Read the Docs build information Build id: 1651915 Project: institute-for-disease-modeling-emodpy-malaria Version: latest Commit: 5fd95ff12bc188c7860b4fd1d951ee24d86ac5cb Date: 2023-08-09T22:14:43.892365Z State: finished Success: True [rtd-command-info] start-time: 2023-08-09T22:14:47.703536Z, end-time: 2023-08-09T22:14:51.862003Z, duration: 4, exit-code: 0 git clone --no-single-branch --depth 50 git@github.com:InstituteforDiseaseModeling/emodpy-malaria.git . Cloning into '.'... Warning: Permanently added 'github.com' (ED25519) to the list of known hosts. [rtd-command-info] start-time: 2023-08-09T22:14:52.145384Z, end-time: 2023-08-09T22:14:52.516216Z, duration: 0, exit-code: 0 git checkout --force origin/main Note: switching to 'origin/main'. You are in 'detached HEAD' state. You can look around, make experimental changes and commit them, and you can discard any commits you make in this state without impacting any branches by switching back to a branch. If you want to create a new branch to retain commits you create, you may do so (now or later) by using -c with the switch command. Example: git switch -c Or undo this operation with: git switch - Turn off this advice by setting config variable advice.detachedHead to false HEAD is now at 5fd95ff Added broadcast_event to add_outbreak_malaria_genetics (#621) [rtd-command-info] start-time: 2023-08-09T22:14:53.005291Z, end-time: 2023-08-09T22:14:53.075151Z, duration: 0, exit-code: 0 git clean -d -f -f [rtd-command-info] start-time: 2023-08-09T22:14:53.492965Z, end-time: 2023-08-09T22:14:53.574663Z, duration: 0, exit-code: 0 cat .readthedocs.yml # .readthedocs.yml # Read the Docs configuration file # See https://docs.readthedocs.io/en/stable/config-file/v2.html for details # Required version: 2 # Build documentation in the docs/ directory with Sphinx sphinx: configuration: docs/conf.py fail_on_warning: true # Build documentation with MkDocs #mkdocs: # configuration: mkdocs.yml # Optionally build your docs in additional formats such as PDF formats: - htmlzip - pdf # Optionally set the version of Python and requirements required to build your docs python: version: 3.8 install: - requirements: requirements.txt - requirements: docs/requirements.txt - method: setuptools path: . # Optionally rank topics in search results, between -10 (lower) and 10 (higher). # 0 is normal rank, not no rank # search: # ranking: [rtd-command-info] start-time: 2023-08-09T22:14:55.673928Z, end-time: 2023-08-09T22:15:00.803074Z, duration: 5, exit-code: 0 python3.8 -mvirtualenv $READTHEDOCS_VIRTUALENV_PATH Using base prefix '/home/docs/.pyenv/versions/3.8.6' New python executable in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/bin/python3.8 Also creating executable in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/bin/python Installing setuptools, pip, wheel... done. [rtd-command-info] start-time: 2023-08-09T22:15:01.463458Z, end-time: 2023-08-09T22:15:03.313027Z, duration: 1, exit-code: 0 python -m pip install --upgrade --no-cache-dir pip setuptools<58.3.0 Looking in indexes: https://pypi.org/simple, https://packages.idmod.org/artifactory/api/pypi/idm-pypi-production/simple Requirement already satisfied: pip in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages (23.2.1) Collecting setuptools<58.3.0 Downloading setuptools-58.2.0-py3-none-any.whl (946 kB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 946.1/946.1 kB 24.9 MB/s eta 0:00:00 Installing collected packages: setuptools Attempting uninstall: setuptools Found existing installation: setuptools 68.0.0 Uninstalling setuptools-68.0.0: Successfully uninstalled setuptools-68.0.0 Successfully installed setuptools-58.2.0 [rtd-command-info] start-time: 2023-08-09T22:15:03.560595Z, end-time: 2023-08-09T22:15:11.400875Z, 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snowballstemmer, pytz, mock, commonmark, urllib3, sphinxcontrib-serializinghtml, six, Pygments, pillow, packaging, MarkupSafe, imagesize, idna, docutils, charset-normalizer, certifi, babel, alabaster, sphinxcontrib-websupport, requests, jinja2, sphinx, readthedocs-sphinx-ext, sphinx-rtd-theme, recommonmark Successfully installed MarkupSafe-2.1.3 Pygments-2.16.1 alabaster-0.7.13 babel-2.12.1 certifi-2023.7.22 charset-normalizer-3.2.0 commonmark-0.9.1 docutils-0.17.1 idna-3.4 imagesize-1.4.1 jinja2-3.0.3 mock-1.0.1 packaging-23.1 pillow-10.0.0 pytz-2023.3 readthedocs-sphinx-ext-2.2.2 recommonmark-0.5.0 requests-2.31.0 six-1.16.0 snowballstemmer-2.2.0 sphinx-1.8.6 sphinx-rtd-theme-0.4.3 sphinxcontrib-serializinghtml-1.1.5 sphinxcontrib-websupport-1.2.4 urllib3-2.0.4 [rtd-command-info] start-time: 2023-08-09T22:15:11.906891Z, end-time: 2023-08-09T22:15:43.739507Z, duration: 31, exit-code: 0 python -m pip install --exists-action=w --no-cache-dir -r requirements.txt Looking in indexes: 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size=1271 sha256=bc112c316848e08717ddb092747ea7baaec3d6ad29044150d74585538083fdde Stored in directory: /tmp/pip-ephem-wheel-cache-_qt_cc00/wheels/75/78/21/68b124549c9bdc94f822c02fb9aa3578a669843f9767776bca Building wheel for future (setup.py): started Building wheel for future (setup.py): finished with status 'done' Created wheel for future: filename=future-0.18.3-py3-none-any.whl size=492035 sha256=e320fa19e1f0c655a77dd9196bd1e9b0b63ffdf87d06466191a8a34f2e425709 Stored in directory: /tmp/pip-ephem-wheel-cache-_qt_cc00/wheels/a0/0b/ee/e6994fadb42c1354dcccb139b0bf2795271bddfe6253ccdf11 Building wheel for prodict (setup.py): started Building wheel for prodict (setup.py): finished with status 'done' Created wheel for prodict: filename=prodict-0.8.18-py3-none-any.whl size=4223 sha256=d083754370acdf3deb1059295b4fa36bdd0ae7aab42bc138d2a9b19a1d7aa7ae Stored in directory: /tmp/pip-ephem-wheel-cache-_qt_cc00/wheels/f7/87/da/f7f3dad926a33705d391981f28b2c2d2b4bc7e1e4804e6fdfe 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=13724 sha256=553a6754135a898b8e7a65fa364a86b2e2882039551148b6b9ee752e872c7fce Stored in directory: /tmp/pip-ephem-wheel-cache-_qt_cc00/wheels/56/ea/58/ead137b087d9e326852a851351d1debf4ada529b6ac0ec4e8c Successfully built bs4 future prodict docopt Installing collected packages: prodict, parse, emod-malaria, docopt, zipp, xdg, urllib3, tzdata, tqdm, threadpoolctl, tabulate, soupsieve, pyyaml, python-dateutil, pyproj, pyparsing, pycparser, pluggy, numpy, natsort, more-itertools, lz4, kiwisolver, joblib, jinja2, jeepney, humanfriendly, graphviz, geographiclib, future, fonttools, filelock, diskcache, cycler, click, backoff, astunparse, astor, shapely, scipy, requests, pandas, packaging, jaraco.classes, importlib-resources, importlib-metadata, contourpy, coloredlogs, cffi, beautifulsoup4, yarg, scikit-learn, pygit2, pyCOMPS, matplotlib, cryptography, bs4, SecretStorage, pipreqs, emod-api, keyring, idmtools, idmtools-platform-comps, idmtools-models, emodpy Attempting uninstall: urllib3 Found existing installation: urllib3 2.0.4 Uninstalling urllib3-2.0.4: Successfully uninstalled urllib3-2.0.4 Attempting uninstall: jinja2 Found existing installation: Jinja2 3.0.3 Uninstalling Jinja2-3.0.3: Successfully uninstalled Jinja2-3.0.3 Attempting uninstall: requests Found existing installation: requests 2.31.0 Uninstalling requests-2.31.0: Successfully uninstalled requests-2.31.0 Attempting uninstall: packaging Found existing installation: packaging 23.1 Uninstalling packaging-23.1: Successfully uninstalled packaging-23.1 Successfully installed SecretStorage-3.3.3 astor-0.8.1 astunparse-1.6.3 backoff-2.2.1 beautifulsoup4-4.12.2 bs4-0.0.1 cffi-1.15.1 click-7.1.2 coloredlogs-15.0.1 contourpy-1.1.0 cryptography-41.0.3 cycler-0.11.0 diskcache-5.4.0 docopt-0.6.2 emod-api-1.29.7 emod-malaria-0.0.54 emodpy-1.21.1 filelock-3.12.2 fonttools-4.42.0 future-0.18.3 geographiclib-2.0 graphviz-0.20.1 humanfriendly-10.0 idmtools-1.7.8 idmtools-models-1.7.8 idmtools-platform-comps-1.7.8 importlib-metadata-6.8.0 importlib-resources-6.0.1 jaraco.classes-3.3.0 jeepney-0.8.0 jinja2-3.1.2 joblib-1.3.2 keyring-24.2.0 kiwisolver-1.4.4 lz4-4.3.2 matplotlib-3.7.2 more-itertools-9.0.0 natsort-8.2.0 numpy-1.24.4 packaging-21.3 pandas-2.0.3 parse-1.19.1 pipreqs-0.4.13 pluggy-1.0.0 prodict-0.8.18 pyCOMPS-2.10.0 pycparser-2.21 pygit2-1.10.1 pyparsing-3.0.9 pyproj-3.5.0 python-dateutil-2.8.2 pyyaml-6.0.1 requests-2.29.0 scikit-learn-1.3.0 scipy-1.10.1 shapely-2.0.1 soupsieve-2.4.1 tabulate-0.9.0 threadpoolctl-3.2.0 tqdm-4.66.0 tzdata-2023.3 urllib3-1.26.16 xdg-6.0.0 yarg-0.1.9 zipp-3.16.2 [rtd-command-info] start-time: 2023-08-09T22:15:44.013013Z, end-time: 2023-08-09T22:15:49.633398Z, duration: 5, exit-code: 0 python -m pip install --exists-action=w --no-cache-dir -r docs/requirements.txt Looking in indexes: 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(line 6)) (3.0.9) Downloading typing_extensions-4.7.1-py3-none-any.whl (33 kB) Installing collected packages: typing-extensions, sphinxext.remoteliteralinclude, sphinxcontrib-qthelp, sphinxcontrib-jsmath, sphinxcontrib-htmlhelp, sphinxcontrib-devhelp, sphinxcontrib-applehelp, readthedocs-sphinx-search, pockets, mdurl, docutils, sphinxcontrib-napoleon, sphinx, plantweb, markdown-it-py, sphinxcontrib-programoutput, sphinx-rtd-theme, sphinx-copybutton, mdit-py-plugins, myst-parser Attempting uninstall: docutils Found existing installation: docutils 0.17.1 Uninstalling docutils-0.17.1: Successfully uninstalled docutils-0.17.1 Attempting uninstall: sphinx Found existing installation: Sphinx 1.8.6 Uninstalling Sphinx-1.8.6: Successfully uninstalled Sphinx-1.8.6 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 docutils-0.16 markdown-it-py-2.2.0 mdit-py-plugins-0.3.5 mdurl-0.1.2 myst-parser-0.18.1 plantweb-1.2.1 pockets-0.9.1 readthedocs-sphinx-search-0.3.1 sphinx-4.4.0 sphinx-copybutton-0.3.3 sphinx-rtd-theme-0.5.2 sphinxcontrib-applehelp-1.0.4 sphinxcontrib-devhelp-1.0.2 sphinxcontrib-htmlhelp-2.0.1 sphinxcontrib-jsmath-1.0.1 sphinxcontrib-napoleon-0.7 sphinxcontrib-programoutput-0.17 sphinxcontrib-qthelp-1.0.3 sphinxext.remoteliteralinclude-0.4.0 typing-extensions-4.7.1 [rtd-command-info] start-time: 2023-08-09T22:15:49.872838Z, end-time: 2023-08-09T22:15:51.634337Z, duration: 1, exit-code: 0 python ./setup.py install --force running install running bdist_egg running egg_info creating emodpy_malaria.egg-info writing emodpy_malaria.egg-info/PKG-INFO writing dependency_links to emodpy_malaria.egg-info/dependency_links.txt writing requirements to emodpy_malaria.egg-info/requires.txt writing top-level names to emodpy_malaria.egg-info/top_level.txt writing manifest file 'emodpy_malaria.egg-info/SOURCES.txt' reading manifest file 'emodpy_malaria.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' adding license file 'LICENSE' writing manifest file 'emodpy_malaria.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/emodpy_malaria copying emodpy_malaria/malaria_vector_species_params.py -> build/lib/emodpy_malaria copying emodpy_malaria/vector_config.py -> build/lib/emodpy_malaria copying emodpy_malaria/malaria_config.py -> build/lib/emodpy_malaria copying emodpy_malaria/__init__.py -> build/lib/emodpy_malaria creating build/lib/tests copying tests/run_all_sft_tests.py -> build/lib/tests copying tests/add_itn.py -> build/lib/tests copying tests/__init__.py -> build/lib/tests copying tests/create_auth_token_args.py -> build/lib/tests creating build/lib/emodpy_malaria/weather copying emodpy_malaria/weather/weather_utils.py -> build/lib/emodpy_malaria/weather copying emodpy_malaria/weather/weather_request.py -> build/lib/emodpy_malaria/weather copying emodpy_malaria/weather/weather_variable.py -> build/lib/emodpy_malaria/weather copying emodpy_malaria/weather/weather_set.py -> build/lib/emodpy_malaria/weather copying emodpy_malaria/weather/data_sources.py -> build/lib/emodpy_malaria/weather copying emodpy_malaria/weather/weather_metadata.py -> build/lib/emodpy_malaria/weather copying emodpy_malaria/weather/weather_data.py -> build/lib/emodpy_malaria/weather copying emodpy_malaria/weather/__init__.py -> build/lib/emodpy_malaria/weather creating build/lib/emodpy_malaria/demographics copying emodpy_malaria/demographics/MalariaDemographics.py -> build/lib/emodpy_malaria/demographics copying emodpy_malaria/demographics/__init__.py -> build/lib/emodpy_malaria/demographics creating build/lib/emodpy_malaria/reporters copying emodpy_malaria/reporters/builtin.py -> build/lib/emodpy_malaria/reporters copying emodpy_malaria/reporters/__init__.py -> build/lib/emodpy_malaria/reporters creating build/lib/emodpy_malaria/vector_migration copying emodpy_malaria/vector_migration/__init__.py -> build/lib/emodpy_malaria/vector_migration copying emodpy_malaria/vector_migration/vector_migration.py -> build/lib/emodpy_malaria/vector_migration creating build/lib/emodpy_malaria/interventions copying emodpy_malaria/interventions/common.py -> build/lib/emodpy_malaria/interventions copying emodpy_malaria/interventions/adherentdrug.py -> build/lib/emodpy_malaria/interventions copying emodpy_malaria/interventions/sugartrap.py -> build/lib/emodpy_malaria/interventions copying emodpy_malaria/interventions/scale_larval_habitats.py -> build/lib/emodpy_malaria/interventions copying emodpy_malaria/interventions/drug.py -> build/lib/emodpy_malaria/interventions copying emodpy_malaria/interventions/usage_dependent_bednet.py -> build/lib/emodpy_malaria/interventions copying emodpy_malaria/interventions/vaccine.py -> build/lib/emodpy_malaria/interventions copying emodpy_malaria/interventions/malaria_challenge.py -> build/lib/emodpy_malaria/interventions copying emodpy_malaria/interventions/larvicide.py -> build/lib/emodpy_malaria/interventions copying emodpy_malaria/interventions/outbreak.py -> build/lib/emodpy_malaria/interventions copying emodpy_malaria/interventions/outdoorrestkill.py -> build/lib/emodpy_malaria/interventions copying emodpy_malaria/interventions/irs.py -> build/lib/emodpy_malaria/interventions copying emodpy_malaria/interventions/community_health_worker.py -> build/lib/emodpy_malaria/interventions copying emodpy_malaria/interventions/__init__.py -> build/lib/emodpy_malaria/interventions copying emodpy_malaria/interventions/inputeir.py -> build/lib/emodpy_malaria/interventions copying emodpy_malaria/interventions/mosquitorelease.py -> build/lib/emodpy_malaria/interventions copying emodpy_malaria/interventions/treatment_seeking.py -> build/lib/emodpy_malaria/interventions copying emodpy_malaria/interventions/spacespraying.py -> build/lib/emodpy_malaria/interventions copying emodpy_malaria/interventions/diag_survey.py -> build/lib/emodpy_malaria/interventions copying emodpy_malaria/interventions/drug_campaign.py -> build/lib/emodpy_malaria/interventions copying emodpy_malaria/interventions/ivermectin.py -> build/lib/emodpy_malaria/interventions copying emodpy_malaria/interventions/bednet.py -> build/lib/emodpy_malaria/interventions creating build/lib/tests/unittests copying tests/unittests/test_treatment_seeking.py -> build/lib/tests/unittests copying tests/unittests/test_malaria_reporters.py -> build/lib/tests/unittests copying tests/unittests/test_malaria_config.py -> build/lib/tests/unittests copying tests/unittests/manifest.py -> build/lib/tests/unittests copying tests/unittests/test_import.py -> build/lib/tests/unittests copying tests/unittests/test_malaria_interventions.py -> build/lib/tests/unittests copying tests/unittests/test_demog.py -> build/lib/tests/unittests copying tests/unittests/test_malaria_interventions_as_files.py -> build/lib/tests/unittests copying tests/unittests/__init__.py -> build/lib/tests/unittests copying tests/unittests/schema_path_file.py -> build/lib/tests/unittests copying tests/unittests/test_campaign_common.py -> build/lib/tests/unittests copying tests/unittests/get_unittest_coverage.py -> build/lib/tests/unittests creating build/lib/tests/unittests/weather copying tests/unittests/weather/test_weather_metadata.py -> build/lib/tests/unittests/weather copying tests/unittests/weather/test_e2e_comps.py -> build/lib/tests/unittests/weather copying tests/unittests/weather/test_e2e.py -> build/lib/tests/unittests/weather copying tests/unittests/weather/__init__.py -> build/lib/tests/unittests/weather copying tests/unittests/weather/test_weather_data.py -> build/lib/tests/unittests/weather copying tests/unittests/weather/test_weather_request.py -> build/lib/tests/unittests/weather copying tests/unittests/weather/test_weather_set.py -> build/lib/tests/unittests/weather copying tests/unittests/weather/test_weather_scenarios.py -> build/lib/tests/unittests/weather copying emodpy_malaria/malaria_drug_params.csv -> build/lib/emodpy_malaria creating build/bdist.linux-x86_64 creating build/bdist.linux-x86_64/egg creating build/bdist.linux-x86_64/egg/emodpy_malaria creating build/bdist.linux-x86_64/egg/emodpy_malaria/weather copying build/lib/emodpy_malaria/weather/weather_utils.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/weather copying build/lib/emodpy_malaria/weather/weather_request.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/weather copying build/lib/emodpy_malaria/weather/weather_variable.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/weather copying build/lib/emodpy_malaria/weather/weather_set.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/weather copying build/lib/emodpy_malaria/weather/data_sources.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/weather copying build/lib/emodpy_malaria/weather/weather_metadata.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/weather copying build/lib/emodpy_malaria/weather/weather_data.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/weather copying build/lib/emodpy_malaria/weather/__init__.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/weather copying build/lib/emodpy_malaria/malaria_vector_species_params.py -> build/bdist.linux-x86_64/egg/emodpy_malaria creating build/bdist.linux-x86_64/egg/emodpy_malaria/demographics copying build/lib/emodpy_malaria/demographics/MalariaDemographics.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/demographics copying build/lib/emodpy_malaria/demographics/__init__.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/demographics copying build/lib/emodpy_malaria/vector_config.py -> build/bdist.linux-x86_64/egg/emodpy_malaria copying build/lib/emodpy_malaria/malaria_config.py -> build/bdist.linux-x86_64/egg/emodpy_malaria creating build/bdist.linux-x86_64/egg/emodpy_malaria/reporters copying build/lib/emodpy_malaria/reporters/builtin.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/reporters copying build/lib/emodpy_malaria/reporters/__init__.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/reporters creating build/bdist.linux-x86_64/egg/emodpy_malaria/vector_migration copying build/lib/emodpy_malaria/vector_migration/__init__.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/vector_migration copying build/lib/emodpy_malaria/vector_migration/vector_migration.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/vector_migration copying build/lib/emodpy_malaria/malaria_drug_params.csv -> build/bdist.linux-x86_64/egg/emodpy_malaria copying build/lib/emodpy_malaria/__init__.py -> build/bdist.linux-x86_64/egg/emodpy_malaria creating build/bdist.linux-x86_64/egg/emodpy_malaria/interventions copying build/lib/emodpy_malaria/interventions/common.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/interventions copying build/lib/emodpy_malaria/interventions/adherentdrug.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/interventions copying build/lib/emodpy_malaria/interventions/sugartrap.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/interventions copying build/lib/emodpy_malaria/interventions/scale_larval_habitats.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/interventions copying build/lib/emodpy_malaria/interventions/drug.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/interventions copying build/lib/emodpy_malaria/interventions/usage_dependent_bednet.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/interventions copying build/lib/emodpy_malaria/interventions/vaccine.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/interventions copying build/lib/emodpy_malaria/interventions/malaria_challenge.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/interventions copying build/lib/emodpy_malaria/interventions/larvicide.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/interventions copying build/lib/emodpy_malaria/interventions/outbreak.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/interventions copying build/lib/emodpy_malaria/interventions/outdoorrestkill.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/interventions copying build/lib/emodpy_malaria/interventions/irs.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/interventions copying build/lib/emodpy_malaria/interventions/community_health_worker.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/interventions copying build/lib/emodpy_malaria/interventions/__init__.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/interventions copying build/lib/emodpy_malaria/interventions/inputeir.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/interventions copying build/lib/emodpy_malaria/interventions/mosquitorelease.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/interventions copying build/lib/emodpy_malaria/interventions/treatment_seeking.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/interventions copying build/lib/emodpy_malaria/interventions/spacespraying.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/interventions copying build/lib/emodpy_malaria/interventions/diag_survey.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/interventions copying build/lib/emodpy_malaria/interventions/drug_campaign.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/interventions copying build/lib/emodpy_malaria/interventions/ivermectin.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/interventions copying build/lib/emodpy_malaria/interventions/bednet.py -> build/bdist.linux-x86_64/egg/emodpy_malaria/interventions creating build/bdist.linux-x86_64/egg/tests copying build/lib/tests/run_all_sft_tests.py -> build/bdist.linux-x86_64/egg/tests copying build/lib/tests/add_itn.py -> build/bdist.linux-x86_64/egg/tests copying build/lib/tests/__init__.py -> build/bdist.linux-x86_64/egg/tests creating build/bdist.linux-x86_64/egg/tests/unittests creating build/bdist.linux-x86_64/egg/tests/unittests/weather copying build/lib/tests/unittests/weather/test_weather_metadata.py -> build/bdist.linux-x86_64/egg/tests/unittests/weather copying build/lib/tests/unittests/weather/test_e2e_comps.py -> build/bdist.linux-x86_64/egg/tests/unittests/weather copying build/lib/tests/unittests/weather/test_e2e.py -> build/bdist.linux-x86_64/egg/tests/unittests/weather copying build/lib/tests/unittests/weather/__init__.py -> build/bdist.linux-x86_64/egg/tests/unittests/weather copying build/lib/tests/unittests/weather/test_weather_data.py -> build/bdist.linux-x86_64/egg/tests/unittests/weather copying build/lib/tests/unittests/weather/test_weather_request.py -> build/bdist.linux-x86_64/egg/tests/unittests/weather copying build/lib/tests/unittests/weather/test_weather_set.py -> build/bdist.linux-x86_64/egg/tests/unittests/weather copying build/lib/tests/unittests/weather/test_weather_scenarios.py -> build/bdist.linux-x86_64/egg/tests/unittests/weather copying build/lib/tests/unittests/test_treatment_seeking.py -> build/bdist.linux-x86_64/egg/tests/unittests copying build/lib/tests/unittests/test_malaria_reporters.py -> build/bdist.linux-x86_64/egg/tests/unittests copying build/lib/tests/unittests/test_malaria_config.py -> build/bdist.linux-x86_64/egg/tests/unittests copying build/lib/tests/unittests/manifest.py -> build/bdist.linux-x86_64/egg/tests/unittests copying build/lib/tests/unittests/test_import.py -> build/bdist.linux-x86_64/egg/tests/unittests copying build/lib/tests/unittests/test_malaria_interventions.py -> build/bdist.linux-x86_64/egg/tests/unittests copying build/lib/tests/unittests/test_demog.py -> build/bdist.linux-x86_64/egg/tests/unittests copying build/lib/tests/unittests/test_malaria_interventions_as_files.py -> build/bdist.linux-x86_64/egg/tests/unittests copying build/lib/tests/unittests/__init__.py -> build/bdist.linux-x86_64/egg/tests/unittests copying build/lib/tests/unittests/schema_path_file.py -> build/bdist.linux-x86_64/egg/tests/unittests copying build/lib/tests/unittests/test_campaign_common.py -> build/bdist.linux-x86_64/egg/tests/unittests copying build/lib/tests/unittests/get_unittest_coverage.py -> build/bdist.linux-x86_64/egg/tests/unittests copying build/lib/tests/create_auth_token_args.py -> build/bdist.linux-x86_64/egg/tests byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/weather/weather_utils.py to weather_utils.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/weather/weather_request.py to weather_request.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/weather/weather_variable.py to weather_variable.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/weather/weather_set.py to weather_set.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/weather/data_sources.py to data_sources.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/weather/weather_metadata.py to weather_metadata.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/weather/weather_data.py to weather_data.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/weather/__init__.py to __init__.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/malaria_vector_species_params.py to malaria_vector_species_params.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/demographics/MalariaDemographics.py to MalariaDemographics.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/demographics/__init__.py to __init__.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/vector_config.py to vector_config.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/malaria_config.py to malaria_config.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/reporters/builtin.py to builtin.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/reporters/__init__.py to __init__.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/vector_migration/__init__.py to __init__.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/vector_migration/vector_migration.py to vector_migration.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/__init__.py to __init__.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/interventions/common.py to common.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/interventions/adherentdrug.py to adherentdrug.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/interventions/sugartrap.py to sugartrap.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/interventions/scale_larval_habitats.py to scale_larval_habitats.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/interventions/drug.py to drug.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/interventions/usage_dependent_bednet.py to usage_dependent_bednet.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/interventions/vaccine.py to vaccine.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/interventions/malaria_challenge.py to malaria_challenge.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/interventions/larvicide.py to larvicide.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/interventions/outbreak.py to outbreak.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/interventions/outdoorrestkill.py to outdoorrestkill.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/interventions/irs.py to irs.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/interventions/community_health_worker.py to community_health_worker.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/interventions/__init__.py to __init__.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/interventions/inputeir.py to inputeir.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/interventions/mosquitorelease.py to mosquitorelease.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/interventions/treatment_seeking.py to treatment_seeking.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/interventions/spacespraying.py to spacespraying.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/interventions/diag_survey.py to diag_survey.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/interventions/drug_campaign.py to drug_campaign.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/interventions/ivermectin.py to ivermectin.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/emodpy_malaria/interventions/bednet.py to bednet.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/tests/run_all_sft_tests.py to run_all_sft_tests.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/tests/add_itn.py to add_itn.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/tests/__init__.py to __init__.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/tests/unittests/weather/test_weather_metadata.py to test_weather_metadata.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/tests/unittests/weather/test_e2e_comps.py to test_e2e_comps.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/tests/unittests/weather/test_e2e.py to test_e2e.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/tests/unittests/weather/__init__.py to __init__.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/tests/unittests/weather/test_weather_data.py to test_weather_data.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/tests/unittests/weather/test_weather_request.py to test_weather_request.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/tests/unittests/weather/test_weather_set.py to test_weather_set.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/tests/unittests/weather/test_weather_scenarios.py to test_weather_scenarios.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/tests/unittests/test_treatment_seeking.py to test_treatment_seeking.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/tests/unittests/test_malaria_reporters.py to test_malaria_reporters.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/tests/unittests/test_malaria_config.py to test_malaria_config.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/tests/unittests/manifest.py to manifest.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/tests/unittests/test_import.py to test_import.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/tests/unittests/test_malaria_interventions.py to test_malaria_interventions.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/tests/unittests/test_demog.py to test_demog.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/tests/unittests/test_malaria_interventions_as_files.py to test_malaria_interventions_as_files.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/tests/unittests/__init__.py to __init__.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/tests/unittests/schema_path_file.py to schema_path_file.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/tests/unittests/test_campaign_common.py to test_campaign_common.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/tests/unittests/get_unittest_coverage.py to get_unittest_coverage.cpython-38.pyc byte-compiling build/bdist.linux-x86_64/egg/tests/create_auth_token_args.py to create_auth_token_args.cpython-38.pyc creating build/bdist.linux-x86_64/egg/EGG-INFO copying emodpy_malaria.egg-info/PKG-INFO -> build/bdist.linux-x86_64/egg/EGG-INFO copying emodpy_malaria.egg-info/SOURCES.txt -> build/bdist.linux-x86_64/egg/EGG-INFO copying emodpy_malaria.egg-info/dependency_links.txt -> build/bdist.linux-x86_64/egg/EGG-INFO copying emodpy_malaria.egg-info/requires.txt -> build/bdist.linux-x86_64/egg/EGG-INFO copying emodpy_malaria.egg-info/top_level.txt -> build/bdist.linux-x86_64/egg/EGG-INFO zip_safe flag not set; analyzing archive contents... emodpy_malaria.__pycache__.malaria_config.cpython-38: module references __file__ tests.__pycache__.run_all_sft_tests.cpython-38: module references __file__ tests.unittests.__pycache__.manifest.cpython-38: module references __file__ tests.unittests.__pycache__.schema_path_file.cpython-38: module references __file__ tests.unittests.__pycache__.test_campaign_common.cpython-38: module references __file__ tests.unittests.__pycache__.test_demog.cpython-38: module references __file__ tests.unittests.__pycache__.test_malaria_config.cpython-38: module references __file__ tests.unittests.__pycache__.test_malaria_interventions.cpython-38: module references __file__ tests.unittests.__pycache__.test_malaria_reporters.cpython-38: module references __file__ tests.unittests.__pycache__.test_treatment_seeking.cpython-38: module references __file__ tests.unittests.weather.__pycache__.