SSS.ais.fxn: This the main AIS code The code will run the initial N sample...

In CWetzel/XSSS: Extended Simple Stock Synthesis

Description

This the main AIS code The code will run the initial N sample of models AIS is then started based on initial model weights The final sample is performed using the weights that exceeded entropy threshold

Usage

SSS.ais.fxn(filepath, control.name, dat.name, tantalus = FALSE,
  read.seed = FALSE, entropy.level = 0.92, Niter = 2000,
  AIS.iter = 2000, final.Niter = 5000, m.in, h.in, depl.in,
  fmsy.m.in = NULL, bmsy.b0.in = NULL, bypass.entropy = FALSE)

Arguments

filepath	= parent directory above the folder with the model files
control.name
tantalus	= TRUE/FALSE, Option for use with linux systems, NWFSC specific
read.seed	= TRUE/FALSE, Option to allow the user to predefine seeds from previous model run, reads the seed_list file
Niter	number of initial model runs
AIS.iter	number of AIS model runs
final.Niter	number of final model runs, recommened to be greater than N.iter and AIS.iter
m.in	= c(prior mean f, prior mean m, prior stdev, prior stdev, start m equal) lognormally distributed
h.in	= c(prior mean, prior stdev, lower bound, upper bound, distribution (trunacted beta only))
depl.in	= c(0.50, 0.20, 0.01, 0.99, distribution (1 = truncated beta, 2 = lognormal))
fmsy.m.in	NOT YET FULLY IMPLEMENTED
bmsy.b0.in	NOT YET FULLY IMPLEMENTED
bypass.entropy	TRUE/FALSE option to not meet the entropy criteria. Only used for troubleshooting/development.

Author(s)

Chantel Wetzel

See Also

rbeta_ab_fn, pars_truncbeta_fn, do_sir_fn, get_prior_fn, get_new_posteriors_fn, get_new_wghts_fn, fit_mvt_fn, change_m_fn, change_h_fn, change_depl_fn, get_quant_fn, summary_fn, move_file_fn, get_see_fn, match_fn, define_matrix_fn plot_fn

CWetzel/XSSS documentation built on May 22, 2019, 1:53 p.m.