GMACS

For each stock and version considered in the analysis, this function realizes the analysis based on the choice of the user, i.e: compiles the model, runs the model, and/or establishes comparison between versions. This is the core version to work with GMACS in `R`.

GMACS(
  Spc = NULL,
  GMACS_version = NULL,
  Dir = NULL,
  ASS = NULL,
  AssMod_names = NULL,
  compile = NULL,
  run = NULL,
  LastAssDat = NULL,
  ADMBpaths = NULL,
  make.comp = NULL,
  verbose = NULL,
  cleanOut = NULL
)

Arguments

Spc: vector of strings specifying the name(s) of the stock considered in the analysis.
GMACS_version: vector of strings holding the name(s) of the GMACS versions that is/are used in the analysis.
Dir: vector of strings containing the directories for all GMACS_version used in this analysis
ASS: Logical. If TRUE, the outputs of the last assessment will be compared to the GMACS version(s) currently used in this analysis.
AssMod_names: vector of strings specifying the names of the models used in the last assessment (e.g., model_16_0)
compile: (0/1). If 0, GMACS is not compiled. This assumes that an executable already exists in the directory of the version(s) used in the analysis. If 1, the code will be compiled before a new run.
run: Logical. If TRUE the model will be executed.
LastAssDat: Logical. If TRUE, the latest available data will be used for the analysis i.e. the model will be executed using the data stored in the the "Assessment_data" folder.
ADMBpaths: string name of 2-column text file that details the relevant paths for the R variables admbpath, gccpath, and editor.
make.comp: Logical. If TRUE, comparisons will be made between the various GMACS_version considered in the analysis.
verbose: logical: if TRUE, report the shell call an its messages to the R console.
cleanOut: (logical) - Specify if the `Dir` has to be cleaned after the run. See the clean_bat() function. Default cleanRun = FALSE.

Arguments

See also