__init__.cpython-38: module references __file__ tests.unittests.weather.__pycache__.test_e2e.cpython-38: module references __file__ tests.unittests.weather.__pycache__.test_e2e_comps.cpython-38: module references __file__ tests.unittests.weather.__pycache__.test_weather_data.cpython-38: module references __file__ tests.unittests.weather.__pycache__.test_weather_metadata.cpython-38: module references __file__ tests.unittests.weather.__pycache__.test_weather_request.cpython-38: module references __file__ tests.unittests.weather.__pycache__.test_weather_scenarios.cpython-38: module references __file__ tests.unittests.weather.__pycache__.test_weather_set.cpython-38: module references __file__ creating dist creating 'dist/emodpy_malaria-3.1.21.dev0-py3.8.egg' and adding 'build/bdist.linux-x86_64/egg' to it removing 'build/bdist.linux-x86_64/egg' (and everything under it) Processing emodpy_malaria-3.1.21.dev0-py3.8.egg creating /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages/emodpy_malaria-3.1.21.dev0-py3.8.egg Extracting emodpy_malaria-3.1.21.dev0-py3.8.egg to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Adding emodpy-malaria 3.1.21.dev0 to easy-install.pth file Installed /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages/emodpy_malaria-3.1.21.dev0-py3.8.egg Processing dependencies for emodpy-malaria==3.1.21.dev0 Searching for requests==2.29.0 Best match: requests 2.29.0 Adding requests 2.29.0 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for emod-malaria==0.0.54 Best match: emod-malaria 0.0.54 Adding emod-malaria 0.0.54 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for emodpy==1.21.1 Best match: emodpy 1.21.1 Adding emodpy 1.21.1 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for urllib3==1.26.16 Best match: urllib3 1.26.16 Adding urllib3 1.26.16 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for idna==3.4 Best match: idna 3.4 Adding idna 3.4 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for charset-normalizer==3.2.0 Best match: charset-normalizer 3.2.0 Adding charset-normalizer 3.2.0 to easy-install.pth file Installing normalizer script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/bin Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for certifi==2023.7.22 Best match: certifi 2023.7.22 Adding certifi 2023.7.22 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for astor==0.8.1 Best match: astor 0.8.1 Adding astor 0.8.1 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for idmtools==1.7.8 Best match: idmtools 1.7.8 Adding idmtools 1.7.8 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for matplotlib==3.7.2 Best match: matplotlib 3.7.2 Adding matplotlib 3.7.2 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for bs4==0.0.1 Best match: bs4 0.0.1 Adding bs4 0.0.1 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for idmtools-models==1.7.8 Best match: idmtools-models 1.7.8 Adding idmtools-models 1.7.8 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for astunparse==1.6.3 Best match: astunparse 1.6.3 Adding astunparse 1.6.3 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for emod-api==1.29.7 Best match: emod-api 1.29.7 Adding emod-api 1.29.7 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for click==7.1.2 Best match: click 7.1.2 Adding click 7.1.2 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for pyCOMPS==2.10.0 Best match: pyCOMPS 2.10.0 Adding pyCOMPS 2.10.0 to easy-install.pth file Installing comps-util script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/bin Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for keyring==24.2.0 Best match: keyring 24.2.0 Adding keyring 24.2.0 to easy-install.pth file Installing keyring script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/bin Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for idmtools-platform-comps==1.7.8 Best match: idmtools-platform-comps 1.7.8 Adding idmtools-platform-comps 1.7.8 to easy-install.pth file Installing comps-cli script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/bin Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for backoff==2.2.1 Best match: backoff 2.2.1 Adding backoff 2.2.1 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for filelock==3.12.2 Best match: filelock 3.12.2 Adding filelock 3.12.2 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for packaging==21.3 Best match: packaging 21.3 Adding packaging 21.3 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for numpy==1.24.4 Best match: numpy 1.24.4 Adding numpy 1.24.4 to easy-install.pth file Installing f2py script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/bin Installing f2py3 script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/bin Installing f2py3.8 script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/bin Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for pygit2==1.10.1 Best match: pygit2 1.10.1 Adding pygit2 1.10.1 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for PyYAML==6.0.1 Best match: PyYAML 6.0.1 Adding PyYAML 6.0.1 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for pandas==2.0.3 Best match: pandas 2.0.3 Adding pandas 2.0.3 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for pipreqs==0.4.13 Best match: pipreqs 0.4.13 Adding pipreqs 0.4.13 to easy-install.pth file Installing pipreqs script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/bin Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for Jinja2==3.1.2 Best match: Jinja2 3.1.2 Adding Jinja2 3.1.2 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for tabulate==0.9.0 Best match: tabulate 0.9.0 Adding tabulate 0.9.0 to easy-install.pth file Installing tabulate script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/bin Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for more-itertools==9.0.0 Best match: more-itertools 9.0.0 Adding more-itertools 9.0.0 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for tqdm==4.66.0 Best match: tqdm 4.66.0 Adding tqdm 4.66.0 to easy-install.pth file Installing tqdm script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/bin Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for pluggy==1.0.0 Best match: pluggy 1.0.0 Adding pluggy 1.0.0 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for coloredlogs==15.0.1 Best match: coloredlogs 15.0.1 Adding coloredlogs 15.0.1 to easy-install.pth file Installing coloredlogs script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/bin Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for diskcache==5.4.0 Best match: diskcache 5.4.0 Adding diskcache 5.4.0 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for pyparsing==3.0.9 Best match: pyparsing 3.0.9 Adding pyparsing 3.0.9 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for contourpy==1.1.0 Best match: contourpy 1.1.0 Adding contourpy 1.1.0 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for importlib-resources==6.0.1 Best match: importlib-resources 6.0.1 Adding importlib-resources 6.0.1 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for Pillow==10.0.0 Best match: Pillow 10.0.0 Adding Pillow 10.0.0 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for kiwisolver==1.4.4 Best match: kiwisolver 1.4.4 Adding kiwisolver 1.4.4 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for python-dateutil==2.8.2 Best match: python-dateutil 2.8.2 Adding python-dateutil 2.8.2 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for cycler==0.11.0 Best match: cycler 0.11.0 Adding cycler 0.11.0 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for fonttools==4.42.0 Best match: fonttools 4.42.0 Adding fonttools 4.42.0 to easy-install.pth file Installing fonttools script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/bin Installing pyftmerge script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/bin Installing pyftsubset script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/bin Installing ttx script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/bin Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for beautifulsoup4==4.12.2 Best match: beautifulsoup4 4.12.2 Adding beautifulsoup4 4.12.2 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for six==1.16.0 Best match: six 1.16.0 Adding six 1.16.0 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for wheel==0.41.1 Best match: wheel 0.41.1 Adding wheel 0.41.1 to easy-install.pth file Installing wheel script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/bin Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for scipy==1.10.1 Best match: scipy 1.10.1 Adding scipy 1.10.1 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for scikit-learn==1.3.0 Best match: scikit-learn 1.3.0 Adding scikit-learn 1.3.0 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for pyproj==3.5.0 Best match: pyproj 3.5.0 Adding pyproj 3.5.0 to easy-install.pth file Installing pyproj script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/bin Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for parse==1.19.1 Best match: parse 1.19.1 Adding parse 1.19.1 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for lz4==4.3.2 Best match: lz4 4.3.2 Adding lz4 4.3.2 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for prodict==0.8.18 Best match: prodict 0.8.18 Adding prodict 0.8.18 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for graphviz==0.20.1 Best match: graphviz 0.20.1 Adding graphviz 0.20.1 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for geographiclib==2.0 Best match: geographiclib 2.0 Adding geographiclib 2.0 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for shapely==2.0.1 Best match: shapely 2.0.1 Adding shapely 2.0.1 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for xdg==6.0.0 Best match: xdg 6.0.0 Adding xdg 6.0.0 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for future==0.18.3 Best match: future 0.18.3 Adding future 0.18.3 to easy-install.pth file Installing futurize script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/bin Installing pasteurize script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/bin Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for pytz==2023.3 Best match: pytz 2023.3 Adding pytz 2023.3 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for jeepney==0.8.0 Best match: jeepney 0.8.0 Adding jeepney 0.8.0 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for jaraco.classes==3.3.0 Best match: jaraco.classes 3.3.0 Adding jaraco.classes 3.3.0 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for importlib-metadata==6.8.0 Best match: importlib-metadata 6.8.0 Adding importlib-metadata 6.8.0 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for SecretStorage==3.3.3 Best match: SecretStorage 3.3.3 Adding SecretStorage 3.3.3 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for natsort==8.2.0 Best match: natsort 8.2.0 Adding natsort 8.2.0 to easy-install.pth file Installing natsort script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/bin Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for cffi==1.15.1 Best match: cffi 1.15.1 Adding cffi 1.15.1 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for tzdata==2023.3 Best match: tzdata 2023.3 Adding tzdata 2023.3 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for yarg==0.1.9 Best match: yarg 0.1.9 Adding yarg 0.1.9 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for docopt==0.6.2 Best match: docopt 0.6.2 Adding docopt 0.6.2 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for MarkupSafe==2.1.3 Best match: MarkupSafe 2.1.3 Adding MarkupSafe 2.1.3 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for humanfriendly==10.0 Best match: humanfriendly 10.0 Adding humanfriendly 10.0 to easy-install.pth file Installing humanfriendly script to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/bin Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for zipp==3.16.2 Best match: zipp 3.16.2 Adding zipp 3.16.2 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for soupsieve==2.4.1 Best match: soupsieve 2.4.1 Adding soupsieve 2.4.1 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for joblib==1.3.2 Best match: joblib 1.3.2 Adding joblib 1.3.2 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for threadpoolctl==3.2.0 Best match: threadpoolctl 3.2.0 Adding threadpoolctl 3.2.0 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for cryptography==41.0.3 Best match: cryptography 41.0.3 Adding cryptography 41.0.3 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Searching for pycparser==2.21 Best match: pycparser 2.21 Adding pycparser 2.21 to easy-install.pth file Using /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/envs/latest/lib/python3.8/site-packages Finished processing dependencies for emodpy-malaria==3.1.21.dev0 [rtd-command-info] start-time: 2023-08-09T22:15:55.023955Z, end-time: 2023-08-09T22:15:55.086615Z, 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 from datetime import datetime from urllib.request import urlretrieve 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__))) # Rename "emodpy-malaria" to "API reference" filename = 'modules.rst' # This must match the Makefile with open(filename) as f: # Read existing file lines = f.readlines() lines[0] = "API reference\n" # Blast away the existing heading and replace with this lines[1] = "=============\n" # Ensure the heading is the right length with open(filename, "w") as f: # Write new file f.writelines(lines) # -- General configuration ------------------------------------------------ tags.add('emodpymalaria') # 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', 'sphinx_copybutton', 'sphinx.ext.intersphinx', 'sphinxext.remoteliteralinclude', 'myst_parser', 'sphinx_search.extension' ] plantuml = 'plantweb' autodoc_default_options = { 'member-order': 'bysource', 'members': None, 'exclude-members': '__all__' } autodoc_mock_imports = [] 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'emodpy-malaria' copyright = f'1999 - {datetime.today().year}, Bill & Melinda Gates Foundation. All rights reserved.' author = u'Institute for Disease Modeling' # The version info for the project you're documenting, acts as replacement for # |version| and |release|, also used in various other places throughout the # built documents. # # The short X.Y version. #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 = 'en' # There are two options for replacing |today|: either, you set today to some # non-false value, then it is used: # # today = '' # # Else, today_fmt is used as the format for a strftime call. # # today_fmt = '%B %d, %Y' # List of patterns, relative to source directory, that match files and # directories to ignore when looking for source files. # This patterns also effect to html_static_path and html_extra_path exclude_patterns = ['_build', 'Thumbs.db', '.DS_Store'] # The reST default role (used for this markup: `text`) to use for all # documents. # # default_role = None # If true, '()' will be appended to :func: etc. cross-reference text. # # add_function_parentheses = True # If true, the current module name will be prepended to all description # unit titles (such as .. function::). # # add_module_names = True # If true, sectionauthor and moduleauthor directives will be shown in the # output. They are ignored by default. # # show_authors = False # The name of the Pygments (syntax highlighting) style to use. pygments_style = 'sphinx' # A list of ignored prefixes for module index sorting. # modindex_common_prefix = [] # If true, keep warnings as "system message" paragraphs in the built documents. # keep_warnings = False # If true, `todo` and `todoList` produce output, else they produce nothing. todo_include_todos = False # RST epilog is added to the end of every topic. Useful for replace # directives to use across the docset. rst_epilog = "\n.. include:: /variables.txt" # -- Options for HTML output ---------------------------------------------- # The theme to use for HTML and HTML Help pages. See the 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', '_static/copy_button.css' ] } html_js_files = ['show_block_by_os.js'] # Add any extra paths that contain custom files (such as robots.txt or # .htaccess) here, relative to this directory. These files are copied # directly to the root of the 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 # -- RTD Sphinx search for searching across the entire domain ------------- if os.environ.get('READTHEDOCS') == 'True': search_project_parent = "institute-for-disease-modeling-idm" search_project = os.environ["READTHEDOCS_PROJECT"] search_version = os.environ["READTHEDOCS_VERSION"] rtd_sphinx_search_default_filter = f"subprojects:{search_project_parent}/{search_version}" rtd_sphinx_search_filters = { "Search this project": f"project:{search_project}/{search_version}", "Search all IDM docs": f"subprojects:{search_project_parent}/{search_version}", } # 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 = 'emodpy-malaria' # -- 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, 'emodpy-malaria-docs.tex', u'emodpy-malaria', 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, 'emodpy-malaria-docs', u'emodpy-malaria', [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, 'emodpy-malaria-docs', u'emodpy-malaria', author, 'Institute for Disease Modeling', 'How to use emodpy for malaria 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 = {'python': ('https://docs.python.org/3', None), 'emod_api': ('https://docs.idmod.org/projects/emod-api/en/latest/', None), 'emodpy': ('https://docs.idmod.org/projects/emodpy/en/latest/', None), 'idmtools': ('https://docs.idmod.org/projects/idmtools/en/latest/', None), 'emod-malaria': ('https://docs.idmod.org/projects/emod-malaria/en/latest/', None), 'pycomps': ('https://docs.idmod.org/projects/pycomps/en/latest/', None) } ########################################################################### # auto-created readthedocs.org specific configuration # ########################################################################### # # The following code was added during an automated build on readthedocs.org # It is auto created and injected for every build. The result is based on the # conf.py.tmpl file found in the readthedocs.org codebase: # https://github.com/rtfd/readthedocs.org/blob/main/readthedocs/doc_builder/templates/doc_builder/conf.py.tmpl # # Note: this file shouldn't rely on extra dependencies. import importlib import sys import os.path # Borrowed from six. PY3 = sys.version_info[0] == 3 string_types = str if PY3 else basestring from sphinx import version_info # Get suffix for proper linking to GitHub # This is deprecated in Sphinx 1.3+, # as each page can have its own suffix if globals().get('source_suffix', False): if isinstance(source_suffix, string_types): SUFFIX = source_suffix elif isinstance(source_suffix, (list, tuple)): # Sphinx >= 1.3 supports list/tuple to define multiple suffixes SUFFIX = source_suffix[0] elif isinstance(source_suffix, dict): # Sphinx >= 1.8 supports a mapping dictionary for multiple suffixes SUFFIX = list(source_suffix.keys())[0] # make a ``list()`` for py2/py3 compatibility else: # default to .rst SUFFIX = '.rst' else: SUFFIX = '.rst' # Add RTD Static Path. Add to the end because it overwrites previous files. if not 'html_static_path' in globals(): html_static_path = [] if os.path.exists('_static'): html_static_path.append('_static') # Add RTD Theme only if they aren't overriding it already using_rtd_theme = ( ( 'html_theme' in globals() and html_theme in ['default'] and # Allow people to bail with a hack of having an html_style 'html_style' not in globals() ) or 'html_theme' not in globals() ) if using_rtd_theme: html_theme = 'sphinx_rtd_theme' html_style = None html_theme_options = {} # This following legacy behavior will gradually be sliced out until its deprecated and removed. # Skipped for Sphinx 6+ # Skipped by internal Feature flag SKIP_SPHINX_HTML_THEME_PATH # Skipped by all new projects since SKIP_SPHINX_HTML_THEME_PATH's introduction (jan 2023) if ( using_rtd_theme and version_info < (6,0) and not False ): theme = importlib.import_module('sphinx_rtd_theme') if 'html_theme_path' in globals(): html_theme_path.append(theme.get_html_theme_path()) else: html_theme_path = [theme.get_html_theme_path()] # Define websupport2_base_url and websupport2_static_url if globals().get('websupport2_base_url', False): websupport2_base_url = 'https://readthedocs.com/websupport' websupport2_static_url = 'https://assets.readthedocs.com/' #Add project information to the template context. context = { 'using_theme': using_rtd_theme, 'html_theme': html_theme, 'current_version': "latest", 'version_slug': "latest", 'MEDIA_URL': "https://media.readthedocs.com/media/", 'STATIC_URL': "https://assets.readthedocs.com/", 'PRODUCTION_DOMAIN': "readthedocs.com", 'proxied_static_path': "/_/static/", 'versions': [ ("latest", "/en/latest/"), ("stable", "/en/stable/"), ("v3.1.12", "/en/v3.1.12/"), ("3.1.1", "/en/3.1.1/"), ("2.4.3", "/en/2.4.3/"), ("2.3.6", "/en/2.3.6/"), ("v2.3.1", "/en/v2.3.1/"), ("2.2.1", "/en/2.2.1/"), ("v2.1.1", "/en/v2.1.1/"), ("v2.0.2", "/en/v2.0.2/"), ("v2.0.1", "/en/v2.0.1/"), ("v1.20.2", "/en/v1.20.2/"), ("v1.1.19", "/en/v1.1.19/"), ("v1.1.0", "/en/v1.1.0/"), ("v1.0.10", "/en/v1.0.10/"), ("v1.0.9", "/en/v1.0.9/"), ("v1.0.2", "/en/v1.0.2/"), ("v3.0.1release", "/en/v3.0.1release/"), ("v.2.2.0", "/en/v.2.2.0/"), ("2.3.6release", "/en/2.3.6release/"), ("v0.0.61", "/en/v0.0.61/"), ("v0.0.50", "/en/v0.0.50/"), ("0.0.50", "/en/0.0.50/"), ("v0.0.48", "/en/v0.0.48/"), ("v0.0.45", "/en/v0.0.45/"), ("v0.0.44", "/en/v0.0.44/"), ("v0.0.29", "/en/v0.0.29/"), ("v0.0.18", "/en/v0.0.18/"), ], 'downloads': [ ("pdf", "//docs.idmod.org/_/downloads/emodpy-malaria/en/latest/pdf/"), ("html", "//docs.idmod.org/_/downloads/emodpy-malaria/en/latest/htmlzip/"), ], 'subprojects': [ ], 'slug': 'institute-for-disease-modeling-emodpy-malaria', 'name': u'emodpy-malaria', 'rtd_language': u'en', 'programming_language': u'words', 'canonical_url': '', 'analytics_code': 'G-SVDSQH04EM', 'single_version': False, 'conf_py_path': '/docs/', 'api_host': 'https://readthedocs.com', 'github_user': 'InstituteforDiseaseModeling', 'proxied_api_host': '/_', 'github_repo': 'emodpy-malaria', 'github_version': 'main', 'display_github': True, 'bitbucket_user': 'None', 'bitbucket_repo': 'None', 'bitbucket_version': 'main', 'display_bitbucket': False, 'gitlab_user': 'None', 'gitlab_repo': 'None', 'gitlab_version': 'main', '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': 'G-SVDSQH04EM', 'global_analytics_code': 'UA-17997319-2', 'commit': '5fd95ff1', } # For sphinx >=1.8 we can use html_baseurl to set the canonical URL. # https://www.sphinx-doc.org/en/master/usage/configuration.html#confval-html_baseurl if version_info >= (1, 8): if not globals().get('html_baseurl'): html_baseurl = context['canonical_url'] context['canonical_url'] = None if 'html_context' in globals(): for key in context: if key not in html_context: html_context[key] = context[key] else: html_context = context # Add custom RTD extension if 'extensions' in globals(): # Insert at the beginning because it can interfere # with other extensions. # See https://github.com/rtfd/readthedocs.org/pull/4054 extensions.insert(0, "readthedocs_ext.readthedocs") else: extensions = ["readthedocs_ext.readthedocs"] # Add External version warning banner to the external version documentation if 'branch' == 'external': extensions.insert(1, "readthedocs_ext.external_version_warning") readthedocs_vcs_url = 'None' readthedocs_build_url = 'https://readthedocs.com/projects/institute-for-disease-modeling-emodpy-malaria/builds/1651915/' 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: 2023-08-09T22:15:55.347203Z, end-time: 2023-08-09T22:16:09.310317Z, duration: 13, exit-code: 0 python -m sphinx -T -E -W --keep-going -b html -d _build/doctrees -D language=en . $READTHEDOCS_OUTPUT/html Running Sphinx v4.4.0 loading translations [en]... done making output directory... done loading intersphinx inventory from https://docs.python.org/3/objects.inv... loading intersphinx inventory from https://docs.idmod.org/projects/emod-api/en/latest/objects.inv... loading intersphinx inventory from https://docs.idmod.org/projects/emodpy/en/latest/objects.inv... loading intersphinx inventory from https://docs.idmod.org/projects/idmtools/en/latest/objects.inv... loading intersphinx inventory from https://docs.idmod.org/projects/emod-malaria/en/latest/objects.inv... loading intersphinx inventory from https://docs.idmod.org/projects/pycomps/en/latest/objects.inv... myst v0.18.1: MdParserConfig(commonmark_only=False, gfm_only=False, enable_extensions=[], disable_syntax=[], all_links_external=False, url_schemes=('http', 'https', 'mailto', 'ftp'), ref_domains=None, highlight_code_blocks=True, number_code_blocks=[], title_to_header=False, heading_anchors=None, heading_slug_func=None, footnote_transition=True, words_per_minute=200, sub_delimiters=('{', '}'), linkify_fuzzy_links=True, dmath_allow_labels=True, dmath_allow_space=True, dmath_allow_digits=True, dmath_double_inline=False, update_mathjax=True, mathjax_classes='tex2jax_process|mathjax_process|math|output_area') building [mo]: targets for 0 po files that are out of date building [html]: targets for 45 source files that are out of date updating environment: [new config] 45 added, 0 changed, 0 removed reading sources... [ 2%] emodpy_malaria reading sources... [ 4%] emodpy_malaria.demographics reading sources... [ 6%] emodpy_malaria.demographics.MalariaDemographics reading sources... [ 8%] emodpy_malaria.interventions reading sources... [ 11%] emodpy_malaria.interventions.adherentdrug reading sources... [ 13%] emodpy_malaria.interventions.bednet reading sources... [ 15%] emodpy_malaria.interventions.common reading sources... [ 17%] emodpy_malaria.interventions.community_health_worker reading sources... [ 20%] emodpy_malaria.interventions.diag_survey reading sources... [ 22%] emodpy_malaria.interventions.drug reading sources... [ 24%] emodpy_malaria.interventions.drug_campaign reading sources... [ 26%] emodpy_malaria.interventions.inputeir reading sources... [ 28%] emodpy_malaria.interventions.irs reading sources... [ 31%] emodpy_malaria.interventions.ivermectin reading sources... [ 33%] emodpy_malaria.interventions.larvicide reading sources... 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[ 97%] installation-basic reading sources... [100%] modules looking for now-outdated files... none found pickling environment... done checking consistency... done preparing documents... done writing output... [ 2%] emodpy_malaria writing output... [ 4%] emodpy_malaria.demographics writing output... [ 6%] emodpy_malaria.demographics.MalariaDemographics writing output... [ 8%] emodpy_malaria.interventions writing output... [ 11%] emodpy_malaria.interventions.adherentdrug writing output... [ 13%] emodpy_malaria.interventions.bednet writing output... [ 15%] emodpy_malaria.interventions.common writing output... [ 17%] emodpy_malaria.interventions.community_health_worker writing output... [ 20%] emodpy_malaria.interventions.diag_survey writing output... [ 22%] emodpy_malaria.interventions.drug writing output... [ 24%] emodpy_malaria.interventions.drug_campaign writing output... [ 26%] emodpy_malaria.interventions.inputeir writing output... 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[100%] modules generating indices... genindex py-modindex done writing additional pages... search opensearch done 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 ../_readthedocs/html. Updating searchtools for Read the Docs search... [rtd-command-info] start-time: 2023-08-09T22:16:09.563780Z, end-time: 2023-08-09T22:16:22.266498Z, duration: 12, exit-code: 0 python -m sphinx -T -E -W --keep-going -b readthedocssinglehtmllocalmedia -d _build/doctrees -D language=en . $READTHEDOCS_OUTPUT/htmlzip Running Sphinx v4.4.0 loading translations [en]... done making output directory... done loading intersphinx inventory from https://docs.python.org/3/objects.inv... loading intersphinx inventory from https://docs.idmod.org/projects/emod-api/en/latest/objects.inv... loading intersphinx inventory from https://docs.idmod.org/projects/emodpy/en/latest/objects.inv... loading intersphinx inventory from https://docs.idmod.org/projects/idmtools/en/latest/objects.inv... loading intersphinx inventory from https://docs.idmod.org/projects/emod-malaria/en/latest/objects.inv... loading intersphinx inventory from https://docs.idmod.org/projects/pycomps/en/latest/objects.inv... myst v0.18.1: MdParserConfig(commonmark_only=False, gfm_only=False, enable_extensions=[], disable_syntax=[], all_links_external=False, url_schemes=('http', 'https', 'mailto', 'ftp'), ref_domains=None, highlight_code_blocks=True, number_code_blocks=[], title_to_header=False, heading_anchors=None, heading_slug_func=None, footnote_transition=True, words_per_minute=200, sub_delimiters=('{', '}'), linkify_fuzzy_links=True, dmath_allow_labels=True, dmath_allow_space=True, dmath_allow_digits=True, dmath_double_inline=False, update_mathjax=True, mathjax_classes='tex2jax_process|mathjax_process|math|output_area') building [mo]: targets for 0 po files that are out of date building [readthedocssinglehtmllocalmedia]: all documents updating environment: [new config] 45 added, 0 changed, 0 removed reading sources... [ 2%] emodpy_malaria reading sources... [ 4%] emodpy_malaria.demographics reading sources... [ 6%] emodpy_malaria.demographics.MalariaDemographics reading sources... [ 8%] emodpy_malaria.interventions reading sources... [ 11%] emodpy_malaria.interventions.adherentdrug reading sources... [ 13%] emodpy_malaria.interventions.bednet reading sources... [ 15%] emodpy_malaria.interventions.common reading sources... [ 17%] emodpy_malaria.interventions.community_health_worker reading sources... [ 20%] emodpy_malaria.interventions.diag_survey reading sources... [ 22%] emodpy_malaria.interventions.drug reading sources... [ 24%] emodpy_malaria.interventions.drug_campaign reading sources... [ 26%] emodpy_malaria.interventions.inputeir reading sources... [ 28%] emodpy_malaria.interventions.irs reading sources... [ 31%] emodpy_malaria.interventions.ivermectin reading sources... [ 33%] emodpy_malaria.interventions.larvicide reading sources... 