Re: [R-sig-Fedora] evince not showing "greek" and "math" in *.pdf plots

2024-03-13 Thread Iñaki Ucar
/de.urwpp.StandardSymbolsPS.metainfo.xml#L14-L30 and https://github.com/ArtifexSoftware/urw-base35-fonts/blob/3c0ba3b5687632dfc66526544a4e811fe0ec0cd9/fontconfig/urw-fallback-specifics.conf#L28 . Iñaki On Wed, 13 Mar 2024 at 16:53, Iñaki Ucar wrote: > I see. Peter, you are right about the font that causes the is

Re: [R-sig-Fedora] evince not showing "greek" and "math" in *.pdf plots

2024-03-13 Thread Iñaki Ucar
obe Symbol Encoding). > > It is possible for the R user to specify a different font name for the > symbol font for PDF output, but that font has to have all of the > necessary glyphs and it has to follow the Adobe Symbol Encoding or all > bets are off. > > Paul > > On 1

Re: [R-sig-Fedora] evince not showing "greek" and "math" in *.pdf plots

2024-03-11 Thread Iñaki Ucar
Martin, I wouldn't rule out an R issue yet. Fonts are... tricky. So I'm cc'ing Paul Murrell here. I tried several viewers here and I see the following: Chrome, Firefox and Libreoffice Draw show the symbols; however, evince, okular and xournal++ agree on **not** showing the symbols. **If** there

Re: [R-sig-Fedora] R-rmarkdown eot font

2024-02-05 Thread Iñaki Ucar
Could you please open an issue at bugzilla.redhat.com? Iñaki On Mon, 5 Feb 2024 at 15:48, Tim Taylor wrote: > > Stripping eot fonts from R-rmarkdown (and not linking to alternatives) means > Rmarkdown doesn't seem to work for certain document types. To illustrate: > >

Re: [R-sig-Fedora] Problem with R, staged installation for packages, and samba share

2023-06-14 Thread Iñaki Ucar
> Best, > Alex > > On Wed, 14 Jun 2023 at 10:50, Alexandre Courtiol > wrote: >> >> Thanks again, unfortunately it still fails when mounting the drive on a >> windows machine (even using nolease) on our end. >> We will prepare a fully reproducible example us

Re: [R-sig-Fedora] Problem with R, staged installation for packages, and samba share

2023-06-13 Thread Iñaki Ucar
hed to this email. I see no significant differences, so this supports the hypothesis that the issue is in the mount. Iñaki > > Best, > > Alex > > > > On Mon, 12 Jun 2023 at 21:08, Iñaki Ucar wrote: >> >> Update: >> >> On Mon, 12 Jun 2023 at 17:40, Iñaki Uca

Re: [R-sig-Fedora] Problem with R, staged installation for packages, and samba share

2023-06-12 Thread Iñaki Ucar
Update: On Mon, 12 Jun 2023 at 17:40, Iñaki Ucar wrote: > > Unfortunately, I cannot reproduce the issue here. :( I mounted a smb > share, created a symlink from ~/R, and installed dplyr without any > issue (apart from the installation process taking ages). Fortunately, > thi

Re: [R-sig-Fedora] Problem with R, staged installation for packages, and samba share

2023-06-12 Thread Iñaki Ucar
gt;> options passed) for configure? >>> >>> Also, can you provide the specific mount options for the cifs share? >>> >>> ~spot >>> >>> On Mon, Jun 12, 2023 at 9:12 AM Alexandre Courtiol >>> wrote: >>>> >>>> Thanks f

Re: [R-sig-Fedora] Problem with R, staged installation for packages, and samba share

2023-06-12 Thread Iñaki Ucar
12 Jun 2023 at 13:24, Iñaki Ucar wrote: >> >> On Mon, 12 Jun 2023 at 13:19, Tom Callaway wrote: >> > >> > Hmm, that's a weird one. Is SELinux on and enforcing on that setup? >> >> I was going to bet on the same thing. :) But let me add: if the answer &

Re: [R-sig-Fedora] Problem with R, staged installation for packages, and samba share

