Read the Docs build information Build id: 4024248 Project: institute-for-disease-modeling-laser Version: main_a Commit: a11bc74140be2ca08f51438c9efaf0611f42efc2 Date: 2026-05-19T03:19:24.059245Z State: finished Success: True [rtd-command-info] start-time: 2026-05-19T03:19:24.742109Z, end-time: 2026-05-19T03:19:25.227368Z, duration: 0, exit-code: 0 git clone --depth 1 https://github.com/InstituteforDiseaseModeling/laser.git . Cloning into '.'... [rtd-command-info] start-time: 2026-05-19T03:19:25.312218Z, end-time: 2026-05-19T03:19:26.221691Z, duration: 0, exit-code: 0 git fetch origin --force --prune --prune-tags --depth 50 refs/tags/main:refs/tags/main From https://github.com/InstituteforDiseaseModeling/laser * [new tag] v0.7.0 -> v0.7.0 * [new tag] v0.8.0 -> v0.8.0 * [new tag] v0.8.1 -> v0.8.1 * [new tag] v0.9.0 -> v0.9.0 * [new tag] v0.9.1 -> v0.9.1 * [new tag] v1.0.0 -> v1.0.0 * [new tag] v1.0.1 -> v1.0.1 [rtd-command-info] start-time: 2026-05-19T03:19:26.953152Z, end-time: 2026-05-19T03:19:27.010387Z, duration: 0, exit-code: 0 git checkout --force a11bc74140be2ca08f51438c9efaf0611f42efc2 Note: switching to 'a11bc74140be2ca08f51438c9efaf0611f42efc2'. 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 a11bc74 Bump version: 1.0.1 → 1.0.2 [rtd-command-info] start-time: 2026-05-19T03:19:27.085976Z, end-time: 2026-05-19T03:19:27.127063Z, duration: 0, exit-code: 0 cat .readthedocs.yml # See https://docs.readthedocs.io/en/stable/config-file/v2.html for details version: 2 build: os: ubuntu-22.04 tools: python: "3.13" sphinx: configuration: docs/conf.py fail_on_warning: false formats: - htmlzip - pdf python: install: - requirements: docs/requirements.txt - method: pip path: . extra_requirements: - test search: ranking: installation.html: 3 laser.core.html: 2 [rtd-command-info] start-time: 2026-05-19T03:19:31.801327Z, end-time: 2026-05-19T03:19:31.856849Z, duration: 0, exit-code: 0 asdf global python 3.13.9 [rtd-command-info] start-time: 2026-05-19T03:19:32.189330Z, end-time: 2026-05-19T03:19:32.841202Z, duration: 0, exit-code: 0 python -mvirtualenv $READTHEDOCS_VIRTUALENV_PATH created virtual environment CPython3.13.9.final.0-64 in 401ms creator CPython3Posix(dest=/home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser/envs/main_a, 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: 2026-05-19T03:19:32.924027Z, end-time: 2026-05-19T03:19:39.706788Z, duration: 6, 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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idna<4,>=2.5 (from requests>=2.30.0->sphinx) Downloading idna-3.15-py3-none-any.whl (72 kB) Collecting urllib3<3,>=1.26 (from requests>=2.30.0->sphinx) Downloading urllib3-2.7.0-py3-none-any.whl (131 kB) Collecting certifi>=2023.5.7 (from requests>=2.30.0->sphinx) Downloading certifi-2026.4.22-py3-none-any.whl (135 kB) Installing collected packages: urllib3, sphinxcontrib-serializinghtml, sphinxcontrib-qthelp, sphinxcontrib-jsmath, sphinxcontrib-htmlhelp, sphinxcontrib-devhelp, sphinxcontrib-applehelp, snowballstemmer, roman-numerals, Pygments, packaging, MarkupSafe, imagesize, idna, docutils, charset_normalizer, certifi, babel, alabaster, requests, Jinja2, sphinx Successfully installed Jinja2-3.1.6 MarkupSafe-3.0.3 Pygments-2.20.0 alabaster-1.0.0 babel-2.18.0 certifi-2026.4.22 charset_normalizer-3.4.7 docutils-0.22.4 idna-3.15 imagesize-2.0.0 packaging-26.2 requests-2.34.2 roman-numerals-4.1.0 snowballstemmer-3.0.1 sphinx-9.1.0 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 urllib3-2.7.0 [rtd-command-info] start-time: 2026-05-19T03:19:46.963252Z, end-time: 2026-05-19T03:19:48.621907Z, duration: 1, 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 Requirement already satisfied: sphinx>=1.3 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser/envs/main_a/lib/python3.13/site-packages (from -r docs/requirements.txt (line 1)) (9.1.0) Collecting sphinx-rtd-theme (from -r docs/requirements.txt (line 2)) Downloading sphinx_rtd_theme-3.1.0-py2.py3-none-any.whl (7.7 MB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 7.7/7.7 MB 14.1 MB/s 0:00:00 Requirement already satisfied: sphinxcontrib-applehelp>=1.0.7 in 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Installing build dependencies: started Installing build dependencies: finished with status 'done' Getting requirements to build wheel: started Getting requirements to build wheel: finished with status 'done' Preparing metadata (pyproject.toml): started Preparing metadata (pyproject.toml): finished with status 'done' Collecting click (from laser-core==1.0.2) Downloading click-8.4.0-py3-none-any.whl (116 kB) Collecting numpy (from laser-core==1.0.2) Downloading numpy-2.4.6-cp313-cp313-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (16.6 MB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 16.6/16.6 MB 14.1 MB/s 0:00:01 Collecting numba (from laser-core==1.0.2) Downloading numba-0.65.1-cp313-cp313-manylinux2014_x86_64.manylinux_2_17_x86_64.whl (3.8 MB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 3.8/3.8 MB 14.1 MB/s 0:00:00 Collecting matplotlib (from laser-core==1.0.2) Downloading matplotlib-3.10.9-cp313-cp313-manylinux2014_x86_64.manylinux_2_17_x86_64.whl (8.8 MB) 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(from laser-core==1.0.2) Downloading pytest-9.0.3-py3-none-any.whl (375 kB) Collecting pytest-cov (from laser-core==1.0.2) Downloading pytest_cov-7.1.0-py3-none-any.whl (22 kB) Collecting scipy (from laser-core==1.0.2) Downloading