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[100%] modules looking for now-outdated files... none found pickling environment... done checking consistency... done preparing documents... done assembling single document... installation installation-basic modules emodpy_malaria emodpy_malaria.demographics emodpy_malaria.demographics.MalariaDemographics emodpy_malaria.interventions emodpy_malaria.interventions.adherentdrug emodpy_malaria.interventions.bednet emodpy_malaria.interventions.common emodpy_malaria.interventions.community_health_worker emodpy_malaria.interventions.diag_survey emodpy_malaria.interventions.drug emodpy_malaria.interventions.drug_campaign emodpy_malaria.interventions.inputeir emodpy_malaria.interventions.irs emodpy_malaria.interventions.ivermectin emodpy_malaria.interventions.larvicide emodpy_malaria.interventions.malaria_challenge emodpy_malaria.interventions.mosquitorelease emodpy_malaria.interventions.outbreak emodpy_malaria.interventions.outdoorrestkill emodpy_malaria.interventions.scale_larval_habitats emodpy_malaria.interventions.spacespraying emodpy_malaria.interventions.sugartrap emodpy_malaria.interventions.treatment_seeking emodpy_malaria.interventions.usage_dependent_bednet emodpy_malaria.interventions.vaccine emodpy_malaria.reporters emodpy_malaria.reporters.builtin emodpy_malaria.vector_migration emodpy_malaria.vector_migration.vector_migration emodpy_malaria.weather emodpy_malaria.weather.data_sources emodpy_malaria.weather.weather_data emodpy_malaria.weather.weather_metadata emodpy_malaria.weather.weather_request emodpy_malaria.weather.weather_set emodpy_malaria.weather.weather_utils emodpy_malaria.weather.weather_variable emodpy_malaria.malaria_config emodpy_malaria.malaria_vector_species_params emodpy_malaria.vector_config faq 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 ../_readthedocs/htmlzip. Updating searchtools for Read the Docs search... [rtd-command-info] start-time: 2023-08-09T22:16:23.452523Z, end-time: 2023-08-09T22:16:35.750407Z, duration: 12, exit-code: 0 python -m sphinx -T -E -b latex -d _build/doctrees -D language=en . $READTHEDOCS_OUTPUT/pdf Running Sphinx v4.4.0 loading translations [en]... done making output directory... done loading intersphinx inventory from https://docs.python.org/3/objects.inv... loading intersphinx inventory from https://docs.idmod.org/projects/emod-api/en/latest/objects.inv... loading intersphinx inventory from https://docs.idmod.org/projects/emodpy/en/latest/objects.inv... loading intersphinx inventory from https://docs.idmod.org/projects/idmtools/en/latest/objects.inv... loading intersphinx inventory from https://docs.idmod.org/projects/emod-malaria/en/latest/objects.inv... loading intersphinx inventory from https://docs.idmod.org/projects/pycomps/en/latest/objects.inv... myst v0.18.1: MdParserConfig(commonmark_only=False, gfm_only=False, enable_extensions=[], disable_syntax=[], all_links_external=False, url_schemes=('http', 'https', 'mailto', 'ftp'), ref_domains=None, highlight_code_blocks=True, number_code_blocks=[], title_to_header=False, heading_anchors=None, heading_slug_func=None, footnote_transition=True, words_per_minute=200, sub_delimiters=('{', '}'), linkify_fuzzy_links=True, dmath_allow_labels=True, dmath_allow_space=True, dmath_allow_digits=True, dmath_double_inline=False, update_mathjax=True, mathjax_classes='tex2jax_process|mathjax_process|math|output_area') building [mo]: targets for 0 po files that are out of date building [latex]: all documents updating environment: [new config] 45 added, 0 changed, 0 removed reading sources... [ 2%] emodpy_malaria reading sources... [ 4%] emodpy_malaria.demographics reading sources... [ 6%] emodpy_malaria.demographics.MalariaDemographics reading sources... [ 8%] emodpy_malaria.interventions reading sources... [ 11%] emodpy_malaria.interventions.adherentdrug reading sources... [ 13%] emodpy_malaria.interventions.bednet reading sources... [ 15%] emodpy_malaria.interventions.common reading sources... [ 17%] emodpy_malaria.interventions.community_health_worker reading sources... [ 20%] emodpy_malaria.interventions.diag_survey reading sources... [ 22%] emodpy_malaria.interventions.drug reading sources... [ 24%] emodpy_malaria.interventions.drug_campaign reading sources... [ 26%] emodpy_malaria.interventions.inputeir reading sources... [ 28%] emodpy_malaria.interventions.irs reading sources... [ 31%] emodpy_malaria.interventions.ivermectin reading sources... [ 33%] emodpy_malaria.interventions.larvicide reading sources... [ 35%] emodpy_malaria.interventions.malaria_challenge reading sources... [ 37%] emodpy_malaria.interventions.mosquitorelease reading sources... [ 40%] emodpy_malaria.interventions.outbreak reading sources... [ 42%] emodpy_malaria.interventions.outdoorrestkill reading sources... [ 44%] emodpy_malaria.interventions.scale_larval_habitats reading sources... [ 46%] emodpy_malaria.interventions.spacespraying reading sources... [ 48%] emodpy_malaria.interventions.sugartrap reading sources... [ 51%] emodpy_malaria.interventions.treatment_seeking reading sources... [ 53%] emodpy_malaria.interventions.usage_dependent_bednet reading sources... [ 55%] emodpy_malaria.interventions.vaccine reading sources... [ 57%] emodpy_malaria.malaria_config reading sources... [ 60%] emodpy_malaria.malaria_vector_species_params reading sources... [ 62%] emodpy_malaria.reporters reading sources... [ 64%] emodpy_malaria.reporters.builtin /!\ WARNING: File 'idmtools.ini' Not Found! For details on how to configure idmtools, see https://docs.idmod.org/projects/idmtools/en/v1.7.8/configuration.html for details on how to configure idmtools. reading sources... [ 66%] emodpy_malaria.vector_config reading sources... [ 68%] emodpy_malaria.vector_migration reading sources... [ 71%] emodpy_malaria.vector_migration.vector_migration reading sources... [ 73%] emodpy_malaria.weather reading sources... [ 75%] emodpy_malaria.weather.data_sources reading sources... [ 77%] emodpy_malaria.weather.weather_data reading sources... [ 80%] emodpy_malaria.weather.weather_metadata reading sources... [ 82%] emodpy_malaria.weather.weather_request reading sources... [ 84%] emodpy_malaria.weather.weather_set reading sources... [ 86%] emodpy_malaria.weather.weather_utils reading sources... [ 88%] emodpy_malaria.weather.weather_variable reading sources... [ 91%] faq reading sources... [ 93%] index reading sources... [ 95%] installation reading sources... 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[100%] modules looking for now-outdated files... none found pickling environment... done checking consistency... done processing emodpy-malaria-docs.tex... index installation installation-basic modules emodpy_malaria emodpy_malaria.demographics emodpy_malaria.demographics.MalariaDemographics emodpy_malaria.interventions emodpy_malaria.interventions.adherentdrug emodpy_malaria.interventions.bednet emodpy_malaria.interventions.common emodpy_malaria.interventions.community_health_worker emodpy_malaria.interventions.diag_survey emodpy_malaria.interventions.drug emodpy_malaria.interventions.drug_campaign emodpy_malaria.interventions.inputeir emodpy_malaria.interventions.irs emodpy_malaria.interventions.ivermectin emodpy_malaria.interventions.larvicide emodpy_malaria.interventions.malaria_challenge emodpy_malaria.interventions.mosquitorelease emodpy_malaria.interventions.outbreak emodpy_malaria.interventions.outdoorrestkill emodpy_malaria.interventions.scale_larval_habitats emodpy_malaria.interventions.spacespraying emodpy_malaria.interventions.sugartrap emodpy_malaria.interventions.treatment_seeking emodpy_malaria.interventions.usage_dependent_bednet emodpy_malaria.interventions.vaccine emodpy_malaria.reporters emodpy_malaria.reporters.builtin emodpy_malaria.vector_migration emodpy_malaria.vector_migration.vector_migration emodpy_malaria.weather emodpy_malaria.weather.data_sources emodpy_malaria.weather.weather_data emodpy_malaria.weather.weather_metadata emodpy_malaria.weather.weather_request emodpy_malaria.weather.weather_set emodpy_malaria.weather.weather_utils emodpy_malaria.weather.weather_variable emodpy_malaria.malaria_config emodpy_malaria.malaria_vector_species_params emodpy_malaria.vector_config faq resolving references... done writing... done copying TeX support files... copying TeX support files... done build succeeded. The LaTeX files are in ../_readthedocs/pdf. Run 'make' in that directory to run these through (pdf)latex (use `make latexpdf' here to do that automatically). WARNING: Missing searchtools: /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-emodpy-malaria/checkouts/latest/_readthedocs/pdf/_static/searchtools.js [rtd-command-info] start-time: 2023-08-09T22:16:36.027951Z, end-time: 2023-08-09T22:16:36.114263Z, 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: 2023-08-09T22:16:36.911409Z, end-time: 2023-08-09T22:16:42.262411Z, duration: 5, exit-code: 0 latexmk -r latexmkrc -pdf -f -dvi- -ps- -jobname=institute-for-disease-modeling-emodpy-malaria -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' ------------ ------------ Running 'pdflatex -interaction=nonstopmode -recorder --jobname="institute-for-disease-modeling-emodpy-malaria" "emodpy-malaria-docs.tex"' ------------ Latexmk: applying rule 'pdflatex'... This is pdfTeX, Version 3.14159265-2.6-1.40.18 (TeX Live 2017/Debian) (preloaded format=pdflatex) restricted \write18 enabled. entering extended mode (./emodpy-malaria-docs.tex LaTeX2e <2017-04-15> Babel <3.18> and hyphenation patterns for 84 language(s) loaded. 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(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/texmf/tex/latex/tex-gyre/t1qhv.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. LaTeX Warning: Hyper reference `installation-basic::doc' on page 3 undefined on input line 105. (/usr/share/texmf/tex/latex/tex-gyre/ts1qtm.fd) (/usr/share/texlive/texmf-dist/tex/latex/txfonts/t1txtt.fd) [3] [4] Chapter 2. Overfull \hbox (57.31381pt too wide) in paragraph at lines 258--258 \T1/qtm/m/it/10 clude_biting_heterogeneity=True\T1/txtt/m/n/10 )| Underfull \hbox (badness 5274) in paragraph at lines 305--308 []\T1/qtm/m/n/10 Set ini-tial risk for low-medium trans-mis-sion set-tings per: [][]$https : / / wiki . idmod . org / display / MAL / [5] Overfull \hbox (20.56392pt too wide) in paragraph at lines 413--413 \T1/qtm/m/it/10 clude_biting_heterogeneity=True\T1/txtt/m/n/10 )| LaTeX Warning: Hyper reference `emodpy_malaria.demographics.MalariaDemographics :module-emodpy_malaria.demographics.MalariaDemographics' on page 6 undefined on input line 415. 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[7] [8] [9] Underfull \hbox (badness 10000) in paragraph at lines 733--736 []\T1/txtt/bx/n/10 repetitions \T1/qtm/m/n/10 ^^U The num-ber of times an in-te r-ven-tion is given, used with Underfull \hbox (badness 10000) in paragraph at lines 743--747 []\T1/txtt/bx/n/10 ind_property_restrictions \T1/qtm/m/n/10 ^^U A list of dic-t io-nar-ies of In-di-vid-u-al-Prop-er-ties, Underfull \hbox (badness 10000) in paragraph at lines 743--747 \T1/qtm/b/n/10 erty_Restrictions_Within_Node\T1/qtm/m/n/10 . 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In the for-mat \T1 /txtt/m/n/10 [{ "BitingRisk":"High"}, [12] Overfull \hbox (27.94388pt too wide) in paragraph at lines 985--985 \T1/qtm/m/it/10 timesteps_between_repetitions: Overfull \hbox (8.55386pt too wide) in paragraph at lines 985--985 \T1/qtm/m/it/10 ind_property_restrictions: Overfull \hbox (4.09389pt too wide) in paragraph at lines 985--985 \T1/qtm/m/it/10 out_on_first_occurrence: [13] Underfull \hbox (badness 10000) in paragraph at lines 1026--1029 []\T1/txtt/bx/n/10 repetitions \T1/qtm/m/n/10 ^^U The num-ber of times an in-te r-ven-tion is given, used with Underfull \hbox (badness 10000) in paragraph at lines 1036--1039 []\T1/txtt/bx/n/10 ind_property_restrictions \T1/qtm/m/n/10 ^^U A list of dic-t io-nar-ies of In-di-vid-u-al-Prop-er-ties, [14] Underfull \hbox (badness 10000) in paragraph at lines 1129--1132 []\T1/txtt/bx/n/10 repetitions \T1/qtm/m/n/10 ^^U The num-ber of times an in-te r-ven-tion is given, used with Underfull \hbox (badness 10000) in paragraph at lines 1139--1142 []\T1/txtt/bx/n/10 ind_property_restrictions \T1/qtm/m/n/10 ^^U A list of dic-t io-nar-ies of In-di-vid-u-al-Prop-er-ties, Overfull \hbox (31.3137pt too wide) in paragraph at lines 1186--1186 \T1/qtm/m/it/10 ger_condition_list: Overfull \hbox (29.93373pt too wide) in paragraph at lines 1186--1186 \T1/qtm/m/it/10 graphic_coverage: Overfull \hbox (61.05371pt too wide) in paragraph at lines 1186--1186 \T1/qtm/m/it/10 ind_property_restrictions: Overfull \hbox (9.43373pt too wide) in paragraph at lines 1186--1186 \T1/qtm/m/it/10 get_age_min: Overfull \hbox (11.09373pt too wide) in paragraph at lines 1186--1186 \T1/qtm/m/it/10 get_age_max: Overfull \hbox (2.46371pt too wide) in paragraph at lines 1186--1186 \T1/qtm/m/it/10 get_gender: Overfull \hbox (6.86372pt too wide) in paragraph at lines 1186--1186 \T1/qtm/m/it/10 tial_amount: Overfull \hbox (42.41373pt too wide) in paragraph at lines 1186--1186 \T1/qtm/m/it/10 amount_in_shipment: Overfull \hbox (7.99374pt too wide) in paragraph at lines 1186--1186 \T1/qtm/m/it/10 2147480000\T1/qtm/m/n/10 , Overfull \hbox (59.27374pt too wide) in paragraph at lines 1186--1186 \T1/qtm/m/it/10 days_between_shipments: Overfull \hbox (11.68375pt too wide) in paragraph at lines 1186--1186 \T1/qtm/m/it/10 3.40282e+38\T1/qtm/m/n/10 , Overfull \hbox (3.82375pt too wide) in paragraph at lines 1186--1186 \T1/qtm/m/it/10 tion_config: Overfull \hbox (1.05374pt too wide) in paragraph at lines 1186--1186 \T1/qtm/m/it/10 tional[][][any] Overfull \hbox (60.84373pt too wide) in paragraph at lines 1186--1186 \T1/qtm/m/it/10 max_distributed_per_day: Overfull \hbox (7.99374pt too wide) in paragraph at lines 1186--1186 \T1/qtm/m/it/10 2147480000\T1/qtm/m/n/10 , Overfull \hbox (0.53372pt too wide) in paragraph at lines 1186--1186 \T1/qtm/m/it/10 max_stock: Overfull \hbox (7.99374pt too wide) in paragraph at lines 1186--1186 \T1/qtm/m/it/10 2147480000\T1/qtm/m/n/10 , Overfull \hbox (2.71375pt too wide) in paragraph at lines 1186--1186 \T1/qtm/m/it/10 ing_period: [15] [16] Overfull \vbox (11.56755pt too high) has occurred while \output is active [17] Underfull \hbox (badness 10000) in paragraph at lines 1219--1222 []\T1/txtt/bx/n/10 ind_property_restrictions \T1/qtm/m/n/10 ^^U A list of dic-t io-nar-ies of In-di-vid-u-al-Prop-er-ties, [18] Underfull \hbox (badness 10000) in paragraph at lines 1331--1336 []\T1/txtt/bx/n/10 diagnostic_type \T1/qtm/m/n/10 ^^U Type of malaria di-ag-nos -tic used. 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Underfull \hbox (badness 10000) in paragraph at lines 1936--1940 []\T1/qtm/m/n/10 Add an fMDA (fo-cal mass drug ad-min-is-tra-tion) drug in-ter- ven-tion to your cam-paign. See [26] Overfull \hbox (40.98413pt too wide) in paragraph at lines 1952--1952 \T1/qtm/m/it/10 tional[][][emod_api.interventions.common.BroadcastEvent] Overfull \hbox (70.38412pt too wide) in paragraph at lines 1952--1952 \T1/qtm/m/it/10 tional[][][emod_api.interventions.common.PropertyValueChanger] LaTeX Warning: Hyper reference `emodpy_malaria.interventions.drug_campaign:emod py_malaria.interventions.drug_campaign.add_drug_campaign' on page 27 undefined on input line 1955. Overfull \hbox (35.73415pt too wide) in paragraph at lines 1969--1969 \T1/qtm/m/it/10 tional[][][emod_api.interventions.common.BroadcastEvent] Overfull \hbox (65.13414pt too wide) in paragraph at lines 1969--1969 \T1/qtm/m/it/10 tional[][][emod_api.interventions.common.PropertyValueChanger] LaTeX Warning: Hyper reference `emodpy_malaria.interventions.drug_campaign:emod py_malaria.interventions.drug_campaign.add_drug_campaign' on page 27 undefined on input line 1972. [27] [28] Underfull \hbox (badness 10000) in paragraph at lines 2110--2115 []\T1/txtt/bx/n/10 ind_property_restrictions \T1/qtm/m/n/10 ^^U List of In-di-v id-u-al-Prop-erty key:value Underfull \hbox (badness 10000) in paragraph at lines 2110--2115 \T1/qtm/m/n/10 pairs that in-di-vid-u-als must have to re-ceive the di-ag-nos-t ic in-ter-ven- Underfull \hbox (badness 10000) in paragraph at lines 2110--2115 \T1/qtm/m/n/10 tion. For ex-am-ple, \T1/txtt/m/n/10 [{"IndividualProperty1":"Pr opertyValue1"}, [29] Overfull \hbox (26.20386pt too wide) in paragraph at lines 2235--2235 \T1/qtm/m/it/10 killing_decay_time_constant: Overfull \hbox (28.42386pt too wide) in paragraph at lines 2235--2235 \T1/qtm/m/it/10 pelling_decay_time_constant: [30] [31] Overfull \hbox (26.20386pt too wide) in paragraph at lines 2326--2326 \T1/qtm/m/it/10 killing_decay_time_constant: Overfull \hbox (28.42386pt too wide) in paragraph at lines 2326--2326 \T1/qtm/m/it/10 pelling_decay_time_constant: [32] [33] [34] [35] Underfull \hbox (badness 10000) in paragraph at lines 2544--2547 []\T1/txtt/bx/n/10 repetitions \T1/qtm/m/n/10 ^^U The num-ber of times an in-te r-ven-tion is given, used with Underfull \hbox (badness 10000) in paragraph at lines 2554--2557 []\T1/txtt/bx/n/10 ind_property_restrictions \T1/qtm/m/n/10 ^^U A list of dic-t io-nar-ies of In-di-vid-u-al-Prop-er-ties, [36] Underfull \hbox (badness 10000) in paragraph at lines 2657--2660 []\T1/txtt/bx/n/10 ind_property_restrictions \T1/qtm/m/n/10 ^^U A list of dic-t io-nar-ies of In-di-vid-u-al-Prop-er-ties, [37] Underfull \hbox (badness 10000) in paragraph at lines 2747--2750 []\T1/txtt/bx/n/10 habitat_target \T1/qtm/m/n/10 ^^U Pos-si-ble val-ues are: ^^ PTEM-PO-RARY_RAINFALL^^Q, ^^PWA- Underfull \hbox (badness 10000) in paragraph at lines 2747--2750 \T1/qtm/m/n/10 TER_VEGETATION^^Q, ^^PHU-MAN_POPULATION^^Q, ^^PCON-STANT^^Q, ^^P BRACK- [38] [39] Overfull \hbox (54.1938pt too wide) in paragraph at lines 2855--2855 \T1/qtm/m/it/10 timesteps_between_repetitions: Overfull \hbox (1.7138pt too wide) in paragraph at lines 2855--2855 \T1/qtm/m/it/10 leased_infectious: Overfull \hbox (19.54382pt too wide) in paragraph at lines 2855--2855 \T1/qtm/m/it/10 leased_microsporidia: Underfull \hbox (badness 10000) in paragraph at lines 2876--2879 []\T1/txtt/bx/n/10 repetitions \T1/qtm/m/n/10 ^^U The num-ber of times an in-te r-ven-tion is given, used with Underfull \hbox (badness 7576) in paragraph at lines 2892--2894 []\T1/txtt/bx/n/10 released_number \T1/qtm/m/n/10 ^^U The num-ber of vec-tors t o re-lease, sets Re-leased_Type = [40] Underfull \hbox (badness 10000) in paragraph at lines 2903--2906 []\T1/txtt/bx/n/10 released_infectious \T1/qtm/m/n/10 ^^U The frac-tion of vec- tors re-leased that Underfull \hbox (badness 10000) in paragraph at lines 2903--2906 \T1/qtm/m/n/10 are to be in-fec-tious. One can only use this fea-ture when Overfull \hbox (16.29498pt too wide) in paragraph at lines 2903--2906 \T1/qtm/m/n/10 `Malaria_Model'!='MALARIA_MECHANISTIC_MODEL_WITH_PARASITE_GENETI CS' [41] Underfull \hbox (badness 10000) in paragraph at lines 2999--3002 []\T1/txtt/bx/n/10 repetitions \T1/qtm/m/n/10 ^^U The num-ber of times an in-te r-ven-tion is given, used with Underfull \hbox (badness 10000) in paragraph at lines 3009--3012 []\T1/txtt/bx/n/10 ind_property_restrictions \T1/qtm/m/n/10 ^^U A list of dic-t io-nar-ies of In-di-vid-u-al-Prop-er-ties, Overfull \hbox (12.19392pt too wide) in paragraph at lines 3062--3062 \T1/qtm/m/it/10 timesteps_between_repetitions: Overfull \hbox (14.34396pt too wide) in paragraph at lines 3062--3062 \T1/qtm/m/it/10 ate_nucleotide_sequence_from: Overfull \hbox (79.13393pt too wide) in paragraph at lines 3062--3062 \T1/qtm/m/it/10 code_allele_frequencies_per_genome_location: Overfull \hbox (118.29388pt too wide) in paragraph at lines 3062--3062 \T1/qtm/m/it/10 drug_resistant_allele_frequencies_per_genome_location: Overfull \hbox (74.29391pt too wide) in paragraph at lines 3062--3062 \T1/qtm/m/it/10 hrp_allele_frequencies_per_genome_location: [42] [43] Underfull \hbox (badness 10000) in paragraph at lines 3095--3098 []\T1/txtt/bx/n/10 repetitions \T1/qtm/m/n/10 ^^U The num-ber of times an in-te r-ven-tion is given, used with Underfull \hbox (badness 10000) in paragraph at lines 3105--3108 []\T1/txtt/bx/n/10 ind_property_restrictions \T1/qtm/m/n/10 ^^U A list of dic-t io-nar-ies of In-di-vid-u-al-Prop-er-ties, Underfull \hbox (badness 10000) in paragraph at lines 3146--3152 []\T1/txtt/bx/n/10 drug_resistant_string \T1/qtm/m/n/10 ^^U Used with `BAR-CODE _STRING' or `NU- Underfull \hbox (badness 10000) in paragraph at lines 3167--3173 []\T1/txtt/bx/n/10 barcode_allele_frequencies_per_genome_location \T1/qtm/m/n/1 0 ^^U Used with `AL- [44] Underfull \hbox (badness 10000) in paragraph at lines 3183--3188 []\T1/txtt/bx/n/10 hrp_allele_frequencies_per_genome_location \T1/qtm/m/n/10 ^^ U Used with `AL- Overfull \hbox (17.44391pt too wide) in paragraph at lines 3213--3213 \T1/qtm/m/it/10 timesteps_between_repetitions: [45] Underfull \hbox (badness 10000) in paragraph at lines 3246--3249 []\T1/txtt/bx/n/10 repetitions \T1/qtm/m/n/10 ^^U The num-ber of times an in-te r-ven-tion is given, used with Underfull \hbox (badness 10000) in paragraph at lines 3256--3259 []\T1/txtt/bx/n/10 ind_property_restrictions \T1/qtm/m/n/10 ^^U A list of dic-t io-nar-ies of In-di-vid-u-al-Prop-er-ties, [46] Underfull \hbox (badness 10000) in paragraph at lines 3344--3347 []\T1/txtt/bx/n/10 repetitions \T1/qtm/m/n/10 ^^U The num-ber of times an in-te r-ven-tion is given, used with Underfull \hbox (badness 10000) in paragraph at lines 3354--3357 []\T1/txtt/bx/n/10 ind_property_restrictions \T1/qtm/m/n/10 ^^U A list of dic-t io-nar-ies of In-di-vid-u-al-Prop-er-ties, [47] Overfull \hbox (59.44379pt too wide) in paragraph at lines 3444--3444 \T1/qtm/m/it/10 timesteps_between_repetitions: [48] Overfull \hbox (69.94376pt too wide) in paragraph at lines 3521--3521 \T1/qtm/m/it/10 timesteps_between_repetitions: [49] Underfull \hbox (badness 10000) in paragraph at lines 3555--3558 []\T1/txtt/bx/n/10 repetitions \T1/qtm/m/n/10 ^^U The num-ber of times an in-te r-ven-tion is given, used with Overfull \hbox (33.19386pt too wide) in paragraph at lines 3580--3580 \T1/qtm/m/it/10 timesteps_between_repetitions: Overfull \hbox (26.16386pt too wide) in paragraph at lines 3580--3580 \T1/qtm/m/it/10 killing_decay_time_constant: Underfull \hbox (badness 10000) in paragraph at lines 3596--3599 []\T1/txtt/bx/n/10 repetitions \T1/qtm/m/n/10 ^^U The num-ber of times an in-te r-ven-tion is given, used with [50] [51] Underfull \hbox (badness 10000) in paragraph at lines 3714--3717 []\T1/txtt/bx/n/10 repetitions \T1/qtm/m/n/10 ^^U The num-ber of times an in-te r-ven-tion is given, used with [52] Overfull \hbox (5.13391pt too wide) in paragraph at lines 3816--3816 \T1/qtm/m/it/10 drug_ineligibility_duration: Underfull \hbox (badness 10000) in paragraph at lines 3822--3831 []\T1/qtm/m/n/10 tar-gets is a list of dic-tio-nar-ies defin-ing the trig-ger e vent and cov-er-age for and prop-er- Underfull \hbox (badness 10000) in paragraph at lines 3822--3831 \T1/qtm/m/n/10 ties of in-di-vid-u-als to tar-get with the in-ter-ven-tion with all pos-si-ble op-tions be-ing: [{^^Ptrig- Underfull \hbox (badness 7685) in paragraph at lines 3822--3831 \T1/qtm/m/n/10 ger^^Q:^^QNewClinicalCase^^Q,^^Qcoverage^^Q:0.8,^^Qagemin^^Q:15, ^^Qagemax^^Q:70, ^^Prate^^Q:0.3}] ^^Prate^^Q is the in-verse of [53] Underfull \hbox (badness 10000) in paragraph at lines 3875--3877 []\T1/txtt/bx/n/10 example, \T1/qtm/m/n/10 (\T1/txtt/m/sl/10 individuals must h ave to receive the Underfull \hbox (badness 10000) in paragraph at lines 3875--3877 \T1/txtt/m/sl/10 intervention. For\T1/qtm/m/n/10 ) ^^U \T1/txtt/m/n/10 ["Indivi dualProperty1:PropertyValue1", Overfull \hbox (39.43362pt too wide) in paragraph at lines 3908--3908 []\T1/qtm/m/it/10 campaign\T1/qtm/m/n/10 , Overfull \hbox (38.10359pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 start_day: Overfull \hbox (8.05362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 int[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 1\T1/qtm/m/n/10 , Overfull \hbox (10.26363pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 de- Overfull \hbox (13.04362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 mo- Overfull \hbox (71.93361pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 graphic_coverage: Overfull \hbox (15.27362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 1\T1/qtm/m/n/10 , Overfull \hbox (11.9936pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 tar- Overfull \hbox (84.11362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 get_num_individuals: Overfull \hbox (13.04362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 Op- Overfull \hbox (39.17361pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 tional[][][[][]int[][]] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (20.85362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 None\T1/qtm/m/n/10 , Overfull \hbox (36.93362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 node_ids: Overfull \hbox (13.04362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 Op- Overfull \hbox (40.7436pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 tional[][][[][]list[][]] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (20.85362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 None\T1/qtm/m/n/10 , Overfull \hbox (103.05359pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 ind_property_restrictions: Overfull \hbox (13.04362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 Op- Overfull \hbox (40.7436pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 tional[][][[][]list[][]] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (20.85362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 None\T1/qtm/m/n/10 , Overfull \hbox (11.9936pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 tar- Overfull \hbox (51.43361pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 get_age_min: Overfull \hbox (15.27362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 0\T1/qtm/m/n/10 , Overfull \hbox (11.9936pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 tar- Overfull \hbox (53.09361pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 get_age_max: Overfull \hbox (15.27362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (14.99362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 125\T1/qtm/m/n/10 , Overfull \hbox (11.9936pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 tar- Overfull \hbox (44.4636pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 get_gender: Overfull \hbox (7.95361pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 str[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (15.94359pt too wide) in paragraph at lines 3908--3908 \TS1/qtm/m/it/10 '\T1/qtm/m/it/10 All\TS1/qtm/m/it/10 '\T1/qtm/m/n/10 , Overfull \hbox (8.60362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 in- Overfull \hbox (11.28362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 ter- Overfull \hbox (14.40361pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 ven- Overfull \hbox (43.04362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 tion_name: Overfull \hbox (7.95361pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 str[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (14.07361pt too wide) in paragraph at lines 3908--3908 \TS1/qtm/m/it/10 '\T1/qtm/m/it/10 Us- Overfull \hbox (26.47362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 ageDe- Overfull \hbox (15.26363pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 pen- Overfull \hbox (33.59363pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 dentBed- Overfull \hbox (14.20361pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 net\TS1/qtm/m/it/10 '\T1/qtm/m/n/10 , Overfull \hbox (12.49362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 dis- Overfull \hbox (48.29361pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 card_config: Overfull \hbox (13.04362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 Op- Overfull \hbox (43.61362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 tional[][][[][]dict[][]] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (20.85362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 None\T1/qtm/m/n/10 , Overfull \hbox (8.60362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 in- Overfull \hbox (13.59363pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 sec- Overfull \hbox (6.38362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 ti- Overfull \hbox (17.48363pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 cide: Overfull \hbox (7.95361pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 str[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (4.27359pt too wide) in paragraph at lines 3908--3908 \TS1/qtm/m/it/10 ''\T1/qtm/m/n/10 , Overfull \hbox (8.8536pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 re- Overfull \hbox (83.63359pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 pelling_initial_effect: Overfull \hbox (15.27362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 0\T1/qtm/m/n/10 , Overfull \hbox (8.8536pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 re- Overfull \hbox (86.9436pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 pelling_box_duration: Overfull \hbox (8.05362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 int[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 0\T1/qtm/m/n/10 , Overfull \hbox (8.8536pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 re- Overfull \hbox (117.6336pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 pelling_decay_time_constant: Overfull \hbox (15.27362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (19.99362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 1460\T1/qtm/m/n/10 , Overfull \hbox (21.93361pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 block- Overfull \hbox (68.63359pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 ing_initial_effect: Overfull \hbox (15.27362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (12.49362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 0.9\T1/qtm/m/n/10 , Overfull \hbox (21.93361pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 block- Overfull \hbox (71.9436pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 ing_box_duration: Overfull \hbox (8.05362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 int[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 0\T1/qtm/m/n/10 , Overfull \hbox (21.93361pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 block- Overfull \hbox (102.6336pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 ing_decay_time_constant: Overfull \hbox (15.27362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (14.99362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 730\T1/qtm/m/n/10 , Overfull \hbox (21.93361pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 block- Overfull \hbox (68.60362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 ing_linear_times: Overfull \hbox (13.04362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 Op- Overfull \hbox (40.7436pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 tional[][][[][]list[][]] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (20.85362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 None\T1/qtm/m/n/10 , Overfull \hbox (21.93361pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 block- Overfull \hbox (72.79362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 ing_linear_values: Overfull \hbox (13.04362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 Op- Overfull \hbox (40.7436pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 tional[][][[][]list[][]] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (20.85362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 None\T1/qtm/m/n/10 , Overfull \hbox (21.93361pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 block- Overfull \hbox (75.51361pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 ing_expire_at_end: Overfull \hbox (8.05362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 int[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 0\T1/qtm/m/n/10 , Overfull \hbox (81.41359pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 killing_initial_effect: Overfull \hbox (15.27362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 0\T1/qtm/m/n/10 , Overfull \hbox (84.7236pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 killing_box_duration: Overfull \hbox (8.05362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 int[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 0\T1/qtm/m/n/10 , Overfull \hbox (115.4136pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 killing_decay_time_constant: Overfull \hbox (15.27362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (19.99362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 1460\T1/qtm/m/n/10 , Overfull \hbox (67.01363pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 age_dependence: Overfull \hbox (13.04362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 Op- Overfull \hbox (43.61362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 tional[][][[][]dict[][]] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (20.85362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 None\T1/qtm/m/n/10 , Overfull \hbox (14.15363pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 sea- Overfull \hbox (74.69363pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 sonal_dependence: Overfull \hbox (13.04362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 Op- Overfull \hbox (43.61362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 tional[][][[][]dict[][]] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (20.85362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 None\T1/qtm/m/n/10 , Overfull \hbox (91.64363pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 dont_allow_duplicates: Overfull \hbox (15.27362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 bool[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (24.21361pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 False\T1/txtt/m/n/10 )| [54] [55] Overfull \vbox (1067.56755pt too high) has occurred while \output is active [56] Underfull \hbox (badness 6188) in paragraph at lines 3913--3918 []\T1/qtm/m/n/10 box_duration = 0 + de-cay_time_constant > 0 => Waning-Ef-fect- Ex-po-nen-tial Underfull \hbox (badness 10000) in paragraph at lines 3948--3951 []\T1/txtt/bx/n/10 ind_property_restrictions \T1/qtm/m/n/10 ^^U A list of dic-t io-nar-ies of In-di-vid-u-al-Prop-er-ties, [57] [58] Overfull \hbox (39.43362pt too wide) in paragraph at lines 4128--4128 []\T1/qtm/m/it/10 campaign\T1/qtm/m/n/10 , Overfull \hbox (38.10359pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 start_day: Overfull \hbox (8.05362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 int[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 1\T1/qtm/m/n/10 , Overfull \hbox (10.26363pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 de- Overfull \hbox (13.04362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 mo- Overfull \hbox (71.93361pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 graphic_coverage: Overfull \hbox (15.27362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 1\T1/qtm/m/n/10 , Overfull \hbox (36.93362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 node_ids: Overfull \hbox (13.04362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 