FWIW, I just built R-testthat-3.0.3 in rawhide. As far as the R-* packages in the repos, they are either an R package that someone wanted in Fedora at some point (10%), a package that needed some love to build in Fedora, either because it is old or Fedora is too new (5%), BioConductor bits (10%), or dependencies (75%). I am kidding a bit on that last number, but dependency creep in R is a real thing.
Since Fedora's R-testthat has a patch for the bundled catch, there is value in having it in Fedora rather than just having people try (and fail) to build from CRAN. The good news is that if testthat upstream pulls a newer copy of catch into it, it should pickup the fix, and this issue will hopefully go away over time. ~spot On Wed, Jun 23, 2021 at 12:29 PM Gavin Simpson <ucfa...@gmail.com> wrote: > Thanks Iñaki! toolbox looks really useful for my usecase. > > I'm hitting a related issue in that some R-* packages are not up-to-date > with their CRAN versions (especially testthat, which won't compile on > F35/rawhide because of a problem in catch that is bundled with testhat and > something that has changed in the compiler versions in rawhide. So now I'm > still stuck as I can't install the latest version of vdiffr (which I need > for R 4.1) as it needs 3.0.3 of testthat. > > I'm also a little unclear why there are so many R-* packages in the repos > now? And how these relate to your COPR-based initiative to provide fedora > packages for all of CRAN. > > I suspect I'm hitting all the issues that Tom and you and others are > having to deal with in the course of your packaging R packages for fedora, > but as until recently I just compiled R myself I'm a little unsure what is > the best/recommended strategy for installing R packages etc on Fedora? Use > the main repo packages, your COPR, something else? Is there an overview, > road map or plan somewhere that outlines this and/or what the recommended > route is? > > TIA > > G > > On Wed, 23 Jun 2021 at 15:45, Iñaki Ucar <iu...@fedoraproject.org> wrote: > >> On Wed, 23 Jun 2021 at 14:50, Gavin Simpson <ucfa...@gmail.com> wrote: >> > >> > How would one go about installing R 4.1 from rawhide? (October is a >> little too far away to be off r-release for that long while maintaining R >> packages on CRAN that depend on tidyverse packages.) >> >> $ sudo dnf update R --release rawhide >> >> should do. Be aware though that this means updating other dependencies >> too. This may or may not cause problems. A safer option would be to >> use a containerized environment. Toolbox [1, 2] is perfect for this, >> especially for development purposes: >> >> $ sudo dnf install toolbox >> $ toolbox enter -r 35 >> [toolbox]$ sudo dnf install R rstudio-desktop >> [toolbox]$ rstudio >> # rstudio opens >> >> or directly without entering the toolbox first: >> >> $ toolbox run -r 35 rstudio >> # rstudio opens >> >> Remember to install any additional repos and/or system dependencies >> you may need (e.g., to install R packages from source) *inside* your >> toolbox. Hope it helps. >> >> [1] https://docs.fedoraproject.org/en-US/fedora-silverblue/toolbox/ >> [2] https://fedoramagazine.org/a-quick-introduction-to-toolbox-on-fedora/ >> >> Iñaki >> >> > >> > TIA >> > >> > Gavin >> > >> > On Fri, 18 Jun 2021 at 14:21, Tom Callaway <spo...@gmail.com> wrote: >> >> >> >> I don't think so. If Fedora 34 users want R 4.1, they can install it >> from >> >> rawhide. >> >> >> >> Or someone that isn't me can spend another two weeks doing it. :) >> >> >> >> ~spot >> >> >> >> On Fri, Jun 18, 2021, 6:50 AM Iñaki Ucar <iu...@fedoraproject.org> >> wrote: >> >> >> >> > Nice! Plans for F34? :)) >> >> > >> >> > On Fri, 18 Jun 2021 at 00:45, Tom Callaway <spo...@gmail.com> wrote: >> >> > > >> >> > > The R 4.1 rawhide rebuild is complete, and waiting for bodhi to >> push it: >> >> > > https://bodhi.fedoraproject.org/updates/FEDORA-2021-e7a89430cd >> >> > > >> >> > > ~spot >> >> > >> >> > >> >> > >> >> > -- >> >> > Iñaki Úcar >> >> > >> >> >> >> [[alternative HTML version deleted]] >> >> >> >> _______________________________________________ >> >> R-SIG-Fedora mailing list >> >> R-SIG-Fedora@r-project.org >> >> https://stat.ethz.ch/mailman/listinfo/r-sig-fedora >> > >> > >> > >> > -- >> > Gavin Simpson, PhD [he/him/his] [t] +1 306 337 8863 >> > • Research Scientist [f] +1 306 337 2410 >> > Institute of Environmental [tw] @ucfagls >> > Change & Society [w] goo.gl/Zpkdem >> > University of Regina [w] iecs-uregina.ca >> > Regina, SK S4S 0A2, Canada [iD] 0000-0002-9084-8413 >> > >> > • Adjunct Professor, Department of Biology, University of Regina. >> >> >> >> -- >> Iñaki Úcar >> > > > -- > Gavin Simpson, PhD [he/him/his] [t] +1 306 337 8863 > • Research Scientist [f] +1 306 337 2410 > Institute of Environmental [tw] @ucfagls > Change & Society [w] goo.gl/Zpkdem > University of Regina [w] iecs-uregina.ca > Regina, SK S4S 0A2, Canada [iD] 0000-0002-9084-8413 > > • Adjunct Professor, Department of Biology, University of Regina. > [[alternative HTML version deleted]] _______________________________________________ R-SIG-Fedora mailing list R-SIG-Fedora@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-fedora