scipy-1.17.1-cp313-cp313-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (35.2 MB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 35.2/35.2 MB 14.0 MB/s 0:00:02 Collecting tox (from laser-core==1.0.2) Downloading tox-4.54.0-py3-none-any.whl (214 kB) Collecting tox-uv (from laser-core==1.0.2) Downloading tox_uv-1.35.2-py3-none-any.whl (6.6 kB) Collecting iniconfig>=1.0.1 (from pytest>=6.0->laser-core==1.0.2) Downloading iniconfig-2.3.0-py3-none-any.whl (7.5 kB) Requirement already satisfied: packaging>=22 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser/envs/main_a/lib/python3.13/site-packages (from pytest>=6.0->laser-core==1.0.2) (26.2) Collecting pluggy<2,>=1.5 (from pytest>=6.0->laser-core==1.0.2) Downloading pluggy-1.6.0-py3-none-any.whl (20 kB) Requirement already satisfied: pygments>=2.7.2 in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser/envs/main_a/lib/python3.13/site-packages (from pytest>=6.0->laser-core==1.0.2) (2.20.0) Collecting pyogrio>=0.7.2 (from geopandas->laser-core==1.0.2) Downloading pyogrio-0.12.1-cp313-cp313-manylinux_2_28_x86_64.whl (32.5 MB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 32.5/32.5 MB 14.0 MB/s 0:00:02 Collecting pyproj>=3.5.0 (from geopandas->laser-core==1.0.2) Downloading pyproj-3.7.2-cp313-cp313-manylinux_2_28_x86_64.whl (9.5 MB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 9.5/9.5 MB 14.2 MB/s 0:00:00 Collecting python-dateutil>=2.8.2 (from pandas->laser-core==1.0.2) Downloading python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB) Requirement already satisfied: certifi in /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser/envs/main_a/lib/python3.13/site-packages (from pyogrio>=0.7.2->geopandas->laser-core==1.0.2) (2026.4.22) Collecting six>=1.5 (from python-dateutil>=2.8.2->pandas->laser-core==1.0.2) Downloading six-1.17.0-py2.py3-none-any.whl (11 kB) Collecting contourpy>=1.0.1 (from matplotlib->laser-core==1.0.2) Downloading contourpy-1.3.3-cp313-cp313-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (362 kB) Collecting cycler>=0.10 (from matplotlib->laser-core==1.0.2) Downloading cycler-0.12.1-py3-none-any.whl (8.3 kB) Collecting fonttools>=4.22.0 (from matplotlib->laser-core==1.0.2) Downloading fonttools-4.63.0-cp313-cp313-manylinux2014_x86_64.manylinux_2_17_x86_64.whl (5.0 MB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 5.0/5.0 MB 14.2 MB/s 0:00:00 Collecting kiwisolver>=1.3.1 (from matplotlib->laser-core==1.0.2) Downloading kiwisolver-1.5.0-cp313-cp313-manylinux2014_x86_64.manylinux_2_17_x86_64.whl (1.5 MB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 1.5/1.5 MB 14.3 MB/s 0:00:00 Collecting pillow>=8 (from matplotlib->laser-core==1.0.2) Downloading pillow-12.2.0-cp313-cp313-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (7.1 MB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 7.1/7.1 MB 14.1 MB/s 0:00:00 Collecting pyparsing>=3 (from matplotlib->laser-core==1.0.2) Downloading pyparsing-3.3.2-py3-none-any.whl (122 kB) Collecting llvmlite<0.48,>=0.47.0dev0 (from numba->laser-core==1.0.2) Downloading llvmlite-0.47.0-cp313-cp313-manylinux2014_x86_64.manylinux_2_17_x86_64.whl (56.3 MB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 56.3/56.3 MB 14.1 MB/s 0:00:03 Collecting coverage>=7.10.6 (from coverage[toml]>=7.10.6->pytest-cov->laser-core==1.0.2) Downloading coverage-7.14.0-cp313-cp313-manylinux1_x86_64.manylinux_2_28_x86_64.manylinux_2_5_x86_64.whl (253 kB) Collecting cachetools>=7.0.3 (from tox->laser-core==1.0.2) Downloading cachetools-7.1.3-py3-none-any.whl (16 kB) Collecting colorama>=0.4.6 (from tox->laser-core==1.0.2) Downloading colorama-0.4.6-py2.py3-none-any.whl (25 kB) Collecting filelock>=3.25 (from tox->laser-core==1.0.2) Downloading filelock-3.29.0-py3-none-any.whl (39 kB) Collecting platformdirs>=4.9.4 (from tox->laser-core==1.0.2) Downloading platformdirs-4.9.6-py3-none-any.whl (21 kB) Collecting pyproject-api>=1.10 (from tox->laser-core==1.0.2) Downloading pyproject_api-1.10.0-py3-none-any.whl (13 kB) Collecting python-discovery>=1.2.2 (from tox->laser-core==1.0.2) Downloading python_discovery-1.3.1-py3-none-any.whl (33 kB) Collecting tomli-w>=1.2 (from tox->laser-core==1.0.2) Downloading tomli_w-1.2.0-py3-none-any.whl (6.7 kB) Collecting virtualenv>=21.1 (from tox->laser-core==1.0.2) Downloading virtualenv-21.3.3-py3-none-any.whl (7.6 MB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 7.6/7.6 MB 14.2 MB/s 0:00:00 Collecting distlib<1,>=0.3.7 (from virtualenv>=21.1->tox->laser-core==1.0.2) Downloading distlib-0.4.0-py2.py3-none-any.whl (469 kB) Collecting tox-uv-bare==1.35.2 (from tox-uv->laser-core==1.0.2) Downloading tox_uv_bare-1.35.2-py3-none-any.whl (22 kB) Building wheels for collected packages: laser-core Building wheel for laser-core (pyproject.toml): started Building wheel for laser-core (pyproject.toml): finished with status 'done' Created wheel for laser-core: filename=laser_core-1.0.2-py3-none-any.whl size=36639 sha256=b1f0443b87090ee32890f163ce85d96f1f20150e4ec06b931e37bbe8ca49d227 Stored in directory: /tmp/pip-ephem-wheel-cache-1rd5lwng/wheels/b6/db/e1/35b272a27cecf83c15777a8af15e220c9c0cccf5f29d954c19 Successfully built laser-core Installing collected packages: distlib, uv, tomli-w, six, pyproject-api, pyproj, pyparsing, pluggy, platformdirs, pillow, numpy, llvmlite, kiwisolver, iniconfig, fonttools, filelock, cycler, coverage, colorama, click, cachetools, shapely, scipy, python-discovery, python-dateutil, pytest, pyogrio, numba, h5py, contourpy, virtualenv, pytest-cov, pandas, matplotlib, tox, geopandas, tox-uv-bare, laser-core, tox-uv