Op- Overfull \hbox (40.7436pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 tional[][][[][]list[][]] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (20.85362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 None\T1/qtm/m/n/10 , Overfull \hbox (103.05359pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 ind_property_restrictions: Overfull \hbox (13.04362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 Op- Overfull \hbox (40.7436pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 tional[][][[][]list[][]] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (20.85362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 None\T1/qtm/m/n/10 , Overfull \hbox (15.27362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 trig- Overfull \hbox (73.31358pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 ger_condition_list: Overfull \hbox (13.04362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 Op- Overfull \hbox (40.7436pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 tional[][][[][]list[][]] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (20.85362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 None\T1/qtm/m/n/10 , Overfull \hbox (15.27362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 trig- Overfull \hbox (93.44359pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 gered_campaign_delay: Overfull \hbox (13.04362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 Op- Overfull \hbox (46.39362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 tional[][][[][]float[][]] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (20.85362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 None\T1/qtm/m/n/10 , Overfull \hbox (10.27362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 lis- Overfull \hbox (12.89363pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 ten- Overfull \hbox (52.80362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 ing_duration: Overfull \hbox (8.05362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 int[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (0.82362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 - Overfull \hbox (4.99362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 1\T1/qtm/m/n/10 , Overfull \hbox (11.9936pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 tar- Overfull \hbox (51.43361pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 get_age_min: Overfull \hbox (15.27362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 0\T1/qtm/m/n/10 , Overfull \hbox (11.9936pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 tar- Overfull \hbox (53.09361pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 get_age_max: Overfull \hbox (15.27362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (14.99362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 125\T1/qtm/m/n/10 , Overfull \hbox (11.9936pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 tar- Overfull \hbox (44.4636pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 get_gender: Overfull \hbox (7.95361pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 str[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (15.94359pt too wide) in paragraph at lines 4128--4128 \TS1/qtm/m/it/10 '\T1/qtm/m/it/10 All\TS1/qtm/m/it/10 '\T1/qtm/m/n/10 , Overfull \hbox (8.60362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 in- Overfull \hbox (11.28362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 ter- Overfull \hbox (14.40361pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 ven- Overfull \hbox (43.04362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 tion_name: Overfull \hbox (7.95361pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 str[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (14.07361pt too wide) in paragraph at lines 4128--4128 \TS1/qtm/m/it/10 '\T1/qtm/m/it/10 Us- Overfull \hbox (26.47362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 ageDe- Overfull \hbox (15.26363pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 pen- Overfull \hbox (33.59363pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 dentBed- Overfull \hbox (14.20361pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 net\TS1/qtm/m/it/10 '\T1/qtm/m/n/10 , Overfull \hbox (12.49362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 dis- Overfull \hbox (48.29361pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 card_config: Overfull \hbox (13.04362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 Op- Overfull \hbox (43.61362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 tional[][][[][]dict[][]] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (20.85362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 None\T1/qtm/m/n/10 , Overfull \hbox (8.60362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 in- Overfull \hbox (13.59363pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 sec- Overfull \hbox (6.38362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 ti- Overfull \hbox (17.48363pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 cide: Overfull \hbox (7.95361pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 str[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (4.27359pt too wide) in paragraph at lines 4128--4128 \TS1/qtm/m/it/10 ''\T1/qtm/m/n/10 , Overfull \hbox (8.8536pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 re- Overfull \hbox (83.63359pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 pelling_initial_effect: Overfull \hbox (15.27362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 0\T1/qtm/m/n/10 , Overfull \hbox (8.8536pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 re- Overfull \hbox (86.9436pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 pelling_box_duration: Overfull \hbox (8.05362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 int[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 0\T1/qtm/m/n/10 , Overfull \hbox (8.8536pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 re- Overfull \hbox (117.6336pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 pelling_decay_time_constant: Overfull \hbox (15.27362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (19.99362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 1460\T1/qtm/m/n/10 , Overfull \hbox (21.93361pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 block- Overfull \hbox (68.63359pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 ing_initial_effect: Overfull \hbox (15.27362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (12.49362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 0.9\T1/qtm/m/n/10 , Overfull \hbox (21.93361pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 block- Overfull \hbox (71.9436pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 ing_box_duration: Overfull \hbox (8.05362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 int[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 0\T1/qtm/m/n/10 , Overfull \hbox (21.93361pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 block- Overfull \hbox (102.6336pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 ing_decay_time_constant: Overfull \hbox (15.27362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (14.99362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 730\T1/qtm/m/n/10 , Overfull \hbox (21.93361pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 block- Overfull \hbox (68.60362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 ing_linear_times: Overfull \hbox (13.04362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 Op- Overfull \hbox (40.7436pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 tional[][][[][]list[][]] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (20.85362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 None\T1/qtm/m/n/10 , Overfull \hbox (21.93361pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 block- Overfull \hbox (72.79362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 ing_linear_values: Overfull \hbox (13.04362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 Op- Overfull \hbox (40.7436pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 tional[][][[][]list[][]] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (20.85362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 None\T1/qtm/m/n/10 , Overfull \hbox (21.93361pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 block- Overfull \hbox (75.51361pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 ing_expire_at_end: Overfull \hbox (8.05362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 int[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 0\T1/qtm/m/n/10 , Overfull \hbox (81.41359pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 killing_initial_effect: Overfull \hbox (15.27362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 0\T1/qtm/m/n/10 , Overfull \hbox (84.7236pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 killing_box_duration: Overfull \hbox (8.05362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 int[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 0\T1/qtm/m/n/10 , Overfull \hbox (115.4136pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 killing_decay_time_constant: Overfull \hbox (15.27362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (19.99362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 1460\T1/qtm/m/n/10 , Overfull \hbox (67.01363pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 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4772--4779 \T1/qtm/m/n/10 0 is sim-i-lar to 0-1). 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Avail-able chan-nels are: ^^PAdult_Vectors^^Q, ^^PAir_T emperature^^Q, ^^PBirths^^Q, Underfull \hbox (badness 10000) in paragraph at lines 5292--5301 \T1/qtm/m/n/10 ^^PBlood_Smear_Gametocyte_Prevalence^^Q, ^^PBlood_Smear_Parasite _Prevalence^^Q, Underfull \hbox (badness 10000) in paragraph at lines 5292--5301 \T1/qtm/m/n/10 ^^PCam-paign_Cost^^Q, ^^PDaily_Bites_Per_Human^^Q, ^^PDaily_EIR^ ^Q, ^^PDis-ease_Deaths^^Q, Underfull \hbox (badness 10000) in paragraph at lines 5292--5301 \T1/qtm/m/n/10 ^^PNew_Reported_Infections^^Q, ^^PNew_Severe_Cases^^Q, ^^PPCR_Ga metocyte_Prevalence^^Q, Underfull \hbox (badness 10000) in paragraph at lines 5292--5301 \T1/qtm/m/n/10 ^^PPCR_Parasite_Prevalence^^Q, ^^PPfHRP2_Prevalence^^Q, ^^PPop-u -la-tion^^Q, ^^PPreva- Underfull \hbox (badness 10000) in paragraph at lines 5292--5301 \T1/qtm/m/n/10 lence^^Q, ^^PRain-fall^^Q, ^^PRel-a-tive_Humidity^^Q, ^^PTrue_Pr evalence^^Q De-faults: [74] [75] [76] [77] [78] Overfull \hbox (4.70392pt too wide) in paragraph at lines 5848--5848 \T1/qtm/m/it/10 ify_by_clinical_symptoms: [79] Overfull \hbox (38.49373pt too wide) in paragraph at lines 5894--5894 \T1/qtm/m/it/10 drug_resistant_strings: Overfull \hbox (102.98372pt too wide) in paragraph at lines 5894--5894 \T1/qtm/m/it/10 drug_resistant_and_hrp_statistic_type: Overfull \hbox (156.42372pt too wide) in paragraph at lines 5894--5894 \TS1/qtm/m/it/10 '\T1/qtm/m/it/10 NUM_PEOPLE_WITH_RESISTANT_INFECTION\TS1/qtm/m /it/10 '\T1/qtm/m/n/10 , Overfull \hbox (18.46376pt too wide) in paragraph at lines 5894--5894 \T1/qtm/m/it/10 ip_key_to_collect: Overfull \hbox (4.78375pt too wide) in paragraph at lines 5894--5894 \T1/qtm/m/it/10 ify_by_gender: Overfull \hbox (37.74379pt too wide) in paragraph at lines 5894--5894 \T1/qtm/m/it/10 clude_identity_by_xxx: [80] Overfull \hbox (5.15385pt too wide) in paragraph at lines 6000--6000 \T1/qtm/m/it/10 clude_microsporidia: [81] [82] Underfull \hbox (badness 7308) in paragraph at lines 6070--6072 []\T1/txtt/bx/n/10 event_list \T1/qtm/m/n/10 ^^U a list of events to record or ex-clude, de-pend-ing on value of [83] [84] Underfull \hbox (badness 10000) in paragraph at lines 6277--6280 \T1/qtm/m/n/10 im-plies one should get data on days Start_Day, Start_Day+Sampli ng_Period, [85] Underfull \hbox (badness 10000) in paragraph at lines 6454--6460 []\T1/qtm/m/n/10 The sim-ple malaria trans-mis-sion re-port (Re-port-Sim-ple-Ma lar-i-a-Trans-mis-sion.csv) is a csv re- Underfull \hbox (badness 6592) in paragraph at lines 6454--6460 \T1/qtm/m/n/10 port that pro-vides data on malaria trans-mis-sion, by track-ing who trans-mit-ted malaria to whom. 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[110] Underfull \hbox (badness 10000) in paragraph at lines 9133--9136 []\T1/qtm/m/n/10 Sets up the de-fault pa-ram-e-ters for par-a-site ge-net-ics s im-u-la-tions Malaria_Model = Underfull \hbox (badness 6510) in paragraph at lines 9147--9149 []\T1/txtt/bx/n/10 var_gene_randomness_type \T1/qtm/m/n/10 ^^U pos-si-ble val-u es are ^^PFIXED_NEIGHBORHOOD^^Q, [111] Underfull \hbox (badness 10000) in paragraph at lines 9297--9301 \T1/qtm/m/n/10 sim-u-la-tion.task.config.parameters.Vector_Species_Params[i][^^ PHabitats^^Q][j][^^PMax_Larval_Capacity^^Q] = [112] Overfull \hbox (31.99455pt too wide) in paragraph at lines 9357--9360 []\T1/txtt/bx/n/10 female_to_male_probability \T1/qtm/m/n/10 ^^U \T1/qtm/b/n/10 Mi-crosporidia_Female_to_Male_Transmission_Probability Overfull \hbox (24.19456pt too wide) in paragraph at lines 9362--9365 []\T1/txtt/bx/n/10 female_to_egg_probability \T1/qtm/m/n/10 ^^U \T1/qtm/b/n/10 Mi-crosporidia_Female_To_Egg_Transmission_Probability Overfull \hbox (34.43456pt too wide) in paragraph at lines 9367--9370 []\T1/txtt/bx/n/10 male_to_female_probability \T1/qtm/m/n/10 ^^U \T1/qtm/b/n/10 Mi-crosporidia_Male_To_Female_Transmission_Probability Overfull \hbox (4.75461pt too wide) in paragraph at lines 9372--9376 []\T1/txtt/bx/n/10 male_to_egg_probability \T1/qtm/m/n/10 ^^U \T1/qtm/b/n/10 Mi -crosporidia_Male_To_Egg_Transmission_Probability Underfull \hbox (badness 10000) in paragraph at lines 9378--9386 []\T1/txtt/bx/n/10 duration_to_disease_acquisition_modification \T1/qtm/m/n/10 ^^U \T1/qtm/b/n/10 Mi- Underfull \hbox (badness 10000) in paragraph at lines 9401--9409 []\T1/txtt/bx/n/10 duration_to_disease_transmission_modification \T1/qtm/m/n/10 ^^U \T1/qtm/b/n/10 Mi- Underfull \hbox (badness 10000) in paragraph at lines 9401--9409 \T1/qtm/b/n/10 crosporidia_Duration_To_Disease_Transmission_Modification\T1/qtm /m/n/10 , A dic-tio-nary for [113] [114] [115] [116] [117] [118] [119] [120] Underfull \hbox (badness 10000) in paragraph at lines 10159--10163 \T1/qtm/m/n/10 sim-u-la-tion.task.config.parameters.Vector_Species_Params[i][^^ PHabitats^^Q][j][^^PMax_Larval_Capacity^^Q] = [121] Overfull \hbox (31.99455pt too wide) in paragraph at lines 10219--10222 []\T1/txtt/bx/n/10 female_to_male_probability \T1/qtm/m/n/10 ^^U \T1/qtm/b/n/10 Mi-crosporidia_Female_to_Male_Transmission_Probability Overfull \hbox (24.19456pt too wide) in paragraph at lines 10224--10227 []\T1/txtt/bx/n/10 female_to_egg_probability \T1/qtm/m/n/10 ^^U \T1/qtm/b/n/10 Mi-crosporidia_Female_To_Egg_Transmission_Probability Overfull \hbox (34.43456pt too wide) in paragraph at lines 10229--10232 []\T1/txtt/bx/n/10 male_to_female_probability \T1/qtm/m/n/10 ^^U \T1/qtm/b/n/10 Mi-crosporidia_Male_To_Female_Transmission_Probability Overfull \hbox (4.75461pt too wide) in paragraph at lines 10234--10238 []\T1/txtt/bx/n/10 male_to_egg_probability \T1/qtm/m/n/10 ^^U \T1/qtm/b/n/10 Mi -crosporidia_Male_To_Egg_Transmission_Probability Underfull \hbox (badness 10000) in paragraph at lines 10240--10248 []\T1/txtt/bx/n/10 duration_to_disease_acquisition_modification \T1/qtm/m/n/10 ^^U \T1/qtm/b/n/10 Mi- Underfull \hbox (badness 10000) in paragraph at lines 10263--10271 []\T1/txtt/bx/n/10 duration_to_disease_transmission_modification \T1/qtm/m/n/10 ^^U \T1/qtm/b/n/10 Mi- Underfull \hbox (badness 10000) in paragraph at lines 10263--10271 \T1/qtm/b/n/10 crosporidia_Duration_To_Disease_Transmission_Modification\T1/qtm /m/n/10 , A dic-tio-nary for [122] [123] [124] Chapter 3. 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LaTeX Warning: Reference `emodpy_malaria.weather.weather_variable:module-emodpy _malaria.weather.weather_variable' on page 135 undefined on input line 10919. [135] No file institute-for-disease-modeling-emodpy-malaria.ind. (./institute-for-disease-modeling-emodpy-malaria.aux) Package rerunfilecheck Warning: File `institute-for-disease-modeling-emodpy-mal aria.out' has changed. (rerunfilecheck) Rerun to get outlines right (rerunfilecheck) or use package `bookmark'. LaTeX Warning: There were undefined references. LaTeX Warning: Label(s) may have changed. Rerun to get cross-references right. ) (see the transcript file for additional information){/usr/share/texmf/fonts/enc /dvips/tex-gyre/q-ec.enc}{/usr/share/texlive/texmf-dist/fonts/enc/dvips/base/8r .enc}{/usr/share/texmf/fonts/enc/dvips/tex-gyre/q-ts1.enc} Output written on institute-for-disease-modeling-emodpy-malaria.pdf (139 pages, 556421 bytes). Transcript written on institute-for-disease-modeling-emodpy-malaria.log. 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Latexmk: Log file says output to 'institute-for-disease-modeling-emodpy-malaria.pdf' Latexmk: Log file says output to 'institute-for-disease-modeling-emodpy-malaria.pdf' Latexmk: List of undefined refs and citations: Reference `emodpy_malaria.demographics.MalariaDemographics:module-emodpy_malaria.demographics.MalariaDemographics' on page 135 undefined on input line 10882 Reference `emodpy_malaria.demographics:module-emodpy_malaria.demographics' on page 135 undefined on input line 10881 Reference `emodpy_malaria.interventions.adherentdrug:module-emodpy_malaria.interventions.adherentdrug' on page 135 undefined on input line 10884 Reference `emodpy_malaria.interventions.bednet:module-emodpy_malaria.interventions.bednet' on page 135 undefined on input line 10885 Reference `emodpy_malaria.interventions.common:module-emodpy_malaria.interventions.common' on page 135 undefined on input line 10886 Reference `emodpy_malaria.interventions.community_health_worker:module-emodpy_malaria.interventions.community_health_worker' on page 135 undefined on input line 10887 Reference `emodpy_malaria.interventions.diag_survey:module-emodpy_malaria.interventions.diag_survey' on page 135 undefined on input line 10888 Reference `emodpy_malaria.interventions.drug:module-emodpy_malaria.interventions.drug' on page 135 undefined on input line 10889 Reference `emodpy_malaria.interventions.drug_campaign:module-emodpy_malaria.interventions.drug_campaign' on page 135 undefined on input line 10890 Reference `emodpy_malaria.interventions.inputeir:module-emodpy_malaria.interventions.inputeir' on page 135 undefined on input line 10891 Reference `emodpy_malaria.interventions.irs:module-emodpy_malaria.interventions.irs' on page 135 undefined on input line 10892 Reference `emodpy_malaria.interventions.ivermectin:module-emodpy_malaria.interventions.ivermectin' on page 135 undefined on input line 10893 Reference `emodpy_malaria.interventions.larvicide:module-emodpy_malaria.interventions.larvicide' on page 135 undefined on input line 10894 Reference `emodpy_malaria.interventions.malaria_challenge:module-emodpy_malaria.interventions.malaria_challenge' on page 135 undefined on input line 10895 Reference `emodpy_malaria.interventions.mosquitorelease:module-emodpy_malaria.interventions.mosquitorelease' on page 135 undefined on input line 10896 Reference `emodpy_malaria.interventions.outbreak:module-emodpy_malaria.interventions.outbreak' on page 135 undefined on input line 10897 Reference `emodpy_malaria.interventions.outdoorrestkill:module-emodpy_malaria.interventions.outdoorrestkill' on page 135 undefined on input line 10898 Reference `emodpy_malaria.interventions.scale_larval_habitats:module-emodpy_malaria.interventions.scale_larval_habitats' on page 135 undefined on input line 10899 Reference `emodpy_malaria.interventions.spacespraying:module-emodpy_malaria.interventions.spacespraying' on page 135 undefined on input line 10900 Reference `emodpy_malaria.interventions.sugartrap:module-emodpy_malaria.interventions.sugartrap' on page 135 undefined on input line 10901 Reference `emodpy_malaria.interventions.treatment_seeking:module-emodpy_malaria.interventions.treatment_seeking' on page 135 undefined on input line 10902 Reference `emodpy_malaria.interventions.usage_dependent_bednet:module-emodpy_malaria.interventions.usage_dependent_bednet' on page 135 undefined on input line 10903 Reference `emodpy_malaria.interventions.vaccine:module-emodpy_malaria.interventions.vaccine' on page 135 undefined on input line 10904 Reference `emodpy_malaria.interventions:module-emodpy_malaria.interventions' on page 135 undefined on input line 10883 Reference `emodpy_malaria.malaria_config:module-emodpy_malaria.malaria_config' on page 135 undefined on input line 10905 Reference `emodpy_malaria.malaria_vector_species_params:module-emodpy_malaria.malaria_vector_species_params' on page 135 undefined 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institute-for-disease-modeling-emodpy-malaria.idx': File changes, etc: Non-existent destination files: 'institute-for-disease-modeling-emodpy-malaria.ind' ------------ Run number 1 of rule 'makeindex institute-for-disease-modeling-emodpy-malaria.idx' ------------ ------------ Running 'makeindex -s python.ist -o "institute-for-disease-modeling-emodpy-malaria.ind" "institute-for-disease-modeling-emodpy-malaria.idx"' ------------ Latexmk: applying rule 'makeindex institute-for-disease-modeling-emodpy-malaria.idx'... This is makeindex, version 2.15 [TeX Live 2017] (kpathsea + Thai support). Scanning style file ./python.ist.......done (7 attributes redefined, 0 ignored). Scanning input file institute-for-disease-modeling-emodpy-malaria.idx....done (404 entries accepted, 0 rejected). Sorting entries......done (3728 comparisons). Generating output file institute-for-disease-modeling-emodpy-malaria.ind....done (834 lines written, 0 warnings). Output written in institute-for-disease-modeling-emodpy-malaria.ind. Transcript written in institute-for-disease-modeling-emodpy-malaria.ilg. 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For Underfull \hbox (badness 10000) in paragraph at lines 1452--1457 \T1/qtm/m/n/10 ex-am-ple, \T1/txtt/m/n/10 [{"IndividualProperty1":"PropertyValu e1"}, [20] Underfull \hbox (badness 10000) in paragraph at lines 1480--1484 []\T1/txtt/bx/n/10 expire_recent_drugs \T1/qtm/m/n/10 ^^U Adds \T1/txtt/m/n/10 [{"DrugStatus:None"}] \T1/qtm/m/n/10 to \T1/qtm/b/n/10 Prop- Overfull \hbox (1.69395pt too wide) in paragraph at lines 1501--1501 \T1/qtm/m/it/10 timesteps_between_repetitions: Underfull \hbox (badness 10000) in paragraph at lines 1532--1535 []\T1/txtt/bx/n/10 repetitions \T1/qtm/m/n/10 ^^U The num-ber of times an in-te r-ven-tion is given, used with [21] Underfull \hbox (badness 10000) in paragraph at lines 1542--1545 []\T1/txtt/bx/n/10 ind_property_restrictions \T1/qtm/m/n/10 ^^U A list of dic-t io-nar-ies of In-di-vid-u-al-Prop-er-ties, [22] Overfull \hbox (72.89397pt too wide) in paragraph at lines 1666--1666 \T1/qtm/m/it/10 ing_drugs_event_name=\TS1/qtm/m/it/10 '\T1/qtm/m/it/10 Received _Campaign_Drugs\TS1/qtm/m/it/10 '\T1/txtt/m/n/10 )| [23] [24] (/usr/share/texlive/texmf-dist/tex/latex/txfonts/ts1txtt.fd) Underfull \hbox (badness 10000) in paragraph at lines 1845--1851 []\T1/txtt/bx/n/10 ind_prop_restr_birthtrigger_event \T1/qtm/m/n/10 ^^U List of In-di-vid-u-al-Prop-erty key:value Underfull \hbox (badness 10000) in paragraph at lines 1845--1851 \T1/qtm/m/n/10 pairs that in-di-vid-u-als must have to cre-ate trig-ger event f or the in-ter-ven- Underfull \hbox (badness 10000) in paragraph at lines 1845--1851 \T1/qtm/m/n/10 tion. For ex-am-ple, \T1/txtt/m/n/10 [{"IndividualProperty1":"Pr opertyValue1"}, Overfull \hbox (25.23418pt too wide) in paragraph at lines 1901--1901 \T1/qtm/m/it/10 tional[][][emod_api.interventions.common.BroadcastEvent] Overfull \hbox (54.63417pt too wide) in paragraph at lines 1901--1901 \T1/qtm/m/it/10 tional[][][emod_api.interventions.common.PropertyValueChanger] [25] Overfull \hbox (30.48416pt too wide) in paragraph at lines 1918--1918 \T1/qtm/m/it/10 tional[][][emod_api.interventions.common.BroadcastEvent] Overfull \hbox (59.88416pt too wide) in paragraph at lines 1918--1918 \T1/qtm/m/it/10 tional[][][emod_api.interventions.common.PropertyValueChanger] Overfull \hbox (30.48416pt too wide) in paragraph at lines 1935--1935 \T1/qtm/m/it/10 tional[][][emod_api.interventions.common.BroadcastEvent] Overfull \hbox (59.88416pt too wide) in paragraph at lines 1935--1935 \T1/qtm/m/it/10 tional[][][emod_api.interventions.common.PropertyValueChanger] Underfull \hbox (badness 10000) in paragraph at lines 1936--1940 []\T1/qtm/m/n/10 Add an fMDA (fo-cal mass drug ad-min-is-tra-tion) drug in-ter- ven-tion to your cam-paign. See [26] Overfull \hbox (40.98413pt too wide) in paragraph at lines 1952--1952 \T1/qtm/m/it/10 tional[][][emod_api.interventions.common.BroadcastEvent] Overfull \hbox (70.38412pt too wide) in paragraph at lines 1952--1952 \T1/qtm/m/it/10 tional[][][emod_api.interventions.common.PropertyValueChanger] Overfull \hbox (35.73415pt too wide) in paragraph at lines 1969--1969 \T1/qtm/m/it/10 tional[][][emod_api.interventions.common.BroadcastEvent] Overfull \hbox (65.13414pt too wide) in paragraph at lines 1969--1969 \T1/qtm/m/it/10 tional[][][emod_api.interventions.common.PropertyValueChanger] [27] [28] Underfull \hbox (badness 10000) in paragraph at lines 2110--2115 []\T1/txtt/bx/n/10 ind_property_restrictions \T1/qtm/m/n/10 ^^U List of In-di-v id-u-al-Prop-erty key:value Underfull \hbox (badness 10000) in paragraph at lines 2110--2115 \T1/qtm/m/n/10 pairs that in-di-vid-u-als must have to re-ceive the di-ag-nos-t ic in-ter-ven- Underfull \hbox (badness 10000) in paragraph at lines 2110--2115 \T1/qtm/m/n/10 tion. For ex-am-ple, \T1/txtt/m/n/10 [{"IndividualProperty1":"Pr opertyValue1"}, [29] Overfull \hbox (26.20386pt too wide) in paragraph at lines 2235--2235 \T1/qtm/m/it/10 killing_decay_time_constant: Overfull \hbox (28.42386pt too wide) in paragraph at lines 2235--2235 \T1/qtm/m/it/10 pelling_decay_time_constant: [30] [31] Overfull \hbox (26.20386pt too wide) in paragraph at lines 2326--2326 \T1/qtm/m/it/10 killing_decay_time_constant: Overfull \hbox (28.42386pt too wide) in paragraph at lines 2326--2326 \T1/qtm/m/it/10 pelling_decay_time_constant: [32] [33] [34] [35] Underfull \hbox (badness 10000) in paragraph at lines 2544--2547 []\T1/txtt/bx/n/10 repetitions \T1/qtm/m/n/10 ^^U The num-ber of times an in-te r-ven-tion is given, used with Underfull \hbox (badness 10000) in paragraph at lines 2554--2557 []\T1/txtt/bx/n/10 ind_property_restrictions \T1/qtm/m/n/10 ^^U A list of dic-t io-nar-ies of In-di-vid-u-al-Prop-er-ties, [36] Underfull \hbox (badness 10000) in paragraph at lines 2657--2660 []\T1/txtt/bx/n/10 ind_property_restrictions \T1/qtm/m/n/10 ^^U A list of dic-t io-nar-ies of In-di-vid-u-al-Prop-er-ties, [37] Underfull \hbox (badness 10000) in paragraph at lines 2747--2750 []\T1/txtt/bx/n/10 habitat_target \T1/qtm/m/n/10 ^^U Pos-si-ble val-ues are: ^^ PTEM-PO-RARY_RAINFALL^^Q, ^^PWA- Underfull \hbox (badness 10000) in paragraph at lines 2747--2750 \T1/qtm/m/n/10 TER_VEGETATION^^Q, ^^PHU-MAN_POPULATION^^Q, ^^PCON-STANT^^Q, ^^P BRACK- [38] [39] Overfull \hbox (54.1938pt too wide) in paragraph at lines 2855--2855 \T1/qtm/m/it/10 timesteps_between_repetitions: Overfull \hbox (1.7138pt too wide) in paragraph at lines 2855--2855 \T1/qtm/m/it/10 leased_infectious: Overfull \hbox (19.54382pt too wide) in paragraph at lines 2855--2855 \T1/qtm/m/it/10 leased_microsporidia: Underfull \hbox (badness 10000) in paragraph at lines 2876--2879 []\T1/txtt/bx/n/10 repetitions \T1/qtm/m/n/10 ^^U The num-ber of times an in-te r-ven-tion is given, used with Underfull \hbox (badness 7576) in paragraph at lines 2892--2894 []\T1/txtt/bx/n/10 released_number \T1/qtm/m/n/10 ^^U The num-ber of vec-tors t o re-lease, sets Re-leased_Type = [40] Underfull \hbox (badness 10000) in paragraph at lines 2903--2906 []\T1/txtt/bx/n/10 released_infectious \T1/qtm/m/n/10 ^^U The frac-tion of vec- tors re-leased that Underfull \hbox (badness 10000) in paragraph at lines 2903--2906 \T1/qtm/m/n/10 are to be in-fec-tious. One can only use this fea-ture when Overfull \hbox (16.29498pt too wide) in paragraph at lines 2903--2906 \T1/qtm/m/n/10 `Malaria_Model'!