Step Template to Run an R Script With a Set of Arguments

Usage

step_tmpl_do_call_script(r_script, args = list(), setup_lines = NULL)

Arguments

r_script: The R script to be run by the workflow step
args: a list of arguments to the function call. The names attribute of args gives the argument names.
setup_lines: (optional) a vector of bash lines to be run first. This can be used to load the required modules (like R, python, etc).

Value

a template function to be used by add_workflow_step

Step Template

Step Templates are helper functions to be used within add_workflow_step. Some basic ones are provided by the slurmworkflow package. They instruct the workflow to run either a bash script, a set of bash lines given as a character vector or an R script. Additional Step Templates can be created to simplify specific tasks. The easiest way to do so is as wrappers around existing templates.