Successfully installed cachetools-7.1.3 click-8.4.0 colorama-0.4.6 contourpy-1.3.3 coverage-7.14.0 cycler-0.12.1 distlib-0.4.0 filelock-3.29.0 fonttools-4.63.0 geopandas-1.1.3 h5py-3.16.0 iniconfig-2.3.0 kiwisolver-1.5.0 laser-core-1.0.2 llvmlite-0.47.0 matplotlib-3.10.9 numba-0.65.1 numpy-2.4.6 pandas-3.0.3 pillow-12.2.0 platformdirs-4.9.6 pluggy-1.6.0 pyogrio-0.12.1 pyparsing-3.3.2 pyproj-3.7.2 pyproject-api-1.10.0 pytest-9.0.3 pytest-cov-7.1.0 python-dateutil-2.9.0.post0 python-discovery-1.3.1 scipy-1.17.1 shapely-2.1.2 six-1.17.0 tomli-w-1.2.0 tox-4.54.0 tox-uv-1.35.2 tox-uv-bare-1.35.2 uv-0.11.15 virtualenv-21.3.3 [rtd-command-info] start-time: 2026-05-19T03:20:38.719501Z, end-time: 2026-05-19T03:20:38.759768Z, duration: 0, exit-code: 0 cat docs/conf.py import os extensions = [ "sphinx.ext.autodoc", "sphinx.ext.autosummary", "sphinx.ext.coverage", "sphinx.ext.doctest", "sphinx.ext.extlinks", "sphinx.ext.ifconfig", "sphinx.ext.napoleon", "sphinx.ext.todo", "sphinx.ext.viewcode", "sphinx.ext.mathjax", ] source_suffix = {".rst": "restructuredtext"} master_doc = "index" project = "LASER" year = "2023-2024" author = "Institute for Disease Modeling" copyright = f"{year}, {author}" version = release = "1.0.2" pygments_style = "trac" templates_path = ["."] extlinks = { "issue": ("https://github.com/laser-base/laser-core/issues/%s", "#"), "pr": ("https://github.com/laser-base/laser-core/pull/%s", "PR #"), } # on_rtd is whether we are on readthedocs.org on_rtd = os.environ.get("READTHEDOCS", None) == "True" if not on_rtd: # only set the theme if we are building docs locally html_theme = "sphinx_rtd_theme" html_use_smartypants = True html_last_updated_fmt = "%b %d, %Y" html_split_index = False html_sidebars = { "**": ["searchbox.html", "globaltoc.html", "sourcelink.html"], } html_short_title = f"{project}-{version}" # Napoleon settings (Napolean converts Google-style docstrings to reStructuredText) napoleon_google_docstring = True napoleon_numpy_docstring = True napoleon_include_init_with_doc = False napoleon_include_private_with_doc = False napoleon_include_special_with_doc = True napoleon_use_admonition_for_examples = False napoleon_use_admonition_for_notes = False napoleon_use_admonition_for_references = False napoleon_use_ivar = True # from Cookiecutter template, False is the default napoleon_use_param = False # from Cookiecutter template, True is the default napoleon_use_rtype = False # from Cookiecutter template, True is the default napoleon_preprocess_types = False napoleon_type_aliases = None napoleon_attr_annotations = True mathjax3_config = {"TeX": {"Macros": {"small": ["{\\scriptstyle #1}", 1]}}} # Prevent the following warning: # sphinx/builders/linkcheck.py:86: RemovedInSphinx80Warning: The default value for 'linkcheck_report_timeouts_as_broken' will change to False in Sphinx 8, meaning that request timeouts will be reported with a new 'timeout' status, instead of as 'broken'. This is intended to provide more detail as to the failure mode. See https://github.com/sphinx-doc/sphinx/issues/11868 for details. # warnings.warn(deprecation_msg, RemovedInSphinx80Warning, stacklevel=1) linkcheck_ignore = [r"https://www\.populationpyramid\.net/nigeria/2024/"] linkcheck_report_timeouts_as_broken = False [rtd-command-info] start-time: 2026-05-19T03:20:38.841466Z, end-time: 2026-05-19T03:20:43.186602Z, duration: 4, exit-code: 0 python -m sphinx -T -b html -d _build/doctrees -D language=en . $READTHEDOCS_OUTPUT/html Running Sphinx v9.1.0 loading translations [en]... done making output directory... done [autosummary] generating autosummary for: architecture.rst, authors.rst, calibration.rst, changelog.rst, contributing.rst, eula.rst, example.rst, index.rst, installation.rst, kmestimator.rst, migration.rst, performance.rst, pyramids.rst, readme.rst, source/laser.core.demographics.rst, source/laser.core.rst, source/modules.rst, spatialexample.rst, usage.rst, vdexample.rst building [mo]: targets for 0 po files that are out of date writing output... building [html]: targets for 20 source files that are out of date updating environment: [new config] 20 added, 0 changed, 0 removed reading sources... [ 5%] architecture reading sources... [ 10%] authors reading sources... [ 15%] calibration reading sources... [ 20%] changelog reading sources... [ 25%] contributing reading sources... [ 30%] eula reading sources... [ 35%] example reading sources... [ 40%] index reading sources... [ 45%] installation reading sources... [ 50%] kmestimator reading sources... [ 55%] migration reading sources... [ 60%] performance reading sources... [ 65%] pyramids reading sources... [ 70%] readme reading sources... [ 75%] source/laser.core reading sources... [ 80%] source/laser.core.demographics reading sources... [ 85%] source/modules reading sources... [ 90%] spatialexample reading sources... [ 95%] usage reading sources... [100%] vdexample ../CHANGELOG.rst:76: WARNING: Inline substitution_reference start-string without end-string. [docutils] looking for now-outdated files... none found pickling environment... done checking consistency... done preparing documents... done copying assets... copying static files... Writing evaluated template result to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser/checkouts/main_a/_readthedocs/html/_static/language_data.js Writing evaluated template result to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser/checkouts/main_a/_readthedocs/html/_static/basic.css