Query the currently configured CRAN-like repositories

pak uses the repos option, see options(). It also automatically adds a CRAN mirror if none is set up, and the correct version of the Bioconductor repositories. See the cran_mirror and bioc arguments.

Usage

repo_get(r_version = getRversion(), bioc = NULL, cran_mirror = NULL)

Arguments

r_version: R version to use to determine the correct Bioconductor version, if bioc = TRUE.
bioc: Whether to automatically add the Bioconductor repositories to the result.
cran_mirror: CRAN mirror to use. Leave it at NULL to use the mirror in getOption("repos") or an automatically selected one.

Value

repo_get() returns a data frame with columns:

name: repository name. Names are informational only.
url: repository URL.
type: repository type. This is also informational, currently it can be cran for CRAN, bioc for a Bioconductor repository, and cranlike: for other repositories.
r_version: R version that is supposed to be used with this repository. This is only set for Bioconductor repositories. It is * for others. This is also informational, and not used when retrieving the package metadata.
bioc_version: Bioconductor version. Only set for Bioconductor repositories, and it is NA for others.
username: user name, for authenticated repositories.
has_password: whether repo_get() could find the password for this repository. Call repo_auth() for more information if the credential lookup failed.

Details

repo_get() returns the table of the currently configured repositories.

Examples

repo_get()

#> # A data frame: 6 × 5
#>   name          url                         type  r_version bioc_version
#> * <chr>         <chr>                       <chr> <chr>     <chr>
#> 1 CRAN          https://cloud.r-project.org cran  *         NA
#> 2 BioCsoft      https://bioconductor.org/p… bioc  4.4.2     3.20
#> 3 BioCann       https://bioconductor.org/p… bioc  4.4.2     3.20
#> 4 BioCexp       https://bioconductor.org/p… bioc  4.4.2     3.20
#> 5 BioCworkflows https://bioconductor.org/p… bioc  4.4.2     3.20
#> 6 BioCbooks     https://bioconductor.org/p… bioc  4.4.2     3.20