='MALARIA_MECHANISTIC_MODEL_WITH_PARASITE_GENETI CS' [41] Underfull \hbox (badness 10000) in paragraph at lines 2999--3002 []\T1/txtt/bx/n/10 repetitions \T1/qtm/m/n/10 ^^U The num-ber of times an in-te r-ven-tion is given, used with Underfull \hbox (badness 10000) in paragraph at lines 3009--3012 []\T1/txtt/bx/n/10 ind_property_restrictions \T1/qtm/m/n/10 ^^U A list of dic-t io-nar-ies of In-di-vid-u-al-Prop-er-ties, Overfull \hbox (12.19392pt too wide) in paragraph at lines 3062--3062 \T1/qtm/m/it/10 timesteps_between_repetitions: Overfull \hbox (14.34396pt too wide) in paragraph at lines 3062--3062 \T1/qtm/m/it/10 ate_nucleotide_sequence_from: Overfull \hbox (79.13393pt too wide) in paragraph at lines 3062--3062 \T1/qtm/m/it/10 code_allele_frequencies_per_genome_location: Overfull \hbox (118.29388pt too wide) in paragraph at lines 3062--3062 \T1/qtm/m/it/10 drug_resistant_allele_frequencies_per_genome_location: Overfull \hbox (74.29391pt too wide) in paragraph at lines 3062--3062 \T1/qtm/m/it/10 hrp_allele_frequencies_per_genome_location: [42] [43] Underfull \hbox (badness 10000) in paragraph at lines 3095--3098 []\T1/txtt/bx/n/10 repetitions \T1/qtm/m/n/10 ^^U The num-ber of times an in-te r-ven-tion is given, used with Underfull \hbox (badness 10000) in paragraph at lines 3105--3108 []\T1/txtt/bx/n/10 ind_property_restrictions \T1/qtm/m/n/10 ^^U A list of dic-t io-nar-ies of In-di-vid-u-al-Prop-er-ties, Underfull \hbox (badness 10000) in paragraph at lines 3146--3152 []\T1/txtt/bx/n/10 drug_resistant_string \T1/qtm/m/n/10 ^^U Used with `BAR-CODE _STRING' or `NU- Underfull \hbox (badness 10000) in paragraph at lines 3167--3173 []\T1/txtt/bx/n/10 barcode_allele_frequencies_per_genome_location \T1/qtm/m/n/1 0 ^^U Used with `AL- [44] Underfull \hbox (badness 10000) in paragraph at lines 3183--3188 []\T1/txtt/bx/n/10 hrp_allele_frequencies_per_genome_location \T1/qtm/m/n/10 ^^ U Used with `AL- Overfull \hbox (17.44391pt too wide) in paragraph at lines 3213--3213 \T1/qtm/m/it/10 timesteps_between_repetitions: [45] Underfull \hbox (badness 10000) in paragraph at lines 3246--3249 []\T1/txtt/bx/n/10 repetitions \T1/qtm/m/n/10 ^^U The num-ber of times an in-te r-ven-tion is given, used with Underfull \hbox (badness 10000) in paragraph at lines 3256--3259 []\T1/txtt/bx/n/10 ind_property_restrictions \T1/qtm/m/n/10 ^^U A list of dic-t io-nar-ies of In-di-vid-u-al-Prop-er-ties, [46] Underfull \hbox (badness 10000) in paragraph at lines 3344--3347 []\T1/txtt/bx/n/10 repetitions \T1/qtm/m/n/10 ^^U The num-ber of times an in-te r-ven-tion is given, used with Underfull \hbox (badness 10000) in paragraph at lines 3354--3357 []\T1/txtt/bx/n/10 ind_property_restrictions \T1/qtm/m/n/10 ^^U A list of dic-t io-nar-ies of In-di-vid-u-al-Prop-er-ties, [47] Overfull \hbox (59.44379pt too wide) in paragraph at lines 3444--3444 \T1/qtm/m/it/10 timesteps_between_repetitions: [48] Overfull \hbox (69.94376pt too wide) in paragraph at lines 3521--3521 \T1/qtm/m/it/10 timesteps_between_repetitions: [49] Underfull \hbox (badness 10000) in paragraph at lines 3555--3558 []\T1/txtt/bx/n/10 repetitions \T1/qtm/m/n/10 ^^U The num-ber of times an in-te r-ven-tion is given, used with Overfull \hbox (33.19386pt too wide) in paragraph at lines 3580--3580 \T1/qtm/m/it/10 timesteps_between_repetitions: Overfull \hbox (26.16386pt too wide) in paragraph at lines 3580--3580 \T1/qtm/m/it/10 killing_decay_time_constant: Underfull \hbox (badness 10000) in paragraph at lines 3596--3599 []\T1/txtt/bx/n/10 repetitions \T1/qtm/m/n/10 ^^U The num-ber of times an in-te r-ven-tion is given, used with [50] [51] Underfull \hbox (badness 10000) in paragraph at lines 3714--3717 []\T1/txtt/bx/n/10 repetitions \T1/qtm/m/n/10 ^^U The num-ber of times an in-te r-ven-tion is given, used with [52] Overfull \hbox (5.13391pt too wide) in paragraph at lines 3816--3816 \T1/qtm/m/it/10 drug_ineligibility_duration: Underfull \hbox (badness 10000) in paragraph at lines 3822--3831 []\T1/qtm/m/n/10 tar-gets is a list of dic-tio-nar-ies defin-ing the trig-ger e vent and cov-er-age for and prop-er- Underfull \hbox (badness 10000) in paragraph at lines 3822--3831 \T1/qtm/m/n/10 ties of in-di-vid-u-als to tar-get with the in-ter-ven-tion with all pos-si-ble op-tions be-ing: [{^^Ptrig- Underfull \hbox (badness 7685) in paragraph at lines 3822--3831 \T1/qtm/m/n/10 ger^^Q:^^QNewClinicalCase^^Q,^^Qcoverage^^Q:0.8,^^Qagemin^^Q:15, ^^Qagemax^^Q:70, ^^Prate^^Q:0.3}] ^^Prate^^Q is the in-verse of [53] Underfull \hbox (badness 10000) in paragraph at lines 3875--3877 []\T1/txtt/bx/n/10 example, \T1/qtm/m/n/10 (\T1/txtt/m/sl/10 individuals must h ave to receive the Underfull \hbox (badness 10000) in paragraph at lines 3875--3877 \T1/txtt/m/sl/10 intervention. For\T1/qtm/m/n/10 ) ^^U \T1/txtt/m/n/10 ["Indivi dualProperty1:PropertyValue1", Overfull \hbox (39.43362pt too wide) in paragraph at lines 3908--3908 []\T1/qtm/m/it/10 campaign\T1/qtm/m/n/10 , Overfull \hbox (38.10359pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 start_day: Overfull \hbox (8.05362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 int[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 1\T1/qtm/m/n/10 , Overfull \hbox (10.26363pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 de- Overfull \hbox (13.04362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 mo- Overfull \hbox (71.93361pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 graphic_coverage: Overfull \hbox (15.27362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 1\T1/qtm/m/n/10 , Overfull \hbox (11.9936pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 tar- Overfull \hbox (84.11362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 get_num_individuals: Overfull \hbox (13.04362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 Op- Overfull \hbox (39.17361pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 tional[][][[][]int[][]] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (20.85362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 None\T1/qtm/m/n/10 , Overfull \hbox (36.93362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 node_ids: Overfull \hbox (13.04362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 Op- Overfull \hbox (40.7436pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 tional[][][[][]list[][]] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (20.85362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 None\T1/qtm/m/n/10 , Overfull \hbox (103.05359pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 ind_property_restrictions: Overfull \hbox (13.04362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 Op- Overfull \hbox (40.7436pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 tional[][][[][]list[][]] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (20.85362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 None\T1/qtm/m/n/10 , Overfull \hbox (11.9936pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 tar- Overfull \hbox (51.43361pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 get_age_min: Overfull \hbox (15.27362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 0\T1/qtm/m/n/10 , Overfull \hbox (11.9936pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 tar- Overfull \hbox (53.09361pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 get_age_max: Overfull \hbox (15.27362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (14.99362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 125\T1/qtm/m/n/10 , Overfull \hbox (11.9936pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 tar- Overfull \hbox (44.4636pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 get_gender: Overfull \hbox (7.95361pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 str[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (15.94359pt too wide) in paragraph at lines 3908--3908 \TS1/qtm/m/it/10 '\T1/qtm/m/it/10 All\TS1/qtm/m/it/10 '\T1/qtm/m/n/10 , Overfull \hbox (8.60362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 in- Overfull \hbox (11.28362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 ter- Overfull \hbox (14.40361pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 ven- Overfull \hbox (43.04362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 tion_name: Overfull \hbox (7.95361pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 str[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (14.07361pt too wide) in paragraph at lines 3908--3908 \TS1/qtm/m/it/10 '\T1/qtm/m/it/10 Us- Overfull \hbox (26.47362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 ageDe- Overfull \hbox (15.26363pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 pen- Overfull \hbox (33.59363pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 dentBed- Overfull \hbox (14.20361pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 net\TS1/qtm/m/it/10 '\T1/qtm/m/n/10 , Overfull \hbox (12.49362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 dis- Overfull \hbox (48.29361pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 card_config: Overfull \hbox (13.04362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 Op- Overfull \hbox (43.61362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 tional[][][[][]dict[][]] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (20.85362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 None\T1/qtm/m/n/10 , Overfull \hbox (8.60362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 in- Overfull \hbox (13.59363pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 sec- Overfull \hbox (6.38362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 ti- Overfull \hbox (17.48363pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 cide: Overfull \hbox (7.95361pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 str[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (4.27359pt too wide) in paragraph at lines 3908--3908 \TS1/qtm/m/it/10 ''\T1/qtm/m/n/10 , Overfull \hbox (8.8536pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 re- Overfull \hbox (83.63359pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 pelling_initial_effect: Overfull \hbox (15.27362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 0\T1/qtm/m/n/10 , Overfull \hbox (8.8536pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 re- Overfull \hbox (86.9436pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 pelling_box_duration: Overfull \hbox (8.05362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 int[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 0\T1/qtm/m/n/10 , Overfull \hbox (8.8536pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 re- Overfull \hbox (117.6336pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 pelling_decay_time_constant: Overfull \hbox (15.27362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (19.99362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 1460\T1/qtm/m/n/10 , Overfull \hbox (21.93361pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 block- Overfull \hbox (68.63359pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 ing_initial_effect: Overfull \hbox (15.27362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (12.49362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 0.9\T1/qtm/m/n/10 , Overfull \hbox (21.93361pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 block- Overfull \hbox (71.9436pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 ing_box_duration: Overfull \hbox (8.05362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 int[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 0\T1/qtm/m/n/10 , Overfull \hbox (21.93361pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 block- Overfull \hbox (102.6336pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 ing_decay_time_constant: Overfull \hbox (15.27362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (14.99362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 730\T1/qtm/m/n/10 , Overfull \hbox (21.93361pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 block- Overfull \hbox (68.60362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 ing_linear_times: Overfull \hbox (13.04362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 Op- Overfull \hbox (40.7436pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 tional[][][[][]list[][]] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (20.85362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 None\T1/qtm/m/n/10 , Overfull \hbox (21.93361pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 block- Overfull \hbox (72.79362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 ing_linear_values: Overfull \hbox (13.04362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 Op- Overfull \hbox (40.7436pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 tional[][][[][]list[][]] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (20.85362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 None\T1/qtm/m/n/10 , Overfull \hbox (21.93361pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 block- Overfull \hbox (75.51361pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 ing_expire_at_end: Overfull \hbox (8.05362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 int[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 0\T1/qtm/m/n/10 , Overfull \hbox (81.41359pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 killing_initial_effect: Overfull \hbox (15.27362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 0\T1/qtm/m/n/10 , Overfull \hbox (84.7236pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 killing_box_duration: Overfull \hbox (8.05362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 int[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 0\T1/qtm/m/n/10 , Overfull \hbox (115.4136pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 killing_decay_time_constant: Overfull \hbox (15.27362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (19.99362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 1460\T1/qtm/m/n/10 , Overfull \hbox (67.01363pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 age_dependence: Overfull \hbox (13.04362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 Op- Overfull \hbox (43.61362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 tional[][][[][]dict[][]] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (20.85362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 None\T1/qtm/m/n/10 , Overfull \hbox (14.15363pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 sea- Overfull \hbox (74.69363pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 sonal_dependence: Overfull \hbox (13.04362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 Op- Overfull \hbox (43.61362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 tional[][][[][]dict[][]] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (20.85362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 None\T1/qtm/m/n/10 , Overfull \hbox (91.64363pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 dont_allow_duplicates: Overfull \hbox (15.27362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 bool[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (24.21361pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 False\T1/txtt/m/n/10 )| [54] [55] Overfull \vbox (1067.56755pt too high) has occurred while \output is active [56] Underfull \hbox (badness 6188) in paragraph at lines 3913--3918 []\T1/qtm/m/n/10 box_duration = 0 + de-cay_time_constant > 0 => Waning-Ef-fect- Ex-po-nen-tial Underfull \hbox (badness 10000) in paragraph at lines 3948--3951 []\T1/txtt/bx/n/10 ind_property_restrictions \T1/qtm/m/n/10 ^^U A list of dic-t io-nar-ies of In-di-vid-u-al-Prop-er-ties, [57] [58] Overfull \hbox (39.43362pt too wide) in paragraph at lines 4128--4128 []\T1/qtm/m/it/10 campaign\T1/qtm/m/n/10 , Overfull \hbox (38.10359pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 start_day: Overfull \hbox (8.05362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 int[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 1\T1/qtm/m/n/10 , Overfull \hbox (10.26363pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 de- Overfull \hbox (13.04362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 mo- Overfull \hbox (71.93361pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 graphic_coverage: Overfull \hbox (15.27362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 1\T1/qtm/m/n/10 , Overfull \hbox (36.93362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 node_ids: Overfull \hbox (13.04362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 Op- Overfull \hbox (40.7436pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 tional[][][[][]list[][]] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (20.85362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 None\T1/qtm/m/n/10 , Overfull \hbox (103.05359pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 ind_property_restrictions: Overfull \hbox (13.04362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 Op- Overfull \hbox (40.7436pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 tional[][][[][]list[][]] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (20.85362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 None\T1/qtm/m/n/10 , Overfull \hbox (15.27362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 trig- Overfull \hbox (73.31358pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 ger_condition_list: Overfull \hbox (13.04362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 Op- Overfull \hbox (40.7436pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 tional[][][[][]list[][]] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (20.85362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 None\T1/qtm/m/n/10 , Overfull \hbox (15.27362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 trig- Overfull \hbox (93.44359pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 gered_campaign_delay: Overfull \hbox (13.04362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 Op- Overfull \hbox (46.39362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 tional[][][[][]float[][]] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (20.85362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 None\T1/qtm/m/n/10 , Overfull \hbox (10.27362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 lis- Overfull \hbox (12.89363pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 ten- Overfull \hbox (52.80362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 ing_duration: Overfull \hbox (8.05362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 int[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (0.82362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 - Overfull \hbox (4.99362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 1\T1/qtm/m/n/10 , Overfull \hbox (11.9936pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 tar- Overfull \hbox (51.43361pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 get_age_min: Overfull \hbox (15.27362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 0\T1/qtm/m/n/10 , Overfull \hbox (11.9936pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 tar- Overfull \hbox (53.09361pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 get_age_max: Overfull \hbox (15.27362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (14.99362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 125\T1/qtm/m/n/10 , Overfull \hbox (11.9936pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 tar- Overfull \hbox (44.4636pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 get_gender: Overfull \hbox (7.95361pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 str[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (15.94359pt too wide) in paragraph at lines 4128--4128 \TS1/qtm/m/it/10 '\T1/qtm/m/it/10 All\TS1/qtm/m/it/10 '\T1/qtm/m/n/10 , Overfull \hbox (8.60362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 in- Overfull \hbox (11.28362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 ter- Overfull \hbox (14.40361pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 ven- Overfull \hbox (43.04362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 tion_name: Overfull \hbox (7.95361pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 str[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (14.07361pt too wide) in paragraph at lines 4128--4128 \TS1/qtm/m/it/10 '\T1/qtm/m/it/10 Us- Overfull \hbox (26.47362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 ageDe- Overfull \hbox (15.26363pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 pen- Overfull \hbox (33.59363pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 dentBed- Overfull \hbox (14.20361pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 net\TS1/qtm/m/it/10 '\T1/qtm/m/n/10 , Overfull \hbox (12.49362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 dis- Overfull \hbox (48.29361pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 card_config: Overfull \hbox (13.04362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 Op- Overfull \hbox (43.61362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 tional[][][[][]dict[][]] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (20.85362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 None\T1/qtm/m/n/10 , Overfull \hbox (8.60362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 in- Overfull \hbox (13.59363pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 sec- Overfull \hbox (6.38362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 ti- Overfull \hbox (17.48363pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 cide: Overfull \hbox (7.95361pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 str[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (4.27359pt too wide) in paragraph at lines 4128--4128 \TS1/qtm/m/it/10 ''\T1/qtm/m/n/10 , Overfull \hbox (8.8536pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 re- Overfull \hbox (83.63359pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 pelling_initial_effect: Overfull \hbox (15.27362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 0\T1/qtm/m/n/10 , Overfull \hbox (8.8536pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 re- Overfull \hbox (86.9436pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 pelling_box_duration: Overfull \hbox (8.05362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 int[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 0\T1/qtm/m/n/10 , Overfull \hbox (8.8536pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 re- Overfull \hbox (117.6336pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 pelling_decay_time_constant: Overfull \hbox (15.27362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (19.99362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 1460\T1/qtm/m/n/10 , Overfull \hbox (21.93361pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 block- Overfull \hbox (68.63359pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 ing_initial_effect: Overfull \hbox (15.27362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (12.49362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 0.9\T1/qtm/m/n/10 , Overfull \hbox (21.93361pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 block- Overfull \hbox (71.9436pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 ing_box_duration: Overfull \hbox (8.05362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 int[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 0\T1/qtm/m/n/10 , Overfull \hbox (21.93361pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 block- Overfull \hbox (102.6336pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 ing_decay_time_constant: Overfull \hbox (15.27362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (14.99362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 730\T1/qtm/m/n/10 , Overfull \hbox (21.93361pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 block- Overfull \hbox (68.60362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 ing_linear_times: Overfull \hbox (13.04362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 Op- Overfull \hbox (40.7436pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 tional[][][[][]list[][]] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (20.85362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 None\T1/qtm/m/n/10 , Overfull \hbox (21.93361pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 block- Overfull \hbox (72.79362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 ing_linear_values: Overfull \hbox (13.04362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 Op- Overfull \hbox (40.7436pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 tional[][][[][]list[][]] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (20.85362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 None\T1/qtm/m/n/10 , Overfull \hbox (21.93361pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 block- Overfull \hbox (75.51361pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 ing_expire_at_end: Overfull \hbox (8.05362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 int[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 0\T1/qtm/m/n/10 , Overfull \hbox (81.41359pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 killing_initial_effect: Overfull \hbox (15.27362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 0\T1/qtm/m/n/10 , Overfull \hbox (84.7236pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 killing_box_duration: Overfull \hbox (8.05362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 int[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 0\T1/qtm/m/n/10 , Overfull \hbox (115.4136pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 killing_decay_time_constant: Overfull \hbox (15.27362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (19.99362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 1460\T1/qtm/m/n/10 , Overfull \hbox (67.01363pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 age_dependence: Overfull \hbox (13.04362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 Op- Overfull \hbox (43.61362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 tional[][][[][]dict[][]] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (20.85362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 None\T1/qtm/m/n/10 , Overfull \hbox (14.15363pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 sea- Overfull \hbox (74.69363pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 sonal_dependence: Overfull \hbox (13.04362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 Op- Overfull \hbox (43.61362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 tional[][][[][]dict[][]] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (20.85362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 None\T1/qtm/m/n/10 , Overfull \hbox (91.64363pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 dont_allow_duplicates: Overfull \hbox (15.27362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 bool[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (24.21361pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 False\T1/txtt/m/n/10 )| [59] Overfull \vbox (1207.56999pt too high) has occurred while \output is active [60] Underfull \hbox (badness 6188) in paragraph at lines 4133--4139 []\T1/qtm/m/n/10 box_duration = 0 + de-cay_time_constant > 0 => Waning-Ef-fect- Ex-po-nen-tial Underfull \hbox (badness 10000) in paragraph at lines 4164--4167 []\T1/txtt/bx/n/10 ind_property_restrictions \T1/qtm/m/n/10 ^^U A list of dic-t io-nar-ies of In-di-vid-u-al-Prop-er-ties, [61] [62] Overfull \hbox (88.19377pt too wide) in paragraph at lines 4358--4358 \T1/qtm/m/it/10 name=\TS1/qtm/m/it/10 '\T1/qtm/m/it/10 UsageDependentBednet.jso n\TS1/qtm/m/it/10 '\T1/txtt/m/n/10 )| [63] Underfull \hbox (badness 10000) in paragraph at lines 4402--4405 []\T1/txtt/bx/n/10 repetitions \T1/qtm/m/n/10 ^^U The num-ber of times an in-te r-ven-tion is given, used with Underfull \hbox (badness 10000) in paragraph at lines 4412--4415 []\T1/txtt/bx/n/10 ind_property_restrictions \T1/qtm/m/n/10 ^^U A list of dic-t io-nar-ies of In-di-vid-u-al-Prop-er-ties, [64] Underfull \hbox (badness 10000) in paragraph at lines 4525--4528 []\T1/txtt/bx/n/10 repetitions \T1/qtm/m/n/10 ^^U The num-ber of times an in-te r-ven-tion is given, used with Underfull \hbox (badness 10000) in paragraph at lines 4535--4538 []\T1/txtt/bx/n/10 ind_property_restrictions \T1/qtm/m/n/10 ^^U A list of dic-t io-nar-ies of In-di-vid-u-al-Prop-er-ties, [65] [66] Overfull \hbox (31.91403pt too wide) in paragraph at lines 4722--4722 \T1/qtm/m/it/10 cific_genome_combinations_for_stratification: [67] Underfull \hbox (badness 5119) in paragraph at lines 4772--4779 \T1/qtm/m/n/10 0 is sim-i-lar to 0-1). De-pends on: ^^PGENOME^^Q, ^^PSPE-CIFIC_ GENOME^^Q spe- [68] [69] [70] Overfull \hbox (2.92401pt too wide) in paragraph at lines 5096--5096 \T1/qtm/m/it/10 clude_30day_avg_infection_duration: [71] Overfull \hbox (6.20389pt too wide) in paragraph at lines 5169--5169 \T1/qtm/m/it/10 must_have_ip_key_value: Overfull \hbox (1.87387pt too wide) in paragraph at lines 5169--5169 \T1/qtm/m/it/10 must_have_intervention: Overfull \hbox (55.41386pt too wide) in paragraph at lines 5169--5169 \T1/qtm/m/it/10 clude_30day_avg_infection_duration: [72] [73] Underfull \hbox (badness 5119) in paragraph at lines 5292--5301 \T1/qtm/m/n/10 put for. Avail-able chan-nels are: ^^PAdult_Vectors^^Q, ^^PAir_T emperature^^Q, ^^PBirths^^Q, Underfull \hbox (badness 10000) in paragraph at lines 5292--5301 \T1/qtm/m/n/10 ^^PBlood_Smear_Gametocyte_Prevalence^^Q, ^^PBlood_Smear_Parasite _Prevalence^^Q, Underfull \hbox (badness 10000) in paragraph at lines 5292--5301 \T1/qtm/m/n/10 ^^PCam-paign_Cost^^Q, ^^PDaily_Bites_Per_Human^^Q, ^^PDaily_EIR^ ^Q, ^^PDis-ease_Deaths^^Q, Underfull \hbox (badness 10000) in paragraph at lines 5292--5301 \T1/qtm/m/n/10 ^^PNew_Reported_Infections^^Q, ^^PNew_Severe_Cases^^Q, ^^PPCR_Ga metocyte_Prevalence^^Q, Underfull \hbox (badness 10000) in paragraph at lines 5292--5301 \T1/qtm/m/n/10 ^^PPCR_Parasite_Prevalence^^Q, ^^PPfHRP2_Prevalence^^Q, ^^PPop-u -la-tion^^Q, ^^PPreva- Underfull \hbox (badness 10000) in paragraph at lines 5292--5301 \T1/qtm/m/n/10 lence^^Q, ^^PRain-fall^^Q, ^^PRel-a-tive_Humidity^^Q, ^^PTrue_Pr evalence^^Q De-faults: [74] [75] [76] [77] [78] Overfull \hbox (4.70392pt too wide) in paragraph at lines 5848--5848 \T1/qtm/m/it/10 ify_by_clinical_symptoms: [79] Overfull \hbox (38.49373pt too wide) in paragraph at lines 5894--5894 \T1/qtm/m/it/10 drug_resistant_strings: Overfull \hbox (102.98372pt too wide) in paragraph at lines 5894--5894 \T1/qtm/m/it/10 drug_resistant_and_hrp_statistic_type: Overfull \hbox (156.42372pt too wide) in paragraph at lines 5894--5894 \TS1/qtm/m/it/10 '\T1/qtm/m/it/10 NUM_PEOPLE_WITH_RESISTANT_INFECTION\TS1/qtm/m /it/10 '\T1/qtm/m/n/10 , Overfull \hbox (18.46376pt too wide) in paragraph at lines 5894--5894 \T1/qtm/m/it/10 ip_key_to_collect: Overfull \hbox (4.78375pt too wide) in paragraph at lines 5894--5894 \T1/qtm/m/it/10 ify_by_gender: Overfull \hbox (37.74379pt too wide) in paragraph at lines 5894--5894 \T1/qtm/m/it/10 clude_identity_by_xxx: [80] Overfull \hbox (5.15385pt too wide) in paragraph at lines 6000--6000 \T1/qtm/m/it/10 clude_microsporidia: [81] [82] Underfull \hbox (badness 7308) in paragraph at lines 6070--6072 []\T1/txtt/bx/n/10 event_list \T1/qtm/m/n/10 ^^U a list of events to record or ex-clude, de-pend-ing on value of [83] [84] Underfull \hbox (badness 10000) in paragraph at lines 6277--6280 \T1/qtm/m/n/10 im-plies one should get data on days Start_Day, Start_Day+Sampli ng_Period, [85] Underfull \hbox (badness 10000) in paragraph at lines 6454--6460 []\T1/qtm/m/n/10 The sim-ple malaria trans-mis-sion re-port (Re-port-Sim-ple-Ma lar-i-a-Trans-mis-sion.csv) is a csv re- Underfull \hbox (badness 6592) in paragraph at lines 6454--6460 \T1/qtm/m/n/10 port that pro-vides data on malaria trans-mis-sion, by track-ing who trans-mit-ted malaria to whom. Underfull \hbox (badness 10000) in paragraph at lines 6454--6460 \T1/qtm/m/n/10 The re-port can only be used when the sim-u-la-tion setup pa-ram -e-ter \T1/qtm/b/n/10 Malaria_Model \T1/qtm/m/n/10 is set to Underfull \hbox (badness 5388) in paragraph at lines 6454--6460 \T1/qtm/m/n/10 MALARIA_MECHANISTIC_MODEL_WITH_CO_TRANSMISSION. This re-port is typ-i-cally used as [86] [87] [88] [89] Overfull \hbox (3.4238pt too wide) in paragraph at lines 6818--6818 \T1/qtm/m/it/10 ing.Optional[str] [90] [91] Underfull \hbox (badness 10000) in paragraph at lines 7087--7091 []\T1/qtm/m/n/10 EMOD/DTK for-mat mi-gra-tion files (and as-so-ci-ated meta-dat a files) can be writ-ten with mi-gra- [92] [93] Overfull \hbox (96.93362pt too wide) in paragraph at lines 7321--7321 []\T1/qtm/m/it/10 demographics_file_path: Overfull \hbox (10.45361pt too wide) in paragraph at lines 7321--7321 [][]\T1/qtm/m/it/10 str[][]\T1/qtm/m/n/10 , Overfull \hbox (30.57362pt too wide) in paragraph at lines 7321--7321 \T1/qtm/m/it/10 params: Overfull \hbox (10.45361pt too wide) in paragraph at lines 7321--7321 [][]\T1/qtm/m/it/10 str[][]\T1/qtm/m/n/10 , Overfull \hbox (24.4136pt too wide) in paragraph at lines 7321--7321 \T1/qtm/m/it/10 id_ref: Overfull \hbox (10.45361pt too wide) in paragraph at lines 7321--7321 [][]\T1/qtm/m/it/10 str[][]\T1/qtm/m/n/10 , Overfull \hbox (10.82362pt too wide) in paragraph at lines 7321--7321 \T1/qtm/m/it/10 mi- Overfull \hbox (14.26363pt too wide) in paragraph at lines 7321--7321 \T1/qtm/m/it/10 gra- Overfull \hbox (51.71361pt too wide) in paragraph at lines 7321--7321 \T1/qtm/m/it/10 tion_type=1\T1/txtt/m/n/10 ) Overfull \hbox (7.49364pt too wide) in paragraph at lines 7321--7321 \OMS/cmsy/m/n/10 !