Apply the function SS_output() multiple times and save output as
individual objects or a list of lists.
Usage
SSgetoutput(
keyvec = NULL,
dirvec = NULL,
getcovar = TRUE,
getcomp = TRUE,
forecast = TRUE,
verbose = TRUE,
ncols = lifecycle::deprecated(),
listlists = TRUE,
underscore = FALSE,
save.lists = FALSE,
SpawnOutputLabel = "Spawning output"
)Arguments
- keyvec
A vector of strings that are appended to the output files from each model if models are all in one directory. Default=NULL.
- dirvec
A vector of directories (full path or relative to working directory) in which model output is located. Default=NULL.
- getcovar
Choice to read or not read covar.sso output (saves time and memory). Default=TRUE.
- getcomp
Choice to read or not read CompReport.sso output (saves time and memory). Default=TRUE.
- forecast
Choice to read or not read forecast quantities. Default=FALSE.
- verbose
A logical value specifying if output should be printed to the screen.
- ncols
Deprecated. Value is now calculated automatically.
- listlists
Save output from each model as a element of a list (i.e. make a list of lists). Default = TRUE.
- underscore
Add an underscore '_' between any file names and any keys in keyvec. Default=FALSE.
- save.lists
Save each list of parsed output as a .Rdata file (with default filenaming convention based on iteration and date stamp.
- SpawnOutputLabel
An alternative to "Spawning output" for use in figure axis labels and table headers for models that include a fecundity relationship. This provides an option to provide the units, e.g.
SpawnOutputLabel = "Spawning output (trillions of eggs)". This needs to be a user input because the units depend on the choice of fecundity parameters which are calculated outside of the SS3 model.