A function that uses the file location of a fitted SS3 model including input files to population the various slots of an Data object.

SS2DataMOM(SSdir, age_M = NULL, comp_partition = 2, silent = FALSE, ...)

Arguments

SSdir

A folder with Stock Synthesis input and output files in it. Alternatively,

age_M

A vector of ages to average across to calculate a single value of natural mortality. Currently, the Data object supports a single value of M for all ages. By default, NULL averages over all ages.

comp_partition

Integer vector for selecting length/age observations that are retained (2), discarded (1), or both (0). By default, only retained comps are used. If multiple codes are used, then comp matrix is the sum over all codes.

silent

Logical. Suppress messages?

...

Arguments to pass to SS_output

Value

A nested list of Data objects, with the first index by stock/sex and the second index by fleet.

Note

Currently tested on r4ss version 1.38.1-41 and SS 3.30.14.

Catches in Data@Cat are the predicted sex-specific catch calculated from the SS output.