Read the Docs build information Build id: 3106920 Project: institute-for-disease-modeling-laser-measles Version: latest Commit: f1ca8dde859a1e39048854104faf9f204471ed61 Date: 2025-06-10T03:25:14.835598Z State: finished Success: False [rtd-command-info] start-time: 2025-06-10T03:25:15.669176Z, end-time: 2025-06-10T03:25:16.227477Z, duration: 0, exit-code: 0 git clone --depth 1 https://github.com/InstituteforDiseaseModeling/laser-measles.git . Cloning into '.'... [rtd-command-info] start-time: 2025-06-10T03:25:16.275225Z, end-time: 2025-06-10T03:25:17.210672Z, duration: 0, exit-code: 0 git fetch origin --force --prune --prune-tags --depth 50 refs/heads/main:refs/remotes/origin/main From https://github.com/InstituteforDiseaseModeling/laser-measles * [new tag] v0.5.0 -> v0.5.0 * [new tag] v0.6.1 -> v0.6.1 * [new tag] v0.6.2 -> v0.6.2 [rtd-command-info] start-time: 2025-06-10T03:25:17.315353Z, end-time: 2025-06-10T03:25:17.392542Z, 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 f1ca8dd add tutorial [rtd-command-info] start-time: 2025-06-10T03:25:17.437588Z, end-time: 2025-06-10T03:25:17.483503Z, duration: 0, exit-code: 0 cat .readthedocs.yml # See https://docs.readthedocs.io/en/stable/config-file/v2.html for details version: 2 sphinx: configuration: docs/conf.py formats: all build: os: ubuntu-22.04 tools: python: "3.12" python: install: - requirements: docs/requirements.txt - method: pip path: . # Optionally build your docs in additional formats such as PDF and ePub # formats: # - pdf # - epub [rtd-command-info] start-time: 2025-06-10T03:25:22.861105Z, end-time: 2025-06-10T03:25:22.923181Z, duration: 0, exit-code: 0 asdf global python 3.12.10 [rtd-command-info] start-time: 2025-06-10T03:25:23.345610Z, end-time: 2025-06-10T03:25:24.508296Z, duration: 1, exit-code: 0 python -mvirtualenv $READTHEDOCS_VIRTUALENV_PATH created virtual environment CPython3.12.10.final.0-64 in 831ms creator CPython3Posix(dest=/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest, clear=False, no_vcs_ignore=False, global=False) seeder FromAppData(download=False, pip=bundle, setuptools=bundle, wheel=bundle, via=copy, app_data_dir=/home/docs/.local/share/virtualenv) added seed packages: pip==23.1, setuptools==67.6.1, wheel==0.40.0 activators BashActivator,CShellActivator,FishActivator,NushellActivator,PowerShellActivator,PythonActivator [rtd-command-info] start-time: 2025-06-10T03:25:24.549967Z, end-time: 2025-06-10T03:25:35.580810Z, duration: 11, exit-code: 0 python -m pip install --upgrade --no-cache-dir pip setuptools Looking in indexes: https://pypi.org/simple, https://packages.idmod.org/api/pypi/pypi-production/simple Requirement already satisfied: pip in 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alabaster, requests, Jinja2, sphinx Successfully installed Jinja2-3.1.6 MarkupSafe-3.0.2 Pygments-2.19.1 alabaster-1.0.0 babel-2.17.0 certifi-2025.4.26 charset_normalizer-3.4.2 docutils-0.21.2 idna-3.10 imagesize-1.4.1 packaging-25.0 requests-2.32.4 roman-numerals-py-3.1.0 snowballstemmer-3.0.1 sphinx-8.2.3 sphinxcontrib-applehelp-2.0.0 sphinxcontrib-devhelp-2.0.0 sphinxcontrib-htmlhelp-2.1.0 sphinxcontrib-jsmath-1.0.1 sphinxcontrib-qthelp-2.0.0 sphinxcontrib-serializinghtml-2.0.0 urllib3-2.4.0 [rtd-command-info] start-time: 2025-06-10T03:25:45.435122Z, end-time: 2025-06-10T03:26:29.749270Z, duration: 44, exit-code: 0 python -m pip install --exists-action=w --no-cache-dir -r docs/requirements.txt Looking in indexes: https://pypi.org/simple, https://packages.idmod.org/api/pypi/pypi-production/simple Collecting pandoc (from -r docs/requirements.txt (line 1)) Downloading 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Discussion can be found at https://github.com/pypa/pip/issues/6334 Building wheel for pandoc (setup.py): started Building wheel for pandoc (setup.py): finished with status 'done' Created wheel for pandoc: filename=pandoc-2.4-py3-none-any.whl size=34871 sha256=bc513ef6a97a149bcc4f90930c263673ea9899674454b2a38bb3f3ceae27b127 Stored in directory: /tmp/pip-ephem-wheel-cache-a4kluu32/wheels/48/c9/1f/4e719eb39abdab7e13324bc447609284c7bb8a5ce5836dc838 Successfully built pandoc Installing collected packages: webencodings, wcwidth, pytz, pure-eval, ptyprocess, ply, fastjsonschema, zstandard, xlsxwriter, widgetsnbextension, tzdata, typing-extensions, traitlets, tqdm, tornado, tinycss2, soupsieve, smmap, six, rpds-py, readthedocs-sphinx-search, pyzmq, pyyaml, pyparsing, pypandoc, psutil, prompt_toolkit, plumbum, platformdirs, pillow, pexpect, parso, pandocfilters, numpy, nest-asyncio, mistune, line_profiler, kiwisolver, jupyterlab_widgets, jupyterlab-pygments, jsonpickle, jellyfish, ipython-pygments-lexers, fonttools, executing, et-xmlfile, dill, defusedxml, decorator, debugpy, cycler, bleach, attrs, asttokens, accessible-pygments, stack_data, scipy, referencing, python-dateutil, pockets, plantweb, pandoc, openpyxl, multiprocess, memory_profiler, matplotlib-inline, jupyter-core, jedi, gitdb, contourpy, comm, beautifulsoup4, sphinxcontrib-napoleon, sphinx-design, sphinx-autodoc-typehints, pydata-sphinx-theme, pandas, matplotlib, jupyter-client, jsonschema-specifications, ipython, gitpython, sciris, jsonschema, ipywidgets, ipykernel, nbformat, nbclient, nbconvert, nbsphinx Successfully installed accessible-pygments-0.0.5 asttokens-3.0.0 attrs-25.3.0 beautifulsoup4-4.13.4 bleach-6.2.0 comm-0.2.2 contourpy-1.3.2 cycler-0.12.1 debugpy-1.8.14 decorator-5.2.1 defusedxml-0.7.1 dill-0.4.0 et-xmlfile-2.0.0 executing-2.2.0 fastjsonschema-2.21.1 fonttools-4.58.2 gitdb-4.0.12 gitpython-3.1.44 ipykernel-6.29.5 ipython-9.3.0 ipython-pygments-lexers-1.1.1 ipywidgets-8.1.7 jedi-0.19.2 jellyfish-1.2.0 jsonpickle-4.1.1 jsonschema-4.24.0 jsonschema-specifications-2025.4.1 jupyter-client-8.6.3 jupyter-core-5.8.1 jupyterlab-pygments-0.3.0 jupyterlab_widgets-3.0.15 kiwisolver-1.4.8 line_profiler-4.2.0 matplotlib-3.10.3 matplotlib-inline-0.1.7 memory_profiler-0.61.0 mistune-3.1.3 multiprocess-0.70.18 nbclient-0.10.2 nbconvert-7.16.6 nbformat-5.10.4 nbsphinx-0.9.6 nest-asyncio-1.6.0 numpy-2.3.0 openpyxl-3.1.5 pandas-2.3.0 pandoc-2.4 pandocfilters-1.5.1 parso-0.8.4 pexpect-4.9.0 pillow-11.2.1 plantweb-1.3.0 platformdirs-4.3.8 plumbum-1.9.0 ply-3.11 pockets-0.9.1 prompt_toolkit-3.0.51 psutil-7.0.0 ptyprocess-0.7.0 pure-eval-0.2.3 pydata-sphinx-theme-0.16.1 pypandoc-1.15 pyparsing-3.2.3 python-dateutil-2.9.0.post0 pytz-2025.2 pyyaml-6.0.2 pyzmq-26.4.0 readthedocs-sphinx-search-0.3.2 referencing-0.36.2 rpds-py-0.25.1 scipy-1.15.3 sciris-3.2.1 six-1.17.0 smmap-5.0.2 soupsieve-2.7 sphinx-autodoc-typehints-3.2.0 sphinx-design-0.6.1 sphinxcontrib-napoleon-0.7 stack_data-0.6.3 tinycss2-1.4.0 tornado-6.5.1 tqdm-4.67.1 traitlets-5.14.3 typing-extensions-4.14.0 tzdata-2025.2 wcwidth-0.2.13 webencodings-0.5.1 widgetsnbextension-4.0.14 xlsxwriter-3.2.3 zstandard-0.23.0 [rtd-command-info] start-time: 2025-06-10T03:26:29.813750Z, end-time: 2025-06-10T03:27:03.266239Z, duration: 33, exit-code: 0 python -m pip install --upgrade --upgrade-strategy only-if-needed --no-cache-dir . 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pyparsing>=2.3.1 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages (from matplotlib->laser-core==0.5.1->laser-measles==0.6.2) (3.2.3) Requirement already satisfied: six>=1.5 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages (from python-dateutil->sciris>=3.2.1->laser-measles==0.6.2) (1.17.0) Collecting llvmlite<0.45,>=0.44.0dev0 (from numba->laser-core==0.5.1->laser-measles==0.6.2) Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/cb/da/8341fd3056419441286c8e26bf436923021005ece0bff5f41906476ae514/llvmlite-0.44.0-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (42.4 MB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 42.4/42.4 MB 13.7 MB/s eta 0:00:00 Collecting numpy (from laser-core==0.5.1->laser-measles==0.6.2) Downloading https://packages.idmod.org/api/pypi/pypi-production/packages/packages/8c/3d/1e1db36cfd41f895d266b103df00ca5b3cbe965184df824dec5c08c6b803/numpy-2.2.6-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (16.5 MB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 16.5/16.5 MB 13.8 MB/s eta 0:00:00 Requirement already satisfied: et-xmlfile in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages (from openpyxl->sciris>=3.2.1->laser-measles==0.6.2) (2.0.0) Requirement already satisfied: pytz>=2020.1 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages (from pandas->laser-core==0.5.1->laser-measles==0.6.2) (2025.2) Requirement already satisfied: tzdata>=2022.7 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages (from pandas->laser-core==0.5.1->laser-measles==0.6.2) (2025.2) Building wheels for collected packages: laser-measles, grapheme Building wheel for laser-measles (pyproject.toml): started Building wheel for laser-measles (pyproject.toml): finished with status 'done' Created wheel for laser-measles: filename=laser_measles-0.6.2-cp312-cp312-linux_x86_64.whl size=4466756 sha256=ef43f4757ccbaf6b62f5835f47fd75ed68c3004efc1f5362a7e0f82c58dee894 Stored in directory: /tmp/pip-ephem-wheel-cache-874fx1ib/wheels/62/3a/36/ef67797e01da7b9b6a2f5625cf489f3ab1d1bec0d42e59cb70 DEPRECATION: Building 'grapheme' using the legacy setup.py bdist_wheel mechanism, which will be removed in a future version. pip 25.3 will enforce this behaviour change. A possible replacement is to use the standardized build interface by setting the `--use-pep517` option, (possibly combined with `--no-build-isolation`), or adding a `pyproject.toml` file to the source tree of 'grapheme'. Discussion can be found at https://github.com/pypa/pip/issues/6334 Building wheel for grapheme (setup.py): started Building wheel for grapheme (setup.py): finished with status 'done' Created wheel for grapheme: filename=grapheme-0.6.0-py3-none-any.whl size=210136 sha256=eea59ae595a81ca7fcc1e6a091939272cd0d95bbfb9ba45bf6a11557ae5ec1c6 Stored in directory: /tmp/pip-ephem-wheel-cache-874fx1ib/wheels/79/3e/d7/a2aee5a2aaef471aaf680602ef8734c9eca78ab158ad47a4c7 Successfully built laser-measles