2023-06-12 Thread Iñaki Ucar
On Mon, 12 Jun 2023 at 13:19, Tom Callaway wrote: > > Hmm, that's a weird one. Is SELinux on and enforcing on that setup? I was going to bet on the same thing. :) But let me add: if the answer is affirmative, and this doesn't happen with SELinux disabled, then *the answer is NOT to disable

Re: [R-sig-Fedora] Installing R from source in Fedora -- "minimal package list"

2022-11-07 Thread Iñaki Ucar
On Mon, 7 Nov 2022 at 17:36, Tom Callaway wrote: > > The Requires on R-core-devel are not in any way intended to prep an > environment to build R (they are intended to provide the minimum > requirements for the R header files to work). > > To do what you want, your best bet is to pull down the

Re: [R-sig-Fedora] C diagnostics in rstudio

2022-10-18 Thread Iñaki Ucar
our build in the next release, and in this way it would be pulled automatically by default. Iñaki > > Tim > > > > On 18/10/2022 19:10 BST Iñaki Ucar wrote: > > > > > > On Tue, 18 Oct 2022 at 16:54, wrote: > > > > > > Apologies if thi

Re: [R-sig-Fedora] C diagnostics in rstudio

2022-10-18 Thread Iñaki Ucar
On Tue, 18 Oct 2022 at 16:54, wrote: > > Apologies if this is double posted as I initially sent from an account not > registered. > > I've noticed that diagnostics and completions for C code do not seem to be > working within rstudio on f36 (2022.02.4+500-1). Is there something > additional

Re: [R-sig-Fedora] Self Introduction

2022-07-21 Thread Iñaki Ucar
Hi, Great, some packages are lagging behind, so more hands are welcome, thanks. We are in the process of creating a FAS group for this, but it's not ready yet. For now, you can familiarise yourself with the R packaging guidelines [1], express this interest in [2] and add yourself to the list in

Re: [R-sig-Fedora] rstudio-server toolbox instructions

2022-06-14 Thread Iñaki Ucar
On Tue, 14 Jun 2022 at 16:33, wrote: > > Following the instructions at > https://cran.r-project.org/bin/linux/fedora/#toolbox-container-based-development > I'm trying to run rstudio server in a fedora 36 toolbox. I run the following > commands: > > [toolbox]$ sudo dnf install rstudio-server >

Re: [R-sig-Fedora] dependencies for building R

2022-01-07 Thread Iñaki Ucar
And nowadays there's also R-hub [1], rocker containers [2] for local testing (which, combined with distrobox [3], is very convenient), and of course r-actions on GitHub [4] for CI testing. Iñaki [1] https://r-hub.github.io/rhub/ [2] https://github.com/rocker-org/rocker [3]

Re: [R-sig-Fedora] R code works on Fedora 32, but not since Fedora 33

2021-11-04 Thread Iñaki Ucar
Hi, Since F33, openblas-openmp is the default BLAS implementation in Fedora. I see that mboost::cvrisk uses parallelization via mclapply by default, which may not play well with OpenMP. So you have 3 options here: Option 1. Force mboost::cvrisk to run sequentially by providing papply=lapply as

Re: [R-sig-Fedora] updating/installing R

2021-09-07 Thread Iñaki Ucar
ancient DELL desktop. If I > can get a build I can then check it using --as-cran, cross my fingers > and submit it. I'll get back to you if I'm still stuck. Thanks. > > Jim > > On Tue, Sep 7, 2021 at 8:43 AM Iñaki Ucar wrote: > > > > On Mon, 6 Sept 2021 at 00:02

Re: [R-sig-Fedora] RStudio does not open completly

2021-08-15 Thread Iñaki Ucar
Aug 2021 at 12:40, Paul Smith wrote: > > Thanks, Iñaki. Toolbox as well as my computer are running Xorg: > > - > $ echo $XDG_SESSION_TYPE > x11 > - > > Paul > > > On Fri, Aug 13, 2021 at 8:2

Re: [R-sig-Fedora] RStudio does not open completly

2021-08-13 Thread Iñaki Ucar
Xorg or Wayland session? RStudio doesn't support the latter yet. Iñaki On Thu, 12 Aug 2021 at 23:19, Paul Smith wrote: > > Dear All, > > I have just installed R 4.1 and RStudio on Fedora Toolbox. Everything > went fine, but when I try to run RStudio, it opens as a white window > flickering

