Old style gadget file input and output (mostly deprecated)

read.gadget.likelihood reads the likelihood (input) file for gadget. The format of the likelihood file is described in gadget's user manual.

read.gadget.data reads data used by the various components

read.gadget.wgts reads the output from iterative weighting likelihood output

read.gadget.grouping reads the the likelihood grouping from the WGTS folder

read.gadget.likelihood(files = "likelihood")

write.gadget.likelihood(
  lik,
  file = "likelihood",
  data.folder = NULL,
  bs.sample = NULL
)

get.gadget.likelihood(likelihood, comp, inverse = FALSE)

read.gadget.main(file = "main")

write.gadget.main(main, file = "main")

clear.spaces(text)

read.gadget.data(likelihood, debug = FALSE, year_range = NULL)

strip.comments(file = "main")

read.gadget.wgts(
  params.file = "params.in",
  wgts = "WGTS",
  likelihood = "likelihood",
  lik.pre = "lik.",
  params.pre = "params.",
  parallel = FALSE
)

read.gadget.grouping(lik = read.gadget.likelihood(), wgts = "WGTS")

Arguments

files: a vector of character strings containing the names of the likelihood files
lik: old style gadget likelihood object
file: location of the gadget input file
data.folder: location of data folder (if changed)
bs.sample: (for bootstrap), appends the appropriate replicate number to data file
likelihood: likelihood file
comp: selected likelihood components
inverse: (logical) should inverse selection be applied
main: gadget.main object
text: string
debug: should debug information be printed
year_range: limit the years read in
params.file: base parameter file
wgts: logcation of the WGTS folder
lik.pre: strings matching the likelihood output
params.pre: strings matching the parameter estimates
parallel: should the files be read in parallel

Value

object of class gadget.likelihood, i.e. a list containing the various likelihood components

character string corresponding to the likelihood file (if desired)

likelihood object

object of class gadget.main

text of the main file (if desired)

list or matrix containing the (non-empty) values from the string

list of dataframes and degress of freedom

list containing the lines from the file stripped of unwanted text.

data.frame with parameter estimates and likelihood output from the iterative reweighting folder.

list of wgts groupings

Author

Bjarki Þór Elvarsson

Bjarki Thor Elvarsson

Bjarki Þór Elvarsson

Bjarki Thor Elvarsson