prepare_adfun: Make a TMB ADFun

In jkbest2/spatq: Use spatially varying catchability to standardize fishery-dependent data

Make a TMB ADFun

Description

Verify data, parameters, and map, then contruct the ADFun.

Usage

prepare_adfun(
  data,
  parameters,
  map,
  random,
  ...,
  DLL = "spatq",
  silent = TRUE,
  runSymbolicAnalysis = TRUE,
  normalize = FALSE
)

Arguments

data	Data list, as from prepare_data
parameters	Parameter list, as from prepare_pars
map	A map list, as from prepare_map
random	A character vector of parameters to be marginalized, as from prepare_random
...	Additional arguments to pass to MakeADFun
DLL	TMB model to use; only used for debugging
silent	Output TMB progress?
runSymbolicAnalysis	Use Metis reorderings? (Requires special installation of TMB; see documentation.)
normalize	Normalize GMRF likelihoods?

Value

A TMB ADFun suitable for optimization

Author(s)

John Best

jkbest2/spatq documentation built on Sept. 22, 2022, 3:22 a.m.