genericRecoverySim: Recovery Simulator - Generic Version

In TESA-workshops/TESAsamSim: Closed-loop salmon simulator for 2021 TESA workshop

Description

Closed-loop simulation tool to assess management procedures and inform Pacific salmon rebuilding strategies.

Usage

genericRecoverySim(
  simPar,
  cuPar,
  catchDat = NULL,
  srDat = NULL,
  variableCU = FALSE,
  makeSubDirs = TRUE,
  ricPars,
  larkPars = NULL,
  cuCustomCorrMat = NULL,
  erCorrMat = NULL,
  dirName,
  nTrials = 100,
  uniqueProd = TRUE,
  uniqueSurv = FALSE,
  random = FALSE
)

Arguments

simPar	Simulation parameters.
cuPar	CU (Conservation Unit) parameters.
catchDat	Historical catch data.
srDat	Historical stock-recruitment data.
variableCU	A logical to determine if CU name should be included in output labels.
makeSubDirs	Should sub-directories by made for outputs?
ricPars	Ricker stock-recruitment parameters.
larkPars	Larkin stock-recruitment parameters.
cuCustomCorrMat	Custom correlation matrix for recruitment residuals.
erCorrMat	Correlation matrix for exploitaion rates.
dirName	Name of directory for outputs.
nTrials	Number of Monte Carlo trials.
uniqueProd	Should all CUs have unique productivities?
uniqueSurv	Should all CUs have unique correlations?
random	Should all trials start with a random seed?

Details

Adapted from the original recoverySim() function developed to inform rebuilding strategies for Fraser sockeye salmon and North Coast Chum (see Holt, C.A., Freshwater, C., Holt, K., and Huang, A.-M. 2020. A quantitative tool for evaluating rebuilding plans for Pacific salmon. Can. Tech. Rep. Fish. Aquat. Sci. 3402: v + 26 p.; https://waves-vagues.dfo-mpo.gc.ca/Library/40889385.pdf)

This version has been adapted to easily accomodate alternative life history types. Additionally, the Total Allowable Mortality (TAM) HCR specific to Fraser sockeye fisheries, and assocaited performance measures, has been removed.

Simulation runs primed with observed SR data (recDat input). The model includes data generation, variation in age structure, survey design, and variable exploitation rules.

Value

TO BE DEFINED

TESA-workshops/TESAsamSim documentation built on Feb. 6, 2021, 12:25 a.m.