primarycensored 1.1.0

This minor release improves the documentation and the internal system used to automatically discover analytical solutions. It also adds lookups for supported supported distributions and tooling for working with these lookups. This makes it easier for package developers using primarycensored and also makes it easier to work with the Stan likelihood functions by improving the discoverability of the distribution functions. Minor bugs were also fixed.

Package

• Updated the CI so that stan code is also tested on Windows and Mac. This is to ensure that the stan code is compatible with these platforms and in response to a CI bug in epidist.
• Revised approach to automatic discovery of distribution functions. This soft deprecates the pdist_name and dprimary_name arguments throughout. Users wishing to pass distribution names (i.e. to potentially leverage analytical solutions) are advised to use the newly introduced add_name_attribute() function. Adds transient dependency on lifecycle and rlang packages. See #188 by @pearsonca.
• Added pcd_stan_dist_id() to allow for discovery of distribution IDs for Stan models.
• Added pcd_dist_name() to allow for discovery of distribution names for R functions as needed for add_name_attribute().
• Added documentation to suggest the use of methods(pcens_cdf) to find analytical solutions.
• Added new data sets pcd_distributions and pcd_primary_distributions to document the distributions supported by primarycensored.

Documentation

• Added a CRAN downloads badge to the README.
• Corrected how to specify an empty array in the docs of primarycensored_lcdf().
• All documentation was reviewed and updated to enhance readability and clarity.

Bug fixes

• Added a missing @family tag to the pcens functions. This omission resulted in the Weibull analytical solution not being visible in the package documentation.
• Added precalculation of vector sizes to the primarycensored_cdf() stan function, avoiding errors on some platforms due to narrowing conversions in aggregate initialisation.
• Changed D to be of type real in pcens_model.stan in order to support infinite relative_obs_time.
• Switched to using num_elements() over size() in all stan code to resolve compilation issues on some platforms as reported by @sbfnk.

Pull requests

• Update codemeta.json by @github-actions in #165
• Update README by @github-actions in #167
• Remove duplicate line in vignette by @athowes in #173
• Bump JamesIves/github-pages-deploy-action from 4.6.8 to 4.6.9 by @dependabot in #168
• Bump JamesIves/github-pages-deploy-action from 4.6.9 to 4.7.1 by @dependabot in #174
• 177: use num_elements instead of size by @sbfnk in #178
• 179: make D real by @sbfnk in #180
• 181: pre-assign sizes to variables by @sbfnk in #182
• Update codemeta.json by @github-actions in #183
• Bump JamesIves/github-pages-deploy-action from 4.7.1 to 4.7.2 by @dependabot in #176
• Update README by @github-actions in #185
• Use correct specification of empty array by @jamesmbaazam in #186
• Turn on stan testing for mac and windows on CI by @seabbs in #189
• Bump mattnotmitt/doxygen-action from 1.9.8 to 1.12.0 by @dependabot in #190
• Pdist naming alt by @pearsonca in #188
• Update README by @github-actions in #191
• Update codemeta.json by @github-actions in #192
• Issue #193: Swap to num_elements from size by @seabbs in #194
• Issue #175: Add distribution look up tables and associated tooling by @seabbs in #195
• Update README by @github-actions in #197
• Documentation review changes by @seabbs in #198
• Update README by @github-actions in #200

New Contributors

• @jamesmbaazam made their first contribution in #186
• @pearsonca made their first contribution in #188

Full Changelog: v1.0.0...v1.1.0