grapheme Installing collected packages: grapheme, appdirs, typing-inspection, pydantic-core, pycountry, pyarrow, polars, numpy, llvmlite, diskcache, click, annotated-types, about-time, pydantic, numba, h5py, alive-progress, laser-core, laser-measles Attempting uninstall: numpy Found existing installation: numpy 2.3.0 Uninstalling numpy-2.3.0: Successfully uninstalled numpy-2.3.0 Successfully installed about-time-4.2.1 alive-progress-3.2.0 annotated-types-0.7.0 appdirs-1.4.4 click-8.2.1 diskcache-5.6.3 grapheme-0.6.0 h5py-3.14.0 laser-core-0.5.1 laser-measles-0.6.2 llvmlite-0.44.0 numba-0.61.2 numpy-2.2.6 polars-1.30.0 pyarrow-20.0.0 pycountry-24.6.1 pydantic-2.11.5 pydantic-core-2.33.2 typing-inspection-0.4.1 [rtd-command-info] start-time: 2025-06-10T03:27:03.397841Z, end-time: 2025-06-10T03:27:03.443280Z, duration: 0, exit-code: 0 cat docs/conf.py # -*- coding: utf-8 -*- # # Configuration file for the Sphinx documentation builder. import os import sys import sciris as sc on_rtd = os.environ.get('READTHEDOCS') == 'True' # -- Project information ----------------------------------------------------- project = 'laser-measles' copyright = f'2024 - {sc.now().year}, Bill & Melinda Gates Foundation. All rights reserved.' # The short X.Y version version = release = "0.6.2" # -- General configuration --------------------------------------------------- # Add any Sphinx extension module names here extensions = [ "sphinx.ext.autodoc", # Core Sphinx library for auto html doc generation from docstrings "sphinx.ext.autosummary", # Create neat summary tables for modules/classes/methods etc -- causes warnings with Napoleon however "sphinx.ext.intersphinx", "sphinx.ext.viewcode", # Add a link to the Python source code for classes, functions etc. "sphinx.ext.napoleon", "sphinx.ext.autosectionlabel", "sphinx.ext.doctest", # Enable doctest builder "sphinx_autodoc_typehints", # Automatically document param types (less noise in class signature) "sphinx_design", # Add e.g. grid layout 'sphinx_search.extension', # search across multiple docsets in domain "nbsphinx", ] # Use Google docstrings napoleon_google_docstring = True # Configure autosummary autosummary_generate = True # Turn on sphinx.ext.autosummary autosummary_ignore_module_all = False # Respect __all__ autodoc_member_order = 'bysource' # Keep original ordering add_module_names = False # NB, does not work autodoc_inherit_docstrings = False # Stops sublcasses from including docs from parent classes # Add any paths that contain templates here, relative to this directory. templates_path = ["_templates"] # Syntax highlighting style pygments_style = "sphinx" modindex_common_prefix = ["laser_measles."] # List of patterns, relative to source directory, to exclude exclude_patterns = ["_build", "Thumbs.db", ".DS_Store", "**.ipynb_checkpoints"] # Suppress certain warnings suppress_warnings = ['autosectionlabel.*'] # -- Options for HTML output ------------------------------------------------- html_theme = "pydata_sphinx_theme" html_theme_options = { "collapse_navigation": False, "navigation_depth": 3, "show_prev_next": True, "icon_links": [ {"name": "Web", "url": "https://laser-measles.readthedocs.io/en/latest/", "icon": "fas fa-home"}, { "name": "GitHub", "url": "https://github.com/InstituteforDiseaseModeling/laser-measles", "icon": "fab fa-github-square", }, ], "navbar_end": ["theme-switcher", "navbar-icon-links"], "secondary_sidebar_items": ["navbar-side"], "header_links_before_dropdown": 5, "footer_start": ["copyright", "footer_start"], "footer_end": ["theme-version", "footer_end"], } html_sidebars = { "**": ["sidebar-nav-bs", "page-toc"], } html_logo = "images/idm-logo-transparent.png" html_favicon = "images/favicon.ico" html_static_path = ['_static'] html_baseurl = "https://docs.idmod.org/" html_context = { 'rtd_url': 'https://docs.idmod.org/', "versions_dropdown": { "latest": "devel (latest)", "stable": "current (stable)", }, "default_mode": "light", } # Add any extra paths that contain custom files if not on_rtd: html_extra_path = ['robots.txt'] # If true, "Created using Sphinx" is shown in the HTML footer. Default is True. html_last_updated_fmt = '%Y-%b-%d' html_show_sourcelink = True html_show_sphinx = False html_copy_source = False htmlhelp_basename = 'laser-measles' # Add customizations def setup(app): app.add_css_file("theme_overrides.css") # Modify this to not rerun the Jupyter notebook cells -- usually set by build_docs nbsphinx_execute = 'always' nbsphinx_timeout = 300 # OpenSearch options html_use_opensearch = 'docs.idmod.org/projects/laser-measles/en/latest' # -- RTD Sphinx search for searching across the entire domain, default child ------------- if os.environ.get('READTHEDOCS') == 'True': search_project_parent = "institute-for-disease-modeling-idm" search_project = os.environ["READTHEDOCS_PROJECT"] search_version = os.environ["READTHEDOCS_VERSION"] rtd_sphinx_search_default_filter = f"subprojects:{search_project}/{search_version}" rtd_sphinx_search_filters = { "Search this project": f"project:{search_project}/{search_version}", "Search all IDM docs": f"subprojects:{search_project_parent}/{search_version}", } [rtd-command-info] start-time: 2025-06-10T03:27:03.487752Z, end-time: 2025-06-10T03:27:14.133735Z, duration: 10, exit-code: 2 python -m sphinx -T -b html -d _build/doctrees -D language=en . $READTHEDOCS_OUTPUT/html Running Sphinx v8.2.3 Matplotlib is building the font cache; this may take a moment. loading translations [en]... done making output directory... done [autosummary] generating autosummary for: api/index.rst, authors.rst, changelog.rst, contributing.rst, index.rst, installation.rst, reference/laser_measles.biweekly.components.rst, reference/laser_measles.biweekly.rst, reference/laser_measles.demographics.rst, reference/laser_measles.generic.rst, reference/laser_measles.nigeria.rst, reference/laser_measles.rst, reference/modules.rst, tutorials.rst, tutorials/README.rst, tutorials/tut_demographics.ipynb, usage.rst WARNING: Failed to import laser_measles. Possible hints: * KeyError: 'laser_measles' * ModuleNotFoundError: No module named 'shapefile' WARNING: Failed to import laser_measles.antibodies. Possible hints: * KeyError: 'laser_measles' * ModuleNotFoundError: No module named 'shapefile' WARNING: Failed to import laser_measles.api. Possible hints: * KeyError: 'laser_measles' * ModuleNotFoundError: No module named 'shapefile' WARNING: Failed to import laser_measles.births. Possible hints: * KeyError: 'laser_measles' * ModuleNotFoundError: No module named 'shapefile' WARNING: Failed to import laser_measles.cli. Possible hints: * KeyError: 'laser_measles' * ModuleNotFoundError: No module named 'shapefile' WARNING: Failed to import laser_measles.core. Possible hints: * KeyError: 'laser_measles' * ModuleNotFoundError: No module named 'shapefile' WARNING: Failed to import laser_measles.incubation. Possible hints: * KeyError: 'laser_measles' * ModuleNotFoundError: No module named 'shapefile' WARNING: Failed to import laser_measles.infection. Possible hints: * KeyError: 'laser_measles' * ModuleNotFoundError: No module named 'shapefile' WARNING: Failed to import laser_measles.model. Possible hints: * KeyError: 'laser_measles' * ModuleNotFoundError: No module named 'shapefile' WARNING: Failed to import laser_measles.mortality. Possible hints: * KeyError: 'laser_measles' * ModuleNotFoundError: No module named 'shapefile' WARNING: Failed to import laser_measles.routine. Possible hints: * KeyError: 'laser_measles' * ModuleNotFoundError: No module named 'shapefile' WARNING: Failed to import laser_measles.susceptibility. Possible hints: * KeyError: 'laser_measles' * ModuleNotFoundError: No module named 'shapefile' WARNING: Failed to import laser_measles.transmission. Possible hints: * KeyError: 'laser_measles' * ModuleNotFoundError: No module named 'shapefile' WARNING: Failed to import laser_measles.utils. Possible hints: * KeyError: 'laser_measles' * ModuleNotFoundError: No module named 'shapefile' WARNING: Failed to import laser_measles.biweekly.components. Possible hints: * KeyError: 'laser_measles' * ModuleNotFoundError: No module named 'shapefile' WARNING: Failed to import laser_measles.biweekly.components.fadeout_tracker. Possible hints: * KeyError: 'laser_measles' * ModuleNotFoundError: No module named 'shapefile' WARNING: Failed to import laser_measles.biweekly.components.infection. Possible hints: * KeyError: 'laser_measles' * ModuleNotFoundError: No module named 'shapefile' WARNING: Failed to import laser_measles.biweekly.components.vital_dynamics. Possible hints: * KeyError: 'laser_measles' * ModuleNotFoundError: No module named 'shapefile' WARNING: Failed to import laser_measles.generic. Possible hints: * KeyError: 'laser_measles' * ModuleNotFoundError: No module named 'shapefile' WARNING: Failed to import laser_measles.generic.metapop. Possible hints: * KeyError: 'laser_measles' * ModuleNotFoundError: No module named 'shapefile' WARNING: Failed to import laser_measles.generic.model. Possible hints: * KeyError: 'laser_measles' * ModuleNotFoundError: No module named 'shapefile' WARNING: Failed to import laser_measles.generic.params. Possible hints: * KeyError: 'laser_measles' * ModuleNotFoundError: No module named 'shapefile' WARNING: Failed to import laser_measles.biweekly. Possible hints: * KeyError: 'laser_measles' * ModuleNotFoundError: No module named 'shapefile' WARNING: Failed to import laser_measles.biweekly.base. Possible hints: * KeyError: 'laser_measles' * ModuleNotFoundError: No module named 'shapefile' WARNING: Failed to import laser_measles.biweekly.mixing. Possible hints: * KeyError: 'laser_measles' * ModuleNotFoundError: No module named 'shapefile' WARNING: Failed to import laser_measles.biweekly.model. Possible hints: * KeyError: 'laser_measles' * ModuleNotFoundError: No module named 'shapefile' WARNING: Failed to import laser_measles.biweekly.params. Possible hints: * KeyError: 'laser_measles' * ModuleNotFoundError: No module named 'shapefile' WARNING: Failed to import