slurmR docker image

Helper functions to use slurmR's docker image. This requires having an internet connection and docker installed in your system.

docker_available(path = "")

slurmr_docker_pull(path = "")

slurmr_docker_run(path = "", pull = TRUE, timeout = 60)

slurmr_docker_stop(UUID = "", path = "")

Arguments

path

Path to the docker executable. If not specified, the function will try to figure it out by itself.

pull

Logical scalar. When TRUE, if not available, it will invoke docker pull.

timeout

Integer. Number of seconds to wait for docker to start the slurmR image.

UUID

String. Universally Unique Identifier.

Details

Starting version 0.5-0, a Docker image with Slurm, R, and slurmR is available at https://hub.docker.com/r/uscbiostats/slurmr. The source code (Dockerfile) is available in the project GitHub repository: https://github.com/USCbiostats/slurmR.

Examples

# This example requires having Docker installed in the system
if (FALSE) {
  # Start the docker image. By default it will try to pull the
  # image from Docker Hub if available

  # This opens a bash session with R + Slurm + slurmR
  slurmr_docker_run() 

  # Will pull the docker image
  slurmr_docker_pull()


}