm/m/it/10 pop-u-la- Underfull \hbox (badness 6236) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 tion_column_name: str = [11] Overfull \hbox (54.94496pt too wide) in paragraph at lines 1022--1023 []\T1/pcr/b/n/10 apply. If not specified, we use the DefaultWorldBankEquilibriu mConcern Overfull \hbox (6.3048pt too wide) in paragraph at lines 1078--1078 []\T1/ptm/m/it/10 lat\T1/ptm/m/n/10 , Overfull \hbox (13.5249pt too wide) in paragraph at lines 1078--1078 \T1/ptm/m/it/10 long\T1/ptm/m/n/10 , Overfull \hbox (115.34473pt too wide) in paragraph at lines 1078--1078 \T1/ptm/m/it/10 res=0.008333333333333333\T1/pcr/m/n/10 ) Overfull \hbox (37.09444pt too wide) in paragraph at lines 1084--1084 []\T1/ptm/m/it/10 nodelist\T1/pcr/m/n/10 ) Overfull \hbox (11.74474pt too wide) in paragraph at lines 1090--1090 []\T1/ptm/m/it/10 node_info\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 1090--1090 \T1/ptm/m/it/10 De- Underfull \hbox (badness 10000) in paragraph at lines 1090--1090 \T1/ptm/m/it/10 moDf\T1/ptm/m/n/10 , Overfull \hbox (91.34473pt too wide) in paragraph at lines 1090--1090 \T1/ptm/m/it/10 res=0.008333333333333333\T1/pcr/m/n/10 ) Overfull \hbox (71.74474pt too wide) in paragraph at lines 1096--1096 []\T1/ptm/m/it/10 node_info\T1/ptm/m/n/10 , Overfull \hbox (41.2549pt too wide) in paragraph at lines 1096--1096 \T1/ptm/m/it/10 ex- Overfull \hbox (118.90427pt too wide) in paragraph at lines 1096--1096 \T1/ptm/m/it/10 tra_data_columns=[]\T1/ptm/m/n/10 , Overfull \hbox (151.34473pt too wide) in paragraph at lines 1096--1096 \T1/ptm/m/it/10 res=0.008333333333333333\T1/pcr/m/n/10 ) [12] Underfull \hbox (badness 10000) in paragraph at lines 1169--1171 []\T1/ptm/m/n/10 json ob-ject aka python dict that can be di-rectly passed to D e-mo-graph- Overfull \hbox (25.80493pt too wide) in paragraph at lines 1207--1207 []\T1/ptm/m/it/10 demog\T1/pcr/m/n/10 ) Overfull \hbox (46.30493pt too wide) in paragraph at lines 1213--1213 []\T1/ptm/m/it/10 demog\T1/ptm/m/n/10 , Overfull \hbox (42.23488pt too wide) in paragraph at lines 1213--1213 \T1/ptm/m/it/10 mean- Overfull \hbox (44.91478pt too wide) in paragraph at lines 1213--1213 \T1/ptm/m/it/10 AgeAt- Overfull \hbox (28.90492pt too wide) in paragraph at lines 1213--1213 \T1/ptm/m/it/10 In- Overfull \hbox (32.23474pt too wide) in paragraph at lines 1213--1213 \T1/ptm/m/it/10 fec- Overfull \hbox (58.0548pt too wide) in paragraph at lines 1213--1213 \T1/ptm/m/it/10 tion=2.5\T1/pcr/m/n/10 ) Overfull \hbox (55.80493pt too wide) in paragraph at lines 1219--1219 []\T1/ptm/m/it/10 demog\T1/pcr/m/n/10 ) Underfull \hbox (badness 10000) in paragraph at lines 1225--1225 []\T1/ptm/m/it/10 AgeBins\T1/ptm/m/n/10 , \T1/ptm/m/it/10 Mor- [13] Overfull \hbox (88.30493pt too wide) in paragraph at lines 1257--1257 []\T1/ptm/m/it/10 demog\T1/ptm/m/n/10 , Overfull \hbox (87.57472pt too wide) in paragraph at lines 1257--1257 \T1/ptm/m/it/10 Crude- Overfull \hbox (124.88449pt too wide) in paragraph at lines 1257--1257 \T1/ptm/m/it/10 BirthRate=0.04\T1/ptm/m/n/10 , Overfull \hbox (87.57472pt too wide) in paragraph at lines 1257--1257 \T1/ptm/m/it/10 Crude- Overfull \hbox (79.59486pt too wide) in paragraph at lines 1257--1257 \T1/ptm/m/it/10 Mor- Overfull \hbox (110.60472pt too wide) in paragraph at lines 1257--1257 \T1/ptm/m/it/10 tRate=0.02\T1/pcr/m/n/10 ) Underfull \hbox (badness 10000) in paragraph at lines 1263--1263 []\T1/ptm/m/it/10 demog\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 1263--1263 \T1/ptm/m/it/10 start=100\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 1263--1263 \T1/ptm/m/it/10 end=330\T1/ptm/m/n/10 , \T1/ptm/m/it/10 fac- Underfull \hbox (badness 10000) in paragraph at lines 1266--1269 []\T1/ptm/m/n/10 Requires con-fig en-ables in-fec-tiv-ity scal-ing: e.g.: `En-a ble_Infectivity_Scaling': 1, `En- Overfull \hbox (22.9045pt too wide) in paragraph at lines 1350--1350 []\T1/ptm/m/it/10 nodeid\T1/ptm/m/n/10 , \T1/ptm/m/it/10 res_in_deg=0.041666666 666666664\T1/pcr/m/n/10 ) Underfull \hbox (badness 10000) in paragraph at lines 1356--1356 []\T1/ptm/m/it/10 lat\T1/ptm/m/n/10 , \T1/ptm/m/it/10 lon\T1/ptm/m/n/10 , Overfull \hbox (9.16464pt too wide) in paragraph at lines 1356--1356 \T1/ptm/m/it/10 res_in_deg=0.041666666666666664\T1/pcr/m/n/10 ) Underfull \hbox (badness 10000) in paragraph at lines 1362--1362 []\T1/ptm/m/it/10 lat\T1/ptm/m/n/10 , \T1/ptm/m/it/10 lon\T1/ptm/m/n/10 , [14] Underfull \hbox (badness 10000) in paragraph at lines 1391--1392 []\T1/pcr/b/n/10 distribution \T1/ptm/m/n/10 ^^U The se-lected dis-tri-bu-tion (need to come from Underfull \hbox (badness 10000) in paragraph at lines 1411--1411 []\T1/ptm/m/it/10 filename\T1/ptm/m/n/10 , \T1/ptm/m/it/10 dis-tri-bu-tion\T1/p tm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 1412--1413 \T1/ptm/m/n/10 Set the \T1/pcr/m/n/10 ImmunityDistributionFlag\T1/ptm/m/n/10 , \T1/pcr/m/n/10 ImmunityDistribution1 \T1/ptm/m/n/10 and Underfull \hbox (badness 10000) in paragraph at lines 1439--1439 []\T1/ptm/m/it/10 demog\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 1439--1439 \T1/ptm/m/it/10 fn\T1/ptm/m/n/10 , [15] Underfull \hbox (badness 10000) in paragraph at lines 1509--1509 []\T1/ptm/m/it/10 cb\T1/ptm/m/n/10 , Overfull \hbox (28.70406pt too wide) in paragraph at lines 1509--1509 \T1/ptm/m/it/10 use_existing=False\T1/pcr/m/n/10 ) Underfull \hbox (badness 10000) in paragraph at lines 1535--1535 []\T1/ptm/m/it/10 cb\T1/ptm/m/n/10 , Overfull \hbox (34.70406pt too wide) in paragraph at lines 1535--1535 \T1/ptm/m/it/10 use_existing=False\T1/pcr/m/n/10 ) [16] Underfull \hbox (badness 10000) in paragraph at lines 1582--1582 []\T1/ptm/m/it/10 timestep\T1/ptm/m/n/10 , \T1/ptm/m/it/10 cam-paign_hook\T1/pt m/m/n/10 , \T1/ptm/m/it/10 cov-er- Underfull \hbox (badness 10000) in paragraph at lines 1625--1625 \T1/ptm/m/it/10 ef-fi-cacy=1.0\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 1625--1625 \T1/ptm/m/it/10 sv_name=\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 SimpleVaccine\TS1/ptm /m/it/10 '\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 1635--1635 []\T1/ptm/m/it/10 timestep\T1/ptm/m/n/10 , \T1/ptm/m/it/10 file- Underfull \hbox (badness 10000) in paragraph at lines 1650--1650 []\T1/ptm/m/it/10 pop=1000000.0\T1/ptm/m/n/10 , \T1/ptm/m/it/10 num_nodes=100\T 1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 1650--1650 \T1/ptm/m/it/10 mig_factor=1.0\T1/ptm/m/n/10 , \T1/ptm/m/it/10 frac_rural=0.3\T 1/ptm/m/n/10 , [17] Overfull \hbox (24.70302pt too wide) in paragraph at lines 1731--1731 []\T1/ptm/m/it/10 path_to_binary\T1/ptm/m/n/10 , \T1/ptm/m/it/10 path_to_write_ schema=\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 schema.json\TS1/ptm/m/it/10 '\T1/pcr/m /n/10 ) Underfull \hbox (badness 10000) in paragraph at lines 1752--1752 []\T1/ptm/m/it/10 input_serpop_path\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 1752--1752 \T1/ptm/m/it/10 mod_fn=None\T1/ptm/m/n/10 , [18] Underfull \hbox (badness 10000) in paragraph at lines 1773--1773 []\T1/ptm/m/it/10 file: [19] Underfull \hbox (badness 10000) in paragraph at lines 1899--1899 []\T1/ptm/m/it/10 name: str\T1/ptm/m/n/10 , \T1/ptm/m/it/10 han-dle\T1/ptm/m/n/ 10 , \T1/ptm/m/it/10 cur- Underfull \hbox (badness 10000) in paragraph at lines 1934--1934 []\T1/ptm/m/it/10 handle\T1/ptm/m/n/10 , \T1/ptm/m/it/10 cur- [20] Underfull \hbox (badness 5578) in paragraph at lines 2055--2055 \T1/ptm/m/it/10 True, \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 date\TS1/ptm/m/it/10 '\ T1/ptm/m/it/10 : \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 Mon Nov 02 Underfull \hbox (badness 5050) in paragraph at lines 2055--2055 \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 tool\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 : \TS1/ ptm/m/it/10 '\T1/ptm/m/it/10 dtk-File-Tools.py\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 , \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 ver- [21] Underfull \hbox (badness 10000) in paragraph at lines 2171--2171 []\T1/ptm/m/it/10 header={\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 author\TS1/ptm/m/it /10 '\T1/ptm/m/it/10 : \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 un-known\TS1/ptm/m/it/ 10 '\T1/ptm/m/it/10 , Underfull \hbox (badness 6493) in paragraph at lines 2171--2171 \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 byte-count\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 : 0, \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 chunkcount\TS1/ptm/m/it/10 '\T1/ptm/m/it/ 10 : Underfull \hbox (badness 10000) in paragraph at lines 2171--2171 \T1/ptm/m/it/10 0, \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 chunk-sizes\TS1/ptm/m/it/1 0 '\T1/ptm/m/it/10 : [], \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 com- Underfull \hbox (badness 6575) in paragraph at lines 2171--2171 \T1/ptm/m/it/10 02 23:09:34 2020\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 , \TS1/ptm/m/ it/10 '\T1/ptm/m/it/10 en-gine\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 : Underfull \hbox (badness 10000) in paragraph at lines 2171--2171 \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 ver-sion\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 : 1 }\T1/ptm/m/n/10 , \T1/ptm/m/it/10 file-name=\TS1/ptm/m/it/10 ''\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 2185--2185 []\T1/ptm/m/it/10 header={\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 author\TS1/ptm/m/it /10 '\T1/ptm/m/it/10 : \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 un-known\TS1/ptm/m/it/ 10 '\T1/ptm/m/it/10 , Underfull \hbox (badness 6493) in paragraph at lines 2185--2185 \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 byte-count\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 : 0, \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 chunkcount\TS1/ptm/m/it/10 '\T1/ptm/m/it/ 10 : Underfull \hbox (badness 10000) in paragraph at lines 2185--2185 \T1/ptm/m/it/10 0, \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 chunk-sizes\TS1/ptm/m/it/1 0 '\T1/ptm/m/it/10 : [], \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 com- Underfull \hbox (badness 6575) in paragraph at lines 2185--2185 \T1/ptm/m/it/10 02 23:09:34 2020\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 , \TS1/ptm/m/ it/10 '\T1/ptm/m/it/10 en-gine\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 : Underfull \hbox (badness 10000) in paragraph at lines 2185--2185 \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 ver-sion\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 : 1 }\T1/ptm/m/n/10 , \T1/ptm/m/it/10 file-name=\TS1/ptm/m/it/10 ''\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 2207--2207 []\T1/ptm/m/it/10 header={\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 author\TS1/ptm/m/it /10 '\T1/ptm/m/it/10 : \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 un-known\TS1/ptm/m/it/ 10 '\T1/ptm/m/it/10 , Underfull \hbox (badness 6493) in paragraph at lines 2207--2207 \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 byte-count\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 : 0, \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 chunkcount\TS1/ptm/m/it/10 '\T1/ptm/m/it/ 10 : Underfull \hbox (badness 10000) in paragraph at lines 2207--2207 \T1/ptm/m/it/10 0, \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 chunk-sizes\TS1/ptm/m/it/1 0 '\T1/ptm/m/it/10 : [], \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 com- Underfull \hbox (badness 6575) in paragraph at lines 2207--2207 \T1/ptm/m/it/10 02 23:09:34 2020\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 , \TS1/ptm/m/ it/10 '\T1/ptm/m/it/10 en-gine\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 : Underfull \hbox (badness 10000) in paragraph at lines 2207--2207 \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 ver-sion\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 : 1 }\T1/ptm/m/n/10 , \T1/ptm/m/it/10 file-name=\TS1/ptm/m/it/10 ''\T1/ptm/m/n/10 , [22] Underfull \hbox (badness 10000) in paragraph at lines 2229--2229 []\T1/ptm/m/it/10 header={\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 author\TS1/ptm/m/it /10 '\T1/ptm/m/it/10 : \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 un-known\TS1/ptm/m/it/ 10 '\T1/ptm/m/it/10 , Underfull \hbox (badness 6493) in paragraph at lines 2229--2229 \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 byte-count\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 : 0, \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 chunkcount\TS1/ptm/m/it/10 '\T1/ptm/m/it/ 10 : Underfull \hbox (badness 10000) in paragraph at lines 2229--2229 \T1/ptm/m/it/10 0, \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 chunk-sizes\TS1/ptm/m/it/1 0 '\T1/ptm/m/it/10 : [], \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 com- Underfull \hbox (badness 6575) in paragraph at lines 2229--2229 \T1/ptm/m/it/10 02 23:09:34 2020\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 , \TS1/ptm/m/ it/10 '\T1/ptm/m/it/10 en-gine\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 : Underfull \hbox (badness 10000) in paragraph at lines 2229--2229 \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 ver-sion\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 : 1 }\T1/ptm/m/n/10 , \T1/ptm/m/it/10 file-name=\TS1/ptm/m/it/10 ''\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 2289--2289 \T1/ptm/m/it/10 List[int] = None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 data: Underfull \hbox (badness 10000) in paragraph at lines 2289--2289 \T1/ptm/m/it/10 numpy.array = None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 start: [23] [24] [25] [26] [27] [28] Chapter 2. [29] [30] Overfull \hbox (66.6225pt too wide) in paragraph at lines 2771--2772 []\T1/pcr/m/n/10 