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Simulate a static (open-loop) spatial age- and sex-structured population

Source: R/sim_population.R
Simulate_Pop_Static.Rd

Runs a complete multi-replicate operating model simulation with no feedback between the population and the harvest control rule (i.e., fishing mortality is fixed as supplied in sim_list). Calls Setup_sim_env to create an isolated execution environment and then iterates run_annual_cycle over all years and simulation replicates. All simulation outputs are collected from the environment and returned as a named list. Optionally writes the output to an RDS file.

Usage

Simulate_Pop_Static(sim_list, output_path = NULL)

Arguments

sim_list

Simulation list returned by the last upstream setup function (typically Setup_Sim_Rec or Setup_Sim_Tagging).

output_path

Character string. File path for saving the output list as an RDS file via saveRDS. If NULL (default), no file is written.

Value

A named list containing all simulation outputs, including (among others): NAA, NAA0, SSB, Dynamic_SSB0, eff_SSB, Rec, ln_RecDevs, ln_InitDevs, ZAA, tot_FAA, TrueCatch, ObsCatch, TrueCatch_pop, ObsCatch_pop, CAA, CAL, ObsFishAgeComps, ObsFishAgeComps_pop, ObsFishLenComps, ObsFishLenComps_pop, ObsFishIdx, TrueFishIdx, ObsFishIdx_pop, TrueFishIdx_pop, SrvIAA, SrvIAL, ObsSrvAgeComps, ObsSrvAgeComps_pop, ObsSrvLenComps, ObsSrvLenComps_pop, ObsSrvIdx, TrueSrvIdx, ObsSrvIdx_pop, TrueSrvIdx_pop, conv_tagged_fish, conv_tagged_fish_attr, conv_tag_fish_avail, pred_conv_tag_fish_recap, obs_conv_tag_fish_recap, LenBinMap, and key dimension scalars (n_regions, n_pop, n_yrs, n_ages, etc.). Note that n_years and n_yrs are both present for backwards compatibility. The deviations each replicate ran on are returned as the estimation model names them, the replicate dim last: ln_F_devs, logit_dmr_devs, ln_fishsel_devs, ln_retsel_devs, ln_srvsel_devs and their _bin_devs, move_devs, ln_growth_devs and ln_growth_semipar_devs, each NULL where the operating model drew none. The at-age data sources, CatchAA, DiscardAA and SrvIdxAA and their _pop counterparts, come back as True* and Obs* with their Use* flags and _SE arrays.

See also

Other Simulation Setup: Setup_Sim_Biologicals(), Setup_Sim_Containers(), Setup_Sim_Dim(), Setup_Sim_Fishing(), Setup_Sim_Fleet_Devs(), Setup_Sim_NAA_state(), Setup_Sim_Rec(), Setup_Sim_Survey(), Setup_Sim_Tagging(), Setup_sim_env(), run_annual_cycle(), simulation_self_test()