Over the last several days, I've been working hard to get all of the Fedora R packages rebuilt against R 4.0 in rawhide (in the F33-R-4 side tag). With the exception of R-biomaRt, R-BSgenome, R-GenomicAlignments, and R-rtracklayer, I believe everything is built and updated to the latest versions. And of those packages, they're all ready to go when Fedora infrastructure is working reliably again (the great datacenter migration has started and I can no longer git push). I'll also push R 4.0.1 into the tag when that's possible. There are two new packages that I created that are needed for R-biomaRt to be updated: R-AnnotationDbi https://bugzilla.redhat.com/show_bug.cgi?id=1845360 R-BiocFileCache https://bugzilla.redhat.com/show_bug.cgi?id=1845362 They are relatively simple noarch packages and should be quick reviews. Help in getting these reviewed quickly would be appreciated. Given the huge amount of builds (and rebuilds) in this process, I am strongly disinclined to attempt this work for Fedora 32 (the idea of hundreds of bodhi overrides does not fill me with joy), but I would not prevent someone else who wished to try to do so. Thanks, Tom P.S. I noticed that R-pls and R-statmod were orphaned (and as a result, they did not get rebuilt for R 4). Nothing seems to depend on them in Fedora, so this seems fine, but if you were using those packages, you may wish to revive them. [[alternative HTML version deleted]]
On Tue, 9 Jun 2020 at 04:42, Tom Callaway <tcallawa at redhat.com> wrote:> > Over the last several days, I've been working hard to get all of the Fedora > R packages rebuilt against R 4.0 in rawhide (in the F33-R-4 side tag). With > the exception of R-biomaRt, R-BSgenome, R-GenomicAlignments, and > R-rtracklayer, I believe everything is built and updated to the latest > versions. And of those packages, they're all ready to go when Fedora > infrastructure is working reliably again (the great datacenter migration > has started and I can no longer git push). I'll also push R 4.0.1 into the > tag when that's possible.Much appreciated.> There are two new packages that I created that are needed for R-biomaRt to > be updated: > > R-AnnotationDbi > https://bugzilla.redhat.com/show_bug.cgi?id=1845360 > > R-BiocFileCache > https://bugzilla.redhat.com/show_bug.cgi?id=1845362 > > They are relatively simple noarch packages and should be quick reviews. > Help in getting these reviewed quickly would be appreciated.I took them. In progress.> Given the huge amount of builds (and rebuilds) in this process, I am > strongly disinclined to attempt this work for Fedora 32 (the idea of > hundreds of bodhi overrides does not fill me with joy), but I would not > prevent someone else who wished to try to do so.Note that this is no longer needed. It is possible to use a side tag for F32 too, which is much easier and more appropriate for a massive update like this. -- I?aki ?car
On Tue, 9 Jun 2020 at 10:21, I?aki Ucar <iucar at fedoraproject.org> wrote:> > > Given the huge amount of builds (and rebuilds) in this process, I am > > strongly disinclined to attempt this work for Fedora 32 (the idea of > > hundreds of bodhi overrides does not fill me with joy), but I would not > > prevent someone else who wished to try to do so. > > Note that this is no longer needed. It is possible to use a side tag > for F32 too, which is much easier and more appropriate for a massive > update like this.Any plan on doing this in a side tag for F32? I would happily volunteer, but I'm not a provenpackager. -- I?aki ?car
On Tuesday, 9 June 2020 03.40.52 WEST Tom Callaway wrote:> Over the last several days, I've been working hard to get all of the Fedora > R packages rebuilt against R 4.0 in rawhide (in the F33-R-4 side tag). With > the exception of R-biomaRt, R-BSgenome, R-GenomicAlignments, and > R-rtracklayer, I believe everything is built and updated to the latest > versions. And of those packages, they're all ready to go when Fedora > infrastructure is working reliably again (the great datacenter migration > has started and I can no longer git push). I'll also push R 4.0.1 into the > tag when that's possible.In line with what we discussed here I have the updates for R 4.0.2 ready. The exception is R-BiocFileCache and in that line R-biomaRt. They have an asterisk in front of them because of that. The packages that were rebuilt are in the list attached, together with the respective build order. I pushed an update to updates-testing where I disabled the automatic push (both karma and time based). Report problems either here or on bodhi: https://bodhi.fedoraproject.org/updates/FEDORA-2020-4c0ce71810 Best regards, -- Jos? Ab?lio -------------- next part -------------- An embedded and charset-unspecified text was scrubbed... Name: build-list.txt URL: <https://stat.ethz.ch/pipermail/r-sig-fedora/attachments/20200706/96f841b2/attachment.txt>
On Mon, 6 Jul 2020 at 16:40, Jos? Ab?lio Matos <jamatos at fc.up.pt> wrote:> > On Tuesday, 9 June 2020 03.40.52 WEST Tom Callaway wrote: > > Over the last several days, I've been working hard to get all of the Fedora > > R packages rebuilt against R 4.0 in rawhide (in the F33-R-4 side tag). With > > the exception of R-biomaRt, R-BSgenome, R-GenomicAlignments, and > > R-rtracklayer, I believe everything is built and updated to the latest > > versions. And of those packages, they're all ready to go when Fedora > > infrastructure is working reliably again (the great datacenter migration > > has started and I can no longer git push). I'll also push R 4.0.1 into the > > tag when that's possible. > > In line with what we discussed here I have the updates for R 4.0.2 ready. > > The exception is R-BiocFileCache and in that line R-biomaRt. They have an > asterisk in front of them because of that. > > The packages that were rebuilt are in the list attached, together with the > respective build order. > > I pushed an update to updates-testing where I disabled the automatic > push (both karma and time based). > > Report problems either here or on bodhi: > https://bodhi.fedoraproject.org/updates/FEDORA-2020-4c0ce71810[Sorry for the dupe, I didn't hit "reply all"] Wonderful! Now I have 15k packages to rebuild. :) Have you thought about creating an "R" group in Pagure and toss the scripts you used into a repo? -- I?aki ?car
R-BiocFileCache is now branched for f32 (finally). You should be able to build it if/when the PDC comes back up. Lotta random outages right now. Tom On Mon, Jul 6, 2020 at 10:40 AM Jos? Ab?lio Matos <jamatos at fc.up.pt> wrote:> On Tuesday, 9 June 2020 03.40.52 WEST Tom Callaway wrote: > > Over the last several days, I've been working hard to get all of the > Fedora > > R packages rebuilt against R 4.0 in rawhide (in the F33-R-4 side tag). > With > > the exception of R-biomaRt, R-BSgenome, R-GenomicAlignments, and > > R-rtracklayer, I believe everything is built and updated to the latest > > versions. And of those packages, they're all ready to go when Fedora > > infrastructure is working reliably again (the great datacenter migration > > has started and I can no longer git push). I'll also push R 4.0.1 into > the > > tag when that's possible. > > In line with what we discussed here I have the updates for R 4.0.2 ready. > > The exception is R-BiocFileCache and in that line R-biomaRt. They have an > asterisk in front of them because of that. > > The packages that were rebuilt are in the list attached, together with the > respective build order. > > I pushed an update to updates-testing where I disabled the automatic > push (both karma and time based). > > Report problems either here or on bodhi: > https://bodhi.fedoraproject.org/updates/FEDORA-2020-4c0ce71810 > > Best regards, > -- > Jos? Ab?lio > _______________________________________________ > R-SIG-Fedora mailing list > R-SIG-Fedora at r-project.org > https://stat.ethz.ch/mailman/listinfo/r-sig-fedora >[[alternative HTML version deleted]]