Re: [R-sig-Fedora] Makefile error

2021-07-29 Thread Iñaki Ucar
On Wed, 28 Jul 2021 at 11:59, Bintao Cui wrote: > > Makefile.in:87: *** missing separator. Stop. > > I am trying to install R-4.1.0 version to fedora, and got the error above, > please help! This version is available in rawhide. See [1] about how to install it. [1]

Re: [R-sig-Fedora] RStudio discounts with R when restarting R

2021-07-12 Thread Iñaki Ucar
On Mon, 12 Jul 2021 at 17:56, Yifan Liu wrote: > > Sorry, it is a typo. I actually mean disconnect. I can't reproduce the issue. My session just restarts as expected. So probably the cause of the issue is some session state or local configuration. Try renaming the ~/.rstudio folder and/or report

Re: [R-sig-Fedora] RStudio discounts with R when restarting R

2021-07-12 Thread Iñaki Ucar
On Mon, 12 Jul 2021 at 13:19, Yifan Liu wrote: > > Hi All, > > I am currently using R 4.0.5 on RStudio 1.4.1717 on Fedora 34. When I > restart R (Ctrl + Shift + F10), RStudio will always discount with R. This > issue occurs to my two computers and has been around for about one month. > Did anyone

[R-sig-Fedora] Newest glibc split makes some packages fail to build

2021-06-25 Thread Iñaki Ucar
Hi, See [1] and [2]. We need to keep an eye on what comes out from [3], because if glibc-gconv-extra is not added to the buildroot, then R-core-devel would need to put it in Requires. Otherwise, some R packages fail to build due to missing converters. [1]

Re: [R-sig-Fedora] Plans for R 4.1 in Fedora?

2021-06-24 Thread Iñaki Ucar
On Wed, 23 Jun 2021 at 19:00, Iñaki Ucar wrote: > > In rawhide, there may be some "glitches", because it's in active > development, so I have to launch several mass rebuilds until things > start to settle (no more system-wide changes, no more core library > u

Re: [R-sig-Fedora] Plans for R 4.1 in Fedora?

2021-06-23 Thread Iñaki Ucar
On Wed, 23 Jun 2021 at 18:29, Gavin Simpson wrote: > > Thanks Iñaki! toolbox looks really useful for my usecase. Toolbox is *very* cool. :) > 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

Re: [R-sig-Fedora] Plans for R 4.1 in Fedora?

2021-06-23 Thread Iñaki Ucar
;> 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 wrote: >> >> > Nice!

Re: [R-sig-Fedora] Plans for R 4.1 in Fedora?

2021-06-22 Thread Iñaki Ucar
to the repos yet. On Fri, 18 Jun 2021 at 14:21, Tom Callaway 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 Uca

Re: [R-sig-Fedora] Plans for R 4.1 in Fedora?

2021-06-18 Thread Iñaki Ucar
Nice! Plans for F34? :)) On Fri, 18 Jun 2021 at 00:45, Tom Callaway 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 ___

Re: [R-sig-Fedora] Fwd: new packages needed

2021-06-16 Thread Iñaki Ucar
Fedora] new packages needed > To: Iñaki Ucar > > > shiny (not covr, that was my brain spitting out the wrong thing) imports it > though. Ah, true, Shiny 1.6 switched to bslib. Is this version of Shiny required for the current rebuild then? I'm reluctant to take more R packages in the official

Re: [R-sig-Fedora] new packages needed

2021-06-16 Thread Iñaki Ucar
On Wed, 16 Jun 2021 at 15:48, Tom Callaway wrote: > > Hi friends, > > As the 4.1.0 rebuild progresses, I've identified one set of new > dependencies that several packages (DT, covr) need in order to upgrade: > > bslib > \sass > \jquerylib DT just suggests bslib, so it shouldn't be required. I

Re: [R-sig-Fedora] Plans for R 4.1 in Fedora?