$ Overfull \hbox (275.86359pt too wide) in paragraph at lines 7321--7321 [][]\T1/qtm/m/it/10 emodpy_malaria.vector_migration.vector_migration.VectorMigr ation[][]| Overfull \hbox (8.51367pt too wide) in paragraph at lines 7355--7355 \T1/qtm/m/it/10 graph- Overfull \hbox (24.79367pt too wide) in paragraph at lines 7355--7355 \T1/qtm/m/it/10 ics_object\T1/qtm/m/n/10 , Overfull \hbox (2.95367pt too wide) in paragraph at lines 7355--7355 \T1/qtm/m/it/10 grav- Overfull \hbox (29.82367pt too wide) in paragraph at lines 7355--7355 \T1/qtm/m/it/10 ity_params: Overfull \hbox (33.21367pt too wide) in paragraph at lines 7355--7355 \T1/qtm/m/it/10 tion_type=3\T1/qtm/m/n/10 , Overfull \hbox (6.73367pt too wide) in paragraph at lines 7355--7355 \T1/qtm/m/it/10 name: Overfull \hbox (23.32365pt too wide) in paragraph at lines 7355--7355 \T1/qtm/m/it/10 tional[][][[][]str[][]] Overfull \hbox (7.85365pt too wide) in paragraph at lines 7355--7355 \T1/qtm/m/it/10 None\T1/txtt/m/n/10 )| [94] [95] [96] Overfull \hbox (21.45433pt too wide) in paragraph at lines 7572--7572 \T1/qtm/m/it/10 tional[][][[][]Dict[][][[][]\T1/qtm/m/n/10 emodpy_malaria.weath er.weather_variable.WeatherVariable[][]\T1/qtm/m/it/10 , Overfull \hbox (11.94434pt too wide) in paragraph at lines 7572--7572 \T1/qtm/m/it/10 tional[][][[][]\T1/qtm/m/n/10 emodpy_malaria.weather.weather_me tadata.WeatherAttributes[][]\T1/qtm/m/it/10 ] Overfull \hbox (21.45433pt too wide) in paragraph at lines 7572--7572 \T1/qtm/m/it/10 tional[][][[][]Dict[][][[][]\T1/qtm/m/n/10 emodpy_malaria.weath er.weather_variable.WeatherVariable[][]\T1/qtm/m/it/10 , [97] Overfull \hbox (21.45433pt too wide) in paragraph at lines 7631--7631 \T1/qtm/m/it/10 tional[][][[][]Dict[][][[][]\T1/qtm/m/n/10 emodpy_malaria.weath er.weather_variable.WeatherVariable[][]\T1/qtm/m/it/10 , Overfull \hbox (21.45433pt too wide) in paragraph at lines 7631--7631 \T1/qtm/m/it/10 tional[][][[][]Dict[][][[][]\T1/qtm/m/n/10 emodpy_malaria.weath er.weather_variable.WeatherVariable[][]\T1/qtm/m/it/10 , Overfull \hbox (5.21489pt too wide) in paragraph at lines 7663--7666 [] [98] Overfull \hbox (93.15411pt too wide) in paragraph at lines 7706--7706 \T1/qtm/m/it/10 tional[][][[][]\T1/qtm/m/n/10 emodpy_malaria.weather.weather_me tadata.WeatherMetadata[][]\T1/qtm/m/it/10 ] [99] [100] [101] [102] Overfull \hbox (162.35397pt too wide) in paragraph at lines 8146--8146 \T1/qtm/m/it/10 tional[][][[][]Union[][][[][]\T1/qtm/m/n/10 emodpy_malaria.weat her.weather_metadata.WeatherMetadata[][]\T1/qtm/m/it/10 , Overfull \hbox (109.32397pt too wide) in paragraph at lines 8146--8146 [][]\T1/qtm/m/n/10 emodpy_malaria.weather.weather_metadata.WeatherAttributes[][ ]\T1/qtm/m/it/10 , [103] Overfull \hbox (79.22398pt too wide) in paragraph at lines 8376--8376 \T1/qtm/m/it/10 tools_platform_comps.comps_platform.COMPSPlatform[][]]\T1/qtm/m /n/10 , [104] Overfull \hbox (94.95412pt too wide) in paragraph at lines 8499--8499 \T1/qtm/m/it/10 tional[][][[][]Dict[][][[][]\T1/qtm/m/n/10 emodpy_malaria.weath er.weather_variable.WeatherVariable[][]\T1/qtm/m/it/10 , Overfull \hbox (94.95412pt too wide) in paragraph at lines 8499--8499 \T1/qtm/m/it/10 tional[][][[][]Dict[][][[][]\T1/qtm/m/n/10 emodpy_malaria.weath er.weather_variable.WeatherVariable[][]\T1/qtm/m/it/10 , [105] [106] [107] Underfull \hbox (badness 10000) in paragraph at lines 8802--8806 []\T1/qtm/m/n/10 For ex-am-ple, air Underfull \hbox (badness 10000) in paragraph at lines 8802--8806 \T1/qtm/m/n/10 tem-per-a-ture could be rep-re-sented as: Weath-er-Vari-able.AIR _TEMPERATURE: Overfull \hbox (23.18442pt too wide) in paragraph at lines 8817--8817 \T1/qtm/m/it/10 tional[][][[][]List[][][[][]\T1/qtm/m/n/10 emodpy_malaria.weath er.weather_variable.WeatherVariable[][]\T1/qtm/m/it/10 ]] Overfull \hbox (20.21443pt too wide) in paragraph at lines 8817--8817 \T1/qtm/m/it/10 tional[][][[][]Dict[][][[][]\T1/qtm/m/n/10 emodpy_malaria.weath er.weather_variable.WeatherVariable[][]\T1/qtm/m/it/10 , [108] Overfull \hbox (21.12492pt too wide) in paragraph at lines 8845--8848 [] Underfull \hbox (badness 10000) in paragraph at lines 8845--8848 \T1/qtm/m/n/10 In this case low-er-case weather vari-able names are used, for e x-am-ple: [109] [110] Underfull \hbox (badness 10000) in paragraph at lines 9133--9136 []\T1/qtm/m/n/10 Sets up the de-fault pa-ram-e-ters for par-a-site ge-net-ics s im-u-la-tions Malaria_Model = Underfull \hbox (badness 6510) in paragraph at lines 9147--9149 []\T1/txtt/bx/n/10 var_gene_randomness_type \T1/qtm/m/n/10 ^^U pos-si-ble val-u es are ^^PFIXED_NEIGHBORHOOD^^Q, [111] Underfull \hbox (badness 10000) in paragraph at lines 9297--9301 \T1/qtm/m/n/10 sim-u-la-tion.task.config.parameters.Vector_Species_Params[i][^^ PHabitats^^Q][j][^^PMax_Larval_Capacity^^Q] = [112] Overfull \hbox (31.99455pt too wide) in paragraph at lines 9357--9360 []\T1/txtt/bx/n/10 female_to_male_probability \T1/qtm/m/n/10 ^^U \T1/qtm/b/n/10 Mi-crosporidia_Female_to_Male_Transmission_Probability Overfull \hbox (24.19456pt too wide) in paragraph at lines 9362--9365 []\T1/txtt/bx/n/10 female_to_egg_probability \T1/qtm/m/n/10 ^^U \T1/qtm/b/n/10 Mi-crosporidia_Female_To_Egg_Transmission_Probability Overfull \hbox (34.43456pt too wide) in paragraph at lines 9367--9370 []\T1/txtt/bx/n/10 male_to_female_probability \T1/qtm/m/n/10 ^^U \T1/qtm/b/n/10 Mi-crosporidia_Male_To_Female_Transmission_Probability Overfull \hbox (4.75461pt too wide) in paragraph at lines 9372--9376 []\T1/txtt/bx/n/10 male_to_egg_probability \T1/qtm/m/n/10 ^^U \T1/qtm/b/n/10 Mi -crosporidia_Male_To_Egg_Transmission_Probability Underfull \hbox (badness 10000) in paragraph at lines 9378--9386 []\T1/txtt/bx/n/10 duration_to_disease_acquisition_modification \T1/qtm/m/n/10 ^^U \T1/qtm/b/n/10 Mi- Underfull \hbox (badness 10000) in paragraph at lines 9401--9409 []\T1/txtt/bx/n/10 duration_to_disease_transmission_modification \T1/qtm/m/n/10 ^^U \T1/qtm/b/n/10 Mi- Underfull \hbox (badness 10000) in paragraph at lines 9401--9409 \T1/qtm/b/n/10 crosporidia_Duration_To_Disease_Transmission_Modification\T1/qtm /m/n/10 , A dic-tio-nary for [113] [114] [115] [116] [117] [118] [119] [120] Underfull \hbox (badness 10000) in paragraph at lines 10159--10163 \T1/qtm/m/n/10 sim-u-la-tion.task.config.parameters.Vector_Species_Params[i][^^ PHabitats^^Q][j][^^PMax_Larval_Capacity^^Q] = [121] Overfull \hbox (31.99455pt too wide) in paragraph at lines 10219--10222 []\T1/txtt/bx/n/10 female_to_male_probability \T1/qtm/m/n/10 ^^U \T1/qtm/b/n/10 Mi-crosporidia_Female_to_Male_Transmission_Probability Overfull \hbox (24.19456pt too wide) in paragraph at lines 10224--10227 []\T1/txtt/bx/n/10 female_to_egg_probability \T1/qtm/m/n/10 ^^U \T1/qtm/b/n/10 Mi-crosporidia_Female_To_Egg_Transmission_Probability Overfull \hbox (34.43456pt too wide) in paragraph at lines 10229--10232 []\T1/txtt/bx/n/10 male_to_female_probability \T1/qtm/m/n/10 ^^U \T1/qtm/b/n/10 Mi-crosporidia_Male_To_Female_Transmission_Probability Overfull \hbox (4.75461pt too wide) in paragraph at lines 10234--10238 []\T1/txtt/bx/n/10 male_to_egg_probability \T1/qtm/m/n/10 ^^U \T1/qtm/b/n/10 Mi -crosporidia_Male_To_Egg_Transmission_Probability Underfull \hbox (badness 10000) in paragraph at lines 10240--10248 []\T1/txtt/bx/n/10 duration_to_disease_acquisition_modification \T1/qtm/m/n/10 ^^U \T1/qtm/b/n/10 Mi- Underfull \hbox (badness 10000) in paragraph at lines 10263--10271 []\T1/txtt/bx/n/10 duration_to_disease_transmission_modification \T1/qtm/m/n/10 ^^U \T1/qtm/b/n/10 Mi- Underfull \hbox (badness 10000) in paragraph at lines 10263--10271 \T1/qtm/b/n/10 crosporidia_Duration_To_Disease_Transmission_Modification\T1/qtm /m/n/10 , A dic-tio-nary for [122] [123] [124] Chapter 3. [125] [126] [127] Overfull \hbox (15.08487pt too wide) in paragraph at lines 10533--10535 \T1/qtm/m/n/10 You need to spec-ify `^^Uindex-url = [][]$https : /$[][]/@idmod.org:@packages.idmod.org/api/pypi/pypi- [128] [129] [130] [131] [132] [133] [134] Overfull \hbox (19.37178pt too wide) in paragraph at lines 10882--10883 []\T1/txtt/m/n/10 emodpy_malaria.demographics.MalariaDemographics\T1/qtm/m/n/10 , Overfull \hbox (45.6217pt too wide) in paragraph at lines 10887--10888 []\T1/txtt/m/n/10 emodpy_malaria.interventions.community_health_worker\T1/qtm/m /n/10 , Underfull \hbox (badness 10000) in paragraph at lines 10890--10891 []\T1/txtt/m/n/10 emodpy_malaria.interventions.drug_campaign\T1/qtm/m/n/10 , Overfull \hbox (14.1218pt too wide) in paragraph at lines 10895--10896 []\T1/txtt/m/n/10 emodpy_malaria.interventions.malaria_challenge\T1/qtm/m/n/10 , Overfull \hbox (3.62183pt too wide) in paragraph at lines 10896--10897 []\T1/txtt/m/n/10 emodpy_malaria.interventions.mosquitorelease\T1/qtm/m/n/10 , Overfull \hbox (3.62183pt too wide) in paragraph at lines 10898--10899 []\T1/txtt/m/n/10 emodpy_malaria.interventions.outdoorrestkill\T1/qtm/m/n/10 , Overfull \hbox (35.12173pt too wide) in paragraph at lines 10899--10900 []\T1/txtt/m/n/10 emodpy_malaria.interventions.scale_larval_habitats\T1/qtm/m/n /10 , Underfull \hbox (badness 10000) in paragraph at lines 10900--10901 []\T1/txtt/m/n/10 emodpy_malaria.interventions.spacespraying\T1/qtm/m/n/10 , Overfull \hbox (14.1218pt too wide) in paragraph at lines 10902--10903 []\T1/txtt/m/n/10 emodpy_malaria.interventions.treatment_seeking\T1/qtm/m/n/10 , Overfull \hbox (40.37172pt too wide) in paragraph at lines 10903--10904 []\T1/txtt/m/n/10 emodpy_malaria.interventions.usage_dependent_bednet\T1/qtm/m/ n/10 , Overfull \hbox (3.62183pt too wide) in paragraph at lines 10906--10907 []\T1/txtt/m/n/10 emodpy_malaria.malaria_vector_species_params\T1/qtm/m/n/10 , Overfull \hbox (24.62177pt too wide) in paragraph at lines 10911--10912 []\T1/txtt/m/n/10 emodpy_malaria.vector_migration.vector_migration\T1/qtm/m/n/1 0 , [135] (./institute-for-disease-modeling-emodpy-malaria.ind [136] Underfull \hbox (badness 10000) in paragraph at lines 8--10 []\T1/txtt/m/n/10 add_campaign_event() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-u le Underfull \hbox (badness 10000) in paragraph at lines 8--10 \T1/qtm/m/it/10 emodpy_malaria.interventions.common\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 10--12 []\T1/txtt/m/n/10 add_campaign_event() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-u le Underfull \hbox (badness 10000) in paragraph at lines 10--12 \T1/qtm/m/it/10 emodpy_malaria.interventions.outbreak\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 12--14 []\T1/txtt/m/n/10 add_challenge_trial() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod- ule Overfull \hbox (15.59247pt too wide) in paragraph at lines 12--14 \T1/qtm/m/it/10 emodpy_malaria.interventions.malaria_challenge\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 14--16 []\T1/txtt/m/n/10 add_community_health_worker() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Overfull \hbox (47.96248pt too wide) in paragraph at lines 14--16 \T1/qtm/m/it/10 emodpy_malaria.interventions.community_health_worker\T1/qtm/m/n /10 ), Underfull \hbox (badness 10000) in paragraph at lines 16--18 []\T1/txtt/m/n/10 add_diagnostic_survey() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mo d-ule Underfull \hbox (badness 10000) in paragraph at lines 16--18 \T1/qtm/m/it/10 emodpy_malaria.interventions.diag_survey\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 18--20 []\T1/txtt/m/n/10 add_drug_campaign() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ul e Overfull \hbox (4.22249pt too wide) in paragraph at lines 18--20 \T1/qtm/m/it/10 emodpy_malaria.interventions.drug_campaign\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 20--22 []\T1/txtt/m/n/10 add_drug_resistance() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod- ule Underfull \hbox (badness 10000) in paragraph at lines 22--24 []\T1/txtt/m/n/10 add_drug_status_report() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in m od-ule Underfull \hbox (badness 10000) in paragraph at lines 24--26 []\T1/txtt/m/n/10 add_event_recorder() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-u le Underfull \hbox (badness 10000) in paragraph at lines 26--28 []\T1/txtt/m/n/10 add_fMDA() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Overfull \hbox (4.22249pt too wide) in paragraph at lines 26--28 \T1/qtm/m/it/10 emodpy_malaria.interventions.drug_campaign\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 28--30 []\T1/txtt/m/n/10 add_genes_and_alleles() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mo d-ule Underfull \hbox (badness 10000) in paragraph at lines 30--32 []\T1/txtt/m/n/10 add_habitat_reduction_event() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Overfull \hbox (27.56747pt too wide) in paragraph at lines 30--32 \T1/qtm/m/it/10 emodpy_malaria.interventions.scale_larval_habitats\T1/qtm/m/n/1 0 ), Underfull \hbox (badness 10000) in paragraph at lines 32--34 []\T1/txtt/m/n/10 add_human_migration_tracking() \T1/qtm/m/n/10 (\T1/qtm/m/it/1 0 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 34--36 []\T1/txtt/m/n/10 add_initial_vectors_per_species() Overfull \hbox (127.35252pt too wide) in paragraph at lines 34--36 \T1/qtm/m/n/10 (\T1/qtm/m/it/10 emodpy_malaria.demographics.MalariaDemographics .MalariaDemographics Underfull \hbox (badness 10000) in paragraph at lines 36--38 []\T1/txtt/m/n/10 add_initial_vectors_per_species_from_csv() Overfull \hbox (127.35252pt too wide) in paragraph at lines 36--38 \T1/qtm/m/n/10 (\T1/qtm/m/it/10 emodpy_malaria.demographics.MalariaDemographics .MalariaDemographics Underfull \hbox (badness 10000) in paragraph at lines 38--40 []\T1/txtt/m/n/10 add_insecticide_resistance() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 40--42 []\T1/txtt/m/n/10 add_insecticide_resistance() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 42--44 []\T1/txtt/m/n/10 add_IPTi() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Overfull \hbox (4.22249pt too wide) in paragraph at lines 42--44 \T1/qtm/m/it/10 emodpy_malaria.interventions.drug_campaign\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 44--46 []\T1/txtt/m/n/10 add_itn_scheduled() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ul e Underfull \hbox (badness 10000) in paragraph at lines 46--48 []\T1/txtt/m/n/10 add_itn_triggered() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ul e Underfull \hbox (badness 10000) in paragraph at lines 48--50 []\T1/txtt/m/n/10 add_larval_habitat_multiplier() Overfull \hbox (127.35252pt too wide) in paragraph at lines 48--50 \T1/qtm/m/n/10 (\T1/qtm/m/it/10 emodpy_malaria.demographics.MalariaDemographics .MalariaDemographics Underfull \hbox (badness 10000) in paragraph at lines 50--52 []\T1/txtt/m/n/10 add_larvicide() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 50--52 \T1/qtm/m/it/10 emodpy_malaria.interventions.larvicide\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 54--56 []\T1/txtt/m/n/10 add_malaria_immunity_report() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 56--58 []\T1/txtt/m/n/10 add_malaria_patient_json_report() \T1/qtm/m/n/10 (\T1/qtm/m/i t/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 58--60 []\T1/txtt/m/n/10 add_malaria_summary_report() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 60--62 []\T1/txtt/m/n/10 add_malaria_survey_analyzer() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 62--64 []\T1/txtt/m/n/10 add_MDA() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Overfull \hbox (4.22249pt too wide) in paragraph at lines 62--64 \T1/qtm/m/it/10 emodpy_malaria.interventions.drug_campaign\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 64--66 []\T1/txtt/m/n/10 add_microsporidia() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ul e Underfull \hbox (badness 10000) in paragraph at lines 66--68 []\T1/txtt/m/n/10 add_microsporidia() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ul e Underfull \hbox (badness 10000) in paragraph at lines 68--70 []\T1/txtt/m/n/10 add_MSAT() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Overfull \hbox (4.22249pt too wide) in paragraph at lines 68--70 \T1/qtm/m/it/10 emodpy_malaria.interventions.drug_campaign\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 70--72 []\T1/txtt/m/n/10 add_mutation() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 72--74 []\T1/txtt/m/n/10 add_outbreak_individual() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 72--74 \T1/qtm/m/it/10 emodpy_malaria.interventions.outbreak\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 74--76 []\T1/txtt/m/n/10 add_outbreak_malaria_genetics() \T1/qtm/m/n/10 (\T1/qtm/m/it/ 10 in mod-ule [137] Underfull \hbox (badness 10000) in paragraph at lines 76--78 []\T1/txtt/m/n/10 add_outbreak_malaria_var_genes() \T1/qtm/m/n/10 (\T1/qtm/m/it /10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 78--80 []\T1/txtt/m/n/10 add_outdoorrestkill() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod- ule Underfull \hbox (badness 10000) in paragraph at lines 80--82 []\T1/txtt/m/n/10 add_report_event_counter() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 82--84 []\T1/txtt/m/n/10 add_report_fpg_output() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mo d-ule Underfull \hbox (badness 10000) in paragraph at lines 86--88 []\T1/txtt/m/n/10 add_report_intervention_pop_avg() \T1/qtm/m/n/10 (\T1/qtm/m/i t/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 88--90 []\T1/txtt/m/n/10 add_report_malaria_filtered() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 90--92 []\T1/txtt/m/n/10 add_report_malaria_filtered_intrahost() \T1/qtm/m/n/10 (\T1/q tm/m/it/10 in Underfull \hbox (badness 10000) in paragraph at lines 92--94 []\T1/txtt/m/n/10 add_report_microsporidia() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 94--96 []\T1/txtt/m/n/10 add_report_node_demographics() \T1/qtm/m/n/10 (\T1/qtm/m/it/1 0 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 96--98 []\T1/txtt/m/n/10 add_report_node_demographics_malaria() \T1/qtm/m/n/10 (\T1/qt m/m/it/10 in Overfull \hbox (16.87178pt too wide) in paragraph at lines 98--100 []\T1/txtt/m/n/10 add_report_node_demographics_malaria_genetics() Underfull \hbox (badness 10000) in paragraph at lines 100--102 []\T1/txtt/m/n/10 add_report_simulation_stats() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 102--104 []\T1/txtt/m/n/10 add_report_vector_genetics() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 104--106 []\T1/txtt/m/n/10 add_report_vector_migration() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 106--108 []\T1/txtt/m/n/10 add_report_vector_stats() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 108--110 []\T1/txtt/m/n/10 add_report_vector_stats_malaria_genetics() Underfull \hbox (badness 10000) in paragraph at lines 110--112 []\T1/txtt/m/n/10 add_rfMDA() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Overfull \hbox (4.22249pt too wide) in paragraph at lines 110--112 \T1/qtm/m/it/10 emodpy_malaria.interventions.drug_campaign\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 112--114 []\T1/txtt/m/n/10 add_rfMSAT() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Overfull \hbox (4.22249pt too wide) in paragraph at lines 112--114 \T1/qtm/m/it/10 emodpy_malaria.interventions.drug_campaign\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 114--116 []\T1/txtt/m/n/10 add_scale_larval_habitats() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 i n mod-ule Overfull \hbox (27.56747pt too wide) in paragraph at lines 114--116 \T1/qtm/m/it/10 emodpy_malaria.interventions.scale_larval_habitats\T1/qtm/m/n/1 0 ), Underfull \hbox (badness 10000) in paragraph at lines 116--118 []\T1/txtt/m/n/10 add_scheduled_antimalarial_drug() \T1/qtm/m/n/10 (\T1/qtm/m/i t/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 118--120 []\T1/txtt/m/n/10 add_scheduled_input_eir() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 118--120 \T1/qtm/m/it/10 emodpy_malaria.interventions.inputeir\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 120--122 []\T1/txtt/m/n/10 add_scheduled_irs_housing_modification() \T1/qtm/m/n/10 (\T1/ qtm/m/it/10 in Underfull \hbox (badness 10000) in paragraph at lines 122--124 []\T1/txtt/m/n/10 add_scheduled_ivermectin() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 122--124 \T1/qtm/m/it/10 emodpy_malaria.interventions.ivermectin\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 124--126 []\T1/txtt/m/n/10 add_scheduled_mosquito_release() \T1/qtm/m/n/10 (\T1/qtm/m/it /10 in mod-ule Overfull \hbox (5.84247pt too wide) in paragraph at lines 124--126 \T1/qtm/m/it/10 emodpy_malaria.interventions.mosquitorelease\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 126--128 []\T1/txtt/m/n/10 add_scheduled_space_spraying() \T1/qtm/m/n/10 (\T1/qtm/m/it/1 0 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 126--128 \T1/qtm/m/it/10 emodpy_malaria.interventions.spacespraying\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 128--130 []\T1/txtt/m/n/10 add_scheduled_sugar_trap() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 128--130 \T1/qtm/m/it/10 emodpy_malaria.interventions.sugartrap\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 130--132 []\T1/txtt/m/n/10 add_scheduled_usage_dependent_bednet() \T1/qtm/m/n/10 (\T1/qt m/m/it/10 in Overfull \hbox (72.8525pt too wide) in paragraph at lines 130--132 \T1/qtm/m/it/10 mod-ule emodpy_malaria.interventions.usage_dependent_bednet\T1/ qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 132--134 []\T1/txtt/m/n/10 add_scheduled_vaccine() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mo d-ule Underfull \hbox (badness 10000) in paragraph at lines 132--134 \T1/qtm/m/it/10 emodpy_malaria.interventions.vaccine\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 136--138 []\T1/txtt/m/n/10 add_species() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 138--140 []\T1/txtt/m/n/10 add_species() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 140--142 []\T1/txtt/m/n/10 add_species_drivers() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod- ule Underfull \hbox (badness 10000) in paragraph at lines 142--144 []\T1/txtt/m/n/10 add_sql_report_malaria() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in m od-ule Underfull \hbox (badness 10000) in paragraph at lines 144--146 []\T1/txtt/m/n/10 add_sql_report_malaria_genetics() \T1/qtm/m/n/10 (\T1/qtm/m/i t/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 146--147 []\T1/txtt/m/n/10 add_trait() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 147--149 []\T1/txtt/m/n/10 add_treatment_seeking() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mo d-ule Overfull \hbox (13.81248pt too wide) in paragraph at lines 147--149 \T1/qtm/m/it/10 emodpy_malaria.interventions.treatment_seeking\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 149--151 \T1/qtm/m/it/10 ule emodpy_malaria.interventions.common\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 151--153 []\T1/txtt/m/n/10 add_triggered_irs_housing_modification() \T1/qtm/m/n/10 (\T1/ qtm/m/it/10 in Underfull \hbox (badness 10000) in paragraph at lines 153--155 []\T1/txtt/m/n/10 add_triggered_ivermectin() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 153--155 \T1/qtm/m/it/10 emodpy_malaria.interventions.ivermectin\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 155--157 []\T1/txtt/m/n/10 add_triggered_usage_dependent_bednet() \T1/qtm/m/n/10 (\T1/qt m/m/it/10 in Overfull \hbox (72.8525pt too wide) in paragraph at lines 155--157 \T1/qtm/m/it/10 mod-ule emodpy_malaria.interventions.usage_dependent_bednet\T1/ qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 157--159 []\T1/txtt/m/n/10 add_triggered_vaccine() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mo d-ule Underfull \hbox (badness 10000) in paragraph at lines 157--159 \T1/qtm/m/it/10 emodpy_malaria.interventions.vaccine\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 159--161 []\T1/txtt/m/n/10 add_vector_habitat_report() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 i n mod-ule Underfull \hbox (badness 10000) in paragraph at lines 161--163 []\T1/txtt/m/n/10 add_visualizations() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-u le Underfull \hbox (badness 10000) in paragraph at lines 163--165 []\T1/txtt/m/n/10 adherent_drug() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 163--165 \T1/qtm/m/it/10 emodpy_malaria.interventions.adherentdrug\T1/qtm/m/n/10 ), [138] Overfull \hbox (100.74232pt too wide) in paragraph at lines 165--167 []\T1/txtt/m/n/10 AgesYears \T1/qtm/m/n/10 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[]\T1/txtt/m/n/10 config() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 emodpy_malaria.repor ters.builtin.ReportNodeDemographics Overfull \hbox (94.47237pt too wide) in paragraph at lines 214--216 []\T1/txtt/m/n/10 config() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 emodpy_malaria.repor ters.builtin.ReportNodeDemographicsMalaria Overfull \hbox (129.31238pt too wide) in paragraph at lines 216--218 []\T1/txtt/m/n/10 config() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 emodpy_malaria.repor ters.builtin.ReportNodeDemographicsMalariaGenetics Overfull \hbox (95.20233pt too wide) in paragraph at lines 218--220 []\T1/txtt/m/n/10 config() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 emodpy_malaria.repor ters.builtin.ReportSimpleMalariaTransmission Overfull \hbox (45.04236pt too wide) in paragraph at lines 220--222 []\T1/txtt/m/n/10 config() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 emodpy_malaria.repor ters.builtin.ReportSimulationStats Overfull \hbox (43.05237pt too wide) in paragraph at lines 222--224 []\T1/txtt/m/n/10 config() \T1/qtm/m/n/10 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471--473 []\T1/txtt/m/n/10 make_file_paths() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 emodpy_mala ria.weather.weather_set.WeatherSet Underfull \hbox (badness 10000) in paragraph at lines 473--475 []\T1/txtt/m/n/10 make_path() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 473--475 \T1/qtm/m/it/10 emodpy_malaria.weather.weather_utils\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 475--477 []\T1/txtt/m/n/10 MalariaDemographics \T1/qtm/m/n/10 (\T1/qtm/m/it/10 class in Overfull \hbox (36.1975pt too wide) in paragraph at lines 475--477 \T1/qtm/m/it/10 emodpy_malaria.demographics.MalariaDemographics\T1/qtm/m/n/10 ) , [141] Underfull \hbox (badness 10000) in paragraph at lines 477--479 []\T1/txtt/m/n/10 MalariaImmunityReport \T1/qtm/m/n/10 (\T1/qtm/m/it/10 class i n Underfull \hbox (badness 10000) in paragraph at lines 479--481 []\T1/txtt/m/n/10 MalariaPatientJSONReport \T1/qtm/m/n/10 (\T1/qtm/m/it/10 clas s in Underfull \hbox 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[]\T1/txtt/m/n/10 PIECEWISE_CONSTANT \T1/qtm/m/n/10 (\T1/qtm/m/it/10 emodpy_mal aria.vector_migration.vector_migration.VectorMigration Overfull \hbox (80.38231pt too wide) in paragraph at lines 641--643 []\T1/txtt/m/n/10 provenance \T1/qtm/m/n/10 (\T1/qtm/m/it/10 emodpy_malaria.wea ther.weather_metadata.WeatherAttributes Overfull \hbox (60.9415pt too wide) in paragraph at lines 646--648 []\T1/txtt/m/n/10 RAINFALL \T1/qtm/m/n/10 (\T1/qtm/m/it/10 emodpy_malaria.weath er.weather_variable.WeatherVariable Overfull \hbox (147.99136pt too wide) in paragraph at lines 648--650 []\T1/txtt/m/n/10 REGIONAL_MIGRATION \T1/qtm/m/n/10 (\T1/qtm/m/it/10 emodpy_mal aria.vector_migration.vector_migration.VectorMigration Overfull \hbox (108.19136pt too wide) in paragraph at lines 650--652 []\T1/txtt/m/n/10 RELATIVE_HUMIDITY \T1/qtm/m/n/10 (\T1/qtm/m/it/10 emodpy_mala ria.weather.weather_variable.WeatherVariable Overfull \hbox (43.26233pt too wide) in paragraph at lines 652--654 []\T1/txtt/m/n/10 report 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in Underfull \hbox (badness 10000) in paragraph at lines 684--686 []\T1/txtt/m/n/10 ReportVectorMigration \T1/qtm/m/n/10 (\T1/qtm/m/it/10 class i n Underfull \hbox (badness 10000) in paragraph at lines 686--688 []\T1/txtt/m/n/10 ReportVectorStats \T1/qtm/m/n/10 (\T1/qtm/m/it/10 class in Underfull \hbox (badness 10000) in paragraph at lines 688--690 []\T1/txtt/m/n/10 ReportVectorStatsMalariaGenetics \T1/qtm/m/n/10 (\T1/qtm/m/it /10 class in Underfull \hbox (badness 10000) in paragraph at lines 690--692 []\T1/txtt/m/n/10 RequestReport \T1/qtm/m/n/10 (\T1/qtm/m/it/10 class in Underfull \hbox (badness 10000) in paragraph at lines 690--692 \T1/qtm/m/it/10 emodpy_malaria.weather.weather_request\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 692--694 []\T1/txtt/m/n/10 required_metadata_defaults_dict() Overfull \hbox (66.21246pt too wide) in paragraph at lines 692--694 \T1/qtm/m/n/10 (\T1/qtm/m/it/10 emodpy_malaria.weather.weather_metadata.Weather Attributes Underfull 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wide) in paragraph at lines 705--707 []\T1/txtt/m/n/10 series_len \T1/qtm/m/n/10 (\T1/qtm/m/it/10 emodpy_malaria.wea ther.weather_metadata.WeatherMetadata Underfull \hbox (badness 10000) in paragraph at lines 707--709 []\T1/txtt/m/n/10 series_unique_count Overfull \hbox (65.09247pt too wide) in paragraph at lines 707--709 \T1/qtm/m/n/10 (\T1/qtm/m/it/10 emodpy_malaria.weather.weather_metadata.Weather Metadata Underfull \hbox (badness 10000) in paragraph at lines 709--711 []\T1/txtt/m/n/10 set_drug_param() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 711--713 []\T1/txtt/m/n/10 set_max_larval_capacity() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 713--715 []\T1/txtt/m/n/10 set_max_larval_capacity() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 715--717 []\T1/txtt/m/n/10 set_parasite_genetics_params() \T1/qtm/m/n/10 (\T1/qtm/m/it/1 0 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in Underfull \hbox (badness 10000) in paragraph at lines 739--741 []\T1/txtt/m/n/10 SqlReportMalariaGenetics \T1/qtm/m/n/10 (\T1/qtm/m/it/10 clas s in Overfull \hbox (55.58226pt too wide) in paragraph at lines 741--743 []\T1/txtt/m/n/10 step_column \T1/qtm/m/n/10 (\T1/qtm/m/it/10 emodpy_malaria.we ather.weather_data.DataFrameInfo Overfull \hbox (31.29233pt too wide) in paragraph at lines 746--748 []\T1/txtt/m/n/10 to_csv() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 emodpy_malaria.weath er.weather_data.WeatherData Overfull \hbox (16.54234pt too wide) in paragraph at lines 748--750 []\T1/txtt/m/n/10 to_csv() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 emodpy_malaria.weath er.weather_set.WeatherSet Overfull \hbox (73.46234pt too wide) in paragraph at lines 750--752 []\T1/txtt/m/n/10 to_csv() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule emodpy_ma laria.vector_migration.vector_migration\T1/qtm/m/n/10 ), Overfull \hbox (62.79224pt too wide) in paragraph at lines 752--754 []\T1/txtt/m/n/10 to_dataframe() 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(rerunfilecheck) Rerun to get outlines right (rerunfilecheck) or use package `bookmark'. ) (see the transcript file for additional information){/usr/share/texmf/fonts/enc /dvips/tex-gyre/q-ec.enc}{/usr/share/texlive/texmf-dist/fonts/enc/dvips/base/8r .enc}{/usr/share/texmf/fonts/enc/dvips/tex-gyre/q-ts1.enc} Output written on institute-for-disease-modeling-emodpy-malaria.pdf (149 pages, 606599 bytes). Transcript written on institute-for-disease-modeling-emodpy-malaria.log. Latexmk: Index file 'institute-for-disease-modeling-emodpy-malaria.idx' was written Latexmk: References changed. 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De-fault is [19] Underfull \hbox (badness 10000) in paragraph at lines 1387--1391 []\T1/qtm/m/n/10 In ga-me-to-cytes/microliter, use mea-sure- Underfull \hbox (badness 10000) in paragraph at lines 1415--1418 []\T1/txtt/bx/n/10 measurement_sensitivity \T1/qtm/m/n/10 ^^U Set-ting for \T1/ qtm/b/n/10 Mea-sure-ment_Sensitivity \T1/qtm/m/n/10 in Underfull \hbox (badness 10000) in paragraph at lines 1444--1450 []\T1/txtt/bx/n/10 ind_property_restrictions \T1/qtm/m/n/10 ^^U List of In-di-v id-u-al-Prop-erty key:value Underfull \hbox (badness 10000) in paragraph at lines 1444--1450 \T1/qtm/m/n/10 pairs that in-di-vid-u-als must have to re-ceive the di-ag-nos-t ic in-ter-ven- Underfull \hbox (badness 10000) in paragraph at lines 1444--1450 \T1/qtm/m/n/10 tion. For ex-am-ple, \T1/txtt/m/n/10 [{"IndividualProperty1":"Pr opertyValue1"}, Underfull \hbox (badness 10000) in paragraph at lines 1452--1457 []\T1/txtt/bx/n/10 disqualifying_properties \T1/qtm/m/n/10 ^^U List of In-di-vi d-u-al-Prop-erty Underfull \hbox (badness 10000) in paragraph at lines 1452--1457 \T1/qtm/m/n/10 key:value pairs that cause an in-ter-ven-tion to be aborted. For Underfull \hbox (badness 10000) in paragraph at lines 1452--1457 \T1/qtm/m/n/10 ex-am-ple, \T1/txtt/m/n/10 [{"IndividualProperty1":"PropertyValu e1"}, [20] Underfull \hbox (badness 10000) in paragraph at lines 1480--1484 []\T1/txtt/bx/n/10 expire_recent_drugs \T1/qtm/m/n/10 ^^U Adds \T1/txtt/m/n/10 [{"DrugStatus:None"}] \T1/qtm/m/n/10 to \T1/qtm/b/n/10 Prop- Overfull \hbox (1.69395pt too wide) in paragraph at lines 1501--1501 \T1/qtm/m/it/10 timesteps_between_repetitions: Underfull \hbox (badness 10000) in paragraph at lines 1532--1535 []\T1/txtt/bx/n/10 repetitions \T1/qtm/m/n/10 ^^U The num-ber of times an in-te r-ven-tion is given, used with [21] Underfull \hbox (badness 10000) in paragraph at lines 1542--1545 []\T1/txtt/bx/n/10 ind_property_restrictions \T1/qtm/m/n/10 ^^U A list of dic-t io-nar-ies of In-di-vid-u-al-Prop-er-ties, [22] Overfull \hbox (72.89397pt too wide) in paragraph at lines 1666--1666 \T1/qtm/m/it/10 ing_drugs_event_name=\TS1/qtm/m/it/10 '\T1/qtm/m/it/10 Received _Campaign_Drugs\TS1/qtm/m/it/10 '\T1/txtt/m/n/10 )| [23] [24] (/usr/share/texlive/texmf-dist/tex/latex/txfonts/ts1txtt.fd) Underfull \hbox (badness 10000) in paragraph at lines 1845--1851 []\T1/txtt/bx/n/10 ind_prop_restr_birthtrigger_event \T1/qtm/m/n/10 ^^U List of In-di-vid-u-al-Prop-erty key:value Underfull \hbox (badness 10000) in paragraph at lines 1845--1851 \T1/qtm/m/n/10 pairs that in-di-vid-u-als must have to cre-ate trig-ger event f or the in-ter-ven- Underfull \hbox (badness 10000) in paragraph at lines 1845--1851 \T1/qtm/m/n/10 tion. For ex-am-ple, \T1/txtt/m/n/10 [{"IndividualProperty1":"Pr opertyValue1"}, Overfull \hbox (25.23418pt too wide) in paragraph at lines 1901--1901 \T1/qtm/m/it/10 tional[][][emod_api.interventions.common.BroadcastEvent] Overfull \hbox (54.63417pt too wide) in paragraph at lines 1901--1901 \T1/qtm/m/it/10 tional[][][emod_api.interventions.common.PropertyValueChanger] [25] Overfull \hbox (30.48416pt too wide) in paragraph at lines 1918--1918 \T1/qtm/m/it/10 tional[][][emod_api.interventions.common.BroadcastEvent] Overfull \hbox (59.88416pt too wide) in paragraph at lines 1918--1918 \T1/qtm/m/it/10 tional[][][emod_api.interventions.common.PropertyValueChanger] Overfull \hbox (30.48416pt too wide) in paragraph at lines 1935--1935 \T1/qtm/m/it/10 tional[][][emod_api.interventions.common.BroadcastEvent] Overfull \hbox (59.88416pt too wide) in paragraph at lines 1935--1935 \T1/qtm/m/it/10 tional[][][emod_api.interventions.common.PropertyValueChanger] Underfull \hbox (badness 10000) in paragraph at lines 1936--1940 []\T1/qtm/m/n/10 Add an fMDA (fo-cal mass drug ad-min-is-tra-tion) drug in-ter- ven-tion to your cam-paign. See [26] Overfull \hbox (40.98413pt too wide) in paragraph at lines 1952--1952 \T1/qtm/m/it/10 tional[][][emod_api.interventions.common.BroadcastEvent] Overfull \hbox (70.38412pt too wide) in paragraph at lines 1952--1952 \T1/qtm/m/it/10 tional[][][emod_api.interventions.common.PropertyValueChanger] Overfull \hbox (35.73415pt too wide) in paragraph at lines 1969--1969 \T1/qtm/m/it/10 tional[][][emod_api.interventions.common.BroadcastEvent] Overfull \hbox (65.13414pt too wide) in paragraph at lines 1969--1969 \T1/qtm/m/it/10 tional[][][emod_api.interventions.common.PropertyValueChanger] [27] [28] Underfull \hbox (badness 10000) in paragraph at lines 2110--2115 []\T1/txtt/bx/n/10 ind_property_restrictions \T1/qtm/m/n/10 ^^U List of In-di-v id-u-al-Prop-erty key:value Underfull \hbox (badness 10000) in paragraph at lines 2110--2115 \T1/qtm/m/n/10 pairs that in-di-vid-u-als must have to re-ceive the di-ag-nos-t ic in-ter-ven- Underfull \hbox (badness 10000) in paragraph at lines 2110--2115 \T1/qtm/m/n/10 tion. For ex-am-ple, \T1/txtt/m/n/10 [{"IndividualProperty1":"Pr opertyValue1"}, [29] Overfull \hbox (26.20386pt too wide) in paragraph at lines 2235--2235 \T1/qtm/m/it/10 killing_decay_time_constant: Overfull \hbox (28.42386pt too wide) in paragraph at lines 2235--2235 \T1/qtm/m/it/10 pelling_decay_time_constant: [30] [31] Overfull \hbox (26.20386pt too wide) in paragraph at lines 2326--2326 \T1/qtm/m/it/10 killing_decay_time_constant: Overfull \hbox (28.42386pt too wide) in paragraph at lines 2326--2326 \T1/qtm/m/it/10 pelling_decay_time_constant: [32] [33] [34] [35] Underfull \hbox (badness 10000) in paragraph at lines 2544--2547 []\T1/txtt/bx/n/10 repetitions \T1/qtm/m/n/10 ^^U The num-ber of times an in-te r-ven-tion is given, used with Underfull \hbox (badness 10000) in paragraph at lines 2554--2557 []\T1/txtt/bx/n/10 ind_property_restrictions \T1/qtm/m/n/10 ^^U A list of dic-t io-nar-ies of In-di-vid-u-al-Prop-er-ties, [36] Underfull \hbox (badness 10000) in paragraph at lines 2657--2660 []\T1/txtt/bx/n/10 ind_property_restrictions \T1/qtm/m/n/10 ^^U A list of dic-t io-nar-ies of In-di-vid-u-al-Prop-er-ties, [37] Underfull \hbox (badness 10000) in paragraph at lines 2747--2750 []\T1/txtt/bx/n/10 habitat_target \T1/qtm/m/n/10 ^^U Pos-si-ble val-ues are: ^^ PTEM-PO-RARY_RAINFALL^^Q, ^^PWA- Underfull \hbox (badness 10000) in paragraph at lines 2747--2750 \T1/qtm/m/n/10 TER_VEGETATION^^Q, ^^PHU-MAN_POPULATION^^Q, ^^PCON-STANT^^Q, ^^P BRACK- [38] [39] Overfull \hbox (54.1938pt too wide) in paragraph at lines 2855--2855 \T1/qtm/m/it/10 timesteps_between_repetitions: Overfull \hbox (1.7138pt too wide) in paragraph at lines 2855--2855 \T1/qtm/m/it/10 leased_infectious: Overfull \hbox (19.54382pt too wide) in paragraph at lines 2855--2855 \T1/qtm/m/it/10 leased_microsporidia: Underfull \hbox (badness 10000) in paragraph at lines 2876--2879 []\T1/txtt/bx/n/10 repetitions \T1/qtm/m/n/10 ^^U The num-ber of times an in-te r-ven-tion is given, used with Underfull \hbox (badness 7576) in paragraph at lines 2892--2894 []\T1/txtt/bx/n/10 released_number \T1/qtm/m/n/10 ^^U The num-ber of vec-tors t o re-lease, sets Re-leased_Type = [40] Underfull \hbox (badness 10000) in paragraph at lines 2903--2906 []\T1/txtt/bx/n/10 released_infectious \T1/qtm/m/n/10 ^^U The frac-tion of vec- tors re-leased that Underfull \hbox (badness 10000) in paragraph at lines 2903--2906 \T1/qtm/m/n/10 are to be in-fec-tious. One can only use this fea-ture when Overfull \hbox (16.29498pt too wide) in paragraph at lines 2903--2906 \T1/qtm/m/n/10 `Malaria_Model'!