Map discard mortality deviation parameters

Constructs the logit_dmr_devs factor map, assigning unique estimation indices to region–year–season–fleet cells where discard data are used (UseDiscard == 1) and mapping cells without discard data to NA. This ensures that logit_dmr_devs parameters are only estimated for dimensions with observed discard.

Usage

do_dmr_dev_mapping(input_list, dmr_dev_spec)

Arguments

input_list

Named list with $data, $par, and $map sublists. Requires $data$UseDiscard and $data$UseDiscard_pop to be populated by Setup_Mod_Catch_and_F.

dmr_dev_spec

Character string specifying whether to estimate or fix deviations. Currently supports "est_all" and "fix".

Value

The input input_list with $map$logit_dmr_devs set to a factor vector. Cells with discard are assigned sequential integer indices; cells without discard are NA.