laser_measles.nigeria. Possible hints: * KeyError: 'laser_measles' * ModuleNotFoundError: No module named 'shapefile' WARNING: Failed to import laser_measles.nigeria.lgas. Possible hints: * KeyError: 'laser_measles' * ModuleNotFoundError: No module named 'shapefile' WARNING: Failed to import laser_measles.nigeria.metapop. Possible hints: * KeyError: 'laser_measles' * ModuleNotFoundError: No module named 'shapefile' WARNING: Failed to import laser_measles.nigeria.model. Possible hints: * KeyError: 'laser_measles' * ModuleNotFoundError: No module named 'shapefile' WARNING: Failed to import laser_measles.nigeria.params. Possible hints: * KeyError: 'laser_measles' * ModuleNotFoundError: No module named 'shapefile' WARNING: Failed to import laser_measles.demographics. Possible hints: * KeyError: 'laser_measles' * ModuleNotFoundError: No module named 'shapefile' WARNING: Failed to import laser_measles.demographics.admin_shapefile. Possible hints: * KeyError: 'laser_measles' * ModuleNotFoundError: No module named 'shapefile' WARNING: Failed to import laser_measles.demographics.base. Possible hints: * KeyError: 'laser_measles' * ModuleNotFoundError: No module named 'shapefile' WARNING: Failed to import laser_measles.demographics.cache. Possible hints: * KeyError: 'laser_measles' * ModuleNotFoundError: No module named 'shapefile' WARNING: Failed to import laser_measles.demographics.gadm. Possible hints: * KeyError: 'laser_measles' * ModuleNotFoundError: No module named 'shapefile' WARNING: Failed to import laser_measles.demographics.raster_patch. Possible hints: * KeyError: 'laser_measles' * ModuleNotFoundError: No module named 'shapefile' WARNING: Failed to import laser_measles.demographics.shapefiles. Possible hints: * KeyError: 'laser_measles' * ModuleNotFoundError: No module named 'shapefile' Writing evaluated template result to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/checkouts/latest/_readthedocs/html/_static/nbsphinx-code-cells.css building [mo]: targets for 0 po files that are out of date writing output... building [html]: targets for 17 source files that are out of date updating environment: [new config] 17 added, 0 changed, 0 removed reading sources... [ 6%] api/index reading sources... [ 12%] authors reading sources... [ 18%] changelog reading sources... [ 24%] contributing reading sources... [ 29%] index reading sources... [ 35%] installation reading sources... [ 41%] reference/laser_measles reading sources... [ 47%] reference/laser_measles.biweekly reading sources... [ 53%] reference/laser_measles.biweekly.components reading sources... [ 59%] reference/laser_measles.demographics reading sources... [ 65%] reference/laser_measles.generic reading sources... [ 71%] reference/laser_measles.nigeria reading sources... [ 76%] reference/modules reading sources... [ 82%] tutorials reading sources... [ 88%] tutorials/README reading sources... [ 94%] tutorials/tut_demographics /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/checkouts/latest/docs/index.rst:27: ERROR: Error in "toctree" directive: invalid option block. .. toctree:: :maxdepth: 2 contributing authors changelog reference/modules [docutils] WARNING: autodoc: failed to import module 'laser_measles'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 175, in import_module\n module = importlib.import_module(modname)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/.asdf/installs/python/3.12.10/lib/python3.12/importlib/__init__.py", line 90, in import_module\n return _bootstrap._gcd_import(name[level:], package, level)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "", line 1387, in _gcd_import\n', ' File "", line 1360, in _find_and_load\n', ' File "", line 1331, in _find_and_load_unlocked\n', ' File "", line 935, in _load_unlocked\n', ' File "", line 999, in exec_module\n', ' File "", line 488, in _call_with_frames_removed\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/__init__.py", line 4, in \n from .api import * # noqa: F403\n ^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/api.py", line 1, in \n from laser_measles.demographics import (\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/__init__.py", line 1, in \n from . import base\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/base.py", line 8, in \n from shapefile import Reader\n', "ModuleNotFoundError: No module named 'shapefile'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'antibodies' from module 'laser_measles'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 175, in import_module\n module = importlib.import_module(modname)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/.asdf/installs/python/3.12.10/lib/python3.12/importlib/__init__.py", line 90, in import_module\n return _bootstrap._gcd_import(name[level:], package, level)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "", line 1387, in _gcd_import\n', ' File "", line 1360, in _find_and_load\n', ' File "", line 1331, in _find_and_load_unlocked\n', ' File "", line 935, in _load_unlocked\n', ' File "", line 999, in exec_module\n', ' File "", line 488, in _call_with_frames_removed\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/__init__.py", line 4, in \n from .api import * # noqa: F403\n ^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/api.py", line 1, in \n from laser_measles.demographics import (\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/__init__.py", line 1, in \n from . import base\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/base.py", line 8, in \n from shapefile import Reader\n', "ModuleNotFoundError: No module named 'shapefile'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'api' from module 'laser_measles'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 175, in import_module\n module = importlib.import_module(modname)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/.asdf/installs/python/3.12.10/lib/python3.12/importlib/__init__.py", line 90, in import_module\n return _bootstrap._gcd_import(name[level:], package, level)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "", line 1387, in _gcd_import\n', ' File "", line 1360, in _find_and_load\n', ' File "", line 1331, in _find_and_load_unlocked\n', ' File "", line 935, in _load_unlocked\n', ' File "", line 999, in exec_module\n', ' File "", line 488, in _call_with_frames_removed\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/__init__.py", line 4, in \n from .api import * # noqa: F403\n ^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/api.py", line 1, in \n from laser_measles.demographics import (\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/__init__.py", line 1, in \n from . import base\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/base.py", line 8, in \n from shapefile import Reader\n', "ModuleNotFoundError: No module named 'shapefile'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'births' from module 'laser_measles'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 175, in import_module\n module = importlib.import_module(modname)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/.asdf/installs/python/3.12.10/lib/python3.12/importlib/__init__.py", line 90, in import_module\n return _bootstrap._gcd_import(name[level:], package, level)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "", line 1387, in _gcd_import\n', ' File "", line 1360, in _find_and_load\n', ' File "", line 1331, in _find_and_load_unlocked\n', ' File "", line 935, in _load_unlocked\n', ' File "", line 999, in exec_module\n', ' File "", line 488, in _call_with_frames_removed\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/__init__.py", line 4, in \n from .api import * # noqa: F403\n ^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/api.py", line 1, in \n from laser_measles.demographics import (\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/__init__.py", line 1, in \n from . import base\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/base.py", line 8, in \n from shapefile import Reader\n', "ModuleNotFoundError: No module named 'shapefile'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'cli' from module 'laser_measles'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 175, in import_module\n module = importlib.import_module(modname)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/.asdf/installs/python/3.12.10/lib/python3.12/importlib/__init__.py", line 90, in import_module\n return _bootstrap._gcd_import(name[level:], package, level)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "", line 1387, in _gcd_import\n', ' File "", line 1360, in _find_and_load\n', ' File "", line 1331, in _find_and_load_unlocked\n', ' File "", line 935, in _load_unlocked\n', ' File "", line 999, in exec_module\n', ' File "", line 488, in _call_with_frames_removed\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/__init__.py", line 4, in \n from .api import * # noqa: F403\n ^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/api.py", line 1, in \n from laser_measles.demographics import (\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/__init__.py", line 1, in \n from . import base\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/base.py", line 8, in \n from shapefile import Reader\n', "ModuleNotFoundError: No module named 'shapefile'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'core' from module 'laser_measles'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 175, in import_module\n module = importlib.import_module(modname)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/.asdf/installs/python/3.12.10/lib/python3.12/importlib/__init__.py", line 90, in import_module\n return _bootstrap._gcd_import(name[level:], package, level)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "", line 1387, in _gcd_import\n', ' File "", line 1360, in _find_and_load\n', ' File "", line 1331, in _find_and_load_unlocked\n', ' File "", line 935, in _load_unlocked\n', ' File "", line 999, in exec_module\n', ' File "", line 488, in _call_with_frames_removed\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/__init__.py", line 