='MALARIA_MECHANISTIC_MODEL_WITH_PARASITE_GENETI CS' [41] Underfull \hbox (badness 10000) in paragraph at lines 2999--3002 []\T1/txtt/bx/n/10 repetitions \T1/qtm/m/n/10 ^^U The num-ber of times an in-te r-ven-tion is given, used with Underfull \hbox (badness 10000) in paragraph at lines 3009--3012 []\T1/txtt/bx/n/10 ind_property_restrictions \T1/qtm/m/n/10 ^^U A list of dic-t io-nar-ies of In-di-vid-u-al-Prop-er-ties, Overfull \hbox (12.19392pt too wide) in paragraph at lines 3062--3062 \T1/qtm/m/it/10 timesteps_between_repetitions: Overfull \hbox (14.34396pt too wide) in paragraph at lines 3062--3062 \T1/qtm/m/it/10 ate_nucleotide_sequence_from: Overfull \hbox (79.13393pt too wide) in paragraph at lines 3062--3062 \T1/qtm/m/it/10 code_allele_frequencies_per_genome_location: Overfull \hbox (118.29388pt too wide) in paragraph at lines 3062--3062 \T1/qtm/m/it/10 drug_resistant_allele_frequencies_per_genome_location: Overfull \hbox (74.29391pt too wide) in paragraph at lines 3062--3062 \T1/qtm/m/it/10 hrp_allele_frequencies_per_genome_location: [42] [43] Underfull \hbox (badness 10000) in paragraph at lines 3095--3098 []\T1/txtt/bx/n/10 repetitions \T1/qtm/m/n/10 ^^U The num-ber of times an in-te r-ven-tion is given, used with Underfull \hbox (badness 10000) in paragraph at lines 3105--3108 []\T1/txtt/bx/n/10 ind_property_restrictions \T1/qtm/m/n/10 ^^U A list of dic-t io-nar-ies of In-di-vid-u-al-Prop-er-ties, Underfull \hbox (badness 10000) in paragraph at lines 3146--3152 []\T1/txtt/bx/n/10 drug_resistant_string \T1/qtm/m/n/10 ^^U Used with `BAR-CODE _STRING' or `NU- Underfull \hbox (badness 10000) in paragraph at lines 3167--3173 []\T1/txtt/bx/n/10 barcode_allele_frequencies_per_genome_location \T1/qtm/m/n/1 0 ^^U Used with `AL- [44] Underfull \hbox (badness 10000) in paragraph at lines 3183--3188 []\T1/txtt/bx/n/10 hrp_allele_frequencies_per_genome_location \T1/qtm/m/n/10 ^^ U Used with `AL- Overfull \hbox (17.44391pt too wide) in paragraph at lines 3213--3213 \T1/qtm/m/it/10 timesteps_between_repetitions: [45] Underfull \hbox (badness 10000) in paragraph at lines 3246--3249 []\T1/txtt/bx/n/10 repetitions \T1/qtm/m/n/10 ^^U The num-ber of times an in-te r-ven-tion is given, used with Underfull \hbox (badness 10000) in paragraph at lines 3256--3259 []\T1/txtt/bx/n/10 ind_property_restrictions \T1/qtm/m/n/10 ^^U A list of dic-t io-nar-ies of In-di-vid-u-al-Prop-er-ties, [46] Underfull \hbox (badness 10000) in paragraph at lines 3344--3347 []\T1/txtt/bx/n/10 repetitions \T1/qtm/m/n/10 ^^U The num-ber of times an in-te r-ven-tion is given, used with Underfull \hbox (badness 10000) in paragraph at lines 3354--3357 []\T1/txtt/bx/n/10 ind_property_restrictions \T1/qtm/m/n/10 ^^U A list of dic-t io-nar-ies of In-di-vid-u-al-Prop-er-ties, [47] Overfull \hbox (59.44379pt too wide) in paragraph at lines 3444--3444 \T1/qtm/m/it/10 timesteps_between_repetitions: [48] Overfull \hbox (69.94376pt too wide) in paragraph at lines 3521--3521 \T1/qtm/m/it/10 timesteps_between_repetitions: [49] Underfull \hbox (badness 10000) in paragraph at lines 3555--3558 []\T1/txtt/bx/n/10 repetitions \T1/qtm/m/n/10 ^^U The num-ber of times an in-te r-ven-tion is given, used with Overfull \hbox (33.19386pt too wide) in paragraph at lines 3580--3580 \T1/qtm/m/it/10 timesteps_between_repetitions: Overfull \hbox (26.16386pt too wide) in paragraph at lines 3580--3580 \T1/qtm/m/it/10 killing_decay_time_constant: Underfull \hbox (badness 10000) in paragraph at lines 3596--3599 []\T1/txtt/bx/n/10 repetitions \T1/qtm/m/n/10 ^^U The num-ber of times an in-te r-ven-tion is given, used with [50] [51] Underfull \hbox (badness 10000) in paragraph at lines 3714--3717 []\T1/txtt/bx/n/10 repetitions \T1/qtm/m/n/10 ^^U The num-ber of times an in-te r-ven-tion is given, used with [52] Overfull \hbox (5.13391pt too wide) in paragraph at lines 3816--3816 \T1/qtm/m/it/10 drug_ineligibility_duration: Underfull \hbox (badness 10000) in paragraph at lines 3822--3831 []\T1/qtm/m/n/10 tar-gets is a list of dic-tio-nar-ies defin-ing the trig-ger e vent and cov-er-age for and prop-er- Underfull \hbox (badness 10000) in paragraph at lines 3822--3831 \T1/qtm/m/n/10 ties of in-di-vid-u-als to tar-get with the in-ter-ven-tion with all pos-si-ble op-tions be-ing: [{^^Ptrig- Underfull \hbox (badness 7685) in paragraph at lines 3822--3831 \T1/qtm/m/n/10 ger^^Q:^^QNewClinicalCase^^Q,^^Qcoverage^^Q:0.8,^^Qagemin^^Q:15, ^^Qagemax^^Q:70, ^^Prate^^Q:0.3}] ^^Prate^^Q is the in-verse of [53] Underfull \hbox (badness 10000) in paragraph at lines 3875--3877 []\T1/txtt/bx/n/10 example, \T1/qtm/m/n/10 (\T1/txtt/m/sl/10 individuals must h ave to receive the Underfull \hbox (badness 10000) in paragraph at lines 3875--3877 \T1/txtt/m/sl/10 intervention. For\T1/qtm/m/n/10 ) ^^U \T1/txtt/m/n/10 ["Indivi dualProperty1:PropertyValue1", Overfull \hbox (39.43362pt too wide) in paragraph at lines 3908--3908 []\T1/qtm/m/it/10 campaign\T1/qtm/m/n/10 , Overfull \hbox (38.10359pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 start_day: Overfull \hbox (8.05362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 int[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 1\T1/qtm/m/n/10 , Overfull \hbox (10.26363pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 de- Overfull \hbox (13.04362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 mo- Overfull \hbox (71.93361pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 graphic_coverage: Overfull \hbox (15.27362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 1\T1/qtm/m/n/10 , Overfull \hbox (11.9936pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 tar- Overfull \hbox (84.11362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 get_num_individuals: Overfull \hbox (13.04362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 Op- Overfull \hbox (39.17361pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 tional[][][[][]int[][]] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (20.85362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 None\T1/qtm/m/n/10 , Overfull \hbox (36.93362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 node_ids: Overfull \hbox (13.04362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 Op- Overfull \hbox (40.7436pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 tional[][][[][]list[][]] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (20.85362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 None\T1/qtm/m/n/10 , Overfull \hbox (103.05359pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 ind_property_restrictions: Overfull \hbox (13.04362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 Op- Overfull \hbox (40.7436pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 tional[][][[][]list[][]] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (20.85362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 None\T1/qtm/m/n/10 , Overfull \hbox (11.9936pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 tar- Overfull \hbox (51.43361pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 get_age_min: Overfull \hbox (15.27362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 0\T1/qtm/m/n/10 , Overfull \hbox (11.9936pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 tar- Overfull \hbox (53.09361pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 get_age_max: Overfull \hbox (15.27362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (14.99362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 125\T1/qtm/m/n/10 , Overfull \hbox (11.9936pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 tar- Overfull \hbox (44.4636pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 get_gender: Overfull \hbox (7.95361pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 str[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (15.94359pt too wide) in paragraph at lines 3908--3908 \TS1/qtm/m/it/10 '\T1/qtm/m/it/10 All\TS1/qtm/m/it/10 '\T1/qtm/m/n/10 , Overfull \hbox (8.60362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 in- Overfull \hbox (11.28362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 ter- Overfull \hbox (14.40361pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 ven- Overfull \hbox (43.04362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 tion_name: Overfull \hbox (7.95361pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 str[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (14.07361pt too wide) in paragraph at lines 3908--3908 \TS1/qtm/m/it/10 '\T1/qtm/m/it/10 Us- Overfull \hbox (26.47362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 ageDe- Overfull \hbox (15.26363pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 pen- Overfull \hbox (33.59363pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 dentBed- Overfull \hbox (14.20361pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 net\TS1/qtm/m/it/10 '\T1/qtm/m/n/10 , Overfull \hbox (12.49362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 dis- Overfull \hbox (48.29361pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 card_config: Overfull \hbox (13.04362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 Op- Overfull \hbox (43.61362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 tional[][][[][]dict[][]] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (20.85362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 None\T1/qtm/m/n/10 , Overfull \hbox (8.60362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 in- Overfull \hbox (13.59363pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 sec- Overfull \hbox (6.38362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 ti- Overfull \hbox (17.48363pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 cide: Overfull \hbox (7.95361pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 str[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (4.27359pt too wide) in paragraph at lines 3908--3908 \TS1/qtm/m/it/10 ''\T1/qtm/m/n/10 , Overfull \hbox (8.8536pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 re- Overfull \hbox (83.63359pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 pelling_initial_effect: Overfull \hbox (15.27362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 0\T1/qtm/m/n/10 , Overfull \hbox (8.8536pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 re- Overfull \hbox (86.9436pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 pelling_box_duration: Overfull \hbox (8.05362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 int[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 0\T1/qtm/m/n/10 , Overfull \hbox (8.8536pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 re- Overfull \hbox (117.6336pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 pelling_decay_time_constant: Overfull \hbox (15.27362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (19.99362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 1460\T1/qtm/m/n/10 , Overfull \hbox (21.93361pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 block- Overfull \hbox (68.63359pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 ing_initial_effect: Overfull \hbox (15.27362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (12.49362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 0.9\T1/qtm/m/n/10 , Overfull \hbox (21.93361pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 block- Overfull \hbox (71.9436pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 ing_box_duration: Overfull \hbox (8.05362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 int[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 0\T1/qtm/m/n/10 , Overfull \hbox (21.93361pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 block- Overfull \hbox (102.6336pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 ing_decay_time_constant: Overfull \hbox (15.27362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (14.99362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 730\T1/qtm/m/n/10 , Overfull \hbox (21.93361pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 block- Overfull \hbox (68.60362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 ing_linear_times: Overfull \hbox (13.04362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 Op- Overfull \hbox (40.7436pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 tional[][][[][]list[][]] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (20.85362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 None\T1/qtm/m/n/10 , Overfull \hbox (21.93361pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 block- Overfull \hbox (72.79362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 ing_linear_values: Overfull \hbox (13.04362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 Op- Overfull \hbox (40.7436pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 tional[][][[][]list[][]] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (20.85362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 None\T1/qtm/m/n/10 , Overfull \hbox (21.93361pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 block- Overfull \hbox (75.51361pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 ing_expire_at_end: Overfull \hbox (8.05362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 int[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 0\T1/qtm/m/n/10 , Overfull \hbox (81.41359pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 killing_initial_effect: Overfull \hbox (15.27362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 0\T1/qtm/m/n/10 , Overfull \hbox (84.7236pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 killing_box_duration: Overfull \hbox (8.05362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 int[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 0\T1/qtm/m/n/10 , Overfull \hbox (115.4136pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 killing_decay_time_constant: Overfull \hbox (15.27362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (19.99362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 1460\T1/qtm/m/n/10 , Overfull \hbox (67.01363pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 age_dependence: Overfull \hbox (13.04362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 Op- Overfull \hbox (43.61362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 tional[][][[][]dict[][]] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (20.85362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 None\T1/qtm/m/n/10 , Overfull \hbox (14.15363pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 sea- Overfull \hbox (74.69363pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 sonal_dependence: Overfull \hbox (13.04362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 Op- Overfull \hbox (43.61362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 tional[][][[][]dict[][]] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (20.85362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 None\T1/qtm/m/n/10 , Overfull \hbox (91.64363pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 dont_allow_duplicates: Overfull \hbox (15.27362pt too wide) in paragraph at lines 3908--3908 [][]\T1/qtm/m/it/10 bool[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 = Overfull \hbox (24.21361pt too wide) in paragraph at lines 3908--3908 \T1/qtm/m/it/10 False\T1/txtt/m/n/10 )| [54] [55] Overfull \vbox (1067.56755pt too high) has occurred while \output is active [56] Underfull \hbox (badness 6188) in paragraph at lines 3913--3918 []\T1/qtm/m/n/10 box_duration = 0 + de-cay_time_constant > 0 => Waning-Ef-fect- Ex-po-nen-tial Underfull \hbox (badness 10000) in paragraph at lines 3948--3951 []\T1/txtt/bx/n/10 ind_property_restrictions \T1/qtm/m/n/10 ^^U A list of dic-t io-nar-ies of In-di-vid-u-al-Prop-er-ties, [57] [58] Overfull \hbox (39.43362pt too wide) in paragraph at lines 4128--4128 []\T1/qtm/m/it/10 campaign\T1/qtm/m/n/10 , Overfull \hbox (38.10359pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 start_day: Overfull \hbox (8.05362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 int[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 1\T1/qtm/m/n/10 , Overfull \hbox (10.26363pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 de- Overfull \hbox (13.04362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 mo- Overfull \hbox (71.93361pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 graphic_coverage: Overfull \hbox (15.27362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 1\T1/qtm/m/n/10 , Overfull \hbox (36.93362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 node_ids: Overfull \hbox (13.04362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 Op- Overfull \hbox (40.7436pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 tional[][][[][]list[][]] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (20.85362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 None\T1/qtm/m/n/10 , Overfull \hbox (103.05359pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 ind_property_restrictions: Overfull \hbox (13.04362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 Op- Overfull \hbox (40.7436pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 tional[][][[][]list[][]] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (20.85362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 None\T1/qtm/m/n/10 , Overfull \hbox (15.27362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 trig- Overfull \hbox (73.31358pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 ger_condition_list: Overfull \hbox (13.04362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 Op- Overfull \hbox (40.7436pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 tional[][][[][]list[][]] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (20.85362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 None\T1/qtm/m/n/10 , Overfull \hbox (15.27362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 trig- Overfull \hbox (93.44359pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 gered_campaign_delay: Overfull \hbox (13.04362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 Op- Overfull \hbox (46.39362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 tional[][][[][]float[][]] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (20.85362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 None\T1/qtm/m/n/10 , Overfull \hbox (10.27362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 lis- Overfull \hbox (12.89363pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 ten- Overfull \hbox (52.80362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 ing_duration: Overfull \hbox (8.05362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 int[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (0.82362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 - Overfull \hbox (4.99362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 1\T1/qtm/m/n/10 , Overfull \hbox (11.9936pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 tar- Overfull \hbox (51.43361pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 get_age_min: Overfull \hbox (15.27362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 0\T1/qtm/m/n/10 , Overfull \hbox (11.9936pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 tar- Overfull \hbox (53.09361pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 get_age_max: Overfull \hbox (15.27362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (14.99362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 125\T1/qtm/m/n/10 , Overfull \hbox (11.9936pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 tar- Overfull \hbox (44.4636pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 get_gender: Overfull \hbox (7.95361pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 str[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (15.94359pt too wide) in paragraph at lines 4128--4128 \TS1/qtm/m/it/10 '\T1/qtm/m/it/10 All\TS1/qtm/m/it/10 '\T1/qtm/m/n/10 , Overfull \hbox (8.60362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 in- Overfull \hbox (11.28362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 ter- Overfull \hbox (14.40361pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 ven- Overfull \hbox (43.04362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 tion_name: Overfull \hbox (7.95361pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 str[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (14.07361pt too wide) in paragraph at lines 4128--4128 \TS1/qtm/m/it/10 '\T1/qtm/m/it/10 Us- Overfull \hbox (26.47362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 ageDe- Overfull \hbox (15.26363pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 pen- Overfull \hbox (33.59363pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 dentBed- Overfull \hbox (14.20361pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 net\TS1/qtm/m/it/10 '\T1/qtm/m/n/10 , Overfull \hbox (12.49362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 dis- Overfull \hbox (48.29361pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 card_config: Overfull \hbox (13.04362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 Op- Overfull \hbox (43.61362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 tional[][][[][]dict[][]] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (20.85362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 None\T1/qtm/m/n/10 , Overfull \hbox (8.60362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 in- Overfull \hbox (13.59363pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 sec- Overfull \hbox (6.38362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 ti- Overfull \hbox (17.48363pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 cide: Overfull \hbox (7.95361pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 str[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (4.27359pt too wide) in paragraph at lines 4128--4128 \TS1/qtm/m/it/10 ''\T1/qtm/m/n/10 , Overfull \hbox (8.8536pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 re- Overfull \hbox (83.63359pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 pelling_initial_effect: Overfull \hbox (15.27362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 0\T1/qtm/m/n/10 , Overfull \hbox (8.8536pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 re- Overfull \hbox (86.9436pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 pelling_box_duration: Overfull \hbox (8.05362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 int[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 0\T1/qtm/m/n/10 , Overfull \hbox (8.8536pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 re- Overfull \hbox (117.6336pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 pelling_decay_time_constant: Overfull \hbox (15.27362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (19.99362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 1460\T1/qtm/m/n/10 , Overfull \hbox (21.93361pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 block- Overfull \hbox (68.63359pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 ing_initial_effect: Overfull \hbox (15.27362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (12.49362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 0.9\T1/qtm/m/n/10 , Overfull \hbox (21.93361pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 block- Overfull \hbox (71.9436pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 ing_box_duration: Overfull \hbox (8.05362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 int[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 0\T1/qtm/m/n/10 , Overfull \hbox (21.93361pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 block- Overfull \hbox (102.6336pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 ing_decay_time_constant: Overfull \hbox (15.27362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (14.99362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 730\T1/qtm/m/n/10 , Overfull \hbox (21.93361pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 block- Overfull \hbox (68.60362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 ing_linear_times: Overfull \hbox (13.04362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 Op- Overfull \hbox (40.7436pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 tional[][][[][]list[][]] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (20.85362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 None\T1/qtm/m/n/10 , Overfull \hbox (21.93361pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 block- Overfull \hbox (72.79362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 ing_linear_values: Overfull \hbox (13.04362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 Op- Overfull \hbox (40.7436pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 tional[][][[][]list[][]] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (20.85362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 None\T1/qtm/m/n/10 , Overfull \hbox (21.93361pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 block- Overfull \hbox (75.51361pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 ing_expire_at_end: Overfull \hbox (8.05362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 int[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 0\T1/qtm/m/n/10 , Overfull \hbox (81.41359pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 killing_initial_effect: Overfull \hbox (15.27362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 0\T1/qtm/m/n/10 , Overfull \hbox (84.7236pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 killing_box_duration: Overfull \hbox (8.05362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 int[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (4.99362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 0\T1/qtm/m/n/10 , Overfull \hbox (115.4136pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 killing_decay_time_constant: Overfull \hbox (15.27362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 float[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (19.99362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 1460\T1/qtm/m/n/10 , Overfull \hbox (67.01363pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 age_dependence: Overfull \hbox (13.04362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 Op- Overfull \hbox (43.61362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 tional[][][[][]dict[][]] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (20.85362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 None\T1/qtm/m/n/10 , Overfull \hbox (14.15363pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 sea- Overfull \hbox (74.69363pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 sonal_dependence: Overfull \hbox (13.04362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 Op- Overfull \hbox (43.61362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 tional[][][[][]dict[][]] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (20.85362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 None\T1/qtm/m/n/10 , Overfull \hbox (91.64363pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 dont_allow_duplicates: Overfull \hbox (15.27362pt too wide) in paragraph at lines 4128--4128 [][]\T1/qtm/m/it/10 bool[][] Overfull \hbox (4.24362pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 = Overfull \hbox (24.21361pt too wide) in paragraph at lines 4128--4128 \T1/qtm/m/it/10 False\T1/txtt/m/n/10 )| [59] Overfull \vbox (1207.56999pt too high) has occurred while \output is active [60] Underfull \hbox (badness 6188) in paragraph at lines 4133--4139 []\T1/qtm/m/n/10 box_duration = 0 + de-cay_time_constant > 0 => Waning-Ef-fect- Ex-po-nen-tial Underfull \hbox (badness 10000) in paragraph at lines 4164--4167 []\T1/txtt/bx/n/10 ind_property_restrictions \T1/qtm/m/n/10 ^^U A list of dic-t io-nar-ies of In-di-vid-u-al-Prop-er-ties, [61] [62] Overfull \hbox (88.19377pt too wide) in paragraph at lines 4358--4358 \T1/qtm/m/it/10 name=\TS1/qtm/m/it/10 '\T1/qtm/m/it/10 UsageDependentBednet.jso n\TS1/qtm/m/it/10 '\T1/txtt/m/n/10 )| [63] Underfull \hbox (badness 10000) in paragraph at lines 4402--4405 []\T1/txtt/bx/n/10 repetitions \T1/qtm/m/n/10 ^^U The num-ber of times an in-te r-ven-tion is given, used with Underfull \hbox (badness 10000) in paragraph at lines 4412--4415 []\T1/txtt/bx/n/10 ind_property_restrictions \T1/qtm/m/n/10 ^^U A list of dic-t io-nar-ies of In-di-vid-u-al-Prop-er-ties, [64] Underfull \hbox (badness 10000) in paragraph at lines 4525--4528 []\T1/txtt/bx/n/10 repetitions \T1/qtm/m/n/10 ^^U The num-ber of times an in-te r-ven-tion is given, used with Underfull \hbox (badness 10000) in paragraph at lines 4535--4538 []\T1/txtt/bx/n/10 ind_property_restrictions \T1/qtm/m/n/10 ^^U A list of dic-t io-nar-ies of In-di-vid-u-al-Prop-er-ties, [65] [66] Overfull \hbox (31.91403pt too wide) in paragraph at lines 4722--4722 \T1/qtm/m/it/10 cific_genome_combinations_for_stratification: [67] Underfull \hbox (badness 5119) in paragraph at lines 4772--4779 \T1/qtm/m/n/10 0 is sim-i-lar to 0-1). De-pends on: ^^PGENOME^^Q, ^^PSPE-CIFIC_ GENOME^^Q spe- [68] [69] [70] Overfull \hbox (2.92401pt too wide) in paragraph at lines 5096--5096 \T1/qtm/m/it/10 clude_30day_avg_infection_duration: [71] Overfull \hbox (6.20389pt too wide) in paragraph at lines 5169--5169 \T1/qtm/m/it/10 must_have_ip_key_value: Overfull \hbox (1.87387pt too wide) in paragraph at lines 5169--5169 \T1/qtm/m/it/10 must_have_intervention: Overfull \hbox (55.41386pt too wide) in paragraph at lines 5169--5169 \T1/qtm/m/it/10 clude_30day_avg_infection_duration: [72] [73] Underfull \hbox (badness 5119) in paragraph at lines 5292--5301 \T1/qtm/m/n/10 put for. Avail-able chan-nels are: ^^PAdult_Vectors^^Q, ^^PAir_T emperature^^Q, ^^PBirths^^Q, Underfull \hbox (badness 10000) in paragraph at lines 5292--5301 \T1/qtm/m/n/10 ^^PBlood_Smear_Gametocyte_Prevalence^^Q, ^^PBlood_Smear_Parasite _Prevalence^^Q, Underfull \hbox (badness 10000) in paragraph at lines 5292--5301 \T1/qtm/m/n/10 ^^PCam-paign_Cost^^Q, ^^PDaily_Bites_Per_Human^^Q, ^^PDaily_EIR^ ^Q, ^^PDis-ease_Deaths^^Q, Underfull \hbox (badness 10000) in paragraph at lines 5292--5301 \T1/qtm/m/n/10 ^^PNew_Reported_Infections^^Q, ^^PNew_Severe_Cases^^Q, ^^PPCR_Ga metocyte_Prevalence^^Q, Underfull \hbox (badness 10000) in paragraph at lines 5292--5301 \T1/qtm/m/n/10 ^^PPCR_Parasite_Prevalence^^Q, ^^PPfHRP2_Prevalence^^Q, ^^PPop-u -la-tion^^Q, ^^PPreva- Underfull \hbox (badness 10000) in paragraph at lines 5292--5301 \T1/qtm/m/n/10 lence^^Q, ^^PRain-fall^^Q, ^^PRel-a-tive_Humidity^^Q, ^^PTrue_Pr evalence^^Q De-faults: [74] [75] [76] [77] [78] Overfull \hbox (4.70392pt too wide) in paragraph at lines 5848--5848 \T1/qtm/m/it/10 ify_by_clinical_symptoms: [79] Overfull \hbox (38.49373pt too wide) in paragraph at lines 5894--5894 \T1/qtm/m/it/10 drug_resistant_strings: Overfull \hbox (102.98372pt too wide) in paragraph at lines 5894--5894 \T1/qtm/m/it/10 drug_resistant_and_hrp_statistic_type: Overfull \hbox (156.42372pt too wide) in paragraph at lines 5894--5894 \TS1/qtm/m/it/10 '\T1/qtm/m/it/10 NUM_PEOPLE_WITH_RESISTANT_INFECTION\TS1/qtm/m /it/10 '\T1/qtm/m/n/10 , Overfull \hbox (18.46376pt too wide) in paragraph at lines 5894--5894 \T1/qtm/m/it/10 ip_key_to_collect: Overfull \hbox (4.78375pt too wide) in paragraph at lines 5894--5894 \T1/qtm/m/it/10 ify_by_gender: Overfull \hbox (37.74379pt too wide) in paragraph at lines 5894--5894 \T1/qtm/m/it/10 clude_identity_by_xxx: [80] Overfull \hbox (5.15385pt too wide) in paragraph at lines 6000--6000 \T1/qtm/m/it/10 clude_microsporidia: [81] [82] Underfull \hbox (badness 7308) in paragraph at lines 6070--6072 []\T1/txtt/bx/n/10 event_list \T1/qtm/m/n/10 ^^U a list of events to record or ex-clude, de-pend-ing on value of [83] [84] Underfull \hbox (badness 10000) in paragraph at lines 6277--6280 \T1/qtm/m/n/10 im-plies one should get data on days Start_Day, Start_Day+Sampli ng_Period, [85] Underfull \hbox (badness 10000) in paragraph at lines 6454--6460 []\T1/qtm/m/n/10 The sim-ple malaria trans-mis-sion re-port (Re-port-Sim-ple-Ma lar-i-a-Trans-mis-sion.csv) is a csv re- Underfull \hbox (badness 6592) in paragraph at lines 6454--6460 \T1/qtm/m/n/10 port that pro-vides data on malaria trans-mis-sion, by track-ing who trans-mit-ted malaria to whom. Underfull \hbox (badness 10000) in paragraph at lines 6454--6460 \T1/qtm/m/n/10 The re-port can only be used when the sim-u-la-tion setup pa-ram -e-ter \T1/qtm/b/n/10 Malaria_Model \T1/qtm/m/n/10 is set to Underfull \hbox (badness 5388) in paragraph at lines 6454--6460 \T1/qtm/m/n/10 MALARIA_MECHANISTIC_MODEL_WITH_CO_TRANSMISSION. This re-port is typ-i-cally used as [86] [87] [88] [89] Overfull \hbox (3.4238pt too wide) in paragraph at lines 6818--6818 \T1/qtm/m/it/10 ing.Optional[str] [90] [91] Underfull \hbox (badness 10000) in paragraph at lines 7087--7091 []\T1/qtm/m/n/10 EMOD/DTK for-mat mi-gra-tion files (and as-so-ci-ated meta-dat a files) can be writ-ten with mi-gra- [92] [93] Overfull \hbox (96.93362pt too wide) in paragraph at lines 7321--7321 []\T1/qtm/m/it/10 demographics_file_path: Overfull \hbox (10.45361pt too wide) in paragraph at lines 7321--7321 [][]\T1/qtm/m/it/10 str[][]\T1/qtm/m/n/10 , Overfull \hbox (30.57362pt too wide) in paragraph at lines 7321--7321 \T1/qtm/m/it/10 params: Overfull \hbox (10.45361pt too wide) in paragraph at lines 7321--7321 [][]\T1/qtm/m/it/10 str[][]\T1/qtm/m/n/10 , Overfull \hbox (24.4136pt too wide) in paragraph at lines 7321--7321 \T1/qtm/m/it/10 id_ref: Overfull \hbox (10.45361pt too wide) in paragraph at lines 7321--7321 [][]\T1/qtm/m/it/10 str[][]\T1/qtm/m/n/10 , Overfull \hbox (10.82362pt too wide) in paragraph at lines 7321--7321 \T1/qtm/m/it/10 mi- Overfull \hbox (14.26363pt too wide) in paragraph at lines 7321--7321 \T1/qtm/m/it/10 gra- Overfull \hbox (51.71361pt too wide) in paragraph at lines 7321--7321 \T1/qtm/m/it/10 tion_type=1\T1/txtt/m/n/10 ) Overfull \hbox (7.49364pt too wide) in paragraph at lines 7321--7321 \OMS/cmsy/m/n/10 !