Writing evaluated template result to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser/checkouts/main_a/_readthedocs/html/_static/documentation_options.js Writing evaluated template result to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser/checkouts/main_a/_readthedocs/html/_static/alabaster.css copying static files: done copying extra files... copying extra files: done copying assets: done writing output... [ 5%] architecture writing output... [ 10%] authors writing output... [ 15%] calibration writing output... [ 20%] changelog writing output... [ 25%] contributing writing output... [ 30%] eula writing output... [ 35%] example writing output... [ 40%] index writing output... [ 45%] installation writing output... [ 50%] kmestimator writing output... [ 55%] migration writing output... [ 60%] performance writing output... [ 65%] pyramids writing output... [ 70%] readme writing output... [ 75%] source/laser.core writing output... [ 80%] source/laser.core.demographics writing output... [ 85%] source/modules writing output... [ 90%] spatialexample writing output... [ 95%] usage writing output... [100%] vdexample generating indices... genindex py-modindex done highlighting module code... [ 10%] laser.core.demographics.kmestimator highlighting module code... [ 20%] laser.core.demographics.pyramid highlighting module code... [ 30%] laser.core.demographics.spatialpops highlighting module code... [ 40%] laser.core.distributions highlighting module code... [ 50%] laser.core.laserframe highlighting module code... [ 60%] laser.core.migration highlighting module code... [ 70%] laser.core.propertyset highlighting module code... [ 80%] laser.core.random highlighting module code... [ 90%] laser.core.sortedqueue highlighting module code... [100%] laser.core.utils writing additional pages... search done copying images... [ 25%] media/squash_save_load.png copying images... [ 50%] media/Nigeria-NDD.png copying images... [ 75%] media/Nigeria-2024.png copying images... [100%] media/Nigeria-Sampled.png dumping search index in English (code: en)... done dumping object inventory... done build succeeded, 1 warning. The HTML pages are in ../_readthedocs/html. [rtd-command-info] start-time: 2026-05-19T03:20:43.263022Z, end-time: 2026-05-19T03:20:46.003172Z, duration: 2, exit-code: 0 python -m sphinx -T -b singlehtml -d _build/doctrees -D language=en . $READTHEDOCS_OUTPUT/htmlzip Running Sphinx v9.1.0 loading translations [en]... done making output directory... done loading pickled environment... done [autosummary] generating autosummary for: architecture.rst, authors.rst, calibration.rst, changelog.rst, contributing.rst, eula.rst, example.rst, index.rst, installation.rst, kmestimator.rst, migration.rst, performance.rst, pyramids.rst, readme.rst, source/laser.core.demographics.rst, source/laser.core.rst, source/modules.rst, spatialexample.rst, usage.rst, vdexample.rst building [mo]: targets for 0 po files that are out of date writing output... building [singlehtml]: all documents updating environment: 0 added, 0 changed, 0 removed reading sources... looking for now-outdated files... none found preparing documents... done copying assets... copying static files... Writing evaluated template result to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser/checkouts/main_a/_readthedocs/htmlzip/_static/language_data.js Writing evaluated template result to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser/checkouts/main_a/_readthedocs/htmlzip/_static/basic.css Writing evaluated template result to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser/checkouts/main_a/_readthedocs/htmlzip/_static/documentation_options.js Writing evaluated template result to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser/checkouts/main_a/_readthedocs/htmlzip/_static/alabaster.css copying static files: done copying extra files... copying extra files: done copying assets: done assembling single document... index readme installation usage architecture source/modules source/laser.core source/laser.core.demographics migration pyramids kmestimator example vdexample spatialexample eula performance calibration contributing authors changelog assembling single document: done writing... done writing additional files... done copying images... 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Writing evaluated template result to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser/checkouts/main_a/_readthedocs/htmlzip/_static/language_data.js Writing evaluated template result to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser/checkouts/main_a/_readthedocs/htmlzip/_static/basic.css Writing evaluated template result to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser/checkouts/main_a/_readthedocs/htmlzip/_static/documentation_options.js Writing evaluated template result to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser/checkouts/main_a/_readthedocs/htmlzip/_static/alabaster.css copying static files: done copying extra files... copying extra files: done dumping object inventory... done build succeeded. The HTML page is in ../_readthedocs/htmlzip. [rtd-command-info] start-time: 2026-05-19T03:20:46.320134Z, end-time: 2026-05-19T03:20:51.353500Z, duration: 5, exit-code: 0 python -m sphinx -T -b latex -d _build/doctrees -D language=en . $READTHEDOCS_OUTPUT/pdf Running Sphinx v9.1.0 loading translations [en]... done making output directory... done loading pickled environment... done [autosummary] generating autosummary for: architecture.rst, authors.rst, calibration.rst, changelog.rst, contributing.rst, eula.rst, example.rst, index.rst, installation.rst, kmestimator.rst, migration.rst, performance.rst, pyramids.rst, readme.rst, source/laser.core.demographics.rst, source/laser.core.rst, source/modules.rst, spatialexample.rst, usage.rst, vdexample.rst building [mo]: targets for 0 po files that are out of date writing output... building [latex]: all documents updating environment: 0 added, 0 changed, 0 removed reading sources... looking for now-outdated files... none found preparing documents... done copying assets... copying TeX support files... 