Export The Resolved Result As Installation Script

This function exports the results from resolve() to an installation script that can be run in a fresh R environment.

Usage

export_rang(
  rang,
  path,
  rang_as_comment = TRUE,
  verbose = TRUE,
  lib = NA,
  cran_mirror = "https://cran.r-project.org/",
  check_cran_mirror = TRUE,
  bioc_mirror = "https://bioconductor.org/packages/"
)

Arguments

rang: output from resolve()
path: character, path of the exported installation script
rang_as_comment: logical, whether to write resolved result and the steps to reproduce the file to path as comment
verbose: logical, pass to install.packages(), the negated value is also passed as quiet to both install.packages() and download.file().
lib: character, pass to install.packages(). By default, it is NA (to install the packages to the default location)
cran_mirror: character, which CRAN mirror to use
check_cran_mirror: logical, whether to check the CRAN mirror
bioc_mirror: character, which Bioconductor mirror to use

Value

path, invisibly

Details

The idea behind this is to determine the installation order of R packages locally. Then, the installation script can be deployed to another fresh R session to install R packages. dockerize() and apptainerize() are more reasonable ways because a fresh R session with all system requirements is provided.

References

Ripley, B. (2005) Packages and their Management in R 2.1.0. R News, 5(1):8--11.

Examples

# \donttest{
if (interactive()) {
    graph <- resolve(pkgs = c("openNLP", "LDAvis", "topicmodels", "quanteda"),
                    snapshot_date = "2020-01-16")
    export_rang(graph, "rang.R")
}
# }