emod_api.config.default_from_schema_no_validation\T1/ptm/m/n/1 0 , Overfull \hbox (36.6225pt too wide) in paragraph at lines 2772--2773 []\T1/pcr/m/n/10 emod_api.config.dtk_post_process_adhocevents\T1/ptm/m/n/10 , Overfull \hbox (30.6225pt too wide) in paragraph at lines 2773--2774 []\T1/pcr/m/n/10 emod_api.config.dtk_pre_process_adhocevents\T1/ptm/m/n/10 , Overfull \hbox (12.6225pt too wide) in paragraph at lines 2782--2783 []\T1/pcr/m/n/10 emod_api.demographics.demographics_utils\T1/ptm/m/n/10 , Overfull \hbox (30.6225pt too wide) in paragraph at lines 2783--2784 []\T1/pcr/m/n/10 emod_api.demographics.DemographicsGenerator\T1/ptm/m/n/10 , Overfull \hbox (72.6225pt too wide) in paragraph at lines 2784--2785 []\T1/pcr/m/n/10 emod_api.demographics.DemographicsInputDataParsers\T1/ptm/m/n/ 10 , Overfull \hbox (30.6225pt too wide) in paragraph at lines 2785--2786 []\T1/pcr/m/n/10 emod_api.demographics.DemographicsTemplates\T1/ptm/m/n/10 , Overfull \hbox (0.6225pt too wide) in paragraph at lines 2788--2789 []\T1/pcr/m/n/10 emod_api.interventions.import_pressure\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 2790--2791 []\T1/pcr/m/n/10 emod_api.interventions.simple_vaccine\T1/ptm/m/n/10 , Overfull \hbox (6.6225pt too wide) in paragraph at lines 2795--2796 []\T1/pcr/m/n/10 emod_api.schema.dtk_post_process_schema\T1/ptm/m/n/10 , Overfull \hbox (0.6225pt too wide) in paragraph at lines 2799--2800 []\T1/pcr/m/n/10 emod_api.serialization.CensusAndModPop\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 2800--2801 []\T1/pcr/m/n/10 emod_api.serialization.dtkFileSupport\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 2802--2803 []\T1/pcr/m/n/10 emod_api.serialization.dtkFileUtility\T1/ptm/m/n/10 , Overfull \hbox (30.6225pt too wide) in paragraph at lines 2803--2804 []\T1/pcr/m/n/10 emod_api.serialization.SerializedPopulation\T1/ptm/m/n/10 , [31] (./institute-for-disease-modeling-emod-api.ind [32] Underfull \hbox (badness 10000) in paragraph at lines 9--11 []\T1/pcr/m/n/10 AddAgeDependentTransmission() Overfull \hbox (34.06111pt too wide) in paragraph at lines 9--11 \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.demographics.Demographics.Demographics Underfull \hbox (badness 10000) in paragraph at lines 11--13 []\T1/pcr/m/n/10 AddIndividualPropertyAndHINT() Overfull \hbox (34.06111pt too wide) in paragraph at lines 11--13 \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.demographics.Demographics.Demographics Underfull \hbox (badness 10000) in paragraph at lines 13--15 []\T1/pcr/m/n/10 AddSeasonalForcing() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ul e Overfull \hbox (15.62103pt too wide) in paragraph at lines 13--15 \T1/ptm/m/it/10 emod_api.demographics.DemographicsTemplates\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 15--17 []\T1/pcr/m/n/10 AgeStructureUNWPP() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Overfull \hbox (15.62103pt too wide) in paragraph at lines 15--17 \T1/ptm/m/it/10 emod_api.demographics.DemographicsTemplates\T1/ptm/m/n/10 ), Overfull \hbox (37.49991pt too wide) in paragraph at lines 17--19 []\T1/pcr/m/n/10 append() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.serializatio n.dtkFileTools.DtkFile.Contents Overfull \hbox (32.4899pt too wide) in paragraph at lines 19--21 []\T1/pcr/m/n/10 append() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.serializatio n.dtkFileTools.DtkFile.Objects Underfull \hbox (badness 10000) in paragraph at lines 21--23 []\T1/pcr/m/n/10 application() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Overfull \hbox (7.95116pt too wide) in paragraph at lines 21--23 \T1/ptm/m/it/10 emod_api.config.dtk_post_process_adhocevents\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 23--25 []\T1/pcr/m/n/10 application() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Overfull \hbox (4.2412pt too wide) in paragraph at lines 23--25 \T1/ptm/m/it/10 emod_api.config.dtk_pre_process_adhocevents\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 25--27 []\T1/pcr/m/n/10 application() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 25--27 \T1/ptm/m/it/10 emod_api.config.dtk_pre_process_w5ml\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 27--29 []\T1/pcr/m/n/10 application() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 27--29 \T1/ptm/m/it/10 emod_api.schema.dtk_post_process_schema\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 29--31 []\T1/pcr/m/n/10 apply_to_defaults_or_nodes() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 i n mod-ule Underfull \hbox (badness 10000) in paragraph at lines 29--31 \T1/ptm/m/it/10 emod_api.demographics.demographics_utils\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 31--33 []\T1/pcr/m/n/10 arcsec_to_deg() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Overfull \hbox (17.1711pt too wide) in paragraph at lines 31--33 \T1/ptm/m/it/10 emod_api.demographics.DemographicsGenerator\T1/ptm/m/n/10 ), Overfull \hbox (62.83089pt too wide) in paragraph at lines 33--35 []\T1/pcr/m/n/10 as_dataframe() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.channe lreports.channels.ChannelReport Overfull \hbox (41.61118pt too wide) in paragraph at lines 35--37 []\T1/pcr/m/n/10 as_dictionary() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.chann elreports.channels.Channel Overfull \hbox (37.71117pt too wide) in paragraph at lines 37--39 []\T1/pcr/m/n/10 as_dictionary() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.chann elreports.channels.Header Underfull \hbox (badness 10000) in paragraph at lines 48--50 []\T1/pcr/m/n/10 BaseInputFile \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in Underfull \hbox (badness 10000) in paragraph at lines 48--50 \T1/ptm/m/it/10 emod_api.demographics.BaseInputFile\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 50--51 []\T1/pcr/m/n/10 basicNode() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Overfull \hbox (23.59027pt too wide) in paragraph at lines 52--54 []\T1/pcr/m/n/10 byte_count() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.serializ ation.dtkFileTools.DtkFile Underfull \hbox (badness 10000) in paragraph at lines 57--59 []\T1/pcr/m/n/10 change_ser_pop() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 57--59 \T1/ptm/m/it/10 emod_api.serialization.CensusAndModPop\T1/ptm/m/n/10 ), Overfull \hbox (68.83089pt too wide) in paragraph at lines 60--62 []\T1/pcr/m/n/10 channel_names() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.chann elreports.channels.ChannelReport Underfull \hbox (badness 10000) in paragraph at lines 62--64 []\T1/pcr/m/n/10 ChannelReport \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in Overfull \hbox (38.83089pt too wide) in paragraph at lines 64--66 []\T1/pcr/m/n/10 channels() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.channelrep orts.channels.ChannelReport Overfull \hbox (29.59027pt too wide) in paragraph at lines 66--68 []\T1/pcr/m/n/10 chunk_count() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.seriali zation.dtkFileTools.DtkFile Overfull \hbox (29.59027pt too wide) in paragraph at lines 68--70 []\T1/pcr/m/n/10 chunk_sizes() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.seriali zation.dtkFileTools.DtkFile Overfull \hbox (36.91025pt too wide) in paragraph at lines 72--74 []\T1/pcr/m/n/10 compress() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.serializat ion.dtkFileSupport.EllZeeFour Overfull \hbox (21.29066pt too wide) in paragraph at lines 74--76 []\T1/pcr/m/n/10 compress() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.serializat ion.dtkFileSupport.Snappy Overfull \hbox (50.91016pt too wide) in paragraph at lines 76--78 []\T1/pcr/m/n/10 compress() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.serializat ion.dtkFileSupport.Uncompressed [33] Underfull \hbox (badness 10000) in paragraph at lines 78--80 []\T1/pcr/m/n/10 compress() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Overfull \hbox (23.59027pt too wide) in paragraph at lines 80--82 []\T1/pcr/m/n/10 compressed() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.serializ ation.dtkFileTools.DtkFile Overfull \hbox (29.59027pt too wide) in paragraph at lines 82--84 []\T1/pcr/m/n/10 compression() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.seriali zation.dtkFileTools.DtkFile Underfull \hbox (badness 10000) in paragraph at lines 84--86 []\T1/pcr/m/n/10 ConstantMortality() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Overfull \hbox (15.62103pt too wide) in paragraph at lines 84--86 \T1/ptm/m/it/10 emod_api.demographics.DemographicsTemplates\T1/ptm/m/n/10 ), Overfull \hbox (46.65079pt too wide) in paragraph at lines 86--88 \T1/ptm/m/it/10 emod_api.demographics.DemographicsInputDataParsers\T1/ptm/m/n/1 0 ), Overfull \hbox (12.84114pt too wide) in paragraph at lines 88--90 []\T1/pcr/m/n/10 creation_date() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.weath er.weather.Metadata Overfull \hbox (7.47115pt too wide) in paragraph at lines 90--92 []\T1/pcr/m/n/10 creation_date() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.weath er.weather.Weather Underfull \hbox (badness 10000) in paragraph at lines 95--97 []\T1/pcr/m/n/10 data() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.channelreports .channels.Channel Underfull \hbox (badness 10000) in paragraph at lines 97--99 []\T1/pcr/m/n/10 data() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.spatialreports .spatial.SpatialNode Underfull \hbox (badness 10000) in paragraph at lines 103--105 []\T1/pcr/m/n/10 datavalue_count() Underfull \hbox (badness 10000) in paragraph at lines 103--105 \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.weather.weather.Metadata prop- Underfull \hbox (badness 10000) in paragraph at lines 105--107 []\T1/pcr/m/n/10 datavalue_count() Underfull \hbox (badness 10000) in paragraph at lines 105--107 \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.weather.weather.Weather prop- Underfull \hbox (badness 10000) in paragraph at lines 107--109 []\T1/pcr/m/n/10 date() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.serialization. dtkFileTools.DtkFile Overfull \hbox (10.77174pt too wide) in paragraph at lines 109--111 []\T1/pcr/m/n/10 default_density \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.demog raphics.Node.Node Underfull \hbox (badness 10000) in paragraph at lines 111--113 []\T1/pcr/m/n/10 default_population Underfull \hbox (badness 10000) in paragraph at lines 111--113 \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.demographics.Node.Node at- Underfull \hbox (badness 7291) in paragraph at lines 113--115 []\T1/pcr/m/n/10 DefaultSusceptibilityDistribution() \T1/ptm/m/n/10 (\T1/ptm/m/ it/10 in Overfull \hbox (46.96086pt too wide) in paragraph at lines 113--115 \T1/ptm/m/it/10 mod-ule emod_api.demographics.DemographicsTemplates\T1/ptm/m/n/ 10 ), Underfull \hbox (badness 10000) in paragraph at lines 115--117 []\T1/pcr/m/n/10 Demographics \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in Underfull \hbox (badness 10000) in paragraph at lines 115--117 \T1/ptm/m/it/10 emod_api.demographics.Demographics\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 117--119 []\T1/pcr/m/n/10 DemographicsGenerator \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in Overfull \hbox (17.1711pt too wide) in paragraph at lines 117--119 \T1/ptm/m/it/10 emod_api.demographics.DemographicsGenerator\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 119--121 []\T1/pcr/m/n/10 DemographicsType \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in Overfull \hbox (17.1711pt too wide) in paragraph at lines 119--121 \T1/ptm/m/it/10 emod_api.demographics.DemographicsGenerator\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 121--123 []\T1/pcr/m/n/10 do_mapping_from_events() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mo d-ule Overfull \hbox (4.2412pt too wide) in paragraph at lines 121--123 \T1/ptm/m/it/10 emod_api.config.dtk_pre_process_adhocevents\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 123--125 []\T1/pcr/m/n/10 dtk_to_schema() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Overfull \hbox (56.83089pt too wide) in paragraph at lines 125--127 []\T1/pcr/m/n/10 dtk_version() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.channel reports.channels.ChannelReport Overfull \hbox (25.71117pt too wide) in paragraph at lines 127--129 []\T1/pcr/m/n/10 dtk_version() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.channel reports.channels.Header Underfull \hbox (badness 10000) in paragraph at lines 130--132 []\T1/pcr/m/n/10 DtkFile.Contents \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in Underfull \hbox (badness 10000) in paragraph at lines 132--134 []\T1/pcr/m/n/10 DtkFile.Objects \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in Underfull \hbox (badness 10000) in paragraph at lines 134--136 []\T1/pcr/m/n/10 DtkFileV1 \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in Underfull \hbox (badness 10000) in paragraph at lines 136--138 []\T1/pcr/m/n/10 DtkFileV2 \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in Underfull \hbox (badness 10000) in paragraph at lines 138--140 []\T1/pcr/m/n/10 DtkFileV2.NodesV2 \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in Underfull \hbox (badness 10000) in paragraph at lines 140--142 []\T1/pcr/m/n/10 DtkFileV3 \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in Underfull \hbox (badness 10000) in paragraph at lines 142--144 []\T1/pcr/m/n/10 DtkFileV3.NodesV3 \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in Underfull \hbox (badness 10000) in paragraph at lines 144--146 []\T1/pcr/m/n/10 DtkFileV4 \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in Underfull \hbox (badness 10000) in