$ Overfull \hbox (275.86359pt too wide) in paragraph at lines 7321--7321 [][]\T1/qtm/m/it/10 emodpy_malaria.vector_migration.vector_migration.VectorMigr ation[][]| Overfull \hbox (8.51367pt too wide) in paragraph at lines 7355--7355 \T1/qtm/m/it/10 graph- Overfull \hbox (24.79367pt too wide) in paragraph at lines 7355--7355 \T1/qtm/m/it/10 ics_object\T1/qtm/m/n/10 , Overfull \hbox (2.95367pt too wide) in paragraph at lines 7355--7355 \T1/qtm/m/it/10 grav- Overfull \hbox (29.82367pt too wide) in paragraph at lines 7355--7355 \T1/qtm/m/it/10 ity_params: Overfull \hbox (33.21367pt too wide) in paragraph at lines 7355--7355 \T1/qtm/m/it/10 tion_type=3\T1/qtm/m/n/10 , Overfull \hbox (6.73367pt too wide) in paragraph at lines 7355--7355 \T1/qtm/m/it/10 name: Overfull \hbox (23.32365pt too wide) in paragraph at lines 7355--7355 \T1/qtm/m/it/10 tional[][][[][]str[][]] Overfull \hbox (7.85365pt too wide) in paragraph at lines 7355--7355 \T1/qtm/m/it/10 None\T1/txtt/m/n/10 )| [94] [95] [96] Overfull \hbox (21.45433pt too wide) in paragraph at lines 7572--7572 \T1/qtm/m/it/10 tional[][][[][]Dict[][][[][]\T1/qtm/m/n/10 emodpy_malaria.weath er.weather_variable.WeatherVariable[][]\T1/qtm/m/it/10 , Overfull \hbox (11.94434pt too wide) in paragraph at lines 7572--7572 \T1/qtm/m/it/10 tional[][][[][]\T1/qtm/m/n/10 emodpy_malaria.weather.weather_me tadata.WeatherAttributes[][]\T1/qtm/m/it/10 ] Overfull \hbox (21.45433pt too wide) in paragraph at lines 7572--7572 \T1/qtm/m/it/10 tional[][][[][]Dict[][][[][]\T1/qtm/m/n/10 emodpy_malaria.weath er.weather_variable.WeatherVariable[][]\T1/qtm/m/it/10 , [97] Overfull \hbox (21.45433pt too wide) in paragraph at lines 7631--7631 \T1/qtm/m/it/10 tional[][][[][]Dict[][][[][]\T1/qtm/m/n/10 emodpy_malaria.weath er.weather_variable.WeatherVariable[][]\T1/qtm/m/it/10 , Overfull \hbox (21.45433pt too wide) in paragraph at lines 7631--7631 \T1/qtm/m/it/10 tional[][][[][]Dict[][][[][]\T1/qtm/m/n/10 emodpy_malaria.weath er.weather_variable.WeatherVariable[][]\T1/qtm/m/it/10 , Overfull \hbox (5.21489pt too wide) in paragraph at lines 7663--7666 [] [98] Overfull \hbox (93.15411pt too wide) in paragraph at lines 7706--7706 \T1/qtm/m/it/10 tional[][][[][]\T1/qtm/m/n/10 emodpy_malaria.weather.weather_me tadata.WeatherMetadata[][]\T1/qtm/m/it/10 ] [99] [100] [101] [102] Overfull \hbox (162.35397pt too wide) in paragraph at lines 8146--8146 \T1/qtm/m/it/10 tional[][][[][]Union[][][[][]\T1/qtm/m/n/10 emodpy_malaria.weat her.weather_metadata.WeatherMetadata[][]\T1/qtm/m/it/10 , Overfull \hbox (109.32397pt too wide) in paragraph at lines 8146--8146 [][]\T1/qtm/m/n/10 emodpy_malaria.weather.weather_metadata.WeatherAttributes[][ ]\T1/qtm/m/it/10 , [103] Overfull \hbox (79.22398pt too wide) in paragraph at lines 8376--8376 \T1/qtm/m/it/10 tools_platform_comps.comps_platform.COMPSPlatform[][]]\T1/qtm/m /n/10 , [104] Overfull \hbox (94.95412pt too wide) in paragraph at lines 8499--8499 \T1/qtm/m/it/10 tional[][][[][]Dict[][][[][]\T1/qtm/m/n/10 emodpy_malaria.weath er.weather_variable.WeatherVariable[][]\T1/qtm/m/it/10 , Overfull \hbox (94.95412pt too wide) in paragraph at lines 8499--8499 \T1/qtm/m/it/10 tional[][][[][]Dict[][][[][]\T1/qtm/m/n/10 emodpy_malaria.weath er.weather_variable.WeatherVariable[][]\T1/qtm/m/it/10 , [105] [106] [107] Underfull \hbox (badness 10000) in paragraph at lines 8802--8806 []\T1/qtm/m/n/10 For ex-am-ple, air Underfull \hbox (badness 10000) in paragraph at lines 8802--8806 \T1/qtm/m/n/10 tem-per-a-ture could be rep-re-sented as: Weath-er-Vari-able.AIR _TEMPERATURE: Overfull \hbox (23.18442pt too wide) in paragraph at lines 8817--8817 \T1/qtm/m/it/10 tional[][][[][]List[][][[][]\T1/qtm/m/n/10 emodpy_malaria.weath er.weather_variable.WeatherVariable[][]\T1/qtm/m/it/10 ]] Overfull \hbox (20.21443pt too wide) in paragraph at lines 8817--8817 \T1/qtm/m/it/10 tional[][][[][]Dict[][][[][]\T1/qtm/m/n/10 emodpy_malaria.weath er.weather_variable.WeatherVariable[][]\T1/qtm/m/it/10 , [108] Overfull \hbox (21.12492pt too wide) in paragraph at lines 8845--8848 [] Underfull \hbox (badness 10000) in paragraph at lines 8845--8848 \T1/qtm/m/n/10 In this case low-er-case weather vari-able names are used, for e x-am-ple: [109] [110] Underfull \hbox (badness 10000) in paragraph at lines 9133--9136 []\T1/qtm/m/n/10 Sets up the de-fault pa-ram-e-ters for par-a-site ge-net-ics s im-u-la-tions Malaria_Model = Underfull \hbox (badness 6510) in paragraph at lines 9147--9149 []\T1/txtt/bx/n/10 var_gene_randomness_type \T1/qtm/m/n/10 ^^U pos-si-ble val-u es are ^^PFIXED_NEIGHBORHOOD^^Q, [111] Underfull \hbox (badness 10000) in paragraph at lines 9297--9301 \T1/qtm/m/n/10 sim-u-la-tion.task.config.parameters.Vector_Species_Params[i][^^ PHabitats^^Q][j][^^PMax_Larval_Capacity^^Q] = [112] Overfull \hbox (31.99455pt too wide) in paragraph at lines 9357--9360 []\T1/txtt/bx/n/10 female_to_male_probability \T1/qtm/m/n/10 ^^U \T1/qtm/b/n/10 Mi-crosporidia_Female_to_Male_Transmission_Probability Overfull \hbox (24.19456pt too wide) in paragraph at lines 9362--9365 []\T1/txtt/bx/n/10 female_to_egg_probability \T1/qtm/m/n/10 ^^U \T1/qtm/b/n/10 Mi-crosporidia_Female_To_Egg_Transmission_Probability Overfull \hbox (34.43456pt too wide) in paragraph at lines 9367--9370 []\T1/txtt/bx/n/10 male_to_female_probability \T1/qtm/m/n/10 ^^U \T1/qtm/b/n/10 Mi-crosporidia_Male_To_Female_Transmission_Probability Overfull \hbox (4.75461pt too wide) in paragraph at lines 9372--9376 []\T1/txtt/bx/n/10 male_to_egg_probability \T1/qtm/m/n/10 ^^U \T1/qtm/b/n/10 Mi -crosporidia_Male_To_Egg_Transmission_Probability Underfull \hbox (badness 10000) in paragraph at lines 9378--9386 []\T1/txtt/bx/n/10 duration_to_disease_acquisition_modification \T1/qtm/m/n/10 ^^U \T1/qtm/b/n/10 Mi- Underfull \hbox (badness 10000) in paragraph at lines 9401--9409 []\T1/txtt/bx/n/10 duration_to_disease_transmission_modification \T1/qtm/m/n/10 ^^U \T1/qtm/b/n/10 Mi- Underfull \hbox (badness 10000) in paragraph at lines 9401--9409 \T1/qtm/b/n/10 crosporidia_Duration_To_Disease_Transmission_Modification\T1/qtm /m/n/10 , A dic-tio-nary for [113] [114] [115] [116] [117] [118] [119] [120] Underfull \hbox (badness 10000) in paragraph at lines 10159--10163 \T1/qtm/m/n/10 sim-u-la-tion.task.config.parameters.Vector_Species_Params[i][^^ PHabitats^^Q][j][^^PMax_Larval_Capacity^^Q] = [121] Overfull \hbox (31.99455pt too wide) in paragraph at lines 10219--10222 []\T1/txtt/bx/n/10 female_to_male_probability \T1/qtm/m/n/10 ^^U \T1/qtm/b/n/10 Mi-crosporidia_Female_to_Male_Transmission_Probability Overfull \hbox (24.19456pt too wide) in paragraph at lines 10224--10227 []\T1/txtt/bx/n/10 female_to_egg_probability \T1/qtm/m/n/10 ^^U \T1/qtm/b/n/10 Mi-crosporidia_Female_To_Egg_Transmission_Probability Overfull \hbox (34.43456pt too wide) in paragraph at lines 10229--10232 []\T1/txtt/bx/n/10 male_to_female_probability \T1/qtm/m/n/10 ^^U \T1/qtm/b/n/10 Mi-crosporidia_Male_To_Female_Transmission_Probability Overfull \hbox (4.75461pt too wide) in paragraph at lines 10234--10238 []\T1/txtt/bx/n/10 male_to_egg_probability \T1/qtm/m/n/10 ^^U \T1/qtm/b/n/10 Mi -crosporidia_Male_To_Egg_Transmission_Probability Underfull \hbox (badness 10000) in paragraph at lines 10240--10248 []\T1/txtt/bx/n/10 duration_to_disease_acquisition_modification \T1/qtm/m/n/10 ^^U \T1/qtm/b/n/10 Mi- Underfull \hbox (badness 10000) in paragraph at lines 10263--10271 []\T1/txtt/bx/n/10 duration_to_disease_transmission_modification \T1/qtm/m/n/10 ^^U \T1/qtm/b/n/10 Mi- Underfull \hbox (badness 10000) in paragraph at lines 10263--10271 \T1/qtm/b/n/10 crosporidia_Duration_To_Disease_Transmission_Modification\T1/qtm /m/n/10 , A dic-tio-nary for [122] [123] [124] Chapter 3. [125] [126] [127] Overfull \hbox (15.08487pt too wide) in paragraph at lines 10533--10535 \T1/qtm/m/n/10 You need to spec-ify `^^Uindex-url = [][]$https : /$[][]/@idmod.org:@packages.idmod.org/api/pypi/pypi- [128] [129] [130] [131] [132] [133] [134] Overfull \hbox (19.37178pt too wide) in paragraph at lines 10882--10883 []\T1/txtt/m/n/10 emodpy_malaria.demographics.MalariaDemographics\T1/qtm/m/n/10 , Overfull \hbox (45.6217pt too wide) in paragraph at lines 10887--10888 []\T1/txtt/m/n/10 emodpy_malaria.interventions.community_health_worker\T1/qtm/m /n/10 , Underfull \hbox (badness 10000) in paragraph at lines 10890--10891 []\T1/txtt/m/n/10 emodpy_malaria.interventions.drug_campaign\T1/qtm/m/n/10 , Overfull \hbox (14.1218pt too wide) in paragraph at lines 10895--10896 []\T1/txtt/m/n/10 emodpy_malaria.interventions.malaria_challenge\T1/qtm/m/n/10 , Overfull \hbox (3.62183pt too wide) in paragraph at lines 10896--10897 []\T1/txtt/m/n/10 emodpy_malaria.interventions.mosquitorelease\T1/qtm/m/n/10 , Overfull \hbox (3.62183pt too wide) in paragraph at lines 10898--10899 []\T1/txtt/m/n/10 emodpy_malaria.interventions.outdoorrestkill\T1/qtm/m/n/10 , Overfull \hbox (35.12173pt too wide) in paragraph at lines 10899--10900 []\T1/txtt/m/n/10 emodpy_malaria.interventions.scale_larval_habitats\T1/qtm/m/n /10 , Underfull \hbox (badness 10000) in paragraph at lines 10900--10901 []\T1/txtt/m/n/10 emodpy_malaria.interventions.spacespraying\T1/qtm/m/n/10 , Overfull \hbox (14.1218pt too wide) in paragraph at lines 10902--10903 []\T1/txtt/m/n/10 emodpy_malaria.interventions.treatment_seeking\T1/qtm/m/n/10 , Overfull \hbox (40.37172pt too wide) in paragraph at lines 10903--10904 []\T1/txtt/m/n/10 emodpy_malaria.interventions.usage_dependent_bednet\T1/qtm/m/ n/10 , Overfull \hbox (3.62183pt too wide) in paragraph at lines 10906--10907 []\T1/txtt/m/n/10 emodpy_malaria.malaria_vector_species_params\T1/qtm/m/n/10 , Overfull \hbox (24.62177pt too wide) in paragraph at lines 10911--10912 []\T1/txtt/m/n/10 emodpy_malaria.vector_migration.vector_migration\T1/qtm/m/n/1 0 , [135] (./institute-for-disease-modeling-emodpy-malaria.ind [136] Underfull \hbox (badness 10000) in paragraph at lines 8--10 []\T1/txtt/m/n/10 add_campaign_event() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-u le Underfull \hbox (badness 10000) in paragraph at lines 8--10 \T1/qtm/m/it/10 emodpy_malaria.interventions.common\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 10--12 []\T1/txtt/m/n/10 add_campaign_event() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-u le Underfull \hbox (badness 10000) in paragraph at lines 10--12 \T1/qtm/m/it/10 emodpy_malaria.interventions.outbreak\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 12--14 []\T1/txtt/m/n/10 add_challenge_trial() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod- ule Overfull \hbox (15.59247pt too wide) in paragraph at lines 12--14 \T1/qtm/m/it/10 emodpy_malaria.interventions.malaria_challenge\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 14--16 []\T1/txtt/m/n/10 add_community_health_worker() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Overfull \hbox (47.96248pt too wide) in paragraph at lines 14--16 \T1/qtm/m/it/10 emodpy_malaria.interventions.community_health_worker\T1/qtm/m/n /10 ), Underfull \hbox (badness 10000) in paragraph at lines 16--18 []\T1/txtt/m/n/10 add_diagnostic_survey() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mo d-ule Underfull \hbox (badness 10000) in paragraph at lines 16--18 \T1/qtm/m/it/10 emodpy_malaria.interventions.diag_survey\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 18--20 []\T1/txtt/m/n/10 add_drug_campaign() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ul e Overfull \hbox (4.22249pt too wide) in paragraph at lines 18--20 \T1/qtm/m/it/10 emodpy_malaria.interventions.drug_campaign\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 20--22 []\T1/txtt/m/n/10 add_drug_resistance() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod- ule Underfull \hbox (badness 10000) in paragraph at lines 22--24 []\T1/txtt/m/n/10 add_drug_status_report() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in m od-ule Underfull \hbox (badness 10000) in paragraph at lines 24--26 []\T1/txtt/m/n/10 add_event_recorder() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-u le Underfull \hbox (badness 10000) in paragraph at lines 26--28 []\T1/txtt/m/n/10 add_fMDA() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Overfull \hbox (4.22249pt too wide) in paragraph at lines 26--28 \T1/qtm/m/it/10 emodpy_malaria.interventions.drug_campaign\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 28--30 []\T1/txtt/m/n/10 add_genes_and_alleles() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mo d-ule Underfull \hbox (badness 10000) in paragraph at lines 30--32 []\T1/txtt/m/n/10 add_habitat_reduction_event() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Overfull \hbox (27.56747pt too wide) in paragraph at lines 30--32 \T1/qtm/m/it/10 emodpy_malaria.interventions.scale_larval_habitats\T1/qtm/m/n/1 0 ), Underfull \hbox (badness 10000) in paragraph at lines 32--34 []\T1/txtt/m/n/10 add_human_migration_tracking() \T1/qtm/m/n/10 (\T1/qtm/m/it/1 0 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 34--36 []\T1/txtt/m/n/10 add_initial_vectors_per_species() Overfull \hbox (127.35252pt too wide) in paragraph at lines 34--36 \T1/qtm/m/n/10 (\T1/qtm/m/it/10 emodpy_malaria.demographics.MalariaDemographics .MalariaDemographics Underfull \hbox (badness 10000) in paragraph at lines 36--38 []\T1/txtt/m/n/10 add_initial_vectors_per_species_from_csv() Overfull \hbox (127.35252pt too wide) in paragraph at lines 36--38 \T1/qtm/m/n/10 (\T1/qtm/m/it/10 emodpy_malaria.demographics.MalariaDemographics .MalariaDemographics Underfull \hbox (badness 10000) in paragraph at lines 38--40 []\T1/txtt/m/n/10 add_insecticide_resistance() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 40--42 []\T1/txtt/m/n/10 add_insecticide_resistance() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 42--44 []\T1/txtt/m/n/10 add_IPTi() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Overfull \hbox (4.22249pt too wide) in paragraph at lines 42--44 \T1/qtm/m/it/10 emodpy_malaria.interventions.drug_campaign\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 44--46 []\T1/txtt/m/n/10 add_itn_scheduled() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ul e Underfull \hbox (badness 10000) in paragraph at lines 46--48 []\T1/txtt/m/n/10 add_itn_triggered() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ul e Underfull \hbox (badness 10000) in paragraph at lines 48--50 []\T1/txtt/m/n/10 add_larval_habitat_multiplier() Overfull \hbox (127.35252pt too wide) in paragraph at lines 48--50 \T1/qtm/m/n/10 (\T1/qtm/m/it/10 emodpy_malaria.demographics.MalariaDemographics .MalariaDemographics Underfull \hbox (badness 10000) in paragraph at lines 50--52 []\T1/txtt/m/n/10 add_larvicide() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 50--52 \T1/qtm/m/it/10 emodpy_malaria.interventions.larvicide\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 54--56 []\T1/txtt/m/n/10 add_malaria_immunity_report() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 56--58 []\T1/txtt/m/n/10 add_malaria_patient_json_report() \T1/qtm/m/n/10 (\T1/qtm/m/i t/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 58--60 []\T1/txtt/m/n/10 add_malaria_summary_report() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 60--62 []\T1/txtt/m/n/10 add_malaria_survey_analyzer() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 62--64 []\T1/txtt/m/n/10 add_MDA() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Overfull \hbox (4.22249pt too wide) in paragraph at lines 62--64 \T1/qtm/m/it/10 emodpy_malaria.interventions.drug_campaign\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 64--66 []\T1/txtt/m/n/10 add_microsporidia() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ul e Underfull \hbox (badness 10000) in paragraph at lines 66--68 []\T1/txtt/m/n/10 add_microsporidia() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ul e Underfull \hbox (badness 10000) in paragraph at lines 68--70 []\T1/txtt/m/n/10 add_MSAT() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Overfull \hbox (4.22249pt too wide) in paragraph at lines 68--70 \T1/qtm/m/it/10 emodpy_malaria.interventions.drug_campaign\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 70--72 []\T1/txtt/m/n/10 add_mutation() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 72--74 []\T1/txtt/m/n/10 add_outbreak_individual() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 72--74 \T1/qtm/m/it/10 emodpy_malaria.interventions.outbreak\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 74--76 []\T1/txtt/m/n/10 add_outbreak_malaria_genetics() \T1/qtm/m/n/10 (\T1/qtm/m/it/ 10 in mod-ule [137] Underfull \hbox (badness 10000) in paragraph at lines 76--78 []\T1/txtt/m/n/10 add_outbreak_malaria_var_genes() \T1/qtm/m/n/10 (\T1/qtm/m/it /10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 78--80 []\T1/txtt/m/n/10 add_outdoorrestkill() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod- ule Underfull \hbox (badness 10000) in paragraph at lines 80--82 []\T1/txtt/m/n/10 add_report_event_counter() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 82--84 []\T1/txtt/m/n/10 add_report_fpg_output() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mo d-ule Underfull \hbox (badness 10000) in paragraph at lines 86--88 []\T1/txtt/m/n/10 add_report_intervention_pop_avg() \T1/qtm/m/n/10 (\T1/qtm/m/i t/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 88--90 []\T1/txtt/m/n/10 add_report_malaria_filtered() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 90--92 []\T1/txtt/m/n/10 add_report_malaria_filtered_intrahost() \T1/qtm/m/n/10 (\T1/q tm/m/it/10 in Underfull \hbox (badness 10000) in paragraph at lines 92--94 []\T1/txtt/m/n/10 add_report_microsporidia() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 94--96 []\T1/txtt/m/n/10 add_report_node_demographics() \T1/qtm/m/n/10 (\T1/qtm/m/it/1 0 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 96--98 []\T1/txtt/m/n/10 add_report_node_demographics_malaria() \T1/qtm/m/n/10 (\T1/qt m/m/it/10 in Overfull \hbox (16.87178pt too wide) in paragraph at lines 98--100 []\T1/txtt/m/n/10 add_report_node_demographics_malaria_genetics() Underfull \hbox (badness 10000) in paragraph at lines 100--102 []\T1/txtt/m/n/10 add_report_simulation_stats() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 102--104 []\T1/txtt/m/n/10 add_report_vector_genetics() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 104--106 []\T1/txtt/m/n/10 add_report_vector_migration() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 106--108 []\T1/txtt/m/n/10 add_report_vector_stats() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 108--110 []\T1/txtt/m/n/10 add_report_vector_stats_malaria_genetics() Underfull \hbox (badness 10000) in paragraph at lines 110--112 []\T1/txtt/m/n/10 add_rfMDA() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Overfull \hbox (4.22249pt too wide) in paragraph at lines 110--112 \T1/qtm/m/it/10 emodpy_malaria.interventions.drug_campaign\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 112--114 []\T1/txtt/m/n/10 add_rfMSAT() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Overfull \hbox (4.22249pt too wide) in paragraph at lines 112--114 \T1/qtm/m/it/10 emodpy_malaria.interventions.drug_campaign\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 114--116 []\T1/txtt/m/n/10 add_scale_larval_habitats() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 i n mod-ule Overfull \hbox (27.56747pt too wide) in paragraph at lines 114--116 \T1/qtm/m/it/10 emodpy_malaria.interventions.scale_larval_habitats\T1/qtm/m/n/1 0 ), Underfull \hbox (badness 10000) in paragraph at lines 116--118 []\T1/txtt/m/n/10 add_scheduled_antimalarial_drug() \T1/qtm/m/n/10 (\T1/qtm/m/i t/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 118--120 []\T1/txtt/m/n/10 add_scheduled_input_eir() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 118--120 \T1/qtm/m/it/10 emodpy_malaria.interventions.inputeir\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 120--122 []\T1/txtt/m/n/10 add_scheduled_irs_housing_modification() \T1/qtm/m/n/10 (\T1/ qtm/m/it/10 in Underfull \hbox (badness 10000) in paragraph at lines 122--124 []\T1/txtt/m/n/10 add_scheduled_ivermectin() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 122--124 \T1/qtm/m/it/10 emodpy_malaria.interventions.ivermectin\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 124--126 []\T1/txtt/m/n/10 add_scheduled_mosquito_release() \T1/qtm/m/n/10 (\T1/qtm/m/it /10 in mod-ule Overfull \hbox (5.84247pt too wide) in paragraph at lines 124--126 \T1/qtm/m/it/10 emodpy_malaria.interventions.mosquitorelease\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 126--128 []\T1/txtt/m/n/10 add_scheduled_space_spraying() \T1/qtm/m/n/10 (\T1/qtm/m/it/1 0 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 126--128 \T1/qtm/m/it/10 emodpy_malaria.interventions.spacespraying\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 128--130 []\T1/txtt/m/n/10 add_scheduled_sugar_trap() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 128--130 \T1/qtm/m/it/10 emodpy_malaria.interventions.sugartrap\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 130--132 []\T1/txtt/m/n/10 add_scheduled_usage_dependent_bednet() \T1/qtm/m/n/10 (\T1/qt m/m/it/10 in Overfull \hbox (72.8525pt too wide) in paragraph at lines 130--132 \T1/qtm/m/it/10 mod-ule emodpy_malaria.interventions.usage_dependent_bednet\T1/ qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 132--134 []\T1/txtt/m/n/10 add_scheduled_vaccine() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mo d-ule Underfull \hbox (badness 10000) in paragraph at lines 132--134 \T1/qtm/m/it/10 emodpy_malaria.interventions.vaccine\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 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in paragraph at lines 147--149 \T1/qtm/m/it/10 emodpy_malaria.interventions.treatment_seeking\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 149--151 \T1/qtm/m/it/10 ule emodpy_malaria.interventions.common\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 151--153 []\T1/txtt/m/n/10 add_triggered_irs_housing_modification() \T1/qtm/m/n/10 (\T1/ qtm/m/it/10 in Underfull \hbox (badness 10000) in paragraph at lines 153--155 []\T1/txtt/m/n/10 add_triggered_ivermectin() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 153--155 \T1/qtm/m/it/10 emodpy_malaria.interventions.ivermectin\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 155--157 []\T1/txtt/m/n/10 add_triggered_usage_dependent_bednet() \T1/qtm/m/n/10 (\T1/qt m/m/it/10 in Overfull \hbox (72.8525pt too wide) in paragraph at lines 155--157 \T1/qtm/m/it/10 mod-ule emodpy_malaria.interventions.usage_dependent_bednet\T1/ qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 157--159 []\T1/txtt/m/n/10 add_triggered_vaccine() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mo d-ule Underfull \hbox (badness 10000) in paragraph at lines 157--159 \T1/qtm/m/it/10 emodpy_malaria.interventions.vaccine\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 159--161 []\T1/txtt/m/n/10 add_vector_habitat_report() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 i n mod-ule Underfull \hbox (badness 10000) in paragraph at lines 161--163 []\T1/txtt/m/n/10 add_visualizations() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-u le Underfull \hbox (badness 10000) in paragraph at lines 163--165 []\T1/txtt/m/n/10 adherent_drug() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 163--165 \T1/qtm/m/it/10 emodpy_malaria.interventions.adherentdrug\T1/qtm/m/n/10 ), [138] Overfull \hbox (100.74232pt too wide) in paragraph at lines 165--167 []\T1/txtt/m/n/10 AgesYears \T1/qtm/m/n/10 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471--473 []\T1/txtt/m/n/10 make_file_paths() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 emodpy_mala ria.weather.weather_set.WeatherSet Underfull \hbox (badness 10000) in paragraph at lines 473--475 []\T1/txtt/m/n/10 make_path() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 473--475 \T1/qtm/m/it/10 emodpy_malaria.weather.weather_utils\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 475--477 []\T1/txtt/m/n/10 MalariaDemographics \T1/qtm/m/n/10 (\T1/qtm/m/it/10 class in Overfull \hbox (36.1975pt too wide) in paragraph at lines 475--477 \T1/qtm/m/it/10 emodpy_malaria.demographics.MalariaDemographics\T1/qtm/m/n/10 ) , [141] Underfull \hbox (badness 10000) in paragraph at lines 477--479 []\T1/txtt/m/n/10 MalariaImmunityReport \T1/qtm/m/n/10 (\T1/qtm/m/it/10 class i n Underfull \hbox (badness 10000) in paragraph at lines 479--481 []\T1/txtt/m/n/10 MalariaPatientJSONReport \T1/qtm/m/n/10 (\T1/qtm/m/it/10 clas s in Underfull \hbox 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[]\T1/txtt/m/n/10 PIECEWISE_CONSTANT \T1/qtm/m/n/10 (\T1/qtm/m/it/10 emodpy_mal aria.vector_migration.vector_migration.VectorMigration Overfull \hbox (80.38231pt too wide) in paragraph at lines 641--643 []\T1/txtt/m/n/10 provenance \T1/qtm/m/n/10 (\T1/qtm/m/it/10 emodpy_malaria.wea ther.weather_metadata.WeatherAttributes Overfull \hbox (60.9415pt too wide) in paragraph at lines 646--648 []\T1/txtt/m/n/10 RAINFALL \T1/qtm/m/n/10 (\T1/qtm/m/it/10 emodpy_malaria.weath er.weather_variable.WeatherVariable Overfull \hbox (147.99136pt too wide) in paragraph at lines 648--650 []\T1/txtt/m/n/10 REGIONAL_MIGRATION \T1/qtm/m/n/10 (\T1/qtm/m/it/10 emodpy_mal aria.vector_migration.vector_migration.VectorMigration Overfull \hbox (108.19136pt too wide) in paragraph at lines 650--652 []\T1/txtt/m/n/10 RELATIVE_HUMIDITY \T1/qtm/m/n/10 (\T1/qtm/m/it/10 emodpy_mala ria.weather.weather_variable.WeatherVariable Overfull \hbox (43.26233pt too wide) in paragraph at lines 652--654 []\T1/txtt/m/n/10 report 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in Underfull \hbox (badness 10000) in paragraph at lines 684--686 []\T1/txtt/m/n/10 ReportVectorMigration \T1/qtm/m/n/10 (\T1/qtm/m/it/10 class i n Underfull \hbox (badness 10000) in paragraph at lines 686--688 []\T1/txtt/m/n/10 ReportVectorStats \T1/qtm/m/n/10 (\T1/qtm/m/it/10 class in Underfull \hbox (badness 10000) in paragraph at lines 688--690 []\T1/txtt/m/n/10 ReportVectorStatsMalariaGenetics \T1/qtm/m/n/10 (\T1/qtm/m/it /10 class in Underfull \hbox (badness 10000) in paragraph at lines 690--692 []\T1/txtt/m/n/10 RequestReport \T1/qtm/m/n/10 (\T1/qtm/m/it/10 class in Underfull \hbox (badness 10000) in paragraph at lines 690--692 \T1/qtm/m/it/10 emodpy_malaria.weather.weather_request\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 692--694 []\T1/txtt/m/n/10 required_metadata_defaults_dict() Overfull \hbox (66.21246pt too wide) in paragraph at lines 692--694 \T1/qtm/m/n/10 (\T1/qtm/m/it/10 emodpy_malaria.weather.weather_metadata.Weather Attributes Underfull 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wide) in paragraph at lines 705--707 []\T1/txtt/m/n/10 series_len \T1/qtm/m/n/10 (\T1/qtm/m/it/10 emodpy_malaria.wea ther.weather_metadata.WeatherMetadata Underfull \hbox (badness 10000) in paragraph at lines 707--709 []\T1/txtt/m/n/10 series_unique_count Overfull \hbox (65.09247pt too wide) in paragraph at lines 707--709 \T1/qtm/m/n/10 (\T1/qtm/m/it/10 emodpy_malaria.weather.weather_metadata.Weather Metadata Underfull \hbox (badness 10000) in paragraph at lines 709--711 []\T1/txtt/m/n/10 set_drug_param() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 711--713 []\T1/txtt/m/n/10 set_max_larval_capacity() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 713--715 []\T1/txtt/m/n/10 set_max_larval_capacity() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule Underfull \hbox (badness 10000) in paragraph at lines 715--717 []\T1/txtt/m/n/10 set_parasite_genetics_params() \T1/qtm/m/n/10 (\T1/qtm/m/it/1 0 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(badness 10000) in paragraph at lines 820--822 \T1/qtm/m/it/10 emodpy_malaria.weather.weather_metadata\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 822--824 []\T1/txtt/m/n/10 WeatherRequest \T1/qtm/m/n/10 (\T1/qtm/m/it/10 class in Underfull \hbox (badness 10000) in paragraph at lines 822--824 \T1/qtm/m/it/10 emodpy_malaria.weather.weather_request\T1/qtm/m/n/10 ), Overfull \hbox (16.7023pt too wide) in paragraph at lines 824--826 []\T1/txtt/m/n/10 WeatherSet \T1/qtm/m/n/10 (\T1/qtm/m/it/10 class in emodpy_ma laria.weather.weather_set\T1/qtm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 826--828 []\T1/txtt/m/n/10 WeatherVariable \T1/qtm/m/n/10 (\T1/qtm/m/it/10 class in Underfull \hbox (badness 10000) in paragraph at lines 826--828 \T1/qtm/m/it/10 emodpy_malaria.weather.weather_variable\T1/qtm/m/n/10 ), Overfull \hbox (5.75735pt too wide) in paragraph at lines 831--833 []\T1/txtt/m/n/10 ymd() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 in mod-ule emodpy_malar ia.weather.weather_utils\T1/qtm/m/n/10 ), [145]) (./institute-for-disease-modeling-emodpy-malaria.aux) ) (see the transcript file for additional information){/usr/share/texmf/fonts/enc /dvips/tex-gyre/q-ec.enc}{/usr/share/texlive/texmf-dist/fonts/enc/dvips/base/8r .enc}{/usr/share/texmf/fonts/enc/dvips/tex-gyre/q-ts1.enc} Output written on institute-for-disease-modeling-emodpy-malaria.pdf (149 pages, 606696 bytes). Transcript written on institute-for-disease-modeling-emodpy-malaria.log. Latexmk: Index file 'institute-for-disease-modeling-emodpy-malaria.idx' was written Latexmk: Log file says output to 'institute-for-disease-modeling-emodpy-malaria.pdf' Latexmk: Log file says output to 'institute-for-disease-modeling-emodpy-malaria.pdf' Latexmk: All targets (institute-for-disease-modeling-emodpy-malaria.pdf) are up-to-date