4, in \n from .api import * # noqa: F403\n ^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/api.py", line 1, in \n from laser_measles.demographics import (\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/__init__.py", line 1, in \n from . import base\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/base.py", line 8, in \n from shapefile import Reader\n', "ModuleNotFoundError: No module named 'shapefile'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'incubation' from module 'laser_measles'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 175, in import_module\n module = importlib.import_module(modname)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/.asdf/installs/python/3.12.10/lib/python3.12/importlib/__init__.py", line 90, in import_module\n return _bootstrap._gcd_import(name[level:], package, level)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "", line 1387, in _gcd_import\n', ' File "", line 1360, in _find_and_load\n', ' File "", line 1331, in _find_and_load_unlocked\n', ' File "", line 935, in _load_unlocked\n', ' File "", line 999, in exec_module\n', ' File "", line 488, in _call_with_frames_removed\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/__init__.py", line 4, in \n from .api import * # noqa: F403\n ^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/api.py", line 1, in \n from laser_measles.demographics import (\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/__init__.py", line 1, in \n from . import base\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/base.py", line 8, in \n from shapefile import Reader\n', "ModuleNotFoundError: No module named 'shapefile'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'infection' from module 'laser_measles'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 175, in import_module\n module = importlib.import_module(modname)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/.asdf/installs/python/3.12.10/lib/python3.12/importlib/__init__.py", line 90, in import_module\n return _bootstrap._gcd_import(name[level:], package, level)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "", line 1387, in _gcd_import\n', ' File "", line 1360, in _find_and_load\n', ' File "", line 1331, in _find_and_load_unlocked\n', ' File "", line 935, in _load_unlocked\n', ' File "", line 999, in exec_module\n', ' File "", line 488, in _call_with_frames_removed\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/__init__.py", line 4, in \n from .api import * # noqa: F403\n ^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/api.py", line 1, in \n from laser_measles.demographics import (\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/__init__.py", line 1, in \n from . import base\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/base.py", line 8, in \n from shapefile import Reader\n', "ModuleNotFoundError: No module named 'shapefile'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'model' from module 'laser_measles'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 175, in import_module\n module = importlib.import_module(modname)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/.asdf/installs/python/3.12.10/lib/python3.12/importlib/__init__.py", line 90, in import_module\n return _bootstrap._gcd_import(name[level:], package, level)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "", line 1387, in _gcd_import\n', ' File "", line 1360, in _find_and_load\n', ' File "", line 1331, in _find_and_load_unlocked\n', ' File "", line 935, in _load_unlocked\n', ' File "", line 999, in exec_module\n', ' File "", line 488, in _call_with_frames_removed\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/__init__.py", line 4, in \n from .api import * # noqa: F403\n ^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/api.py", line 1, in \n from laser_measles.demographics import (\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/__init__.py", line 1, in \n from . import base\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/base.py", line 8, in \n from shapefile import Reader\n', "ModuleNotFoundError: No module named 'shapefile'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'mortality' from module 'laser_measles'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 175, in import_module\n module = importlib.import_module(modname)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/.asdf/installs/python/3.12.10/lib/python3.12/importlib/__init__.py", line 90, in import_module\n return _bootstrap._gcd_import(name[level:], package, level)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "", line 1387, in _gcd_import\n', ' File "", line 1360, in _find_and_load\n', ' File "", line 1331, in _find_and_load_unlocked\n', ' File "", line 935, in _load_unlocked\n', ' File "", line 999, in exec_module\n', ' File "", line 488, in _call_with_frames_removed\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/__init__.py", line 4, in \n from .api import * # noqa: F403\n ^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/api.py", line 1, in \n from laser_measles.demographics import (\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/__init__.py", line 1, in \n from . import base\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/base.py", line 8, in \n from shapefile import Reader\n', "ModuleNotFoundError: No module named 'shapefile'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'routine' from module 'laser_measles'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 175, in import_module\n module = importlib.import_module(modname)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/.asdf/installs/python/3.12.10/lib/python3.12/importlib/__init__.py", line 90, in import_module\n return _bootstrap._gcd_import(name[level:], package, level)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "", line 1387, in _gcd_import\n', ' File "", line 1360, in _find_and_load\n', ' File "", line 1331, in _find_and_load_unlocked\n', ' File "", line 935, in _load_unlocked\n', ' File "", line 999, in exec_module\n', ' File "", line 488, in _call_with_frames_removed\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/__init__.py", line 4, in \n from .api import * # noqa: F403\n ^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/api.py", line 1, in \n from laser_measles.demographics import (\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/__init__.py", line 1, in \n from . import base\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/base.py", line 8, in \n from shapefile import Reader\n', "ModuleNotFoundError: No module named 'shapefile'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'susceptibility' from module 'laser_measles'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 175, in import_module\n module = importlib.import_module(modname)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/.asdf/installs/python/3.12.10/lib/python3.12/importlib/__init__.py", line 90, in import_module\n return _bootstrap._gcd_import(name[level:], package, level)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "", line 1387, in _gcd_import\n', ' File "", line 1360, in _find_and_load\n', ' File "", line 1331, in _find_and_load_unlocked\n', ' File "", line 935, in _load_unlocked\n', ' File "", line 999, in exec_module\n', ' File "", line 488, in _call_with_frames_removed\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/__init__.py", line 4, in \n from .api import * # noqa: F403\n ^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/api.py", line 1, in \n from laser_measles.demographics import (\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/__init__.py", line 1, in \n from . import base\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/base.py", line 8, in \n from shapefile import Reader\n', "ModuleNotFoundError: No module named 'shapefile'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'transmission' from module 'laser_measles'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 175, in import_module\n module = importlib.import_module(modname)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/.asdf/installs/python/3.12.10/lib/python3.12/importlib/__init__.py", line 90, in import_module\n return _bootstrap._gcd_import(name[level:], package, level)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "", line 1387, in _gcd_import\n', ' File "", line 1360, in _find_and_load\n', ' File "", line 1331, in _find_and_load_unlocked\n', ' File "", line 935, in _load_unlocked\n', ' File "", line 999, in exec_module\n', ' File "", line 488, in _call_with_frames_removed\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/__init__.py", line 4, in \n from .api import * # noqa: F403\n ^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/api.py", line 1, in \n from laser_measles.demographics import (\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/__init__.py", line 1, in \n from . import base\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/base.py", line 8, in \n from shapefile import Reader\n', "ModuleNotFoundError: No module named 'shapefile'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'utils' from module 'laser_measles'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 175, in import_module\n module = importlib.import_module(modname)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/.asdf/installs/python/3.12.10/lib/python3.12/importlib/__init__.py", line 90, in import_module\n return _bootstrap._gcd_import(name[level:], package, level)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "", line 1387, in _gcd_import\n', ' File "", line 1360, in _find_and_load\n', ' File "", line 1331, in _find_and_load_unlocked\n', ' File "", line 935, in _load_unlocked\n', ' File "", line 999, in exec_module\n', ' File "", line 488, in _call_with_frames_removed\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/__init__.py", line 4, in \n from .api import * # noqa: F403\n ^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/api.py", line 1, in \n from laser_measles.demographics