paragraph at lines 146--148 []\T1/pcr/m/n/10 DtkHeader \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in Underfull \hbox (badness 10000) in paragraph at lines 148--150 []\T1/pcr/m/n/10 duplicate_nodeID_check() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mo d-ule Overfull \hbox (46.65079pt too wide) in paragraph at lines 148--150 \T1/ptm/m/it/10 emod_api.demographics.DemographicsInputDataParsers\T1/ptm/m/n/1 0 ), Underfull \hbox (badness 10000) in paragraph at lines 153--155 []\T1/pcr/m/n/10 EllZeeFour \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in Overfull \hbox (64.1225pt too wide) in paragraph at lines 167--168 []\T1/pcr/m/n/10 emod_api.config.default_from_schema_no_validation Overfull \hbox (34.1225pt too wide) in paragraph at lines 169--170 []\T1/pcr/m/n/10 emod_api.config.dtk_post_process_adhocevents Overfull \hbox (28.1225pt too wide) in paragraph at lines 171--172 []\T1/pcr/m/n/10 emod_api.config.dtk_pre_process_adhocevents [34] Overfull \hbox (10.1225pt too wide) in paragraph at lines 189--190 []\T1/pcr/m/n/10 emod_api.demographics.demographics_utils Overfull \hbox (28.1225pt too wide) in paragraph at lines 191--192 []\T1/pcr/m/n/10 emod_api.demographics.DemographicsGenerator Overfull \hbox (70.1225pt too wide) in paragraph at lines 193--194 []\T1/pcr/m/n/10 emod_api.demographics.DemographicsInputDataParsers Overfull \hbox (28.1225pt too wide) in paragraph at lines 195--196 []\T1/pcr/m/n/10 emod_api.demographics.DemographicsTemplates Overfull \hbox (4.1225pt too wide) in paragraph at lines 215--216 []\T1/pcr/m/n/10 emod_api.schema.dtk_post_process_schema Overfull \hbox (28.1225pt too wide) in paragraph at lines 231--232 []\T1/pcr/m/n/10 emod_api.serialization.SerializedPopulation Overfull \hbox (16.1225pt too wide) in paragraph at lines 243--245 []\T1/pcr/m/n/10 EquilibriumAgeDistFromBirthAndMortRates() Overfull \hbox (59.97073pt too wide) in paragraph at lines 243--245 \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule emod_api.demographics.DemographicsTe mplates\T1/ptm/m/n/10 ), Overfull \hbox (15.62103pt too wide) in paragraph at lines 245--247 \T1/ptm/m/it/10 emod_api.demographics.DemographicsTemplates\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 251--253 []\T1/pcr/m/n/10 fill_nodes_legacy() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Overfull \hbox (46.65079pt too wide) in paragraph at lines 251--253 \T1/ptm/m/it/10 emod_api.demographics.DemographicsInputDataParsers\T1/ptm/m/n/1 0 ), Overfull \hbox (4.62106pt too wide) in paragraph at lines 253--255 []\T1/pcr/m/n/10 finalize() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.schema_to_ class.ReadOnlyDict Overfull \hbox (36.30013pt too wide) in paragraph at lines 255--257 []\T1/pcr/m/n/10 find() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule emod_api.ser ialization.SerializedPopulation\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 257--259 []\T1/pcr/m/n/10 flattenConfig() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Overfull \hbox (81.59949pt too wide) in paragraph at lines 259--261 []\T1/pcr/m/n/10 flush() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.serialization .SerializedPopulation.SerializedPopulation Underfull \hbox (badness 10000) in paragraph at lines 263--265 []\T1/pcr/m/n/10 from_csv() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 263--265 \T1/ptm/m/it/10 emod_api.demographics.Demographics\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 265--267 []\T1/pcr/m/n/10 from_data() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.demograph ics.Node.Node Underfull \hbox (badness 10000) in paragraph at lines 267--269 []\T1/pcr/m/n/10 from_dataframe() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Overfull \hbox (17.1711pt too wide) in paragraph at lines 267--269 \T1/ptm/m/it/10 emod_api.demographics.DemographicsGenerator\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 269--271 []\T1/pcr/m/n/10 from_file() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.weather.w eather.Metadata Underfull \hbox (badness 10000) in paragraph at lines 271--273 []\T1/pcr/m/n/10 from_file() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 271--273 \T1/ptm/m/it/10 emod_api.demographics.Demographics\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 273--275 []\T1/pcr/m/n/10 from_file() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Overfull \hbox (17.1711pt too wide) in paragraph at lines 273--275 \T1/ptm/m/it/10 emod_api.demographics.DemographicsGenerator\T1/ptm/m/n/10 ), [35] Underfull \hbox (badness 10000) in paragraph at lines 275--277 []\T1/pcr/m/n/10 from_synth_pop() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 275--277 \T1/ptm/m/it/10 emod_api.demographics.Demographics\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 277--279 []\T1/pcr/m/n/10 from_synth_pop() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 279--281 []\T1/pcr/m/n/10 fromBasicNode() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 279--281 \T1/ptm/m/it/10 emod_api.demographics.Demographics\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 281--283 []\T1/pcr/m/n/10 FullRisk() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Overfull \hbox (15.62103pt too wide) in paragraph at lines 281--283 \T1/ptm/m/it/10 emod_api.demographics.DemographicsTemplates\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 286--288 []\T1/pcr/m/n/10 generate_demographics() Overfull \hbox (115.97037pt too wide) in paragraph at lines 286--288 \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.demographics.DemographicsGenerator.Dem ographicsGenerator Overfull \hbox (80.97084pt too wide) in paragraph at lines 288--290 []\T1/pcr/m/n/10 generate_file() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.demog raphics.BaseInputFile.BaseInputFile Overfull \hbox (85.96114pt too wide) in paragraph at lines 290--292 []\T1/pcr/m/n/10 generate_file() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.demog raphics.Demographics.Demographics Underfull \hbox (badness 10000) in paragraph at lines 292--294 []\T1/pcr/m/n/10 generate_headers() Overfull \hbox (29.07082pt too wide) in paragraph at lines 292--294 \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.demographics.BaseInputFile.BaseInputFi le Underfull \hbox (badness 10000) in paragraph at lines 294--296 []\T1/pcr/m/n/10 generate_metadata() Overfull \hbox (115.97037pt too wide) in paragraph at lines 294--296 \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.demographics.DemographicsGenerator.Dem ographicsGenerator Overfull \hbox (173.87039pt too wide) in paragraph at lines 296--298 []\T1/pcr/m/n/10 generate_nodes() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.demo graphics.DemographicsGenerator.DemographicsGenerator Underfull \hbox (badness 10000) in paragraph at lines 299--301 []\T1/pcr/m/n/10 get_class_with_defaults() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in m od-ule Overfull \hbox (62.64088pt too wide) in paragraph at lines 301--303 \T1/ptm/m/it/10 mod-ule emod_api.config.default_from_schema_no_validation\T1/pt m/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 304--306 []\T1/pcr/m/n/10 get_next_individual_suid() Overfull \hbox (77.69946pt too wide) in paragraph at lines 304--306 \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.serialization.SerializedPopulation.Ser ializedPopulation Underfull \hbox (badness 10000) in paragraph at lines 306--308 []\T1/pcr/m/n/10 get_next_infection_suid() Overfull \hbox (77.69946pt too wide) in paragraph at lines 306--308 \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.serialization.SerializedPopulation.Ser ializedPopulation Overfull \hbox (55.96114pt too wide) in paragraph at lines 308--310 []\T1/pcr/m/n/10 get_node() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.demographi cs.Demographics.Demographics Underfull \hbox (badness 10000) in paragraph at lines 310--312 []\T1/pcr/m/n/10 get_node_ids_from_file() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mo d-ule Underfull \hbox (badness 10000) in paragraph at lines 310--312 \T1/ptm/m/it/10 emod_api.demographics.Demographics\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 312--314 []\T1/pcr/m/n/10 get_node_pops_from_params() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 314--316 []\T1/pcr/m/n/10 get_parameters() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 314--316 \T1/ptm/m/it/10 emod_api.serialization.SerializedPopulation\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 317--319 []\T1/pcr/m/n/10 get_xpix_ypix() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Overfull \hbox (26.83089pt too wide) in paragraph at lines 323--325 []\T1/pcr/m/n/10 header() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.channelrepor ts.channels.ChannelReport Underfull \hbox (badness 10000) in paragraph at lines 333--335 []\T1/pcr/m/n/10 id() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.spatialreports.s patial.SpatialNode Underfull \hbox (badness 7308) in paragraph at lines 335--336 []\T1/pcr/m/n/10 id() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.weather.weather. WeatherNode prop- Overfull \hbox (6.84114pt too wide) in paragraph at lines 336--338 []\T1/pcr/m/n/10 id_reference() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.weathe r.weather.Metadata Overfull \hbox (1.47115pt too wide) in paragraph at lines 338--340 []\T1/pcr/m/n/10 id_reference() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.weathe r.weather.Weather Underfull \hbox (badness 10000) in paragraph at lines 340--342 []\T1/pcr/m/n/10 init_resolution_from_file() Underfull \hbox (badness 10000) in paragraph at lines 340--342 \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.demographics.Node.Node class Underfull \hbox (badness 10000) in paragraph at lines 342--344 []\T1/pcr/m/n/10 InitAgeUniform() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Overfull \hbox (15.62103pt too wide) in paragraph at lines 342--344 \T1/ptm/m/it/10 emod_api.demographics.DemographicsTemplates\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 344--346 []\T1/pcr/m/n/10 InitRiskUniform() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Overfull \hbox (15.62103pt too wide) in paragraph at lines 344--346 \T1/ptm/m/it/10 emod_api.demographics.DemographicsTemplates\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 346--348 []\T1/pcr/m/n/10 InitSusceptConstant() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-u le Overfull \hbox (15.62103pt too wide) in paragraph at lines 346--348 \T1/ptm/m/it/10 emod_api.demographics.DemographicsTemplates\T1/ptm/m/n/10 ), Overfull \hbox (20.8303pt too wide) in paragraph at lines 348--350 []\T1/pcr/m/n/10 interval() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.spatialrep orts.spatial.SpatialReport Underfull \hbox (badness 10000) in paragraph at lines 354--356 []\T1/pcr/m/n/10 lat_lon_from_nodeid() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-u le Underfull \hbox (badness 10000) in paragraph at lines 356--358 []\T1/pcr/m/n/10 load_default_config_as_rod() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 i n mod-ule Overfull \hbox (31.30106pt too wide) in paragraph at lines 356--358 \T1/ptm/m/it/10 emod_api.config.default_from_schema_no_validation\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 361--363 []\T1/pcr/m/n/10 make_config_from_poi() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod- ule Underfull \hbox (badness 10000) in paragraph at lines 361--363 \T1/ptm/m/it/10 emod_api.config.from_poi_and_binary\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 363--365 []\T1/pcr/m/n/10 make_config_from_poi_and_config_dict() Overfull \hbox (16.3614pt too wide) in paragraph at lines 363--365 \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule emod_api.config.from_poi_and_binary\ T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 365--367 []\T1/pcr/m/n/10 make_config_from_poi_and_config_file() Overfull \hbox (16.3614pt too wide) in paragraph at lines 365--367 \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule emod_api.config.from_poi_and_binary\ T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 367--369 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lines 426--428 \T1/ptm/m/it/10 emod_api.interventions.import_pressure\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 428--430 []\T1/pcr/m/n/10 new_intervention() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 430--432 []\T1/pcr/m/n/10 new_intervention() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 430--432 \T1/ptm/m/it/10 emod_api.interventions.simple_vaccine\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 432--434 []\T1/pcr/m/n/10 new_intervention_as_file() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 434--436 []\T1/pcr/m/n/10 new_intervention_as_file() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 436--438 []\T1/pcr/m/n/10 new_intervention_as_file() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Overfull \hbox (67.96114pt too wide) in paragraph at lines 439--441 []\T1/pcr/m/n/10 node_count() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.demograp hics.Demographics.Demographics Overfull \hbox (32.8303pt too wide) in paragraph at lines 441--443 []\T1/pcr/m/n/10 node_count() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.spatialr eports.spatial.SpatialReport Underfull \hbox (badness 10000) in paragraph at lines 445--447 []\T1/pcr/m/n/10 node_count() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.weather. weather.Weather Underfull \hbox (badness 10000) in paragraph at lines 447--449 []\T1/pcr/m/n/10 node_ID_from_lat_long() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod -ule Overfull \hbox (46.65079pt too wide) in paragraph at lines 