2021-06-07 Thread Iñaki Ucar
using a Google Sheet, if anyone wants access, just let me > know. > > ~spot > > On Sat, Jun 5, 2021 at 4:11 PM Iñaki Ucar wrote: >> >> On Sat, 5 Jun 2021 at 20:12, Iñaki Ucar wrote: >> > >> > I've updated RStudio to 1.4.1717, which supports R 4.1, a

Re: [R-sig-Fedora] Plans for R 4.1 in Fedora?

2021-06-05 Thread Iñaki Ucar
On Sat, 5 Jun 2021 at 20:12, Iñaki Ucar wrote: > > I've updated RStudio to 1.4.1717, which supports R 4.1, and builds are > underway [2, 3, 4]. This may take a while (s390x didn't even start > yet). Oh, planned outage: https://pagure.io/fedora-infrastructure/issue/9960 --

Re: [R-sig-Fedora] Plans for R 4.1 in Fedora?

2021-06-05 Thread Iñaki Ucar
://copr.fedorainfracloud.org/coprs/iucar/cran/ On Fri, 4 Jun 2021 at 22:25, Elliott Sales de Andrade wrote: > > On Fri, 4 Jun 2021 at 16:08, Iñaki Ucar wrote: > > > > This seems like a good opportunity to give this a go: > > https://github.com/juhp/fbrnch#parallel-building > > >

Re: [R-sig-Fedora] Plans for R 4.1 in Fedora?

2021-06-04 Thread Iñaki Ucar
d everything if we do not have to. >>> >>> >> Unless you mean rebuild for testing purposes, because you added the >> R(ABI) = major.minor Provides/Requires, you need to rebuild the world >> anyway. >> >> >>> >>> ~spot >>> >

Re: [R-sig-Fedora] Installing R on CentOS 8

2021-05-25 Thread Iñaki Ucar
roken' to skip uninstallable packages or '--nobest' to > use not only best candidate packages) > [b...@rth.ad.rothschild.com@usd1sapp101 ~]$ On second read, it's actually openblas and openblas-threads what's not found, which is weirder, because they're in AppStream. I don't know what's happ

Re: [R-sig-Fedora] Installing R on CentOS 8

2021-05-25 Thread Iñaki Ucar
On Tue, 25 May 2021 at 03:06, Roger Bos wrote: > > I am trying to install R on my CentOS 8 server at work and getting an > error message about openblas. It seems I need openblas-0.3.3-5.el.x86_64. > I have openblas-0.3.3-2.el8.x86_64. I have added the EPEL repo and enabled > PowerTools. I

Re: [R-sig-Fedora] Plans for R 4.1 in Fedora?

2021-05-23 Thread Iñaki Ucar
On Sat, 22 May 2021 at 22:18, José Abílio Matos wrote: > > Hi all, > what should be our plan for R 4.1 update in Fedora? See [1]. The plan is to wait for the next RStudio release and coordinate updates. [1] https://stat.ethz.ch/pipermail/r-sig-fedora/2021-May/000736.html > What are the

Re: [R-sig-Fedora] Future R 4.1 and Rstudio versions

2021-05-04 Thread Iñaki Ucar
On Tue, 4 May 2021 at 12:06, Tim Taylor wrote: > > I've been testing R 4.1 and ran in to an RStudio bug where it crashed > when used with ggplot2. It seems this has been fixed in an upcoming > RStudio release (see https://github.com/rstudio/rstudio/issues/9251) but > I wanted to flag in case the

Re: [R-sig-Fedora] (Error?) in a command of your tutorial, "fedora-source"

2021-04-20 Thread Iñaki Ucar
On Tue, 20 Apr 2021 at 13:29, Bilal Abd wrote: > > Hello, I am contacting you because it seems that there is a problem with your > tutorial to install R LIEN, I use a Centos7 server, I have epel and installed > R which works, however I cannot install certain libraries which depend on >

Re: [R-sig-Fedora] R.css missing in Fedora R-core rpm

2021-03-11 Thread Iñaki Ucar
FYI, tracked here: https://pagure.io/R/fedora-r-packages/issue/2 On Wed, 10 Mar 2021 at 13:14, Iñaki Ucar wrote: > > On Wed, 10 Mar 2021 at 12:02, Jeroen Ooms wrote: > > > > On Wed, Mar 10, 2021 at 12:18 AM Iñaki Ucar wrote: > > > > > > On Tue, 9 M