import (\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/__init__.py", line 1, in \n from . import base\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/base.py", line 8, in \n from shapefile import Reader\n', "ModuleNotFoundError: No module named 'shapefile'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'biweekly' from module 'laser_measles'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 175, in import_module\n module = importlib.import_module(modname)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/.asdf/installs/python/3.12.10/lib/python3.12/importlib/__init__.py", line 90, in import_module\n return _bootstrap._gcd_import(name[level:], package, level)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "", line 1387, in _gcd_import\n', ' File "", line 1360, in _find_and_load\n', ' File "", line 1331, in _find_and_load_unlocked\n', ' File "", line 935, in _load_unlocked\n', ' File "", line 999, in exec_module\n', ' File "", line 488, in _call_with_frames_removed\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/__init__.py", line 4, in \n from .api import * # noqa: F403\n ^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/api.py", line 1, in \n from laser_measles.demographics import (\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/__init__.py", line 1, in \n from . import base\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/base.py", line 8, in \n from shapefile import Reader\n', "ModuleNotFoundError: No module named 'shapefile'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'biweekly.base' from module 'laser_measles'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 175, in import_module\n module = importlib.import_module(modname)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/.asdf/installs/python/3.12.10/lib/python3.12/importlib/__init__.py", line 90, in import_module\n return _bootstrap._gcd_import(name[level:], package, level)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "", line 1387, in _gcd_import\n', ' File "", line 1360, in _find_and_load\n', ' File "", line 1331, in _find_and_load_unlocked\n', ' File "", line 935, in _load_unlocked\n', ' File "", line 999, in exec_module\n', ' File "", line 488, in _call_with_frames_removed\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/__init__.py", line 4, in \n from .api import * # noqa: F403\n ^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/api.py", line 1, in \n from laser_measles.demographics import (\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/__init__.py", line 1, in \n from . import base\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/base.py", line 8, in \n from shapefile import Reader\n', "ModuleNotFoundError: No module named 'shapefile'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'biweekly.mixing' from module 'laser_measles'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 175, in import_module\n module = importlib.import_module(modname)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/.asdf/installs/python/3.12.10/lib/python3.12/importlib/__init__.py", line 90, in import_module\n return _bootstrap._gcd_import(name[level:], package, level)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "", line 1387, in _gcd_import\n', ' File "", line 1360, in _find_and_load\n', ' File "", line 1331, in _find_and_load_unlocked\n', ' File "", line 935, in _load_unlocked\n', ' File "", line 999, in exec_module\n', ' File "", line 488, in _call_with_frames_removed\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/__init__.py", line 4, in \n from .api import * # noqa: F403\n ^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/api.py", line 1, in \n from laser_measles.demographics import (\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/__init__.py", line 1, in \n from . import base\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/base.py", line 8, in \n from shapefile import Reader\n', "ModuleNotFoundError: No module named 'shapefile'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'biweekly.model' from module 'laser_measles'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 175, in import_module\n module = importlib.import_module(modname)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/.asdf/installs/python/3.12.10/lib/python3.12/importlib/__init__.py", line 90, in import_module\n return _bootstrap._gcd_import(name[level:], package, level)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "", line 1387, in _gcd_import\n', ' File "", line 1360, in _find_and_load\n', ' File "", line 1331, in _find_and_load_unlocked\n', ' File "", line 935, in _load_unlocked\n', ' File "", line 999, in exec_module\n', ' File "", line 488, in _call_with_frames_removed\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/__init__.py", line 4, in \n from .api import * # noqa: F403\n ^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/api.py", line 1, in \n from laser_measles.demographics import (\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/__init__.py", line 1, in \n from . import base\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/base.py", line 8, in \n from shapefile import Reader\n', "ModuleNotFoundError: No module named 'shapefile'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'biweekly.params' from module 'laser_measles'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 175, in import_module\n module = importlib.import_module(modname)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/.asdf/installs/python/3.12.10/lib/python3.12/importlib/__init__.py", line 90, in import_module\n return _bootstrap._gcd_import(name[level:], package, level)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "", line 1387, in _gcd_import\n', ' File "", line 1360, in _find_and_load\n', ' File "", line 1331, in _find_and_load_unlocked\n', ' File "", line 935, in _load_unlocked\n', ' File "", line 999, in exec_module\n', ' File "", line 488, in _call_with_frames_removed\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/__init__.py", line 4, in \n from .api import * # noqa: F403\n ^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/api.py", line 1, in \n from laser_measles.demographics import (\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/__init__.py", line 1, in \n from . import base\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/base.py", line 8, in \n from shapefile import Reader\n', "ModuleNotFoundError: No module named 'shapefile'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'biweekly.components' from module 'laser_measles'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 175, in import_module\n module = importlib.import_module(modname)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/.asdf/installs/python/3.12.10/lib/python3.12/importlib/__init__.py", line 90, in import_module\n return _bootstrap._gcd_import(name[level:], package, level)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "", line 1387, in _gcd_import\n', ' File "", line 1360, in _find_and_load\n', ' File "", line 1331, in _find_and_load_unlocked\n', ' File "", line 935, in _load_unlocked\n', ' File "", line 999, in exec_module\n', ' File "", line 488, in _call_with_frames_removed\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/__init__.py", line 4, in \n from .api import * # noqa: F403\n ^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/api.py", line 1, in \n from laser_measles.demographics import (\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/__init__.py", line 1, in \n from . import base\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/base.py", line 8, in \n from shapefile import Reader\n', "ModuleNotFoundError: No module named 'shapefile'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'biweekly.components.fadeout_tracker' from module 'laser_measles'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 175, in import_module\n module = importlib.import_module(modname)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/.asdf/installs/python/3.12.10/lib/python3.12/importlib/__init__.py", line 90, in import_module\n return _bootstrap._gcd_import(name[level:], package, level)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "", line 1387, in _gcd_import\n', ' File "", line 1360, in _find_and_load\n', ' File "", line 1331, in _find_and_load_unlocked\n', ' File "", line 935, in _load_unlocked\n', ' File "", line 999, in exec_module\n', ' File "", line 488, in _call_with_frames_removed\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/__init__.py", line 4, in \n from .api import * # noqa: F403\n ^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/api.py", line 1, in \n from laser_measles.demographics import (\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/__init__.py", line 1, in \n from . import base\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/base.py", line 8, in \n from shapefile import Reader\n', "ModuleNotFoundError: No module named 'shapefile'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'biweekly.components.infection' from module 'laser_measles'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 175, in import_module\n module = importlib.import_module(modname)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/.asdf/installs/python/3.12.10/lib/python3.12/importlib/__init__.py", line 90, in import_module\n return _bootstrap._gcd_import(name[level:], package, level)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "", line 1387, in _gcd_import\n', ' File "", line 1360, in _find_and_load\n', ' File "", line 1331, in _find_and_load_unlocked\n', ' File "", line 935, in _load_unlocked\n', ' File "", line 999, in exec_module\n', ' File "", line 488, in _call_with_frames_removed\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/__init__.py", line 4, in \n from .api import * # noqa: F403\n ^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/api.py", line 1, in \n from laser_measles.demographics import (\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/__init__.py", line 1, in \n from . import