step_tmpl_merge_netsim_scenarios_tibble: Step Template to Create a Single Sim File per Scenarios Using...

In statnet/EpiModelHPC: EpiModel Extensions for High-Performance Computing

Step Template to Create a Single Sim File per Scenarios Using the Files From netsim_scenarios

Description

Step Template to Create a Single Sim File per Scenarios Using the Files From netsim_scenarios

Usage

step_tmpl_merge_netsim_scenarios_tibble(
  sim_dir,
  output_dir,
  steps_to_keep,
  cols = dplyr::everything(),
  n_cores = 1,
  setup_lines = NULL
)

Arguments

sim_dir	The folder where the simulation files are to be stored.
output_dir	The folder where the merged files will be stored.
steps_to_keep	Numbers of time steps add the end of the simulation to keep in the data.frame.
cols	columns to keep in the data.frame. By default all columns are kept. And in any case, the batch_number, sim and time are always kept.
n_cores	Parallelize the process over n_cores (default = 1)
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.

statnet/EpiModelHPC documentation built on Nov. 13, 2023, 11:38 a.m.