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[ 25%] media/Nigeria-2024.png copying images... [ 50%] media/Nigeria-Sampled.png copying images... [ 75%] media/Nigeria-NDD.png copying images... [100%] media/squash_save_load.png Writing evaluated template result to /home/docs/checkouts/readthedocs.org/user_builds/institute-for-disease-modeling-laser/checkouts/main_a/_readthedocs/pdf/sphinxmessages.sty build succeeded, 8 warnings. The LaTeX files are in ../_readthedocs/pdf. Run 'make' in that directory to run these through (pdf)latex (use `make latexpdf' here to do that automatically). [rtd-command-info] start-time: 2026-05-19T03:20:51.817544Z, end-time: 2026-05-19T03:20:51.858226Z, duration: 0, exit-code: 0 cat latexmkrc $latex = 'latex ' . $ENV{'LATEXOPTS'} . ' %O %S'; $pdflatex = 'pdflatex ' . $ENV{'LATEXOPTS'} . ' %O %S'; $lualatex = 'lualatex ' . $ENV{'LATEXOPTS'} . ' %O %S'; $xelatex = 'xelatex --no-pdf ' . $ENV{'LATEXOPTS'} . ' %O %S'; $makeindex = 'makeindex -s python.ist %O -o %D %S'; add_cus_dep( "glo", "gls", 0, "makeglo" ); sub makeglo { return system( "makeindex -s gglo.ist -o '$_[0].gls' '$_[0].glo'" ); } [rtd-command-info] start-time: 2026-05-19T03:20:51.938001Z, end-time: 2026-05-19T03:21:01.971424Z, duration: 10, exit-code: 0 latexmk -r latexmkrc -pdf -f -dvi- -ps- -jobname=institute-for-disease-modeling-laser -interaction=nonstopmode Use of uninitialized value in concatenation (.) or string at (eval 10) line 1. Use of uninitialized value in concatenation (.) or string at (eval 10) line 2. Use of uninitialized value in concatenation (.) or string at (eval 10) line 3. Use of uninitialized value in concatenation (.) or string at (eval 10) line 4. Subroutine makeglo redefined at (eval 11) line 7. Use of uninitialized value in concatenation (.) or string at (eval 11) line 1. Use of uninitialized value in concatenation (.) or string at (eval 11) line 2. 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See the LaTeX manual or LaTeX Companion for explanation. Type H for immediate help. ... l.139 \end{tabulary} ! LaTeX Error: Unknown graphics extension: .svg. See the LaTeX manual or LaTeX Companion for explanation. Type H for immediate help. ... l.139 \end{tabulary} (/usr/share/texmf/tex/latex/tex-gyre/ts1qtm.fd) (/usr/share/texlive/texmf-dist/tex/latex/txfonts/t1txtt.fd) Underfull \hbox (badness 10000) in paragraph at lines 192--194 []\T1/qhv/m/n/10 Win- Underfull \hbox (badness 10000) detected at line 195 []\T1/qhv/m/n/10 Win- [1] [2] Chapter 2. [3] [4] Chapter 3. [5] [6] Chapter 4. [7] Underfull \hbox (badness 7558) in paragraph at lines 313--315 []\T1/qtm/b/n/10 Laser-Frame\T1/qtm/m/n/10 : A cus-tom dataframe class with ad- di-tional meth-ods tai-lored for LASER, such as [8] [9] [10] [11] [12] Chapter 5. (/usr/share/texlive/texmf-dist/tex/latex/txfonts/ts1txtt.fd) Underfull \hbox (badness 10000) in paragraph at lines 654--660 \TS1/txtt/m/n/10 ` \T1/txtt/m/n/10 estimator = KaplanMeierEstimator(cumulative_ deaths=np.array([...])) year_of_death Underfull \hbox (badness 10000) in paragraph at lines 654--660 \T1/txtt/m/n/10 = estimator.predict_year_of_death(np.array([40, 50, 60]), max_y ear=80) age_at_death [13] Underfull \hbox (badness 10000) in paragraph at lines 718--722 \TS1/txtt/m/n/10 ` \T1/txtt/m/n/10 predict_age_at_death(np.array([40*365, 50*36 5, 60*365]), max_year=80) # Underfull \hbox (badness 10000) in paragraph at lines 756--760 \TS1/txtt/m/n/10 ` \T1/txtt/m/n/10 predict_year_of_death(np.array([40, 50, 60]) , max_year=80) # returns something [14] [15] [16] [17] Underfull \hbox (badness 10000) in paragraph at lines 1267--1271 \TS1/txtt/m/n/10 ` \T1/txtt/m/n/10 predict_age_at_death(np.array([40*365, 50*36 5, 60*365]), max_year=80) # Underfull \hbox (badness 10000) in paragraph at lines 1305--1309 \TS1/txtt/m/n/10 ` \T1/txtt/m/n/10 predict_year_of_death(np.array([40, 50, 60]) , max_year=80) # returns something [18] [19] [20] [21] Overfull \hbox (1.49371pt too wide) in paragraph at lines 1886--1895 \TS1/txtt/m/n/10 `\T1/txtt/m/n/10 python laser_frame = LaserFrame(capacity=100) laser_frame.add_scalar_property(\TS1/txtt/m/n/10 '\T1/txtt/m/n/10 age\TS1/txtt /m/n/10 '\T1/txtt/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 1886--1895 \T1/txtt/m/n/10 dtype=np.int32, default=0) laser_frame.add_vector_property(\TS1 /txtt/m/n/10 '\T1/txtt/m/n/10 position\TS1/txtt/m/n/10 '\T1/txtt/m/n/10 , lengt h=3, Underfull \hbox (badness 10000) in paragraph at lines 1886--1895 \T1/txtt/m/n/10 dtype=np.float32, default=0.0) start, end = laser_frame.add(10) laser_frame.sort(np. Underfull \hbox (badness 10000) in paragraph at lines 1886--1895 \T1/txtt/m/n/10 arange(10)[::[]1]) laser_frame.squash(np.array([True, False, Tr ue, False, True, (/usr/share/texlive/texmf-dist/tex/latex/fontawesome5/ufontawesomefree1.fd) [22] [23] [24] [25] Underfull \hbox (badness 10000) in paragraph at lines 2447--2449 \T1/txtt/m/n/10 row_sums = np.sum(competition_matrix, axis=1) [] np. Underfull \hbox (badness 10000) in paragraph at lines 2454--2456 \T1/txtt/m/n/10 network[i][j] = network[i][j] * (row_sums[i] [] competition_mat rix[i][j]) [26] [27] [28] [29] LaTeX Warning: Hyper reference `source/laser.core:laser.core.propertyset.Proper tySet' on page 30 undefined on input line 2931. [30] [31] [32] [33] [34] ! LaTeX Error: Unicode character ≈ (U+2248) not set up for use with LaTeX. See the LaTeX manual or LaTeX Companion for explanation. Type H for immediate help. ... l.3632 ... in decimal degrees (default 0.08983 ≈ 10km at the equator). [35] [36] [37] [38] LaTeX Warning: Hyper reference `source/laser.core:laser.core.propertyset.Proper tySet' on page 39 undefined on input line 4155. [39] [40] [41] [42] [43] [44] Chapter 6. [45] [46] [47] [48] Chapter 7. [49] [50] [51 <./Nigeria-2024.png>] [52 <./Nigeria-Sampled.png>] Chapter 8. [53] [54 <./Nigeria-NDD.png>] Chapter 9. [55] [56] [57] [58] Chapter 10. [59] [60] Underfull \vbox (badness 10000) detected at line 5695 Underfull \vbox (badness 10000) detected at line 5695 [61] Overfull \vbox (0.80812pt too high) detected at line 5742 [62] Overfull \vbox (0.80812pt too high) detected at line 5783 [63] [64] [65] [66] Chapter 11. [67] Underfull \vbox (badness 10000) detected at line 6047 [68] Underfull \vbox (badness 10000) detected at line 6047 Underfull \vbox (badness 10000) detected at line 6047 [69] [70] Underfull \vbox (badness 10000) detected at line 6139 Underfull \vbox (badness 10000) detected at line 6139 [71] [72] [73] [74] Underfull \vbox (badness 10000) detected at line 6356 Underfull \vbox (badness 10000) detected at line 6356 [75] [76] Chapter 12. [77] [78] Underfull \vbox (badness 7397) detected at line 6558 [79] Underfull \vbox (badness 10000) detected at line 6558 Underfull \vbox (badness 10000) detected at line 6558 [80] [81] [82] Chapter 13. [83 <./squash_save_load.png>] [84] Chapter 14. [85] [86] Chapter 15. [87] Underfull \vbox (badness 10000) detected at line 6988 Underfull \vbox (badness 10000) detected at line 6988 [88] Underfull \vbox (badness 10000) detected at line 6988 Underfull \vbox (badness 10000) detected at line 6988 [89] Underfull \vbox (badness 10000) detected at line 6988 Underfull \vbox (badness 10000) detected at line 6988 [90] [91] [92] Chapter 16. [93] [94] [95] [96] Chapter 17. [97] [98] [99] Underfull \hbox (badness 7308) in paragraph at lines 7544--7546 []\T1/qtm/m/n/10 Edit con-fig file. Edit \T1/qtm/m/it/10 cloud_calib_config.py \T1/qtm/m/n/10 to set the stor-age_url to your cloud [100] [101] [102] [103] [104] Chapter 18. [105] [106] Chapter 19. [107] [108] Chapter 20. [109] [110] [111] [112] Chapter 21. [113] [114] LaTeX Warning: Reference `source/laser.core:module-laser.core' on page 115 unde fined on input line 8489. LaTeX Warning: Reference `source/laser.core:module-laser.core.cli' on page 115 undefined on input line 8490. 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LaTeX Warning: Reference `source/laser.core:module-laser.core.propertyset' on p age 115 undefined on input line 8498. LaTeX Warning: Reference `source/laser.core:module-laser.core.random' on page 1 15 undefined on input line 8499. LaTeX Warning: Reference `source/laser.core:module-laser.core.utils' on page 11 5 undefined on input line 8500. [115] No file institute-for-disease-modeling-laser.ind. (./institute-for-disease-modeling-laser.aux) LaTeX Warning: There were undefined references. LaTeX Warning: Label(s) may have changed. Rerun to get cross-references right. Package rerunfilecheck Warning: File `institute-for-disease-modeling-laser.out' has changed. (rerunfilecheck) Rerun to get outlines right (rerunfilecheck) or use package `bookmark'. ) (see the transcript file for additional information){/usr/share/texmf/fonts/enc /dvips/tex-gyre/q-ts1.enc}{/usr/share/texlive/texmf-dist/fonts/enc/dvips/fontaw esome5/fa5free1.enc}{/usr/share/texlive/texmf-dist/fonts/enc/dvips/base/8r.enc} {/usr/share/texmf/fonts/enc/dvips/tex-gyre/q-ec.enc}< /usr/share/texlive/texmf-dist/fonts/type1/public/amsfonts/cm/cmsy7.pfb> Output written on institute-for-disease-modeling-laser.pdf (119 pages, 934167 b ytes). Transcript written on institute-for-disease-modeling-laser.log. Latexmk: Index file 'institute-for-disease-modeling-laser.idx' was written Latexmk: Missing input file 'institute-for-disease-modeling-laser.ind' (or dependence on it) from following: 'No file institute-for-disease-modeling-laser.ind.' Latexmk: References changed. Latexmk: References changed. Latexmk: Log file says output to 'institute-for-disease-modeling-laser.pdf' Latexmk: Log file says output to 'institute-for-disease-modeling-laser.pdf' Latexmk: List of undefined refs and citations: Reference `source/laser.core.demographics:module-laser.core.demographics' on page 115 undefined on input line 8491 Reference `source/laser.core.demographics:module-laser.core.demographics.kmestimator' on page 115 undefined on input line 8492 Reference `source/laser.core.demographics:module-laser.core.demographics.pyramid' on page 115 undefined on input line 8493 Reference `source/laser.core.demographics:module-laser.core.demographics.spatialpops' on page 115 undefined on input line 8494 Reference `source/laser.core:module-laser.core' on page 115 undefined on input line 8489 Reference `source/laser.core:module-laser.core.cli' on page 115 undefined on input line 8490 Reference `source/laser.core:module-laser.core.distributions' on page 115 undefined on input line 8495 Reference `source/laser.core:module-laser.core.laserframe' on page 115 undefined on input line 8496 Reference `source/laser.core:module-laser.core.migration' on page 115 undefined on input line 8497 Reference `source/laser.core:module-laser.core.propertyset' on page 115 undefined on input line 8498 Reference `source/laser.core:module-laser.core.random' on page 115 undefined on input line 8499 Reference `source/laser.core:module-laser.core.utils' on page 115 undefined on input line 8500 Rule 'makeindex institute-for-disease-modeling-laser.idx': File changes, etc: Changed files, or newly in use since previous run(s): 'institute-for-disease-modeling-laser.idx' ------------ Run number 1 of rule 'makeindex institute-for-disease-modeling-laser.idx' ------------ Latexmk: Examining 'institute-for-disease-modeling-laser.log' === TeX engine is 'pdfTeX' Latexmk: applying rule 'makeindex institute-for-disease-modeling-laser.idx'... ------------ Running 'makeindex -s python.ist -o "institute-for-disease-modeling-laser.ind" "institute-for-disease-modeling-laser.idx"' ------------ This is makeindex, version 2.15 [TeX Live 2022/dev] (kpathsea + Thai support). Scanning style file ./python.ist.......done (7 attributes redefined, 0 ignored). Scanning input file institute-for-disease-modeling-laser.idx....done (143 entries accepted, 0 rejected). Sorting entries....done (1168 comparisons). Generating output file institute-for-disease-modeling-laser.ind....done (257 lines written, 0 warnings). Output written in institute-for-disease-modeling-laser.ind. Transcript written in institute-for-disease-modeling-laser.ilg. Rule 'pdflatex': File changes, etc: Changed files, or newly in use since previous run(s): 'institute-for-disease-modeling-laser.aux' 'institute-for-disease-modeling-laser.ind' 'institute-for-disease-modeling-laser.out' ------------ Run number 2 of rule 'pdflatex' ------------ ------------ Running 'pdflatex -interaction=nonstopmode -recorder --jobname="institute-for-disease-modeling-laser" "laser.tex"' ------------ Latexmk: applying rule 'pdflatex'... 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(rerunfilecheck) Rerun to get outlines right (rerunfilecheck) or use package `bookmark'. ) (see the transcript file for additional information){/usr/share/texmf/fonts/enc /dvips/tex-gyre/q-ts1.enc}{/usr/share/texlive/texmf-dist/fonts/enc/dvips/fontaw esome5/fa5free1.enc}{/usr/share/texlive/texmf-dist/fonts/enc/dvips/base/8r.enc} {/usr/share/texmf/fonts/enc/dvips/tex-gyre/q-ec.enc}< /usr/share/texlive/texmf-dist/fonts/type1/public/amsfonts/cm/cmsy7.pfb> Output written on institute-for-disease-modeling-laser.pdf (125 pages, 966458 b ytes). Transcript written on institute-for-disease-modeling-laser.log. Latexmk: Index file 'institute-for-disease-modeling-laser.idx' was written Latexmk: References changed. 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See the LaTeX manual or LaTeX Companion for explanation. Type H for immediate help. ... l.139 \end{tabulary} ! LaTeX Error: Unknown graphics extension: .svg. See the LaTeX manual or LaTeX Companion for explanation. Type H for immediate help. ... l.139 \end{tabulary} (/usr/share/texmf/tex/latex/tex-gyre/ts1qtm.fd) (/usr/share/texlive/texmf-dist/tex/latex/txfonts/t1txtt.fd) Underfull \hbox (badness 10000) in paragraph at lines 192--194 []\T1/qhv/m/n/10 Win- Underfull \hbox (badness 10000) detected at line 195 []\T1/qhv/m/n/10 Win- [1] [2] Chapter 2. [3] [4] Chapter 3. [5] [6] Chapter 4. [7] Underfull \hbox (badness 7558) in paragraph at lines 313--315 []\T1/qtm/b/n/10 Laser-Frame\T1/qtm/m/n/10 : A cus-tom dataframe class with ad- di-tional meth-ods tai-lored for LASER, such as [8] [9] [10] [11] [12] Chapter 5. (/usr/share/texlive/texmf-dist/tex/latex/txfonts/ts1txtt.fd) Underfull \hbox (badness 10000) in paragraph at lines 654--660 \TS1/txtt/m/n/10 ` \T1/txtt/m/n/10 estimator = KaplanMeierEstimator(cumulative_ deaths=np.array([...])) year_of_death Underfull \hbox (badness 10000) in paragraph at lines 654--660 \T1/txtt/m/n/10 = estimator.predict_year_of_death(np.array([40, 50, 60]), max_y ear=80) age_at_death [13] Underfull \hbox (badness 10000) in paragraph at lines 718--722 \TS1/txtt/m/n/10 ` \T1/txtt/m/n/10 predict_age_at_death(np.array([40*365, 50*36 5, 60*365]), max_year=80) # Underfull \hbox (badness 10000) in paragraph at lines 756--760 \TS1/txtt/m/n/10 ` \T1/txtt/m/n/10 predict_year_of_death(np.array([40, 50, 60]) , max_year=80) # returns something [14] [15] [16] [17] Underfull \hbox (badness 10000) in paragraph at lines 1267--1271 \TS1/txtt/m/n/10 ` \T1/txtt/m/n/10 predict_age_at_death(np.array([40*365, 50*36 5, 60*365]), max_year=80) # Underfull \hbox (badness 10000) in paragraph at lines 1305--1309 \TS1/txtt/m/n/10 ` \T1/txtt/m/n/10 predict_year_of_death(np.array([40, 50, 60]) , max_year=80) # returns something [18] [19] [20] [21] Overfull \hbox (1.49371pt too wide) in paragraph at lines 1886--1895 \TS1/txtt/m/n/10 `\T1/txtt/m/n/10 python laser_frame = LaserFrame(capacity=100) laser_frame.add_scalar_property(\TS1/txtt/m/n/10 '\T1/txtt/m/n/10 age\TS1/txtt /m/n/10 '\T1/txtt/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 1886--1895 \T1/txtt/m/n/10 dtype=np.int32, default=0) laser_frame.add_vector_property(\TS1 /txtt/m/n/10 '\T1/txtt/m/n/10 position\TS1/txtt/m/n/10 '\T1/txtt/m/n/10 , lengt h=3, Underfull \hbox (badness 10000) in paragraph at lines 1886--1895 \T1/txtt/m/n/10 dtype=np.float32, default=0.0) start, end = laser_frame.add(10) laser_frame.sort(np. 