The hardware and bandwidth for this mirror is donated by METANET, the Webhosting and Full Service-Cloud Provider.
If you wish to report a bug, or if you are interested in having us mirror your free-software or open-source project, please feel free to contact us at mirror[@]metanet.ch.

climatehealth development notes

1.0.2

• Improved accessibility of saved plot outputs across the package:
  • added shared helpers for accessible base R, ggplot2, and patchwork outputs
  • applies consistent SOSCHI styling, accessible colours, figure titles, logos, and wrapped alternative-text captions
  • improves sizing, layout, and pagination for multi-panel indicator reports
• Integrated descriptive statistics more closely with the main analysis workflows:
  • added optional descriptive-statistics controls to the indicator do_analysis() functions where relevant
  • supports summary statistics, correlation outputs, moving-average plots, missing-data summaries, and outlier checks alongside indicator outputs
  • preserves run-scoped descriptive output folders and forwards the selected correlation method through the indicator workflows
• Updated indicator workflows and outputs:
  • air pollution now supports additional continuous covariates in regional GAMs, normalises custom column names, ignores unusable covariates, handles no-excess national power outputs, and returns API-safe results
  • wildfire handling was improved for region/date ordering, region-level outputs, PM2.5 scaling, VIF/QAIC checks, descriptive-statistics column mapping, and missing population checks
  • mental health and temperature-related workflows gained more reproducible attribution options, clearer model-validation outputs, and refreshed documentation
  • malaria and diarrhea workflows gained optional descriptive statistics, API-mode safeguards, and accessible output updates
• Improved API/runtime support:
  • added an air pollution endpoint to the bundled plumber API
  • added support for base64-encoded map zip uploads for malaria and diarrhea API requests
  • prevents API-mode calls from writing plot/CSV outputs or returning non-JSON-safe fitted model objects
• Refreshed package documentation and presentation:
  • added UNSC endorsement and CRAN availability information to the README
  • added SOSCHI branding/logo assets for README and report outputs
  • added a README notes column to flag the ongoing temperature-related health effects review work
  • updated indicator titles and documentation for consistency
• Improved package maintenance and CI reliability:
  • expanded unit and integration coverage for accessibility, descriptive statistics, API mode, and indicator workflows
  • keeps heavy integration tests opt-in for coverage reporting and extends the Codecov step timeout
  • removed unused plotting helpers/dependencies and added png for logo rendering

1.0.1

• CRAN resubmission focused on Fedora Linux check reliability and test stability.
• Fixed INLA model execution under check-core constraints:
  • limits INLA thread usage when _R_CHECK_LIMIT_CORES_ is set
  • keeps compatibility across INLA versions by conditionally passing thread-related arguments only when supported
• Hardened CRAN behavior for fragile INLA end-to-end disease tests:
  • retained CRAN-safe skips for diarrhea and malaria integration paths
  • avoids Fedora-specific parallel worker failures seen in prior checks
• Improved integration-test governance in CI:
  • heavy integration tests are opt-in via RUN_INTEGRATION=true
  • standard PR/push CI remains fast and high-signal by default
• Build hygiene improvement:
  • excludes .covrignore from package build input via .Rbuildignore

1.0.0

• Added new descriptive statistics public APIs:
  • run_descriptive_stats()
  • run_descriptive_stats_api()
• Added run-scoped output folders for descriptive stats:
  • <output_path>/descriptive_stats/<run_id>/All/
  • <output_path>/descriptive_stats/<run_id>/<Region>/
• Kept backward-compatible aliases with runtime deprecation warnings:
  • common_descriptive_stats_core()
  • common_descriptive_stats()
  • common_descriptive_stats_api()
• Improved descriptive stats robustness:
  • correlation now validates and filters numeric columns explicitly
  • centralized preflight column and parameter validation for enabled features
  • typed summary behavior for non-numeric columns
  • safer plot device cleanup with managed PDF helper
• Expanded tests for wrapper behavior, run-folder outputs, API payload validation, endpoint-style contract responses, and deprecated alias compatibility.
• Moved API runtime assets previously held in climatehealth_pipelines into the package:
  • plumber routes and startup scripts under inst/plumber/
  • throttling modules and tests
  • package-scoped API and developer config templates under inst/extdata/config_templates/
  • operational helper scripts under inst/scripts/
• Improved package/API compatibility for runtime usage:
  • enabled API mode in plumber runtime
  • added direct endpoint bindings for descriptive statistics, malaria, and diarrhea
  • enforced API-safe return payloads for malaria and diarrhea in API mode
  • extended internals to accept API-style record payloads and map records
  • updated throttle estimation to size JSON-record payloads instead of file paths
• Cleaned up the air pollution module:
  • standardized argument and variable naming
  • refreshed documentation
  • resolved R CMD check notes for global variable bindings
  • added backward-compatible support for legacy air_pollution_do_analysis() argument names
  • expanded air pollution regression and integration tests

These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.