base\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/base.py", line 8, in \n from shapefile import Reader\n', "ModuleNotFoundError: No module named 'shapefile'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'biweekly.components.vital_dynamics' from module 'laser_measles'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 175, in import_module\n module = importlib.import_module(modname)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/.asdf/installs/python/3.12.10/lib/python3.12/importlib/__init__.py", line 90, in import_module\n return _bootstrap._gcd_import(name[level:], package, level)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "", line 1387, in _gcd_import\n', ' File "", line 1360, in _find_and_load\n', ' File "", line 1331, in _find_and_load_unlocked\n', ' File "", line 935, in _load_unlocked\n', ' File "", line 999, in exec_module\n', ' File "", line 488, in _call_with_frames_removed\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/__init__.py", line 4, in \n from .api import * # noqa: F403\n ^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/api.py", line 1, in \n from laser_measles.demographics import (\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/__init__.py", line 1, in \n from . import base\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/base.py", line 8, in \n from shapefile import Reader\n', "ModuleNotFoundError: No module named 'shapefile'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'demographics' from module 'laser_measles'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 175, in import_module\n module = importlib.import_module(modname)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/.asdf/installs/python/3.12.10/lib/python3.12/importlib/__init__.py", line 90, in import_module\n return _bootstrap._gcd_import(name[level:], package, level)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "", line 1387, in _gcd_import\n', ' File "", line 1360, in _find_and_load\n', ' File "", line 1331, in _find_and_load_unlocked\n', ' File "", line 935, in _load_unlocked\n', ' File "", line 999, in exec_module\n', ' File "", line 488, in _call_with_frames_removed\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/__init__.py", line 4, in \n from .api import * # noqa: F403\n ^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/api.py", line 1, in \n from laser_measles.demographics import (\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/__init__.py", line 1, in \n from . import base\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/base.py", line 8, in \n from shapefile import Reader\n', "ModuleNotFoundError: No module named 'shapefile'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'demographics.admin_shapefile' from module 'laser_measles'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 175, in import_module\n module = importlib.import_module(modname)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/.asdf/installs/python/3.12.10/lib/python3.12/importlib/__init__.py", line 90, in import_module\n return _bootstrap._gcd_import(name[level:], package, level)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "", line 1387, in _gcd_import\n', ' File "", line 1360, in _find_and_load\n', ' File "", line 1331, in _find_and_load_unlocked\n', ' File "", line 935, in _load_unlocked\n', ' File "", line 999, in exec_module\n', ' File "", line 488, in _call_with_frames_removed\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/__init__.py", line 4, in \n from .api import * # noqa: F403\n ^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/api.py", line 1, in \n from laser_measles.demographics import (\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/__init__.py", line 1, in \n from . import base\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/base.py", line 8, in \n from shapefile import Reader\n', "ModuleNotFoundError: No module named 'shapefile'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'demographics.base' from module 'laser_measles'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 175, in import_module\n module = importlib.import_module(modname)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/.asdf/installs/python/3.12.10/lib/python3.12/importlib/__init__.py", line 90, in import_module\n return _bootstrap._gcd_import(name[level:], package, level)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "", line 1387, in _gcd_import\n', ' File "", line 1360, in _find_and_load\n', ' File "", line 1331, in _find_and_load_unlocked\n', ' File "", line 935, in _load_unlocked\n', ' File "", line 999, in exec_module\n', ' File "", line 488, in _call_with_frames_removed\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/__init__.py", line 4, in \n from .api import * # noqa: F403\n ^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/api.py", line 1, in \n from laser_measles.demographics import (\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/__init__.py", line 1, in \n from . import base\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/base.py", line 8, in \n from shapefile import Reader\n', "ModuleNotFoundError: No module named 'shapefile'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'demographics.cache' from module 'laser_measles'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 175, in import_module\n module = importlib.import_module(modname)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/.asdf/installs/python/3.12.10/lib/python3.12/importlib/__init__.py", line 90, in import_module\n return _bootstrap._gcd_import(name[level:], package, level)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "", line 1387, in _gcd_import\n', ' File "", line 1360, in _find_and_load\n', ' File "", line 1331, in _find_and_load_unlocked\n', ' File "", line 935, in _load_unlocked\n', ' File "", line 999, in exec_module\n', ' File "", line 488, in _call_with_frames_removed\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/__init__.py", line 4, in \n from .api import * # noqa: F403\n ^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/api.py", line 1, in \n from laser_measles.demographics import (\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/__init__.py", line 1, in \n from . import base\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/base.py", line 8, in \n from shapefile import Reader\n', "ModuleNotFoundError: No module named 'shapefile'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'demographics.gadm' from module 'laser_measles'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 175, in import_module\n module = importlib.import_module(modname)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/.asdf/installs/python/3.12.10/lib/python3.12/importlib/__init__.py", line 90, in import_module\n return _bootstrap._gcd_import(name[level:], package, level)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "", line 1387, in _gcd_import\n', ' File "", line 1360, in _find_and_load\n', ' File "", line 1331, in _find_and_load_unlocked\n', ' File "", line 935, in _load_unlocked\n', ' File "", line 999, in exec_module\n', ' File "", line 488, in _call_with_frames_removed\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/__init__.py", line 4, in \n from .api import * # noqa: F403\n ^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/api.py", line 1, in \n from laser_measles.demographics import (\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/__init__.py", line 1, in \n from . import base\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/base.py", line 8, in \n from shapefile import Reader\n', "ModuleNotFoundError: No module named 'shapefile'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'demographics.raster_patch' from module 'laser_measles'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 175, in import_module\n module = importlib.import_module(modname)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/.asdf/installs/python/3.12.10/lib/python3.12/importlib/__init__.py", line 90, in import_module\n return _bootstrap._gcd_import(name[level:], package, level)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "", line 1387, in _gcd_import\n', ' File "", line 1360, in _find_and_load\n', ' File "", line 1331, in _find_and_load_unlocked\n', ' File "", line 935, in _load_unlocked\n', ' File "", line 999, in exec_module\n', ' File "", line 488, in _call_with_frames_removed\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/__init__.py", line 4, in \n from .api import * # noqa: F403\n ^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/api.py", line 1, in \n from laser_measles.demographics import (\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/__init__.py", line 1, in \n from . import base\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/base.py", line 8, in \n from shapefile import Reader\n', "ModuleNotFoundError: No module named 'shapefile'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'demographics.shapefiles' from module 'laser_measles'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 175, in import_module\n module = importlib.import_module(modname)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/.asdf/installs/python/3.12.10/lib/python3.12/importlib/__init__.py", line 90, in import_module\n return _bootstrap._gcd_import(name[level:], package, level)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "", line 1387, in _gcd_import\n', ' File "", line 1360, in _find_and_load\n', ' File "", line 1331, in _find_and_load_unlocked\n', ' File "", line 935, in _load_unlocked\n', ' File "", line 999, in exec_module\n', ' File "", line 488, in _call_with_frames_removed\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/__init__.py", line 4, in \n from .api import * # noqa: F403\n ^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/api.py", line 1, in \n from laser_measles.demographics import (\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/__init__.py", line 1, in \n from . import base\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/base.py", line 8, in \n