Rsh: write bash and Rscript files for R code Creates .sh (bash)...

In JeffWeinell/misc.wrappers: Miscellaneous Wrapper Functions for Spatial Population Genomics

write bash and Rscript files for R code Creates .sh (bash) and .R (Rscript) files given lines of R code held as a character string or character string vector, and optional arguments indicating which modules and packages to load. This function probably will not work on all systems.

Description

write bash and Rscript files for R code

Creates .sh (bash) and .R (Rscript) files given lines of R code held as a character string or character string vector, and optional arguments indicating which modules and packages to load. This function probably will not work on all systems.

Usage

Rsh(
  name = "job",
  Rcode,
  modules = c("compiler/gcc/8.3", "gdal/3.0.0", "geos/3.7.2", "R/4.0"),
  libPath = .libPaths()[1],
  libs = c("misc.wrappers"),
  dir = getwd()
)

Arguments

name	Character string with name of the job. Bash and Rscript files will have names 'name.sh' and 'name.R'
Rcode	Character string, possibly a vector, with lines of R code. Line breaks can be coded as \n.
modules	Character string vector with names of modules to load. The defaults are the current versions of programs needed to run misc.wrappers package on my system, and therefore these defaults will probably need to be changed for other systems.
libPath	Character string with path where R package libraries are held. Default is .libPaths()1
libs	Character string vector with names of R packages to load. Default is 'misc.wrappers'.
dir	Character string with path to the directory where bash and Rscript files should be written. Default is the current directory.

Value

Character string with path to bash file

JeffWeinell/misc.wrappers documentation built on Sept. 20, 2023, 12:42 p.m.