gadgetFileIO: Old style gadget file input and output (mostly deprecated)

In Hafro/rgadget: Tools to Create and Maintain Gadget Models

Old style gadget file input and output (mostly deprecated)

Description

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

Usage

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(s)

Bjarki Þór Elvarsson

Bjarki Þór Elvarsson

Bjarki Thor Elvarsson

Bjarki Þór Elvarsson

Bjarki Þór Elvarsson

Bjarki Þór Elvarsson

Bjarki Þór Elvarsson

Bjarki Thor Elvarsson

Hafro/rgadget documentation built on July 21, 2022, 8:38 a.m.