447--449 \T1/ptm/m/it/10 emod_api.demographics.DemographicsInputDataParsers\T1/ptm/m/n/1 0 ), [37] Overfull \hbox (55.96114pt too wide) in paragraph at lines 449--451 []\T1/pcr/m/n/10 node_ids() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.demographi cs.Demographics.Demographics Overfull \hbox (20.8303pt too wide) in paragraph at lines 451--453 []\T1/pcr/m/n/10 node_ids() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.spatialrep orts.spatial.SpatialReport Underfull \hbox (badness 10000) in paragraph at lines 453--455 []\T1/pcr/m/n/10 node_ids() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.weather.we ather.Metadata Underfull \hbox (badness 10000) in paragraph at lines 455--456 []\T1/pcr/m/n/10 node_ids() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.weather.we ather.Weather Underfull \hbox (badness 10000) in paragraph at lines 456--458 []\T1/pcr/m/n/10 nodeid_from_lat_lon() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-u le Underfull \hbox (badness 5802) in paragraph at lines 458--460 []\T1/pcr/m/n/10 nodes() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.serialization .dtkFileTools.DtkFile Overfull \hbox (81.59949pt too wide) in paragraph at lines 460--462 []\T1/pcr/m/n/10 nodes() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.serialization .SerializedPopulation.SerializedPopulation Overfull \hbox (2.8303pt too wide) in paragraph at lines 462--464 []\T1/pcr/m/n/10 nodes() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.spatialreport s.spatial.SpatialReport Underfull \hbox (badness 10000) in paragraph at lines 465--466 []\T1/pcr/m/n/10 nodes() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.weather.weath er.Weather prop- Underfull \hbox (badness 10000) in paragraph at lines 466--468 []\T1/pcr/m/n/10 nodes_for_DTK() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 468--470 []\T1/pcr/m/n/10 NoInitialPrevalence() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-u le Overfull \hbox (15.62103pt too wide) in paragraph at lines 468--470 \T1/ptm/m/it/10 emod_api.demographics.DemographicsTemplates\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 470--472 []\T1/pcr/m/n/10 NoMigrationHeterogeneity() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Overfull \hbox (15.62103pt too wide) in paragraph at lines 470--472 \T1/ptm/m/it/10 emod_api.demographics.DemographicsTemplates\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 472--474 []\T1/pcr/m/n/10 NoRisk() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Overfull \hbox (15.62103pt too wide) in paragraph at lines 472--474 \T1/ptm/m/it/10 emod_api.demographics.DemographicsTemplates\T1/ptm/m/n/10 ), Overfull \hbox (62.83089pt too wide) in paragraph at lines 474--476 []\T1/pcr/m/n/10 num_channels() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.channe lreports.channels.ChannelReport Overfull \hbox (31.71117pt too wide) in paragraph at lines 476--478 []\T1/pcr/m/n/10 num_channels() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.channe lreports.channels.Header Overfull \hbox (74.83089pt too wide) in paragraph at lines 478--480 []\T1/pcr/m/n/10 num_time_steps() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.chan nelreports.channels.ChannelReport Overfull \hbox (43.71117pt too wide) in paragraph at lines 480--482 []\T1/pcr/m/n/10 num_time_steps() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.chan nelreports.channels.Header Underfull \hbox (badness 10000) in paragraph at lines 487--489 []\T1/pcr/m/n/10 provenance() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.weather. weather.Weather Overfull \hbox (15.58075pt too wide) in paragraph at lines 492--494 []\T1/pcr/m/n/10 rates() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.migration.Mig rationFile.MigrationFile Overfull \hbox (1.84042pt too wide) in paragraph at lines 494--495 []\T1/pcr/m/n/10 read() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule emod_api.ser ialization.dtkFileTools\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 496--498 []\T1/pcr/m/n/10 recurser() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 496--498 \T1/ptm/m/it/10 emod_api.schema.dtk_post_process_schema\T1/ptm/m/n/10 ), Overfull \hbox (56.83089pt too wide) in paragraph at lines 498--500 []\T1/pcr/m/n/10 report_type() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.channel reports.channels.ChannelReport Overfull \hbox (25.71117pt too wide) in paragraph at lines 500--502 []\T1/pcr/m/n/10 report_type() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.channel reports.channels.Header Overfull \hbox (74.83089pt too wide) in paragraph at lines 502--504 []\T1/pcr/m/n/10 report_version() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.chan nelreports.channels.ChannelReport Overfull \hbox (43.71117pt too wide) in paragraph at lines 504--506 []\T1/pcr/m/n/10 report_version() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.chan nelreports.channels.Header Overfull \hbox (4.77174pt too wide) in paragraph at lines 506--508 []\T1/pcr/m/n/10 res_in_degrees \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.demogr aphics.Node.Node Underfull \hbox (badness 10000) in paragraph at lines 512--514 []\T1/pcr/m/n/10 schema_to_config() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 512--514 \T1/ptm/m/it/10 emod_api.config.from_poi_and_binary\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 514--516 []\T1/pcr/m/n/10 SchemaConfigBuilder \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in Underfull \hbox (badness 10000) in paragraph at lines 516--518 []\T1/pcr/m/n/10 SchemaConfigBuilder \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in Underfull \hbox (badness 10000) in paragraph at lines 518--520 []\T1/pcr/m/n/10 seed_by_coverage() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 520--522 []\T1/pcr/m/n/10 SerializedPopulation \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in Underfull \hbox (badness 10000) in paragraph at lines 520--522 \T1/ptm/m/it/10 emod_api.serialization.SerializedPopulation\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 522--524 []\T1/pcr/m/n/10 SerialObject \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in Underfull \hbox (badness 10000) in paragraph at lines 524--526 []\T1/pcr/m/n/10 set_age_complex() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Overfull \hbox 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graphics.DemographicsGenerator.DemographicsGenerator Underfull \hbox (badness 10000) in paragraph at lines 540--542 []\T1/pcr/m/n/10 set_risk_mod() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 540--542 \T1/ptm/m/it/10 emod_api.demographics.demographics_utils\T1/ptm/m/n/10 ), [38] Overfull \hbox (16.62106pt too wide) in paragraph at lines 542--544 []\T1/pcr/m/n/10 set_schema() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.schema_t o_class.ReadOnlyDict Underfull \hbox (badness 10000) in paragraph at lines 544--546 []\T1/pcr/m/n/10 set_schema() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 544--546 \T1/ptm/m/it/10 emod_api.config.from_poi_and_binary\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 546--548 []\T1/pcr/m/n/10 set_static_demographics() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in m od-ule Underfull \hbox (badness 10000) in paragraph at lines 546--548 \T1/ptm/m/it/10 emod_api.demographics.demographics_utils\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 548--550 []\T1/pcr/m/n/10 set_suscept_complex() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-u le Overfull \hbox (15.62103pt too wide) in paragraph at lines 548--550 \T1/ptm/m/it/10 emod_api.demographics.DemographicsTemplates\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 550--552 []\T1/pcr/m/n/10 set_suscept_simple() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ul e Overfull \hbox (15.62103pt too wide) in paragraph at lines 550--552 \T1/ptm/m/it/10 emod_api.demographics.DemographicsTemplates\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 552--554 []\T1/pcr/m/n/10 SetDefaultFromTemplate() Overfull \hbox (34.06111pt too wide) in paragraph at lines 552--554 \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.demographics.Demographics.Demographics Underfull \hbox (badness 10000) in paragraph at lines 554--556 []\T1/pcr/m/n/10 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Underfull \hbox (badness 10000) in paragraph at lines 105--107 []\T1/ptm/m/n/10 python -m Underfull \hbox (badness 10000) in paragraph at lines 108--110 []\T1/ptm/m/n/10 python -m (/usr/share/texlive/texmf-dist/tex/latex/psnfss/t1pcr.fd) [3] Underfull \hbox (badness 10000) in paragraph at lines 234--234 []\T1/ptm/m/it/10 filename: str = None\T1/ptm/m/n/10 , (/usr/share/texlive/texmf-dist/tex/latex/psnfss/ts1ptm.fd) [4] Overfull \hbox (79.14464pt too wide) in paragraph at lines 352--352 []\T1/ptm/m/it/10 path_to_schema\T1/ptm/m/n/10 , Overfull \hbox (96.61464pt too wide) in paragraph at lines 352--352 \T1/ptm/m/it/10 schema_node=True\T1/pcr/m/n/10 ) Overfull \hbox (47.68495pt too wide) in paragraph at lines 362--362 []\T1/ptm/m/it/10 config\T1/pcr/m/n/10 ) Overfull \hbox (114.96484pt too wide) in paragraph at lines 376--376 []\T1/ptm/m/it/10 config_path\T1/ptm/m/n/10 , Overfull \hbox (95.13463pt too wide) in paragraph at lines 376--376 \T1/ptm/m/it/10 set_fn\T1/pcr/m/n/10 ) Overfull 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Overfull \hbox (71.87448pt too wide) in paragraph at lines 508--508 \T1/ptm/m/it/10 poi_set_param_fn\T1/pcr/m/n/10 ) Overfull \hbox (18.36475pt too wide) in paragraph at lines 517--517 []\T1/ptm/m/it/10 schema_path\T1/ptm/m/n/10 , Overfull \hbox (41.87448pt too wide) in paragraph at lines 517--517 \T1/ptm/m/it/10 poi_set_param_fn\T1/pcr/m/n/10 ) Underfull \hbox (badness 10000) in paragraph at lines 526--526 []\T1/ptm/m/it/10 eradication_path\T1/ptm/m/n/10 , [6] Underfull \hbox (badness 10000) in paragraph at lines 574--576 []\T1/ptm/m/n/10 builder = s2c.SchemaConfigBuilder( Underfull \hbox (badness 10000) in paragraph at lines 583--583 []\T1/ptm/m/it/10 schema_name=\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 schema.json\TS1 /ptm/m/it/10 '\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 583--583 \T1/ptm/m/it/10 model=\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 GENERIC_SIM\TS1/ptm/m/i t/10 '\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 583--583 \T1/ptm/m/it/10 con-fig_out=\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 config.json\TS1/p tm/m/it/10 '\T1/ptm/m/n/10 , Overfull \hbox (28.28418pt too wide) in paragraph at lines 594--594 []\T1/ptm/m/it/10 schema_name=\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 schema.json\TS1 /ptm/m/it/10 '\T1/ptm/m/n/10 , Overfull \hbox (11.09424pt too wide) in paragraph at lines 594--594 \T1/ptm/m/it/10 model=\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 GENERIC_SIM\TS1/ptm/m/i t/10 '\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 594--594 \T1/ptm/m/it/10 con- Underfull \hbox (badness 10000) in paragraph at lines 594--594 \T1/ptm/m/it/10 fig_out=\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 config.json\TS1/ptm/m /it/10 '\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 637--637 []\T1/ptm/m/it/10 lat=0\T1/ptm/m/n/10 , \T1/ptm/m/it/10 lon=0\T1/ptm/m/n/10 , \ T1/ptm/m/it/10 pop=1000000.0\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 637--637 \T1/ptm/m/it/10 name=1\T1/ptm/m/n/10 , \T1/ptm/m/it/10 forced_id=1\T1/ptm/m/n/1 0 , \T1/ptm/m/it/10 im- Underfull \hbox (badness 10000) in paragraph at lines 657--657 []\T1/ptm/m/it/10 tot_pop\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 657--657 \T1/ptm/m/it/10 num_nodes\T1/ptm/m/n/10 , [7] Underfull \hbox (badness 10000) in paragraph at lines 663--663 []\T1/ptm/m/it/10 tot_pop=1000000.0\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 663--663 \T1/ptm/m/it/10 num_nodes=100\T1/ptm/m/n/10 , \T1/ptm/m/it/10 frac_rural=0.3\T1 /ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 663--663 \T1/ptm/m/it/10 id_ref=\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 from_synth_pop\TS1/ptm /m/it/10 '\T1/ptm/m/n/10 , \T1/ptm/m/it/10 im-plic- Underfull \hbox (badness 10000) in paragraph at lines 681--681 []\T1/ptm/m/it/10 nodes\T1/ptm/m/n/10 , \T1/ptm/m/it/10 idref=\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 Gridded Underfull \hbox (badness 10000) in paragraph at lines 681--681 \T1/ptm/m/it/10 world grump2.5arcmin\TS1/ptm/m/it/10 '\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 681--681 \T1/ptm/m/it/10 base_file=None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 im-plic- [8] (/usr/share/texlive/texmf-dist/tex/latex/psnfss/ts1pcr.fd) Overfull \hbox (18.60422pt too wide) in paragraph at lines 840--840 []\T1/ptm/m/it/10 res_in_arcsec\T1/pcr/m/n/10 ) Overfull \hbox (13.07484pt too wide) in paragraph at lines 859--859 []\T1/ptm/m/it/10 nodes\T1/ptm/m/n/10 , Overfull \hbox (5.01491pt too wide) in paragraph at lines 859--859 \T1/ptm/m/it/10 con- Overfull \hbox (12.23463pt too wide) in paragraph at lines 859--859 \T1/ptm/m/it/10 cerns: Overfull \hbox (2.79494pt too wide) in paragraph at lines 859--859 \T1/ptm/m/it/10 Op- Overfull \hbox (457.54115pt too wide) in paragraph at lines 859--859 \T1/ptm/m/it/10 tional[Union[emod_api.dtk_tools.demographics.DemographicsGenera torConcern.DemographicsGeneratorConcern, Overfull \hbox (429.49101pt too wide) in paragraph at lines 859--859 \T1/ptm/m/it/10 List[emod_api.dtk_tools.demographics.DemographicsGeneratorConce rn.DemographicsGeneratorConcern]]] Underfull \hbox (badness 10000) in paragraph at lines 859--859 \T1/ptm/m/it/10 = Overfull \hbox (10.85487pt too wide) in paragraph at lines 859--859 \T1/ptm/m/it/10 None\T1/ptm/m/n/10 , Overfull \hbox (84.4637pt too wide) in paragraph at lines 859--859 \T1/ptm/m/it/10 res_in_arcsec=\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 custom\TS1/ptm/ m/it/10 '\T1/ptm/m/n/10 , Overfull \hbox (115.46402pt too wide) in paragraph at lines 859--859 \T1/ptm/m/it/10 node_id_from_lat_long=False\T1/pcr/m/n/10 ) [9] Underfull \hbox (badness 10000) in paragraph at lines 944--944 []\T1/ptm/m/it/10 df\T1/ptm/m/n/10 , \T1/ptm/m/it/10 de-mo-graph- Underfull \hbox (badness 10000) in paragraph at lines 944--944 \T1/ptm/m/it/10 ics_filename: Op- Underfull \hbox (badness 10000) in paragraph at lines 944--944 \T1/ptm/m/it/10 tional[str] = None\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 944--944 \T1/ptm/m/it/10 con-cerns: Op- Overfull \hbox (379.54115pt too wide) in paragraph at lines 944--944 \T1/ptm/m/it/10 tional[Union[emod_api.dtk_tools.demographics.DemographicsGenera torConcern.DemographicsGeneratorConcern, Overfull \hbox (351.49101pt too wide) in paragraph at lines 944--944 \T1/ptm/m/it/10 List[emod_api.dtk_tools.demographics.DemographicsGeneratorConce rn.DemographicsGeneratorConcern]]] Underfull \hbox (badness 10000) in paragraph at lines 944--944 \T1/ptm/m/it/10 = None\T1/ptm/m/n/10 , Overfull \hbox (6.4637pt too wide) in paragraph at lines 944--944 \T1/ptm/m/it/10 res_in_arcsec=\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 custom\TS1/ptm/ m/it/10 '\T1/ptm/m/n/10 , Overfull \hbox (30.83415pt too wide) in paragraph at lines 944--944 \T1/ptm/m/it/10 node_id_from_lat_long=True\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 944--944 \T1/ptm/m/it/10 de-fault_population: Underfull \hbox (badness 10000) in paragraph at lines 944--944 \T1/ptm/m/it/10 int = 1000\T1/ptm/m/n/10 , Overfull \hbox (79.21327pt too wide) in paragraph at lines 944--944 \T1/ptm/m/it/10 load_other_columns_as_attributes=False\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 944--944 \T1/ptm/m/it/10 tional[List[str]] Underfull \hbox (badness 10000) in paragraph at lines 944--944 \T1/ptm/m/it/10 = None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 ex- Underfull \hbox (badness 10000) in paragraph at lines 944--944 \T1/ptm/m/it/10 clude_columns: Underfull \hbox (badness 10000) in paragraph at lines 944--944 \T1/ptm/m/it/10 Op-tional[List[str]] Underfull \hbox (badness 10000) in paragraph at lines 944--944 \T1/ptm/m/it/10 = None\T1/ptm/m/n/10 , Overfull \hbox (0.89452pt too wide) in paragraph at lines 944--944 \T1/ptm/m/it/10 nodeid_column_name: Underfull \hbox (badness 10000) in paragraph at lines 944--944 \T1/ptm/m/it/10 Op-tional[str] Underfull \hbox (badness 10000) in paragraph at lines 944--944 \T1/ptm/m/it/10 = None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 lat-i- Underfull \hbox (badness 10000) in paragraph at lines 944--944 \T1/ptm/m/it/10 tude_column_name: Underfull \hbox (badness 10000) in paragraph at lines 944--944 \T1/ptm/m/it/10 str = \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 lat\TS1/ptm/m/it/10 '\T 1/ptm/m/n/10 , \T1/ptm/m/it/10 lon-gi- Underfull \hbox (badness 10000) in paragraph at lines 944--944 \T1/ptm/m/it/10 tude_column_name: Underfull \hbox (badness 10000) in paragraph at lines 944--944 \T1/ptm/m/it/10 tion_column_name: [10] Overfull \hbox (54.94496pt too wide) in paragraph at lines 959--960 []\T1/pcr/b/n/10 apply. If not specified, we use the DefaultWorldBankEquilibriu mConcern Underfull \hbox (badness 10000) in paragraph at lines 1007--1007 []\T1/ptm/m/it/10 population_input_file: Underfull \hbox (badness 10000) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 str\T1/ptm/m/n/10 , \T1/ptm/m/it/10 de-mo-graph- Underfull \hbox (badness 7851) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 = None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 con-cerns: Op- Overfull \hbox (349.54115pt too wide) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 tional[Union[emod_api.dtk_tools.demographics.DemographicsGenera torConcern.DemographicsGeneratorConcern, Overfull \hbox (321.49101pt too wide) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 List[emod_api.dtk_tools.demographics.DemographicsGeneratorConce rn.DemographicsGeneratorConcern]]] Underfull \hbox (badness 10000) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 = None\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 res_in_arcsec=\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 custom\TS1/ptm/ m/it/10 '\T1/ptm/m/n/10 , Overfull \hbox (0.83415pt too wide) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 node_id_from_lat_long=True\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 de-fault_population: Underfull \hbox (badness 10000) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 int = 1000\T1/ptm/m/n/10 , Overfull \hbox (49.21327pt too wide) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 load_other_columns_as_attributes=False\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 in-clude_columns: Op- Underfull \hbox (badness 10000) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 tional[List[str]] = None\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 ex-clude_columns: Op- Underfull \hbox (badness 10000) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 tional[List[str]] = None\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 nodeid_column_name: Underfull \hbox (badness 10000) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 Op-tional[str] = None\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 lat-i-tude_column_name: Underfull \hbox (badness 10000) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 str = \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 lat\TS1/ptm/m/it/10 '\T 1/ptm/m/n/10 , \T1/ptm/m/it/10 lon-gi- Underfull \hbox (badness 10000) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 tude_column_name: Underfull \hbox (badness 10000) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 str = \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 lon\TS1/ptm/m/it/10 '\T 1/ptm/m/n/10 , \T1/ptm/m/it/10 pop-u-la- Underfull \hbox (badness 6236) in paragraph at lines 1007--1007 \T1/ptm/m/it/10 tion_column_name: str = [11] Overfull \hbox (54.94496pt too wide) in paragraph at lines 1022--1023 []\T1/pcr/b/n/10 apply. If not specified, we use the DefaultWorldBankEquilibriu mConcern Overfull \hbox (6.3048pt too wide) in paragraph at lines 1078--1078 []\T1/ptm/m/it/10 lat\T1/ptm/m/n/10 , Overfull \hbox (13.5249pt too wide) in paragraph at lines 1078--1078 \T1/ptm/m/it/10 long\T1/ptm/m/n/10 , Overfull \hbox (115.34473pt too wide) in paragraph at lines 1078--1078 \T1/ptm/m/it/10 res=0.008333333333333333\T1/pcr/m/n/10 ) Overfull \hbox (37.09444pt too wide) in paragraph at lines 1084--1084 []\T1/ptm/m/it/10 nodelist\T1/pcr/m/n/10 ) Overfull \hbox (11.74474pt too wide) in paragraph at lines 1090--1090 []\T1/ptm/m/it/10 node_info\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 1090--1090 \T1/ptm/m/it/10 De- Underfull \hbox (badness 10000) in paragraph at lines 1090--1090 \T1/ptm/m/it/10 moDf\T1/ptm/m/n/10 , Overfull \hbox (91.34473pt too wide) in paragraph at lines 1090--1090 \T1/ptm/m/it/10 res=0.008333333333333333\T1/pcr/m/n/10 ) Overfull \hbox (71.74474pt too wide) in paragraph at lines 1096--1096 []\T1/ptm/m/it/10 node_info\T1/ptm/m/n/10 , Overfull \hbox (41.2549pt too wide) in paragraph at lines 1096--1096 \T1/ptm/m/it/10 ex- Overfull \hbox (118.90427pt too wide) in paragraph at lines 1096--1096 \T1/ptm/m/it/10 tra_data_columns=[]\T1/ptm/m/n/10 , Overfull \hbox (151.34473pt too wide) in paragraph at lines 1096--1096 \T1/ptm/m/it/10 res=0.008333333333333333\T1/pcr/m/n/10 ) [12] Underfull \hbox (badness 10000) in paragraph at lines 1169--1171 []\T1/ptm/m/n/10 json ob-ject aka python dict that can be di-rectly passed to D e-mo-graph- Overfull \hbox (25.80493pt too wide) in paragraph at lines 1207--1207 []\T1/ptm/m/it/10 demog\T1/pcr/m/n/10 ) Overfull \hbox (46.30493pt too wide) in paragraph at lines 1213--1213 []\T1/ptm/m/it/10 demog\T1/ptm/m/n/10 , Overfull \hbox (42.23488pt too wide) in paragraph at lines 1213--1213 \T1/ptm/m/it/10 mean- Overfull \hbox (44.91478pt too wide) in paragraph at lines 1213--1213 \T1/ptm/m/it/10 AgeAt- Overfull \hbox (28.90492pt too wide) in paragraph at lines 1213--1213 \T1/ptm/m/it/10 In- Overfull \hbox (32.23474pt too wide) in paragraph at lines 1213--1213 \T1/ptm/m/it/10 fec- Overfull \hbox (58.0548pt too wide) in paragraph at lines 1213--1213 \T1/ptm/m/it/10 tion=2.5\T1/pcr/m/n/10 ) Overfull \hbox (55.80493pt too wide) in paragraph at lines 1219--1219 []\T1/ptm/m/it/10 demog\T1/pcr/m/n/10 ) Underfull \hbox (badness 10000) in paragraph at lines 1225--1225 []\T1/ptm/m/it/10 AgeBins\T1/ptm/m/n/10 , \T1/ptm/m/it/10 Mor- [13] Overfull \hbox (88.30493pt too wide) in paragraph at lines 1257--1257 []\T1/ptm/m/it/10 demog\T1/ptm/m/n/10 , Overfull \hbox (87.57472pt too wide) in paragraph at lines 1257--1257 \T1/ptm/m/it/10 Crude- Overfull \hbox (124.88449pt too wide) in paragraph at lines 1257--1257 \T1/ptm/m/it/10 BirthRate=0.04\T1/ptm/m/n/10 , Overfull \hbox (87.57472pt too wide) in paragraph at lines 1257--1257 \T1/ptm/m/it/10 Crude- Overfull \hbox (79.59486pt too wide) in paragraph at lines 1257--1257 \T1/ptm/m/it/10 Mor- Overfull \hbox (110.60472pt too wide) in paragraph at lines 1257--1257 \T1/ptm/m/it/10 tRate=0.02\T1/pcr/m/n/10 ) Underfull \hbox (badness 10000) in paragraph at lines 1263--1263 []\T1/ptm/m/it/10 demog\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 1263--1263 \T1/ptm/m/it/10 start=100\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 1263--1263 \T1/ptm/m/it/10 end=330\T1/ptm/m/n/10 , \T1/ptm/m/it/10 fac- Underfull \hbox (badness 10000) in paragraph at lines 1266--1269 []\T1/ptm/m/n/10 Requires con-fig en-ables in-fec-tiv-ity scal-ing: e.g.: `En-a ble_Infectivity_Scaling': 1, `En- Overfull \hbox (22.9045pt too wide) in paragraph at lines 1350--1350 []\T1/ptm/m/it/10 nodeid\T1/ptm/m/n/10 , \T1/ptm/m/it/10 res_in_deg=0.041666666 666666664\T1/pcr/m/n/10 ) Underfull \hbox (badness 10000) in paragraph at lines 1356--1356 []\T1/ptm/m/it/10 lat\T1/ptm/m/n/10 , \T1/ptm/m/it/10 lon\T1/ptm/m/n/10 , Overfull \hbox (9.16464pt too wide) in paragraph at lines 1356--1356 \T1/ptm/m/it/10 res_in_deg=0.041666666666666664\T1/pcr/m/n/10 ) Underfull \hbox (badness 10000) in paragraph at lines 1362--1362 []\T1/ptm/m/it/10 lat\T1/ptm/m/n/10 , \T1/ptm/m/it/10 lon\T1/ptm/m/n/10 , [14] Underfull \hbox (badness 10000) in paragraph at lines 1391--1392 []\T1/pcr/b/n/10 distribution \T1/ptm/m/n/10 ^^U The se-lected dis-tri-bu-tion (need to come from Underfull \hbox (badness 10000) in paragraph at lines 1411--1411 []\T1/ptm/m/it/10 filename\T1/ptm/m/n/10 , \T1/ptm/m/it/10 dis-tri-bu-tion\T1/p tm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 1412--1413 \T1/ptm/m/n/10 Set the \T1/pcr/m/n/10 ImmunityDistributionFlag\T1/ptm/m/n/10 , \T1/pcr/m/n/10 ImmunityDistribution1 \T1/ptm/m/n/10 and Underfull \hbox (badness 10000) in paragraph at lines 1439--1439 []\T1/ptm/m/it/10 demog\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 1439--1439 \T1/ptm/m/it/10 fn\T1/ptm/m/n/10 , [15] Underfull \hbox (badness 10000) in paragraph at lines 1509--1509 []\T1/ptm/m/it/10 cb\T1/ptm/m/n/10 , Overfull \hbox (28.70406pt too wide) in paragraph at lines 1509--1509 \T1/ptm/m/it/10 use_existing=False\T1/pcr/m/n/10 ) Underfull \hbox (badness 10000) in paragraph at lines 1535--1535 []\T1/ptm/m/it/10 cb\T1/ptm/m/n/10 , Overfull \hbox (34.70406pt too wide) in paragraph at lines 1535--1535 \T1/ptm/m/it/10 use_existing=False\T1/pcr/m/n/10 ) [16] Underfull \hbox (badness 10000) in paragraph at lines 1582--1582 []\T1/ptm/m/it/10 timestep\T1/ptm/m/n/10 , \T1/ptm/m/it/10 cam-paign_hook\T1/pt m/m/n/10 , \T1/ptm/m/it/10 cov-er- Underfull \hbox (badness 10000) in paragraph at lines 1625--1625 \T1/ptm/m/it/10 ef-fi-cacy=1.0\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 1625--1625 \T1/ptm/m/it/10 sv_name=\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 SimpleVaccine\TS1/ptm /m/it/10 '\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 1635--1635 []\T1/ptm/m/it/10 timestep\T1/ptm/m/n/10 , \T1/ptm/m/it/10 file- Underfull \hbox (badness 10000) in paragraph at lines 1650--1650 []\T1/ptm/m/it/10 pop=1000000.0\T1/ptm/m/n/10 , \T1/ptm/m/it/10 num_nodes=100\T 1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 1650--1650 \T1/ptm/m/it/10 mig_factor=1.0\T1/ptm/m/n/10 , \T1/ptm/m/it/10 frac_rural=0.3\T 1/ptm/m/n/10 , [17] Overfull \hbox (24.70302pt too wide) in paragraph at lines 1731--1731 []\T1/ptm/m/it/10 path_to_binary\T1/ptm/m/n/10 , \T1/ptm/m/it/10 path_to_write_ schema=\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 schema.json\TS1/ptm/m/it/10 '\T1/pcr/m /n/10 ) Underfull \hbox (badness 10000) in paragraph at lines 1752--1752 []\T1/ptm/m/it/10 input_serpop_path\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 1752--1752 \T1/ptm/m/it/10 mod_fn=None\T1/ptm/m/n/10 , [18] Underfull \hbox (badness 10000) in paragraph at lines 1773--1773 []\T1/ptm/m/it/10 file: [19] Underfull \hbox (badness 10000) in paragraph at lines 1899--1899 []\T1/ptm/m/it/10 name: str\T1/ptm/m/n/10 , \T1/ptm/m/it/10 han-dle\T1/ptm/m/n/ 10 , \T1/ptm/m/it/10 cur- Underfull \hbox (badness 10000) in paragraph at lines 1934--1934 []\T1/ptm/m/it/10 handle\T1/ptm/m/n/10 , \T1/ptm/m/it/10 cur- [20] Underfull \hbox (badness 5578) in paragraph at lines 2055--2055 \T1/ptm/m/it/10 True, \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 date\TS1/ptm/m/it/10 '\ T1/ptm/m/it/10 : \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 Mon Nov 02 Underfull \hbox (badness 5050) in paragraph at lines 2055--2055 \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 tool\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 : \TS1/ ptm/m/it/10 '\T1/ptm/m/it/10 dtk-File-Tools.py\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 , \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 ver- [21] Underfull \hbox (badness 10000) in paragraph at lines 2171--2171 []\T1/ptm/m/it/10 header={\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 author\TS1/ptm/m/it /10 '\T1/ptm/m/it/10 : \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 un-known\TS1/ptm/m/it/ 10 '\T1/ptm/m/it/10 , Underfull \hbox (badness 6493) in paragraph at lines 2171--2171 \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 byte-count\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 : 0, \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 chunkcount\TS1/ptm/m/it/10 '\T1/ptm/m/it/ 10 : Underfull \hbox (badness 10000) in paragraph at lines 2171--2171 \T1/ptm/m/it/10 0, \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 chunk-sizes\TS1/ptm/m/it/1 0 '\T1/ptm/m/it/10 : [], \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 com- Underfull \hbox (badness 6575) in paragraph at lines 2171--2171 \T1/ptm/m/it/10 02 23:09:34 2020\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 , \TS1/ptm/m/ it/10 '\T1/ptm/m/it/10 en-gine\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 : Underfull \hbox (badness 10000) in paragraph at lines 2171--2171 \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 ver-sion\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 : 1 }\T1/ptm/m/n/10 , \T1/ptm/m/it/10 file-name=\TS1/ptm/m/it/10 ''\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 2185--2185 []\T1/ptm/m/it/10 header={\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 author\TS1/ptm/m/it /10 '\T1/ptm/m/it/10 : \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 un-known\TS1/ptm/m/it/ 10 '\T1/ptm/m/it/10 , Underfull \hbox (badness 6493) in paragraph at lines 2185--2185 \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 byte-count\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 : 0, \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 chunkcount\TS1/ptm/m/it/10 '\T1/ptm/m/it/ 10 : Underfull \hbox (badness 10000) in paragraph at lines 2185--2185 \T1/ptm/m/it/10 0, \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 chunk-sizes\TS1/ptm/m/it/1 0 '\T1/ptm/m/it/10 : [], \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 com- Underfull \hbox (badness 6575) in paragraph at lines 2185--2185 \T1/ptm/m/it/10 02 23:09:34 2020\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 , \TS1/ptm/m/ it/10 '\T1/ptm/m/it/10 en-gine\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 : Underfull \hbox (badness 10000) in paragraph at lines 2185--2185 \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 ver-sion\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 : 1 }\T1/ptm/m/n/10 , \T1/ptm/m/it/10 file-name=\TS1/ptm/m/it/10 ''\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 2207--2207 []\T1/ptm/m/it/10 header={\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 author\TS1/ptm/m/it /10 '\T1/ptm/m/it/10 : \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 un-known\TS1/ptm/m/it/ 10 '\T1/ptm/m/it/10 , Underfull \hbox (badness 6493) in paragraph at lines 2207--2207 \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 byte-count\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 : 0, \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 chunkcount\TS1/ptm/m/it/10 '\T1/ptm/m/it/ 10 : Underfull \hbox (badness 10000) in paragraph at lines 2207--2207 \T1/ptm/m/it/10 0, \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 chunk-sizes\TS1/ptm/m/it/1 0 '\T1/ptm/m/it/10 : [], \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 com- Underfull \hbox (badness 6575) in paragraph at lines 2207--2207 \T1/ptm/m/it/10 02 23:09:34 2020\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 , \TS1/ptm/m/ it/10 '\T1/ptm/m/it/10 en-gine\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 : Underfull \hbox (badness 10000) in paragraph at lines 2207--2207 \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 ver-sion\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 : 1 }\T1/ptm/m/n/10 , \T1/ptm/m/it/10 file-name=\TS1/ptm/m/it/10 ''\T1/ptm/m/n/10 , [22] Underfull \hbox (badness 10000) in paragraph at lines 2229--2229 []\T1/ptm/m/it/10 header={\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 author\TS1/ptm/m/it /10 '\T1/ptm/m/it/10 : \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 un-known\TS1/ptm/m/it/ 10 '\T1/ptm/m/it/10 , Underfull \hbox (badness 6493) in paragraph at lines 2229--2229 \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 byte-count\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 : 0, \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 chunkcount\TS1/ptm/m/it/10 '\T1/ptm/m/it/ 10 : Underfull \hbox (badness 10000) in paragraph at lines 2229--2229 \T1/ptm/m/it/10 0, \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 chunk-sizes\TS1/ptm/m/it/1 0 '\T1/ptm/m/it/10 : [], \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 com- Underfull \hbox (badness 6575) in paragraph at lines 2229--2229 \T1/ptm/m/it/10 02 23:09:34 2020\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 , \TS1/ptm/m/ it/10 '\T1/ptm/m/it/10 en-gine\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 : Underfull \hbox (badness 10000) in paragraph at lines 2229--2229 \TS1/ptm/m/it/10 '\T1/ptm/m/it/10 ver-sion\TS1/ptm/m/it/10 '\T1/ptm/m/it/10 : 1 }\T1/ptm/m/n/10 , \T1/ptm/m/it/10 file-name=\TS1/ptm/m/it/10 ''\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 2289--2289 \T1/ptm/m/it/10 List[int] = None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 data: Underfull \hbox (badness 10000) in paragraph at lines 2289--2289 \T1/ptm/m/it/10 numpy.array = None\T1/ptm/m/n/10 , \T1/ptm/m/it/10 start: [23] [24] [25] [26] [27] [28] Chapter 2. [29] [30] Overfull \hbox (66.6225pt too wide) in paragraph at lines 2771--2772 []\T1/pcr/m/n/10 emod_api.config.default_from_schema_no_validation\T1/ptm/m/n/1 0 , Overfull \hbox (36.6225pt too wide) in paragraph at lines 2772--2773 []\T1/pcr/m/n/10 emod_api.config.dtk_post_process_adhocevents\T1/ptm/m/n/10 , Overfull \hbox (30.6225pt too wide) in paragraph at lines 2773--2774 []\T1/pcr/m/n/10 emod_api.config.dtk_pre_process_adhocevents\T1/ptm/m/n/10 , Overfull \hbox (12.6225pt too wide) in paragraph at lines 2782--2783 []\T1/pcr/m/n/10 emod_api.demographics.demographics_utils\T1/ptm/m/n/10 , Overfull \hbox (30.6225pt too wide) in paragraph at lines 2783--2784 []\T1/pcr/m/n/10 emod_api.demographics.DemographicsGenerator\T1/ptm/m/n/10 , Overfull \hbox (72.6225pt too wide) in paragraph at lines 2784--2785 []\T1/pcr/m/n/10 emod_api.demographics.DemographicsInputDataParsers\T1/ptm/m/n/ 10 , Overfull \hbox (30.6225pt too wide) in paragraph at lines 2785--2786 []\T1/pcr/m/n/10 emod_api.demographics.DemographicsTemplates\T1/ptm/m/n/10 , Overfull \hbox (0.6225pt too wide) in paragraph at lines 2788--2789 []\T1/pcr/m/n/10 emod_api.interventions.import_pressure\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 2790--2791 []\T1/pcr/m/n/10 emod_api.interventions.simple_vaccine\T1/ptm/m/n/10 , Overfull \hbox (6.6225pt too wide) in paragraph at lines 2795--2796 []\T1/pcr/m/n/10 emod_api.schema.dtk_post_process_schema\T1/ptm/m/n/10 , Overfull \hbox (0.6225pt too wide) in paragraph at lines 2799--2800 []\T1/pcr/m/n/10 emod_api.serialization.CensusAndModPop\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 2800--2801 []\T1/pcr/m/n/10 emod_api.serialization.dtkFileSupport\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 2802--2803 []\T1/pcr/m/n/10 emod_api.serialization.dtkFileUtility\T1/ptm/m/n/10 , Overfull \hbox (30.6225pt too wide) in paragraph at lines 2803--2804 []\T1/pcr/m/n/10 emod_api.serialization.SerializedPopulation\T1/ptm/m/n/10 , [31] (./institute-for-disease-modeling-emod-api.ind [32] Underfull \hbox (badness 10000) in paragraph at lines 9--11 []\T1/pcr/m/n/10 AddAgeDependentTransmission() Overfull \hbox (34.06111pt too wide) in paragraph at lines 9--11 \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.demographics.Demographics.Demographics Underfull \hbox (badness 10000) in paragraph at lines 11--13 []\T1/pcr/m/n/10 AddIndividualPropertyAndHINT() Overfull \hbox (34.06111pt too wide) in paragraph at lines 11--13 \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.demographics.Demographics.Demographics Underfull \hbox (badness 10000) in paragraph at lines 13--15 []\T1/pcr/m/n/10 AddSeasonalForcing() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ul e Overfull \hbox (15.62103pt too wide) in paragraph at lines 13--15 \T1/ptm/m/it/10 emod_api.demographics.DemographicsTemplates\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 15--17 []\T1/pcr/m/n/10 AgeStructureUNWPP() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Overfull \hbox (15.62103pt too wide) in paragraph at lines 15--17 \T1/ptm/m/it/10 emod_api.demographics.DemographicsTemplates\T1/ptm/m/n/10 ), Overfull \hbox (37.49991pt too wide) in paragraph at lines 17--19 []\T1/pcr/m/n/10 append() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.serializatio n.dtkFileTools.DtkFile.Contents Overfull \hbox (32.4899pt too wide) in paragraph at lines 19--21 []\T1/pcr/m/n/10 append() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.serializatio n.dtkFileTools.DtkFile.Objects Underfull \hbox (badness 10000) in paragraph at lines 21--23 []\T1/pcr/m/n/10 application() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Overfull \hbox (7.95116pt too wide) in paragraph at lines 21--23 \T1/ptm/m/it/10 emod_api.config.dtk_post_process_adhocevents\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 23--25 []\T1/pcr/m/n/10 application() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Overfull \hbox (4.2412pt too wide) in paragraph at lines 23--25 \T1/ptm/m/it/10 emod_api.config.dtk_pre_process_adhocevents\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 25--27 []\T1/pcr/m/n/10 application() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 25--27 \T1/ptm/m/it/10 emod_api.config.dtk_pre_process_w5ml\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 27--29 []\T1/pcr/m/n/10 application() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 27--29 \T1/ptm/m/it/10 emod_api.schema.dtk_post_process_schema\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 29--31 []\T1/pcr/m/n/10 apply_to_defaults_or_nodes() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 i n mod-ule Underfull \hbox (badness 10000) in paragraph at lines 29--31 \T1/ptm/m/it/10 emod_api.demographics.demographics_utils\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 31--33 []\T1/pcr/m/n/10 arcsec_to_deg() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Overfull \hbox (17.1711pt too wide) in paragraph at lines 31--33 \T1/ptm/m/it/10 emod_api.demographics.DemographicsGenerator\T1/ptm/m/n/10 ), Overfull \hbox (62.83089pt too wide) in paragraph at lines 33--35 []\T1/pcr/m/n/10 as_dataframe() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.channe lreports.channels.ChannelReport Overfull \hbox (41.61118pt too wide) in paragraph at lines 35--37 []\T1/pcr/m/n/10 as_dictionary() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.chann elreports.channels.Channel Overfull \hbox (37.71117pt too wide) in paragraph at lines 37--39 []\T1/pcr/m/n/10 as_dictionary() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.chann elreports.channels.Header Underfull \hbox (badness 10000) in paragraph at lines 48--50 []\T1/pcr/m/n/10 BaseInputFile \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in Underfull \hbox (badness 10000) in paragraph at lines 48--50 \T1/ptm/m/it/10 emod_api.demographics.BaseInputFile\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 50--51 []\T1/pcr/m/n/10 basicNode() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Overfull \hbox (23.59027pt too wide) in paragraph at lines 52--54 []\T1/pcr/m/n/10 byte_count() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.serializ ation.dtkFileTools.DtkFile Underfull \hbox (badness 10000) in paragraph at lines 57--59 []\T1/pcr/m/n/10 change_ser_pop() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 57--59 \T1/ptm/m/it/10 emod_api.serialization.CensusAndModPop\T1/ptm/m/n/10 ), Overfull \hbox (68.83089pt too wide) in paragraph at lines 60--62 []\T1/pcr/m/n/10 channel_names() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.chann elreports.channels.ChannelReport Underfull \hbox (badness 10000) in paragraph at lines 62--64 []\T1/pcr/m/n/10 ChannelReport \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in Overfull \hbox (38.83089pt too wide) in paragraph at lines 64--66 []\T1/pcr/m/n/10 channels() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.channelrep orts.channels.ChannelReport Overfull \hbox (29.59027pt too wide) in paragraph at lines 66--68 []\T1/pcr/m/n/10 chunk_count() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.seriali zation.dtkFileTools.DtkFile Overfull \hbox (29.59027pt too wide) in paragraph at lines 68--70 []\T1/pcr/m/n/10 chunk_sizes() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.seriali zation.dtkFileTools.DtkFile Overfull \hbox (36.91025pt too wide) in paragraph at lines 72--74 []\T1/pcr/m/n/10 compress() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.serializat ion.dtkFileSupport.EllZeeFour Overfull \hbox (21.29066pt too wide) in paragraph at lines 74--76 []\T1/pcr/m/n/10 compress() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.serializat ion.dtkFileSupport.Snappy Overfull \hbox (50.91016pt too wide) in paragraph at lines 76--78 []\T1/pcr/m/n/10 compress() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.serializat ion.dtkFileSupport.Uncompressed [33] Underfull \hbox (badness 