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Run a JAGS model and return the whole output object.

Source: R/tar_jags.R
tar_jags_run.Rd

Not a user-side function. Do not invoke directly.

Usage

tar_jags_run(
  jags_lines,
  parameters.to.save,
  data,
  inits,
  n.cluster,
  n.chains,
  n.iter,
  n.burnin,
  n.thin,
  jags.module,
  RNGname,
  jags.seed,
  stdout,
  stderr,
  progress.bar,
  refresh
)

Arguments

jags_lines

Character vector of lines from a JAGS model file.

parameters.to.save

Model parameters to save, passed to R2jags::jags() or R2jags::jags.parallel(). See the argument documentation of the R2jags::jags() and R2jags::jags.parallel() help files for details.

inits

Initial values of model parameters, passed to R2jags::jags() or R2jags::jags.parallel(). See the argument documentation of the R2jags::jags() and R2jags::jags.parallel() help files for details.

n.cluster

Number of parallel processes, passed to R2jags::jags() or R2jags::jags.parallel(). See the argument documentation of the R2jags::jags() and R2jags::jags.parallel() help files for details.

n.chains

Number of MCMC chains, passed to R2jags::jags() or R2jags::jags.parallel(). See the argument documentation of the R2jags::jags() and R2jags::jags.parallel() help files for details.

n.iter

Number if iterations (including warmup), passed to R2jags::jags() or R2jags::jags.parallel(). See the argument documentation of the R2jags::jags() and R2jags::jags.parallel() help files for details.

n.burnin

Number of warmup iterations, passed to R2jags::jags() or R2jags::jags.parallel(). See the argument documentation of the R2jags::jags() and R2jags::jags.parallel() help files for details.

n.thin

Thinning interval, passed to R2jags::jags() or R2jags::jags.parallel(). See the argument documentation of the R2jags::jags() and R2jags::jags.parallel() help files for details.

jags.module

Character vector of JAGS modules to load, passed to R2jags::jags() or R2jags::jags.parallel(). See the argument documentation of the R2jags::jags() and R2jags::jags.parallel() help files for details.

RNGname

Choice of random number generator, passed to R2jags::jags() or R2jags::jags.parallel(). See the argument documentation of the R2jags::jags() and R2jags::jags.parallel() help files for details.

jags.seed

Seeds to apply to JAGS, passed to R2jags::jags() or R2jags::jags.parallel(). See the argument documentation of the R2jags::jags() and R2jags::jags.parallel() help files for details.

stdout

Character of length 1, file path to write the stdout stream of the model when it runs. Set to NULL to print to the console. Set to R.utils::nullfile() to suppress stdout. Does not apply to messages, warnings, or errors.

stderr

Character of length 1, file path to write the stderr stream of the model when it runs. Set to NULL to print to the console. Set to R.utils::nullfile() to suppress stderr. Does not apply to messages, warnings, or errors.

progress.bar

Type of progress bar, passed to R2jags::jags() or R2jags::jags.parallel(). See the argument documentation of the R2jags::jags() and R2jags::jags.parallel() help files for details.

refresh

Frequency for refreshing the progress bar, passed to R2jags::jags() or R2jags::jags.parallel(). See the argument documentation of the R2jags::jags() and R2jags::jags.parallel() help files for details.

Value

An R2jags output object.