Re: [R-sig-Fedora] R not working in F34 docker image

2021-03-10 Thread Iñaki Ucar
On Wed, 10 Mar 2021 at 12:22, Jeroen Ooms wrote: > > Not sure if this is a bug in the F34 docker image or R rpm. I would > like to test some things in F34 so I tried: > > docker run -it fedora:34 > > And then in docker: > >yum update >yum install R-core > > But when I try to start R I

Re: [R-sig-Fedora] R.css missing in Fedora R-core rpm

2021-03-10 Thread Iñaki Ucar
On Wed, 10 Mar 2021 at 12:02, Jeroen Ooms wrote: > > On Wed, Mar 10, 2021 at 12:18 AM Iñaki Ucar wrote: > > > > On Tue, 9 Mar 2021 at 23:55, Jeroen Ooms wrote: > > > > > > On Tue, Mar 9, 2021 at 2:27 PM Iñaki Ucar wrote: > > > > > &g

Re: [R-sig-Fedora] R.css missing in Fedora R-core rpm

2021-03-09 Thread Iñaki Ucar
On Tue, 9 Mar 2021 at 23:55, Jeroen Ooms wrote: > > On Tue, Mar 9, 2021 at 2:27 PM Iñaki Ucar wrote: > > > > On Tue, 9 Mar 2021 at 13:26, Jeroen Ooms wrote: > > > > > > When installing an R package from source on Fedora using the standard > > > R

Re: [R-sig-Fedora] R.css missing in Fedora R-core rpm

2021-03-09 Thread Iñaki Ucar
On Tue, 9 Mar 2021 at 13:26, Jeroen Ooms wrote: > > When installing an R package from source on Fedora using the standard > R-core rpm, we always get a warning at the end because of a missing > css file /usr/share/doc/R/html/R.css: > > ** byte-compile and prepare package for lazy loading > **

Re: [R-sig-Fedora] R 4.0 for CentOS 7

2020-10-31 Thread Iñaki Ucar
On Sat, 31 Oct 2020 at 20:52, H wrote: > > Understood. Since I am running CentOS 7, I guess I could create a CentOS 8 > docker container and install R in that? I am not planning to upgrade the > system to CentOS 8. Of course, you can do that. With podman it's even easier. But then I'd use

Re: [R-sig-Fedora] R 4.0 for CentOS 7

2020-10-31 Thread Iñaki Ucar
gt; tried), then you need to move on. > > On 10/30/2020 8:57 PM, H wrote: > > On 10/30/2020 05:02 AM, Iñaki Ucar wrote: > >> Please, do not crosspost. As I said in the Bugzilla issue, R cannot be > >> further updated in EPEL-7, see > >> https://bugzilla.redhat

[R-sig-Fedora] Rebuild against FlexiBLAS

2020-08-10 Thread Iñaki Ucar
Hi, R has been built against FlexiBLAS in rawhide [1, 2]. These are the R packages that need to be rebuilt: R-ape-0:5.4-2.fc33.x86_64 R-expm-0:0.999.4-7.fc33.x86_64 R-gee-0:4.13.20-4.fc33.x86_64 R-gss-0:2.2.2-3.fc33.x86_64 R-igraph-0:1.2.5-3.fc33.x86_64 R-msm-0:1.6.8-5.fc33.x86_64

Re: [R-sig-Fedora] R 4.0.0 rebuild status

2020-07-27 Thread Iñaki Ucar
On Mon, 27 Jul 2020 at 09:09, Elliott Sales de Andrade wrote: > > On Tue, 21 Jul 2020 at 11:05, José Abílio Matos wrote: > > > > On Friday, 3 July 2020 18.36.17 WEST Iñaki Ucar wrote: > > > Nice! What if we create a group "R" on Pagure and a repo >

