Changes in version 1.54.0 - Replace base R message(), warning(), and stop() calls with {cli} equivalents (cli::cli_inform(), cli::cli_warn(), and cli::cli_abort()) throughout the package for improved message formatting. - Change default value of printstats in SS_output() from TRUE to FALSE to reduce console output. Changes in version 1.52.0 - Add several functions for making tables. The functions all save .rda files containing a list of dataframe and caption. - table_pars() Information on all model parameters - table_parcounts() Count of different parameter types - table_ts() Annual time series of various quantities (biomass, recruitment, etc.) - table_config() Description of model configurations (bins, age range, etc.) - table_compweights() Composition weights and sample sizes if using the Francis method - Revised two existing functions and renamed them for consistency: - SSexecutivesummary() -> table_exec_summary() makes a set of tables commonly used in the executive summary of Pacific Fishery Management Council (PFMC) stock assessments, but many may be useful for other assessments as well. - SStablebiology() -> table_biology() tables of biology at age and selectivity at age and length Changes in version 1.51.0 - Bug fixes - Compatibility with SS3 version 3.30.23 and 3.30.23.1 Changes in version 1.50.0 - Bug fixes - Clean up columns names in functions for reading input files to match the .ss_new files written by SS3 as shown in the table below. old | new -- | -- "Yr" | "year" "Seas" | "month" "FltSvy" | "fleet" "Gender" | "sex" "Part" | "part" "Ageerr" | "ageerr" Changes in version 1.49.3 - Replaces magrittr pipe %>% with native pipe |> - Minimum R version is now 4.1.0 Changes in version 1.48.0 - Bug fixes and cosmetic changes - Use {pkgdown} to develop a better website - Change logo - Update install instructions on README to use {pak} Changes in version 1.47.0 - Support new SS3 option to estimate separate Dirichlet-multinomial parameters for retained vs discards - SS3 version 3.30.21 models will also have all info on D-M parameters read directly from Report.sso instead of the data file - Numerous minor bug fixes - Adds dependency on 'dplyr' and 'magrittr' Changes in version 1.46.1 - Major revamp of all functions that run the Stock Synthesis executable https://github.com/r4ss/r4ss/pull/722 - Functions that run the executable have been renamed: https://github.com/r4ss/r4ss/issues/723: - run_SS_models() -> run() (now has defaults which allow you to simply call run() in the current working directory as well as and better support for having the Stock Synthesis executable in your path) - SS_profile() -> profile() - SS_doRetro() -> retro() - SS_RunJitter() -> jitter() - SS_tune_comps() -> tune_comps() - Functions have more consistent inputs (e.g., always dir instead of mydir, File, or masterdir, and now defaulting to the current working directory) - Input show_in_console = FALSE can be used with all these functions and will pipe output to a text file keeping R console cleaner while models run - Deprecates functions that relate to 3.24 models, like SS_readdat_3.24() (although SS_output() is still compatible back to version 3.24) https://github.com/r4ss/r4ss/pull/718 - Introduces new "simple_small" example model but removes older examples, reducing total package size https://github.com/r4ss/r4ss/pull/700 - Uses new columns names in BIOLOGY output https://github.com/r4ss/r4ss/pull/711 - Numerous bug fixes - Adds dependency on 'tidyr' - Removes never-completed function SSbootstrap() Changes in version 1.44.0 (2022-05-26) - Minor improvements and bug fixes - Compatibility with SS3 version 3.30.19 - Submitted to CRAN Changes in version 1.43.2 - Standardize version = "3.30" in read and write functions and deprecate NULL as an option Changes in version 1.43.1 - Added Common Utility Functions Changes in version 1.39.1 - Numerous bug fixes and minor improvements - Compatibility with SS version 3.30.16 Changes in version 1.38.0 - Numerous bug fixes and minor improvements - Compatibility with SS version 3.30.15 - Expansion of capabilities for functions to read and write SS input files - Dependent on fewer packages but now depends on R version 3.5.0 or newer Changes in version 1.36.1 (2019-10-18) - Numerous minor bug fixes and minor improvements - Compatibility with SS versions 3.24 through 3.30.14 - Submitted to CRAN Changes in version 1.33.1 - Numerous minor bug fixes and minor improvements - Compatibility with SS versions 3.24 through 3.30.13-beta Changes in version 1.30.1 - Fix bugs in new stock-recruit plot, and cohort lines added to bubbles Changes in version 1.30.0 - Limited support for models that use Dirichlet-Multinomial likelihood (currently only works for age compositions, not length comps) Changes in version 1.29.1 - Support for SS version 3.30.10.00 available on VLab today - Some changes in column names and other variables to match cleanup of terminology in latest Stock Synthesis - New Vignette (very limited but provides a start to be improved on) Changes in version 1.28.0 - Slacked off on updating this NEWS file Changes in version 1.24.3 - Implemented automated R package check on Travis-CI Changes in version 1.24.2 - SS_varadjust now works for use in automating variance adjustments at the bottom of the control file - Improvements related to testing SS version 3.30 including converting SS_readdat into a wrapper function that calls separate functions for SS v3.24 and v3.30 Changes in version 1.24.1 - Minor bug fixes and other small edits Changes in version 1.24.0 (2015-12-23) - First CRAN update since r4ss 1.22.1 in July 2014. - Variety of new defaults in plots - Help from various new contributors - See https://github.com/r4ss/r4ss for more detail on changes and new features