iucar/cran

Project ID: 25608

Description

A repository of R packages built using cran2copr.

Bringing R packages to Fedora (in fact, to any distro) is an Herculean task, especially considering the rate at which CRAN grows nowadays. This is an attempt to maintain RPM repos for most of CRAN (~15k packages as of Feb. 2020) in an automated way using Fedora Copr, while ensuring compatibility with the packages already in the official repos.

Installation Instructions

To enable this Copr repository in your system:

$ sudo dnf copr enable iucar/cran $ sudo dnf install R-CoprManager

By default, CoprManager is enabled, and you can install packages in R as you normally do, e.g.,

install.packages("car")

In the background, a D-Bus service installs the available packages from this Copr repo, and the remaining ones, from CRAN, all within the same call. On the other hand, remove.packages will still remove only packages installed in your user library. If you want to remove system packages, run:

CoprManager::remove_copr("car")

If you want to disable the CoprManager, so that install.packages only works with CRAN again, then run:

CoprManager::disable() install.packages("car") # from CRAN to user lib

Support

Currently, only x86_64 chroots for supported (non-EOL) versions of Fedora, including rawhide, are enabled. If you are interested in other chroots (from the supported architectures and distros), please open an issue on GitHub expressing so, but it is unlikely that it will be enabled in the short to medium term due to current storage limitations in the Copr infrastructure.

These repos are automatically synchronized with CRAN every day at 00:00 UTC through a GitHub Action that removes archived packages and builds the most recent updates. If you find any issue with any of the supported packages (see details and limitations below), please open an issue on GitHub.

Integration with install.packages is handled via CoprManager (see installation instructions above). If you experience any related issues, please open an issue in the bspm repository, which is the upstream source for CoprManager.

Details and limitations

This project works with a set of R scripts around the copr-cli Python tool, which is rather limited yet.

SPECs are generated from a standard template (see spec.in), a list of system requirements (currently manually maintained; see the TODO list for a possible replacement), and a handful of fixes for particular cases (because, despite all the good work by the CRAN team, still some bad practices sneak in).

All in all, this procedure must work in an automated way for ~15k packages (as of Feb. 2020), which means that this project needs to relax some packaging guidelines that are otherwise enforced in the official Fedora repos. Particularly,

  • Package names, versions and license strings are copied from DESCRIPTION files unmodified.
  • Dependencies are probably over-specified in most cases, but this shouldn't be a problem.
  • Packages are built as-is, without unbundling any included third-party library.
  • To ensure compatibility with the official repos, the /usr/local prefix is used for package installation.
  • All packages are installed under /usr/local/lib/R/library (no distinction for noarch packages, which, following Fedora's guidelines, should be placed under share/R/library instead).
  • Noarch packages incorrectly flagged as needing compilation are inadvertently built as arch-specific.
  • Packages that require (Depends or Imports) Bioconductor packages are excluded (see excl-no-deps.txt).
  • Packages that require unsupported system requirements are excluded (see excl-no-sysreqs.txt).

Active Releases

The following unofficial repositories are provided as-is by owner of this project. Contact the owner directly for bugs or issues (IE: not bugzilla).

Release Architectures Repo Download
Fedora 32 x86_64 (303)* Fedora 32 (314 downloads)
Fedora 33 x86_64 (592)* Fedora 33 (210 downloads)
Fedora rawhide x86_64 (417)* Fedora rawhide (188 downloads)

* Total number of packages downloaded in the last seven days.