scax: Run several stock assessments in a single run

In flr/FLa4a: A Simple and Robust Statistical Catch at Age Model

Run several stock assessments in a single run

Description

Internal method to run several stock assessment fits with different stocks, indices and submodels

Usage

scax(
  stocks,
  indicess,
  fmodel = missing,
  qmodel = missing,
  srmodel = missing,
  n1model = missing,
  vmodel = missing,
  combination.all = FALSE,
  ...
)

Arguments

stocks	an FLStocks object containing catch and stock information
indicess	a list of FLIndices objects containing survey indices
fmodel	a list of fmodel objects, each with a formula object depicting the model for log fishing mortality at age
qmodel	a list of qmodel objects, each with a list of formula objects depicting the models for log survey catchability at age
srmodel	a list of srmodel objects, each with a formula object depicting the model for log recruitment
n1model	a list of n1model objects, each with a formula object depicting the model for the first year of catch data
vmodel	a list of vmodel objects, each with a list of formula objects depicting the models for log survey and log fishing mortality variance
combination.all	bolean parameter (default is FALSE) to define if a full factorial across all stocks, indices, and submodel is run or just a sequence of runs.
...	all other arguments to be passed to sca
stock	an FLStocks object, each component with a FLStock object containing catch and stock information

Value

an a4aFits or a4aFitSAs or a4aFitMCMCs depending on the argument fit

flr/FLa4a documentation built on Dec. 21, 2024, 9:28 p.m.