Re: [R-sig-Fedora] R 4.0.0 rebuild status

2020-07-21 Thread Iñaki Ucar
On Tue, 21 Jul 2020 at 17:05, José Abílio Matos wrote: > > On Friday, 3 July 2020 18.36.17 WEST Iñaki Ucar wrote: > > Nice! What if we create a group "R" on Pagure and a repo > > "fedora-scripts" or something like that? > > I would like to improv

Re: [R-sig-Fedora] Problem with the update to R 4.0.2 in the Fedora users' list

2020-07-21 Thread Iñaki Ucar
On Tue, 21 Jul 2020 at 17:17, José Abílio Matos wrote: > > There was a thread this weekend in the fedora users' mailing list where a user > had problems updating R 4.0.2: > > "non-rpm R libraries not accessible now w R v 4.0.x" >

Re: [R-sig-Fedora] installing from copr after update

2020-07-15 Thread Iñaki Ucar
On Wed, 15 Jul 2020 at 10:47, Tim Taylor wrote: > > I've just updated to R 4.0.2 but am unsure how to get packages from the > COPR repository to update to those built under the new version of R. > FI - I'm not currently using CoprManager just trying to update/install from > terminal. The Copr

Re: [R-sig-Fedora] R 4.0.0 rebuild status

2020-07-14 Thread Iñaki Ucar
On Tue, 14 Jul 2020 at 18:24, José Abílio Matos wrote: > > On Tuesday, 14 July 2020 09.47.55 WEST Iñaki Ucar wrote: > > Maybe it's due to the size of the update? File an issue here: > > https://github.com/fedora-infra/bodhi/issues > > Before resorting to this I tried again

Re: [R-sig-Fedora] R 4.0.0 rebuild status

2020-07-14 Thread Iñaki Ucar
On Tue, 14 Jul 2020 at 01:19, José Abílio Matos wrote: > > On Saturday, 11 July 2020 11.32.32 WEST José Abílio Matos wrote: > > If I do not hear until then I will push the update Monday night (Western > > Europe time zone. > > Well I tried but I did not succeeded both using the web interface and

Re: [R-sig-Fedora] R 4.0.0 rebuild status

2020-07-09 Thread Iñaki Ucar
On Tue, 7 Jul 2020 at 16:15, Iñaki Ucar wrote: > > On Tue, 7 Jul 2020 at 15:58, José Abílio Matos wrote: > > > > On Tuesday, 7 July 2020 11.44.48 WEST Iñaki Ucar wrote: > > > Try with the CLI (see "man bodhi"): > > > > > > $ bodhi update

Re: [R-sig-Fedora] R 4.0.0 rebuild status

2020-07-07 Thread Iñaki Ucar
On Tue, 7 Jul 2020 at 15:58, José Abílio Matos wrote: > > On Tuesday, 7 July 2020 11.44.48 WEST Iñaki Ucar wrote: > > Try with the CLI (see "man bodhi"): > > > > $ bodhi updates edit --addbuilds > > I found that the best call in this case is instead

Re: [R-sig-Fedora] R package RPMs for Fedora

2020-07-07 Thread Iñaki Ucar
FYI, the CRAN page has been updated. Now, we have: https://cran.r-project.org/bin/linux/fedora https://cran.r-project.org/bin/linux/redhat The second one is just a symlink to the first one. Iñaki On Mon, 4 May 2020 at 15:14, Iñaki Ucar wrote: > > Hi all, > > Three months

Re: [R-sig-Fedora] R 4.0.0 rebuild status

2020-07-07 Thread Iñaki Ucar
On Tue, 7 Jul 2020 at 12:38, José Abílio Matos wrote: > > On Monday, 6 July 2020 21.08.53 WEST Tom Callaway wrote: > > 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 > > I have

Re: [R-sig-Fedora] R 4.0.0 rebuild status

2020-07-06 Thread Iñaki Ucar
On Mon, 6 Jul 2020 at 16:40, José Abílio Matos 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

Re: [R-sig-Fedora] R 4.0.0 rebuild status

2020-07-03 Thread Iñaki Ucar
On Fri, 3 Jul 2020 at 19:03, José Abílio Matos wrote: > > On Monday, 29 June 2020 13.46.02 WEST Iñaki Ucar wrote: > > But the mass rebuild process is very different, because releng doesn't > > follow any particular order (they don't need to, because nothing

