Submit model based on a bbi_nmbayes_model object — nmbayes_submit

Model submission consists of two steps: generating the initial values (METHOD=CHAIN run) and sampling for each chain (METHOD=BAYES or METHOD=NUTS runs).

# S3 method for class 'bbi_nmbayes_model'
submit_model(
  .mod,
  .bbi_args = NULL,
  .mode = getOption("bbr.bbi_exe_mode"),
  ...,
  .overwrite = FALSE,
  .config_path = NULL,
  .wait = TRUE,
  .dry_run = FALSE
)

Arguments

.mod: The model object to submit.
.bbi_args: A named list specifying arguments to pass to bbi formatted like list("nm_version" = "nm74gf_nmfe", "json" = T, "threads" = 4). Run print_bbi_args() to see valid arguments. Note that bbr does not support changing the output directory (including through the model or global YAML files).
.mode: Mode for model submission: "local", "sge", or "slurm". If unspecified, the value is set to the value of the bbr.bbi_exe_mode option. This option defaults to "sge" on Linux and "local" otherwise.
...: args passed through to bbi_exec()
.overwrite: Whether to overwrite an existing output directory. Note that, unlike the submission method for regular bbi_nonmem_model objects, this method does not inspect .bbi_args or bbi.yaml when the value is NULL; any value other than TRUE is treated the same as FALSE.
.config_path: Path to a bbi configuration file. If NULL, the default, will attempt to use a bbi.yaml in the same directory as the model.
.wait: If TRUE, the default, wait for the bbi process to return before this function call returns. If FALSE function will return while bbi process runs in the background.
.dry_run: Do not submit the sampling runs; just report what command would be executed via the returned object. Note: The METHOD=CHAIN model is executed to generate the initialization values regardless of this value.

Submit model based on a `bbi_nmbayes_model` object

Arguments

See also