10000) in paragraph at lines 78--80 []\T1/pcr/m/n/10 compress() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Overfull \hbox (23.59027pt too wide) in paragraph at lines 80--82 []\T1/pcr/m/n/10 compressed() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.serializ ation.dtkFileTools.DtkFile Overfull \hbox (29.59027pt too wide) in paragraph at lines 82--84 []\T1/pcr/m/n/10 compression() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.seriali zation.dtkFileTools.DtkFile Underfull \hbox (badness 10000) in paragraph at lines 84--86 []\T1/pcr/m/n/10 ConstantMortality() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Overfull \hbox (15.62103pt too wide) in paragraph at lines 84--86 \T1/ptm/m/it/10 emod_api.demographics.DemographicsTemplates\T1/ptm/m/n/10 ), Overfull \hbox (46.65079pt too wide) in paragraph at lines 86--88 \T1/ptm/m/it/10 emod_api.demographics.DemographicsInputDataParsers\T1/ptm/m/n/1 0 ), Overfull \hbox (12.84114pt too wide) in paragraph at lines 88--90 []\T1/pcr/m/n/10 creation_date() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.weath er.weather.Metadata Overfull \hbox (7.47115pt too wide) in paragraph at lines 90--92 []\T1/pcr/m/n/10 creation_date() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.weath er.weather.Weather Underfull \hbox (badness 10000) in paragraph at lines 95--97 []\T1/pcr/m/n/10 data() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.channelreports .channels.Channel Underfull \hbox (badness 10000) in paragraph at lines 97--99 []\T1/pcr/m/n/10 data() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.spatialreports .spatial.SpatialNode Underfull \hbox (badness 10000) in paragraph at lines 103--105 []\T1/pcr/m/n/10 datavalue_count() Underfull \hbox (badness 10000) in paragraph at lines 103--105 \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.weather.weather.Metadata prop- Underfull \hbox (badness 10000) in paragraph at lines 105--107 []\T1/pcr/m/n/10 datavalue_count() Underfull \hbox (badness 10000) in paragraph at lines 105--107 \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.weather.weather.Weather prop- Underfull \hbox (badness 10000) in paragraph at lines 107--109 []\T1/pcr/m/n/10 date() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.serialization. dtkFileTools.DtkFile Overfull \hbox (10.77174pt too wide) in paragraph at lines 109--111 []\T1/pcr/m/n/10 default_density \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.demog raphics.Node.Node Underfull \hbox (badness 10000) in paragraph at lines 111--113 []\T1/pcr/m/n/10 default_population Underfull \hbox (badness 10000) in paragraph at lines 111--113 \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.demographics.Node.Node at- Underfull \hbox (badness 7291) in paragraph at lines 113--115 []\T1/pcr/m/n/10 DefaultSusceptibilityDistribution() \T1/ptm/m/n/10 (\T1/ptm/m/ it/10 in Overfull \hbox (46.96086pt too wide) in paragraph at lines 113--115 \T1/ptm/m/it/10 mod-ule emod_api.demographics.DemographicsTemplates\T1/ptm/m/n/ 10 ), Underfull \hbox (badness 10000) in paragraph at lines 115--117 []\T1/pcr/m/n/10 Demographics \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in Underfull \hbox (badness 10000) in paragraph at lines 115--117 \T1/ptm/m/it/10 emod_api.demographics.Demographics\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 117--119 []\T1/pcr/m/n/10 DemographicsGenerator \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in Overfull \hbox (17.1711pt too wide) in paragraph at lines 117--119 \T1/ptm/m/it/10 emod_api.demographics.DemographicsGenerator\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 119--121 []\T1/pcr/m/n/10 DemographicsType \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in Overfull \hbox (17.1711pt too wide) in paragraph at lines 119--121 \T1/ptm/m/it/10 emod_api.demographics.DemographicsGenerator\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 121--123 []\T1/pcr/m/n/10 do_mapping_from_events() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mo d-ule Overfull \hbox (4.2412pt too wide) in paragraph at lines 121--123 \T1/ptm/m/it/10 emod_api.config.dtk_pre_process_adhocevents\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 123--125 []\T1/pcr/m/n/10 dtk_to_schema() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Overfull \hbox (56.83089pt too wide) in paragraph at lines 125--127 []\T1/pcr/m/n/10 dtk_version() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.channel reports.channels.ChannelReport Overfull \hbox (25.71117pt too wide) in paragraph at lines 127--129 []\T1/pcr/m/n/10 dtk_version() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.channel reports.channels.Header Underfull \hbox (badness 10000) in paragraph at lines 130--132 []\T1/pcr/m/n/10 DtkFile.Contents \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in Underfull \hbox (badness 10000) in paragraph at lines 132--134 []\T1/pcr/m/n/10 DtkFile.Objects \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in Underfull \hbox (badness 10000) in paragraph at lines 134--136 []\T1/pcr/m/n/10 DtkFileV1 \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in Underfull \hbox (badness 10000) in paragraph at lines 136--138 []\T1/pcr/m/n/10 DtkFileV2 \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in Underfull \hbox (badness 10000) in paragraph at lines 138--140 []\T1/pcr/m/n/10 DtkFileV2.NodesV2 \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in Underfull \hbox (badness 10000) in paragraph at lines 140--142 []\T1/pcr/m/n/10 DtkFileV3 \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in Underfull \hbox (badness 10000) in paragraph at lines 142--144 []\T1/pcr/m/n/10 DtkFileV3.NodesV3 \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in Underfull \hbox (badness 10000) in paragraph at lines 144--146 []\T1/pcr/m/n/10 DtkFileV4 \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in Underfull \hbox (badness 10000) in paragraph at lines 146--148 []\T1/pcr/m/n/10 DtkHeader \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in Underfull \hbox (badness 10000) in paragraph at lines 148--150 []\T1/pcr/m/n/10 duplicate_nodeID_check() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mo d-ule Overfull \hbox (46.65079pt too wide) in paragraph at lines 148--150 \T1/ptm/m/it/10 emod_api.demographics.DemographicsInputDataParsers\T1/ptm/m/n/1 0 ), Underfull \hbox (badness 10000) in paragraph at lines 153--155 []\T1/pcr/m/n/10 EllZeeFour \T1/ptm/m/n/10 (\T1/ptm/m/it/10 class in Overfull \hbox (64.1225pt too wide) in paragraph at lines 167--168 []\T1/pcr/m/n/10 emod_api.config.default_from_schema_no_validation Overfull \hbox (34.1225pt too wide) in paragraph at lines 169--170 []\T1/pcr/m/n/10 emod_api.config.dtk_post_process_adhocevents Overfull \hbox (28.1225pt too wide) in paragraph at lines 171--172 []\T1/pcr/m/n/10 emod_api.config.dtk_pre_process_adhocevents [34] Overfull \hbox (10.1225pt too wide) in paragraph at lines 189--190 []\T1/pcr/m/n/10 emod_api.demographics.demographics_utils Overfull \hbox (28.1225pt too wide) in paragraph at lines 191--192 []\T1/pcr/m/n/10 emod_api.demographics.DemographicsGenerator Overfull \hbox (70.1225pt too wide) in paragraph at lines 193--194 []\T1/pcr/m/n/10 emod_api.demographics.DemographicsInputDataParsers Overfull \hbox (28.1225pt too wide) in paragraph at lines 195--196 []\T1/pcr/m/n/10 emod_api.demographics.DemographicsTemplates Overfull \hbox (4.1225pt too wide) in paragraph at lines 215--216 []\T1/pcr/m/n/10 emod_api.schema.dtk_post_process_schema Overfull \hbox (28.1225pt too wide) in paragraph at lines 231--232 []\T1/pcr/m/n/10 emod_api.serialization.SerializedPopulation Overfull \hbox (16.1225pt too wide) in paragraph at lines 243--245 []\T1/pcr/m/n/10 EquilibriumAgeDistFromBirthAndMortRates() Overfull \hbox (59.97073pt too wide) in paragraph at lines 243--245 \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule emod_api.demographics.DemographicsTe mplates\T1/ptm/m/n/10 ), Overfull \hbox (15.62103pt too wide) in paragraph at lines 245--247 \T1/ptm/m/it/10 emod_api.demographics.DemographicsTemplates\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 251--253 []\T1/pcr/m/n/10 fill_nodes_legacy() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Overfull \hbox (46.65079pt too wide) in paragraph at lines 251--253 \T1/ptm/m/it/10 emod_api.demographics.DemographicsInputDataParsers\T1/ptm/m/n/1 0 ), Overfull \hbox (4.62106pt too wide) in paragraph at lines 253--255 []\T1/pcr/m/n/10 finalize() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.schema_to_ class.ReadOnlyDict Overfull \hbox (36.30013pt too wide) in paragraph at lines 255--257 []\T1/pcr/m/n/10 find() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule emod_api.ser ialization.SerializedPopulation\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 257--259 []\T1/pcr/m/n/10 flattenConfig() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Overfull \hbox (81.59949pt too wide) in paragraph at lines 259--261 []\T1/pcr/m/n/10 flush() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.serialization .SerializedPopulation.SerializedPopulation Underfull \hbox (badness 10000) in paragraph at lines 263--265 []\T1/pcr/m/n/10 from_csv() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 263--265 \T1/ptm/m/it/10 emod_api.demographics.Demographics\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 265--267 []\T1/pcr/m/n/10 from_data() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.demograph ics.Node.Node Underfull \hbox (badness 10000) in paragraph at lines 267--269 []\T1/pcr/m/n/10 from_dataframe() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Overfull \hbox (17.1711pt too wide) in paragraph at lines 267--269 \T1/ptm/m/it/10 emod_api.demographics.DemographicsGenerator\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 269--271 []\T1/pcr/m/n/10 from_file() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.weather.w eather.Metadata Underfull \hbox (badness 10000) in paragraph at lines 271--273 []\T1/pcr/m/n/10 from_file() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 271--273 \T1/ptm/m/it/10 emod_api.demographics.Demographics\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 273--275 []\T1/pcr/m/n/10 from_file() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Overfull \hbox (17.1711pt too wide) in paragraph at lines 273--275 \T1/ptm/m/it/10 emod_api.demographics.DemographicsGenerator\T1/ptm/m/n/10 ), [35] Underfull \hbox (badness 10000) in paragraph at lines 275--277 []\T1/pcr/m/n/10 from_synth_pop() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 275--277 \T1/ptm/m/it/10 emod_api.demographics.Demographics\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 277--279 []\T1/pcr/m/n/10 from_synth_pop() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 279--281 []\T1/pcr/m/n/10 fromBasicNode() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 279--281 \T1/ptm/m/it/10 emod_api.demographics.Demographics\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 281--283 []\T1/pcr/m/n/10 FullRisk() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Overfull \hbox (15.62103pt too wide) in paragraph at lines 281--283 \T1/ptm/m/it/10 emod_api.demographics.DemographicsTemplates\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 286--288 []\T1/pcr/m/n/10 generate_demographics() Overfull \hbox (115.97037pt too wide) in paragraph at lines 286--288 \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.demographics.DemographicsGenerator.Dem ographicsGenerator Overfull \hbox (80.97084pt too wide) in paragraph at lines 288--290 []\T1/pcr/m/n/10 generate_file() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.demog raphics.BaseInputFile.BaseInputFile Overfull \hbox (85.96114pt too wide) in paragraph at lines 290--292 []\T1/pcr/m/n/10 generate_file() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.demog raphics.Demographics.Demographics Underfull \hbox (badness 10000) in paragraph at lines 292--294 []\T1/pcr/m/n/10 generate_headers() Overfull \hbox (29.07082pt too wide) in paragraph at lines 292--294 \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.demographics.BaseInputFile.BaseInputFi le Underfull \hbox (badness 10000) in paragraph at lines 294--296 []\T1/pcr/m/n/10 generate_metadata() Overfull \hbox (115.97037pt too wide) in paragraph at lines 294--296 \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.demographics.DemographicsGenerator.Dem ographicsGenerator Overfull \hbox (173.87039pt too wide) in paragraph at lines 296--298 []\T1/pcr/m/n/10 generate_nodes() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.demo graphics.DemographicsGenerator.DemographicsGenerator Underfull \hbox (badness 10000) in paragraph at lines 299--301 []\T1/pcr/m/n/10 get_class_with_defaults() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in m od-ule Overfull \hbox (62.64088pt too wide) in paragraph at lines 301--303 \T1/ptm/m/it/10 mod-ule emod_api.config.default_from_schema_no_validation\T1/pt m/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 304--306 []\T1/pcr/m/n/10 get_next_individual_suid() Overfull \hbox (77.69946pt too wide) in paragraph at lines 304--306 \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.serialization.SerializedPopulation.Ser ializedPopulation Underfull \hbox (badness 10000) in paragraph at lines 306--308 []\T1/pcr/m/n/10 get_next_infection_suid() Overfull \hbox (77.69946pt too wide) in paragraph at lines 306--308 \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.serialization.SerializedPopulation.Ser ializedPopulation Overfull \hbox (55.96114pt too wide) in paragraph at lines 308--310 []\T1/pcr/m/n/10 get_node() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.demographi cs.Demographics.Demographics