Read Stock Synthesis (version 3.30) control file into list object in R. This function should be called from SS_readctl.
SS_readctl_3.30(
file,
verbose = FALSE,
echoall = lifecycle::deprecated(),
version = lifecycle::deprecated(),
use_datlist = TRUE,
datlist = "data.ss_new",
nseas = NULL,
N_areas = NULL,
Nages = NULL,
Ngenders = lifecycle::deprecated(),
Nsexes = NULL,
Npopbins = NULL,
Nfleets = NULL,
Ntag_fleets = NULL,
Do_AgeKey = NULL,
N_tag_groups = NULL,
catch_mult_fleets = NULL,
predM_fleets = NULL,
N_rows_equil_catch = NULL,
N_dirichlet_parms = NULL
)Filename either with full path or relative to working directory.
See the formal arguments for a possible default filename.
Should there be verbose output while running the file? Defaults to FALSE.
Deprecated. Debugging tool (not fully implemented) of echoing blocks of values as it is being read.
Deprecated. SS version number. Currently only "3.24" or "3.30" are supported, either as character or numeric values (noting that numeric 3.30 = 3.3).
LOGICAL. If TRUE, use datlist to derive parameters which can not be determined from control file. Defaults to TRUE.
list or character. If list, should be a list produced from
SS_writedat(). If character, should be the file name of an SS data file.
number of seasons in the model. This information is not
explicitly available in control file and used only if use_datlist = FALSE.
number of spatial areas in the model. Default = 1. This information is not
explicitly available in control file and used only if if use_datlist = FALSE.
oldest age in the model. This information is also not
explicitly available in control file and used only if use_datlist = FALSE.
Deprecated. Number of sexes in the model. This information is also not
explicitly available in control file and used only if use_datlist = FALSE.
number of sexes in the model. This information is also not
explicitly available in control file and used only if use_datlist = FALSE.
number of population bins in the model. This information is also not
explicitly available in control file and this information is only required if length based
maturity vector is directly supplied (Maturity option of 6). and used only
if use_datlist = FALSE.
number of fishery and survey fleets in the model. This information is also not explicitly available in control file
The number of catch fleets in the model (fleets of )
type 1 or 2; not surveys). Used to set the number of survey parameters.
Only used if tagging data is in the model and use_datlist is FALSE.
Flag to indicate if 7 additional ageing error parameters to
be read set 1 (but in fact any non zero numeric in R) or TRUE to enable to
read them 0 or FALSE to disable them. This information is not
explicitly available in control file and used only if use_datlist = FALSE.
number of tag release group. Default =NA. This information
is not explicitly available control file and used only if
use_datlist = FALSE. This information is only required if custom tag
parameters is enabled (TG_custom=1)
integer vector of fleets using the catch multiplier option. Defaults to NULL and should be left as such if 1) the catch multiplier option is not used for any fleets or 2) use_datlist = TRUE and datlist is specified.
integer vector of fleets with predator mortality included. Predator mortality fleets are only available in v3.30.18 and higher. Defaults to NULL and should be left as such if 1) predation mortality is not used for any fleets; 2) use_datlist = TRUE and datlist is specified; or 3) if comments in the control file should be used instead to determine the the predM_fleets.
Integer value of the number of parameter lines to read for equilibrium catch. Defaults to NULL, which means the function will attempt to figure out how many lines of equilibrium catch to read from the control file comments.
Integer value of the number of Dirichlet multinomial parameters. Defaults to 0.
SS_readctl(), SS_readdat()
SS_readdat_3.24(),SS_readdat_3.30()
SS_readctl_3.24(),
SS_readstarter(), SS_readforecast(),
SS_writestarter(),
SS_writeforecast(), SS_writedat()