write_HPC_shell_R: Make HPCC Shell Files to Run R Scripts for Prep and Run...

In jdeines/salustools: Tools to Work with the SALUS Crop Model

Description

This function makes a shell script to execute the 03.00_salusXdb_experimentWriter script for MSU's High Performance Computing Cluster -HPCC-. This bash script loads the proper version of R, sets the R library path, and executes the r file. The R file -experiment writer- writes the salus xdb.xml's for the run based on the run parameter file and the set of unique experiments.

Usage

write_HPC_shell_R(outDir, runname, scriptTypeName, hpcBaseDir, scriptName,
  walltime, memory)

Arguments

outDir	Directory in which to save the output shell sh file. the sh filename is pulled from run filename
runname	Run name for the set of files
scriptTypeName	appended to filename
hpcBaseDir	Directory on HPCC within which are subdirectories for each run
scriptName	Name of R script to run
walltime	For HPCC - how long you expect the job to run. Format HH:MM:SS
memory	For HPCC - how much memory the job will need. ie, '2gb' or '2000mb'

Examples

#set variables

jdeines/salustools documentation built on May 29, 2019, 1:03 a.m.