Underfull \hbox (badness 10000) in paragraph at lines 310--312 []\T1/pcr/m/n/10 get_node_ids_from_file() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mo d-ule Underfull \hbox (badness 10000) in paragraph at lines 310--312 \T1/ptm/m/it/10 emod_api.demographics.Demographics\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 312--314 []\T1/pcr/m/n/10 get_node_pops_from_params() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 314--316 []\T1/pcr/m/n/10 get_parameters() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 314--316 \T1/ptm/m/it/10 emod_api.serialization.SerializedPopulation\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 317--319 []\T1/pcr/m/n/10 get_xpix_ypix() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Overfull \hbox (26.83089pt too wide) in paragraph at lines 323--325 []\T1/pcr/m/n/10 header() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.channelrepor ts.channels.ChannelReport Underfull \hbox (badness 10000) in paragraph at lines 333--335 []\T1/pcr/m/n/10 id() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.spatialreports.s patial.SpatialNode Underfull \hbox (badness 7308) in paragraph at lines 335--336 []\T1/pcr/m/n/10 id() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.weather.weather. WeatherNode prop- Overfull \hbox (6.84114pt too wide) in paragraph at lines 336--338 []\T1/pcr/m/n/10 id_reference() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.weathe r.weather.Metadata Overfull \hbox (1.47115pt too wide) in paragraph at lines 338--340 []\T1/pcr/m/n/10 id_reference() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.weathe r.weather.Weather Underfull \hbox (badness 10000) in paragraph at lines 340--342 []\T1/pcr/m/n/10 init_resolution_from_file() Underfull \hbox (badness 10000) in paragraph at lines 340--342 \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.demographics.Node.Node class Underfull \hbox (badness 10000) in paragraph at lines 342--344 []\T1/pcr/m/n/10 InitAgeUniform() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Overfull \hbox (15.62103pt too wide) in paragraph at lines 342--344 \T1/ptm/m/it/10 emod_api.demographics.DemographicsTemplates\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 344--346 []\T1/pcr/m/n/10 InitRiskUniform() \T1/ptm/m/n/10 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paragraph at lines 439--441 []\T1/pcr/m/n/10 node_count() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.demograp hics.Demographics.Demographics Overfull \hbox (32.8303pt too wide) in paragraph at lines 441--443 []\T1/pcr/m/n/10 node_count() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.spatialr eports.spatial.SpatialReport Underfull \hbox (badness 10000) in paragraph at lines 445--447 []\T1/pcr/m/n/10 node_count() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.weather. weather.Weather Underfull \hbox (badness 10000) in paragraph at lines 447--449 []\T1/pcr/m/n/10 node_ID_from_lat_long() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod -ule Overfull \hbox (46.65079pt too wide) in paragraph at lines 447--449 \T1/ptm/m/it/10 emod_api.demographics.DemographicsInputDataParsers\T1/ptm/m/n/1 0 ), [37] Overfull \hbox (55.96114pt too wide) in paragraph at lines 449--451 []\T1/pcr/m/n/10 node_ids() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.demographi cs.Demographics.Demographics Overfull \hbox (20.8303pt too wide) in paragraph at lines 451--453 []\T1/pcr/m/n/10 node_ids() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.spatialrep orts.spatial.SpatialReport Underfull \hbox (badness 10000) in paragraph at lines 453--455 []\T1/pcr/m/n/10 node_ids() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.weather.we ather.Metadata Underfull \hbox (badness 10000) in paragraph at lines 455--456 []\T1/pcr/m/n/10 node_ids() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.weather.we ather.Weather Underfull \hbox (badness 10000) in paragraph at lines 456--458 []\T1/pcr/m/n/10 nodeid_from_lat_lon() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-u le Underfull \hbox (badness 5802) in paragraph at lines 458--460 []\T1/pcr/m/n/10 nodes() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.serialization .dtkFileTools.DtkFile Overfull \hbox (81.59949pt too wide) in paragraph at lines 460--462 []\T1/pcr/m/n/10 nodes() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.serialization .SerializedPopulation.SerializedPopulation Overfull \hbox (2.8303pt too wide) in paragraph 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emod_api.demographics.DemographicsTemplates\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 472--474 []\T1/pcr/m/n/10 NoRisk() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Overfull \hbox (15.62103pt too wide) in paragraph at lines 472--474 \T1/ptm/m/it/10 emod_api.demographics.DemographicsTemplates\T1/ptm/m/n/10 ), Overfull \hbox (62.83089pt too wide) in paragraph at lines 474--476 []\T1/pcr/m/n/10 num_channels() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.channe lreports.channels.ChannelReport Overfull \hbox (31.71117pt too wide) in paragraph at lines 476--478 []\T1/pcr/m/n/10 num_channels() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.channe lreports.channels.Header Overfull \hbox (74.83089pt too wide) in paragraph at lines 478--480 []\T1/pcr/m/n/10 num_time_steps() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.chan nelreports.channels.ChannelReport Overfull \hbox (43.71117pt too wide) in paragraph at lines 480--482 []\T1/pcr/m/n/10 num_time_steps() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.chan nelreports.channels.Header Underfull \hbox (badness 10000) in paragraph at lines 487--489 []\T1/pcr/m/n/10 provenance() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.weather. weather.Weather Overfull \hbox (15.58075pt too wide) in paragraph at lines 492--494 []\T1/pcr/m/n/10 rates() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.migration.Mig rationFile.MigrationFile Overfull \hbox (1.84042pt too wide) in paragraph at lines 494--495 []\T1/pcr/m/n/10 read() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule emod_api.ser ialization.dtkFileTools\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 496--498 []\T1/pcr/m/n/10 recurser() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 496--498 \T1/ptm/m/it/10 emod_api.schema.dtk_post_process_schema\T1/ptm/m/n/10 ), Overfull \hbox (56.83089pt too wide) in paragraph at lines 498--500 []\T1/pcr/m/n/10 report_type() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.channel reports.channels.ChannelReport Overfull \hbox (25.71117pt too wide) in paragraph at lines 500--502 []\T1/pcr/m/n/10 report_type() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.channel reports.channels.Header Overfull \hbox (74.83089pt too wide) in paragraph at lines 502--504 []\T1/pcr/m/n/10 report_version() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.chan nelreports.channels.ChannelReport Overfull \hbox (43.71117pt too wide) in paragraph at lines 504--506 []\T1/pcr/m/n/10 report_version() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.chan nelreports.channels.Header Overfull \hbox (4.77174pt too wide) in paragraph at lines 506--508 []\T1/pcr/m/n/10 res_in_degrees \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.demogr aphics.Node.Node Underfull \hbox (badness 10000) in paragraph at lines 512--514 []\T1/pcr/m/n/10 schema_to_config() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 512--514 \T1/ptm/m/it/10 emod_api.config.from_poi_and_binary\T1/ptm/m/n/10 ), 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graphics.DemographicsGenerator.DemographicsGenerator Underfull \hbox (badness 10000) in paragraph at lines 540--542 []\T1/pcr/m/n/10 set_risk_mod() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 540--542 \T1/ptm/m/it/10 emod_api.demographics.demographics_utils\T1/ptm/m/n/10 ), [38] Overfull \hbox (16.62106pt too wide) in paragraph at lines 542--544 []\T1/pcr/m/n/10 set_schema() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.schema_t o_class.ReadOnlyDict Underfull \hbox (badness 10000) in paragraph at lines 544--546 []\T1/pcr/m/n/10 set_schema() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 544--546 \T1/ptm/m/it/10 emod_api.config.from_poi_and_binary\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 546--548 []\T1/pcr/m/n/10 set_static_demographics() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in m od-ule Underfull \hbox (badness 10000) in paragraph at lines 546--548 \T1/ptm/m/it/10 emod_api.demographics.demographics_utils\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 548--550 []\T1/pcr/m/n/10 set_suscept_complex() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-u le Overfull \hbox (15.62103pt too wide) in paragraph at lines 548--550 \T1/ptm/m/it/10 emod_api.demographics.DemographicsTemplates\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 550--552 []\T1/pcr/m/n/10 set_suscept_simple() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ul e Overfull \hbox (15.62103pt too wide) in paragraph at lines 550--552 \T1/ptm/m/it/10 emod_api.demographics.DemographicsTemplates\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 552--554 []\T1/pcr/m/n/10 SetDefaultFromTemplate() Overfull \hbox (34.06111pt too wide) in paragraph at lines 552--554 \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.demographics.Demographics.Demographics Underfull \hbox (badness 10000) in paragraph at lines 554--556 []\T1/pcr/m/n/10 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605--607 []\T1/pcr/m/n/10 time_steps() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.spatialr eports.spatial.SpatialReport Underfull \hbox (badness 5741) in paragraph at lines 607--609 []\T1/pcr/m/n/10 title() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.channelreport s.channels.Channel Underfull \hbox (badness 10000) in paragraph at lines 609--610 []\T1/pcr/m/n/10 to_dict() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.demographic s.Node.Node Overfull \hbox (27.58075pt too wide) in paragraph at lines 614--616 []\T1/pcr/m/n/10 to_json() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.migration.M igrationFile.MigrationFile Underfull \hbox (badness 10000) in paragraph at lines 616--617 []\T1/pcr/m/n/10 to_tuple() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.demographi cs.Node.Node Underfull \hbox (badness 10000) in paragraph at lines 617--619 []\T1/pcr/m/n/10 tool() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.serialization. dtkFileTools.DtkFile Overfull \hbox (48.91025pt too wide) in paragraph at lines 622--624 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update_resolution() Underfull \hbox (badness 10000) in paragraph at lines 634--636 \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.weather.weather.Metadata prop- Underfull \hbox (badness 10000) in paragraph at lines 636--638 []\T1/pcr/m/n/10 update_resolution() Underfull \hbox (badness 10000) in paragraph at lines 636--638 \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.weather.weather.Weather prop- Underfull \hbox (badness 10000) in paragraph at lines 641--643 []\T1/pcr/m/n/10 validate_res_in_arcsec() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mo d-ule Overfull \hbox (17.1711pt too wide) in paragraph at lines 641--643 \T1/ptm/m/it/10 emod_api.demographics.DemographicsGenerator\T1/ptm/m/n/10 ), Overfull \hbox (5.59027pt too wide) in paragraph at lines 643--645 []\T1/pcr/m/n/10 version() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.serializati on.dtkFileTools.DtkFile Overfull \hbox (81.59949pt too wide) in paragraph at lines 650--652 []\T1/pcr/m/n/10 write() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.serialization .SerializedPopulation.SerializedPopulation Underfull \hbox (badness 10000) in paragraph at lines 652--653 []\T1/pcr/m/n/10 write() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 653--655 []\T1/pcr/m/n/10 write_config_from_default_and_params() Overfull \hbox (75.65076pt too wide) in paragraph at lines 653--655 \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule emod_api.config.default_from_schema_ no_validation\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 655--657 []\T1/pcr/m/n/10 write_default_from_schema() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 657--659 []\T1/pcr/m/n/10 write_default_from_schema() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mod-ule Overfull \hbox (31.30106pt too wide) in paragraph at lines 657--659 \T1/ptm/m/it/10 emod_api.config.default_from_schema_no_validation\T1/ptm/m/n/10 ), Overfull \hbox (50.83089pt too wide) in paragraph at lines 659--661 []\T1/pcr/m/n/10 write_file() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.channelr eports.channels.ChannelReport Overfull \hbox (32.8303pt too wide) in paragraph at lines 661--663 []\T1/pcr/m/n/10 write_file() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.spatialr eports.spatial.SpatialReport Underfull \hbox (badness 10000) in paragraph at lines 665--666 []\T1/pcr/m/n/10 write_file() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 emod_api.weather. weather.Weather Underfull \hbox (badness 10000) in paragraph at lines 669--671 []\T1/pcr/m/n/10 xpix_ypix_from_lat_lon() \T1/ptm/m/n/10 (\T1/ptm/m/it/10 in mo d-ule [40]) (./institute-for-disease-modeling-emod-api.aux) ) (see the transcript file for additional information){/usr/share/texlive/texmf-d ist/fonts/enc/dvips/base/8r.enc}< /usr/share/texlive/texmf-dist/fonts/type1/urw/courier/ucrr8a.pfb>< /usr/share/texlive/texmf-dist/fonts/type1/urw/times/utmri8a.pfb> Output written on institute-for-disease-modeling-emod-api.pdf (44 pages, 232580 bytes). 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