render: Generate model code

In sebastianueckert/assemblerr: Assembly of Pharmacometric Models

Generate model code

Description

This function generates the code for a model object, prints it to the console or writes it to a file.

Usage

render(
  model,
  filename = NULL,
  target_tool = "nonmem",
  tasks = tsk_estimation(),
  options = assemblerr_options()
)

Arguments

model	A model object
filename	Name of the model file to create or NULL
target_tool	Name of the target tool (currently only 'nonmem')
tasks	A task specification
options	List of options for model generation

Details

The generated code will be written to the file specified by filename= or printed to the console if the filename is set to NULL. Only 'nonmem' is currently supported as a target_tool= option. The tasks= argument allows the specification of model tasks and the options= argument customizes the generated code.

Task specification

Tasks are building blocks that allow to specify what a model should "do". Like other model building blocks, they can be combined using the + operator. For example, the following adds an estimation task and an xpose4 output task to the generated code:

   render(m, tasks = tsk_estimation() +
        tsk_output_xpose4())

The default argument (tasks=tsk_estimation()) adds an FOCE estimation task to the code.

Rendering options

The options= argument allows to modify the rendering process and, hence, the generated code. Options are provided as a list and the assemblerr_options() function helps to generate list with the proper formatting.

The following code block renders the model m with automatic mu-referencing for the model parameters

   render(m, options = assemblerr_options(prm.use_mu_referencing = TRUE))

Value

The model code as a character vector

Examples

m <- model() +
    input_variable("dose") +
    prm_log_normal("emax") +
    prm_log_normal("ed50") +
    obs_additive(eff~emax*dose/(ed50+dose))
# render to console
render(m)

# render to file
## Not run: 
setwd(tempdir())
render(m, "run1.mod")

## End(Not run)

# render to console with estimation & output task
render(m, tasks = tsk_estimation() + tsk_output_xpose4())

sebastianueckert/assemblerr documentation built on Sept. 30, 2022, 9:12 a.m.