from shapefile import Reader\n', "ModuleNotFoundError: No module named 'shapefile'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'generic' from module 'laser_measles'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 175, in import_module\n module = importlib.import_module(modname)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/.asdf/installs/python/3.12.10/lib/python3.12/importlib/__init__.py", line 90, in import_module\n return _bootstrap._gcd_import(name[level:], package, level)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "", line 1387, in _gcd_import\n', ' File "", line 1360, in _find_and_load\n', ' File "", line 1331, in _find_and_load_unlocked\n', ' File "", line 935, in _load_unlocked\n', ' File "", line 999, in exec_module\n', ' File "", line 488, in _call_with_frames_removed\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/__init__.py", line 4, in \n from .api import * # noqa: F403\n ^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/api.py", line 1, in \n from laser_measles.demographics import (\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/__init__.py", line 1, in \n from . import base\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/base.py", line 8, in \n from shapefile import Reader\n', "ModuleNotFoundError: No module named 'shapefile'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'generic.metapop' from module 'laser_measles'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 175, in import_module\n module = importlib.import_module(modname)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/.asdf/installs/python/3.12.10/lib/python3.12/importlib/__init__.py", line 90, in import_module\n return _bootstrap._gcd_import(name[level:], package, level)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "", line 1387, in _gcd_import\n', ' File "", line 1360, in _find_and_load\n', ' File "", line 1331, in _find_and_load_unlocked\n', ' File "", line 935, in _load_unlocked\n', ' File "", line 999, in exec_module\n', ' File "", line 488, in _call_with_frames_removed\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/__init__.py", line 4, in \n from .api import * # noqa: F403\n ^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/api.py", line 1, in \n from laser_measles.demographics import (\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/__init__.py", line 1, in \n from . import base\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/base.py", line 8, in \n from shapefile import Reader\n', "ModuleNotFoundError: No module named 'shapefile'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'generic.model' from module 'laser_measles'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 175, in import_module\n module = importlib.import_module(modname)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/.asdf/installs/python/3.12.10/lib/python3.12/importlib/__init__.py", line 90, in import_module\n return _bootstrap._gcd_import(name[level:], package, level)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "", line 1387, in _gcd_import\n', ' File "", line 1360, in _find_and_load\n', ' File "", line 1331, in _find_and_load_unlocked\n', ' File "", line 935, in _load_unlocked\n', ' File "", line 999, in exec_module\n', ' File "", line 488, in _call_with_frames_removed\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/__init__.py", line 4, in \n from .api import * # noqa: F403\n ^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/api.py", line 1, in \n from laser_measles.demographics import (\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/__init__.py", line 1, in \n from . import base\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/base.py", line 8, in \n from shapefile import Reader\n', "ModuleNotFoundError: No module named 'shapefile'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'generic.params' from module 'laser_measles'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 175, in import_module\n module = importlib.import_module(modname)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/.asdf/installs/python/3.12.10/lib/python3.12/importlib/__init__.py", line 90, in import_module\n return _bootstrap._gcd_import(name[level:], package, level)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "", line 1387, in _gcd_import\n', ' File "", line 1360, in _find_and_load\n', ' File "", line 1331, in _find_and_load_unlocked\n', ' File "", line 935, in _load_unlocked\n', ' File "", line 999, in exec_module\n', ' File "", line 488, in _call_with_frames_removed\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/__init__.py", line 4, in \n from .api import * # noqa: F403\n ^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/api.py", line 1, in \n from laser_measles.demographics import (\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/__init__.py", line 1, in \n from . import base\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/base.py", line 8, in \n from shapefile import Reader\n', "ModuleNotFoundError: No module named 'shapefile'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'nigeria' from module 'laser_measles'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 175, in import_module\n module = importlib.import_module(modname)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/.asdf/installs/python/3.12.10/lib/python3.12/importlib/__init__.py", line 90, in import_module\n return _bootstrap._gcd_import(name[level:], package, level)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "", line 1387, in _gcd_import\n', ' File "", line 1360, in _find_and_load\n', ' File "", line 1331, in _find_and_load_unlocked\n', ' File "", line 935, in _load_unlocked\n', ' File "", line 999, in exec_module\n', ' File "", line 488, in _call_with_frames_removed\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/__init__.py", line 4, in \n from .api import * # noqa: F403\n ^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/api.py", line 1, in \n from laser_measles.demographics import (\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/__init__.py", line 1, in \n from . import base\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/base.py", line 8, in \n from shapefile import Reader\n', "ModuleNotFoundError: No module named 'shapefile'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'nigeria.lgas' from module 'laser_measles'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 175, in import_module\n module = importlib.import_module(modname)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/.asdf/installs/python/3.12.10/lib/python3.12/importlib/__init__.py", line 90, in import_module\n return _bootstrap._gcd_import(name[level:], package, level)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "", line 1387, in _gcd_import\n', ' File "", line 1360, in _find_and_load\n', ' File "", line 1331, in _find_and_load_unlocked\n', ' File "", line 935, in _load_unlocked\n', ' File "", line 999, in exec_module\n', ' File "", line 488, in _call_with_frames_removed\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/__init__.py", line 4, in \n from .api import * # noqa: F403\n ^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/api.py", line 1, in \n from laser_measles.demographics import (\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/__init__.py", line 1, in \n from . import base\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/base.py", line 8, in \n from shapefile import Reader\n', "ModuleNotFoundError: No module named 'shapefile'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'nigeria.metapop' from module 'laser_measles'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 175, in import_module\n module = importlib.import_module(modname)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/.asdf/installs/python/3.12.10/lib/python3.12/importlib/__init__.py", line 90, in import_module\n return _bootstrap._gcd_import(name[level:], package, level)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "", line 1387, in _gcd_import\n', ' File "", line 1360, in _find_and_load\n', ' File "", line 1331, in _find_and_load_unlocked\n', ' File "", line 935, in _load_unlocked\n', ' File "", line 999, in exec_module\n', ' File "", line 488, in _call_with_frames_removed\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/__init__.py", line 4, in \n from .api import * # noqa: F403\n ^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/api.py", line 1, in \n from laser_measles.demographics import (\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/__init__.py", line 1, in \n from . import base\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/base.py", line 8, in \n from shapefile import Reader\n', "ModuleNotFoundError: No module named 'shapefile'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'nigeria.model' from module 'laser_measles'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 175, in import_module\n module = importlib.import_module(modname)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/.asdf/installs/python/3.12.10/lib/python3.12/importlib/__init__.py", line 90, in import_module\n return _bootstrap._gcd_import(name[level:], package, level)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "", line 1387, in _gcd_import\n', ' File "", line 1360, in _find_and_load\n', ' File "", line 1331, in _find_and_load_unlocked\n', ' File "", line 935, in _load_unlocked\n', ' File "", line 999, in exec_module\n', ' File "", line 488, in _call_with_frames_removed\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/__init__.py", line 4, in \n from .api import * # noqa: F403\n ^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/api.py", line 1, in \n from laser_measles.demographics import (\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/__init__.py", line 1, in \n from . import base\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/base.py", line 8, in \n from shapefile import Reader\n', "ModuleNotFoundError: No module named 'shapefile'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'nigeria.params' from