Draw one replicate's catchability deviations and apply them

Called at the start of each replicate. Conditioning years keep the fit's own deviations, a cell a dsem drew keeps that value, and every other year is this replicate's own innovation, so a random walk or ar1 continues from the fit's last deviation rather than restarting at zero.

Usage

draw_sim_q_devs(sim, sim_env)

Arguments

sim

Replicate index.

sim_env

Simulation environment.

Value

Nothing. sim_env$fish_q and sim_env$srv_q are scaled by the deviations and the deviations themselves are stored.

Details

A fleet a dsem wrote for is drawn whatever its own <prefix>_q_model says, so the series reaches catchability rather than an array nothing reads.

A self test also stores <prefix>_q_devs_est, [region, year, fleet], TRUE where the fit estimates a deviation. A cell the fit keeps fixed keeps the fit's value, and a walk or ar1 starts at the fleet's first estimated year, as the penalty does. A walk whose first year the fit gives a diffuse start (<prefix>_q_rw_init_sigma) keeps that year at the replicate's own deviation and steps on from it.