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[53] [54 <./Nigeria-NDD.png>] Chapter 9. [55] [56] [57] [58] Chapter 10. [59] [60] Underfull \vbox (badness 10000) detected at line 5695 Underfull \vbox (badness 10000) detected at line 5695 [61] Overfull \vbox (0.80812pt too high) detected at line 5742 [62] Overfull \vbox (0.80812pt too high) detected at line 5783 [63] [64] [65] [66] Chapter 11. [67] Underfull \vbox (badness 10000) detected at line 6047 [68] Underfull \vbox (badness 10000) detected at line 6047 Underfull \vbox (badness 10000) detected at line 6047 [69] [70] Underfull \vbox (badness 10000) detected at line 6139 Underfull \vbox (badness 10000) detected at line 6139 [71] [72] [73] [74] Underfull \vbox (badness 10000) detected at line 6356 Underfull \vbox (badness 10000) detected at line 6356 [75] [76] Chapter 12. [77] [78] Underfull \vbox (badness 7397) detected at line 6558 [79] Underfull \vbox (badness 10000) detected at line 6558 Underfull \vbox (badness 10000) detected at line 6558 [80] [81] [82] Chapter 13. [83 <./squash_save_load.png>] [84] Chapter 14. [85] [86] Chapter 15. [87] Underfull \vbox (badness 10000) detected at line 6988 Underfull \vbox (badness 10000) detected at line 6988 [88] Underfull \vbox (badness 10000) detected at line 6988 Underfull \vbox (badness 10000) detected at line 6988 [89] Underfull \vbox (badness 10000) detected at line 6988 Underfull \vbox (badness 10000) detected at line 6988 [90] [91] [92] Chapter 16. [93] [94] [95] [96] Chapter 17. [97] [98] [99] Underfull \hbox (badness 7308) in paragraph at lines 7544--7546 []\T1/qtm/m/n/10 Edit con-fig file. Edit \T1/qtm/m/it/10 cloud_calib_config.py \T1/qtm/m/n/10 to set the stor-age_url to your cloud [100] [101] [102] [103] [104] Chapter 18. [105] [106] Chapter 19. [107] [108] Chapter 20. [109] [110] [111] [112] Chapter 21. 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191--193 []\T1/txtt/m/n/10 predict_age_at_death() Overfull \hbox (6.51248pt too wide) in paragraph at lines 191--193 \T1/qtm/m/n/10 (\T1/qtm/m/it/10 laser.core.demographics.KaplanMeierEstimator Underfull \hbox (badness 10000) in paragraph at lines 193--195 []\T1/txtt/m/n/10 predict_age_at_death() Overfull \hbox (57.55247pt too wide) in paragraph at lines 193--195 \T1/qtm/m/n/10 (\T1/qtm/m/it/10 laser.core.demographics.kmestimator.KaplanMeier Estimator Underfull \hbox (badness 10000) in paragraph at lines 195--197 []\T1/txtt/m/n/10 predict_year_of_death() Overfull \hbox (6.51248pt too wide) in paragraph at lines 195--197 \T1/qtm/m/n/10 (\T1/qtm/m/it/10 laser.core.demographics.KaplanMeierEstimator [118] Underfull \hbox (badness 10000) in paragraph at lines 197--199 []\T1/txtt/m/n/10 predict_year_of_death() Overfull \hbox (57.55247pt too wide) in paragraph at lines 197--199 \T1/qtm/m/n/10 (\T1/qtm/m/it/10 laser.core.demographics.kmestimator.KaplanMeier Estimator Underfull \hbox (badness 10000) in paragraph at lines 200--202 []\T1/txtt/m/n/10 probs \T1/qtm/m/n/10 (\T1/qtm/m/it/10 laser.core.demographics .AliasedDistribution Overfull \hbox (16.2324pt too wide) in paragraph at lines 202--204 []\T1/txtt/m/n/10 probs \T1/qtm/m/n/10 (\T1/qtm/m/it/10 laser.core.demographics .pyramid.AliasedDistribution Overfull \hbox (10.18236pt too wide) in paragraph at lines 217--219 []\T1/txtt/m/n/10 sample() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 laser.core.demograph ics.KaplanMeierEstimator Overfull \hbox (61.22235pt too wide) in paragraph at lines 219--221 []\T1/txtt/m/n/10 sample() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 laser.core.demograph ics.kmestimator.KaplanMeierEstimator Overfull \hbox (31.98236pt too wide) in paragraph at lines 221--223 []\T1/txtt/m/n/10 sample() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 laser.core.demograph ics.pyramid.AliasedDistribution Underfull \hbox (badness 10000) in paragraph at lines 228--230 []\T1/txtt/m/n/10 save_snapshot() \T1/qtm/m/n/10 (\T1/qtm/m/it/10 laser.core.la serframe.LaserFrame Underfull \hbox (badness 10000) in paragraph at lines 244--246 []\T1/txtt/m/n/10 total \T1/qtm/m/n/10 (\T1/qtm/m/it/10 laser.core.demographics .AliasedDistribution Overfull \hbox (16.2324pt too wide) in paragraph at lines 246--248 []\T1/txtt/m/n/10 total \T1/qtm/m/n/10 (\T1/qtm/m/it/10 laser.core.demographics .pyramid.AliasedDistribution [119]) (./institute-for-disease-modeling-laser.aux) ) (see the transcript file for additional information){/usr/share/texmf/fonts/enc /dvips/tex-gyre/q-ts1.enc}{/usr/share/texlive/texmf-dist/fonts/enc/dvips/fontaw esome5/fa5free1.enc}{/usr/share/texlive/texmf-dist/fonts/enc/dvips/base/8r.enc} {/usr/share/texmf/fonts/enc/dvips/tex-gyre/q-ec.enc}< /usr/share/texlive/texmf-dist/fonts/type1/public/amsfonts/cm/cmsy7.pfb> Output written on institute-for-disease-modeling-laser.pdf (125 pages, 966499 b ytes). Transcript written on institute-for-disease-modeling-laser.log. Latexmk: Index file 'institute-for-disease-modeling-laser.idx' was written Latexmk: Log file says output to 'institute-for-disease-modeling-laser.pdf' Latexmk: Log file says output to 'institute-for-disease-modeling-laser.pdf' Latexmk: Examining 'institute-for-disease-modeling-laser.log' === TeX engine is 'pdfTeX' Latexmk: Errors, in force_mode: so I tried finishing targets Collected error summary (may duplicate other messages): pdflatex: Command for 'pdflatex' gave return code 1 Refer to 'institute-for-disease-modeling-laser.log' for details