module 'laser_measles'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/ext/autodoc/importer.py", line 175, in import_module\n module = importlib.import_module(modname)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/.asdf/installs/python/3.12.10/lib/python3.12/importlib/__init__.py", line 90, in import_module\n return _bootstrap._gcd_import(name[level:], package, level)\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', ' File "", line 1387, in _gcd_import\n', ' File "", line 1360, in _find_and_load\n', ' File "", line 1331, in _find_and_load_unlocked\n', ' File "", line 935, in _load_unlocked\n', ' File "", line 999, in exec_module\n', ' File "", line 488, in _call_with_frames_removed\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/__init__.py", line 4, in \n from .api import * # noqa: F403\n ^^^^^^^^^^^^^^^^^^\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/api.py", line 1, in \n from laser_measles.demographics import (\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/__init__.py", line 1, in \n from . import base\n', ' File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/base.py", line 8, in \n from shapefile import Reader\n', "ModuleNotFoundError: No module named 'shapefile'\n"] [autodoc.import_object] Notebook error! Versions ======== * Platform: linux; (Linux-6.8.0-1021-aws-x86_64-with-glibc2.35) * Python version: 3.12.10 (CPython) * Sphinx version: 8.2.3 * Docutils version: 0.21.2 * Jinja2 version: 3.1.6 * Pygments version: 2.19.1 Last Messages ============= reading sources... [ 82%] tutorials reading sources... [ 88%] tutorials/README reading sources... [ 94%] tutorials/tut_demographics Loaded Extensions ================= * sphinx.ext.mathjax (8.2.3) * alabaster (1.0.0) * sphinxcontrib.applehelp (2.0.0) * sphinxcontrib.devhelp (2.0.0) * sphinxcontrib.htmlhelp (2.1.0) * sphinxcontrib.serializinghtml (2.0.0) * sphinxcontrib.qthelp (2.0.0) * sphinx.ext.autodoc.preserve_defaults (8.2.3) * sphinx.ext.autodoc.type_comment (8.2.3) * sphinx.ext.autodoc.typehints (8.2.3) * sphinx.ext.autodoc (8.2.3) * sphinx.ext.autosummary (8.2.3) * sphinx.ext.intersphinx (8.2.3) * sphinx.ext.viewcode (8.2.3) * sphinx.ext.napoleon (8.2.3) * sphinx.ext.autosectionlabel (8.2.3) * sphinx.ext.doctest (8.2.3) * sphinx_autodoc_typehints (unknown version) * sphinx_design (0.6.1) * sphinx_search.extension (0.3.2) * nbsphinx (0.9.6) * pydata_sphinx_theme (unknown version) Traceback ========= Traceback (most recent call last): File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/jupyter_core/utils/__init__.py", line 154, in wrapped asyncio.get_running_loop() RuntimeError: no running event loop During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/nbsphinx/__init__.py", line 634, in parse rststring, resources = exporter.from_notebook_node(nb, resources) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/nbsphinx/__init__.py", line 397, in from_notebook_node nb, resources = pp.preprocess(nb, resources) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/nbconvert/preprocessors/execute.py", line 103, in preprocess self.preprocess_cell(cell, resources, index) File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/nbconvert/preprocessors/execute.py", line 124, in preprocess_cell cell = self.execute_cell(cell, index, store_history=True) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/jupyter_core/utils/__init__.py", line 158, in wrapped return loop.run_until_complete(inner) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/home/docs/.asdf/installs/python/3.12.10/lib/python3.12/asyncio/base_events.py", line 691, in run_until_complete return future.result() ^^^^^^^^^^^^^^^ File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/nbclient/client.py", line 1062, in async_execute_cell await self._check_raise_for_error(cell, cell_index, exec_reply) File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/nbclient/client.py", line 918, in _check_raise_for_error raise CellExecutionError.from_cell_and_msg(cell, exec_reply_content) nbclient.exceptions.CellExecutionError: An error occurred while executing the following cell: ------------------ from pathlib import Path from laser_measles import GADMShapefile, get_shapefile_dataframe, plot_shapefile_dataframe shapefile = Path("ETH/gadm41_ETH_1.shp") if not shapefile.exists(): shp = GADMShapefile.download("ETH", admin_level=1 ) print("Shapefile is now at", g.shapefile) else: print("Shapefile already exists") shp = GADMShapefile(shapefile=shapefile) df = get_shapefile_dataframe(shp.shapefile) print(df.head(n=2)) plot_shapefile_dataframe(df, plot_kwargs={'facecolor': 'xkcd:sky blue'}); ------------------ --------------------------------------------------------------------------- ModuleNotFoundError Traceback (most recent call last) Cell In[1], line 2  1 from pathlib import Path ----> 2 from laser_measles import GADMShapefile, get_shapefile_dataframe, plot_shapefile_dataframe  4 shapefile = Path("ETH/gadm41_ETH_1.shp")  6 if not shapefile.exists(): File ~/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/__init__.py:4  1 __version__ = "0.6.2"  3 # --- Exports --- ----> 4 from .api import * # noqa: F403  5 from .api import __all__  7 from .antibodies import MaternalAntibodies File ~/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/api.py:1 ----> 1 from laser_measles.demographics import (  2 GADMShapefile,  3 RasterPatchConfig,  4 RasterPatchGenerator,  5 get_shapefile_dataframe,  6 plot_shapefile_dataframe,  7 )  9 # Public API Export List  10 __all__ = [  11 "GADMShapefile",  12 "RasterPatchConfig",  (...) 15 "plot_shapefile_dataframe",  16 ] File ~/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/__init__.py:1 ----> 1 from . import base  2 from . import gadm  3 from . import raster_patch File ~/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/base.py:8  6 from pydantic import BaseModel  7 from pydantic import field_validator ----> 8 from shapefile import Reader  11 class DemographicsGeneratorProtocol(Protocol):  12 def generate_population(self) -> pl.DataFrame: ... ModuleNotFoundError: No module named 'shapefile' During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/cmd/build.py", line 432, in build_main app.build(args.force_all, args.filenames) File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/application.py", line 426, in build self.builder.build_update() File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/builders/__init__.py", line 375, in build_update self.build( File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/builders/__init__.py", line 403, in build updated_docnames = set(self.read()) ^^^^^^^^^^^ File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/builders/__init__.py", line 519, in read self._read_serial(docnames) File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/builders/__init__.py", line 584, in _read_serial self.read_doc(docname) File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/builders/__init__.py", line 648, in read_doc publisher.publish() File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/docutils/core.py", line 234, in publish self.document = self.reader.read(self.source, self.parser, ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/sphinx/io.py", line 103, in read self.parse() File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/docutils/readers/__init__.py", line 76, in parse self.parser.parse(self.input, document) File "/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/nbsphinx/__init__.py", line 641, in parse raise NotebookError('\n'.join(lines)) nbsphinx.NotebookError: CellExecutionError in tutorials/tut_demographics.ipynb: ------------------ from pathlib import Path from laser_measles import GADMShapefile, get_shapefile_dataframe, plot_shapefile_dataframe shapefile = Path("ETH/gadm41_ETH_1.shp") if not shapefile.exists(): shp = GADMShapefile.download("ETH", admin_level=1 ) print("Shapefile is now at", g.shapefile) else: print("Shapefile already exists") shp = GADMShapefile(shapefile=shapefile) df = get_shapefile_dataframe(shp.shapefile) print(df.head(n=2)) plot_shapefile_dataframe(df, plot_kwargs={'facecolor': 'xkcd:sky blue'}); ------------------ --------------------------------------------------------------------------- ModuleNotFoundError Traceback (most recent call last) Cell In[1], line 2  1 from pathlib import Path ----> 2 from laser_measles import GADMShapefile, get_shapefile_dataframe, plot_shapefile_dataframe  4 shapefile = Path("ETH/gadm41_ETH_1.shp")  6 if not shapefile.exists(): File ~/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/__init__.py:4  1 __version__ = "0.6.2"  3 # --- Exports --- ----> 4 from .api import * # noqa: F403  5 from .api import __all__  7 from .antibodies import MaternalAntibodies File ~/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/api.py:1 ----> 1 from laser_measles.demographics import (  2 GADMShapefile,  3 RasterPatchConfig,  4 RasterPatchGenerator,  5 get_shapefile_dataframe,  6 plot_shapefile_dataframe,  7 )  9 # Public API Export List  10 __all__ = [  11 "GADMShapefile",  12 "RasterPatchConfig",  (...) 15 "plot_shapefile_dataframe",  16 ] File ~/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/__init__.py:1 ----> 1 from . import base  2 from . import gadm  3 from . import raster_patch File ~/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser-measles/envs/latest/lib/python3.12/site-packages/laser_measles/demographics/base.py:8  6 from pydantic import BaseModel  7 from pydantic import field_validator ----> 8 from shapefile import Reader  11 class DemographicsGeneratorProtocol(Protocol):  12 def generate_population(self) -> pl.DataFrame: ... ModuleNotFoundError: No module named 'shapefile' You can ignore this error by setting the following in conf.py: nbsphinx_allow_errors = True The full traceback has been saved in: /tmp/sphinx-err-kfh4m9qt.log To report this error to the developers, please open an issue at . Thanks! Please also report this if it was a user error, so that a better error message can be provided next time.