Re: [R-sig-Fedora] R 4.0.0 rebuild status

2020-06-29 Thread Iñaki Ucar
On Mon, 29 Jun 2020 at 14:25, José Abílio Matos wrote: > > Again you guessed right, that was the main idea. :-) > As I told above and to reiterate it, the idea of this work is to make it > easier to automate the > process. Similarly to how we do the mass builds for all the packages. But the

Re: [R-sig-Fedora] -specs=/usr/lib/rpm/redhat/redhat-hardened-ld woes

2020-06-29 Thread Iñaki Ucar
On Mon, 29 Jun 2020 at 11:24, Iñaki Ucar wrote: > > On Mon, 29 Jun 2020 at 10:21, Roger Bivand wrote: > > > > In the rgdal package, configure.ac has had : ${LDFLAGS=`"${RBIN}" CMD > > config LDFLAGS`} at least since 2012, so picking up LDFLAGS known to the R &g

Re: [R-sig-Fedora] -specs=/usr/lib/rpm/redhat/redhat-hardened-ld woes

2020-06-29 Thread Iñaki Ucar
On Mon, 29 Jun 2020 at 10:21, Roger Bivand wrote: > > In the rgdal package, configure.ac has had : ${LDFLAGS=`"${RBIN}" CMD > config LDFLAGS`} at least since 2012, so picking up LDFLAGS known to the R > version installed. Very recently, users installing rgdal from source with > R installed from

Re: [R-sig-Fedora] Error: rebuild R-data.table on F32 for R 4.0.2

2020-06-26 Thread Iñaki Ucar
On Fri, 26 Jun 2020 at 13:12, José Abílio Matos wrote: > > I am at loss here > > R-data.table fails to rebuild, the failure happens in the tests where 3 are > failing. > https://koji.fedoraproject.org/koji/taskinfo?taskID=46195243 > > I will continue with the rebuild and let this case to look

Re: [R-sig-Fedora] R 4.0.0 rebuild status

2020-06-26 Thread Iñaki Ucar
On Fri, 26 Jun 2020 at 12:09, José Abílio Matos wrote: > > On Friday, 26 June 2020 10.47.13 WEST Iñaki Ucar wrote: > > I used bcond locally and wrongly assumed that fedpkg build would > > support --with BCOND and --without BCOND. Instead, the way to activate > > it is t

Re: [R-sig-Fedora] R 4.0.0 rebuild status

2020-06-26 Thread Iñaki Ucar
On Fri, 26 Jun 2020 at 11:36, José Abílio Matos wrote: > > On Tuesday, 23 June 2020 16.48.53 WEST Tom Callaway wrote: > > There are a few of those, but not many. > > Hi Tom, > I noticed that for example in R-assertthat you have used the bcond: > > %bcond_with check > > would not it be better to

Re: [R-sig-Fedora] R 4.0.0 rebuild status

2020-06-24 Thread Iñaki Ucar
Oh, and maybe in this process we could add to all packages the requirement on R(ABI) = 4 that Tom implemented. On Wed, 24 Jun 2020 at 11:42, Iñaki Ucar wrote: > > Thanks, José and Elliott. I can help with reviews. > > I attach here a list of batches of CRAN packages to be rebuil

Re: [R-sig-Fedora] R 4.0.0 rebuild status

2020-06-24 Thread Iñaki Ucar
t; > On Tue, 23 Jun 2020 at 09:43, Iñaki Ucar wrote: > > > > Maybe Elliott? > > > > On Tue, 23 Jun 2020 at 15:01, Tom Callaway wrote: > > > > > > At this point, I simply don't have the time. > > > > > > Tom > > > > > &g

Re: [R-sig-Fedora] R 4.0.0 rebuild status

2020-06-23 Thread Iñaki Ucar
On Tue, 23 Jun 2020 at 17:01, José Abílio Matos wrote: > > On Tuesday, 23 June 2020 14.01.39 WEST Tom Callaway wrote: > > At this point, I simply don't have the time. > > > > Tom > > What needs to be done and how can the work be streamlined? > > I asked this since this procedure will happen for

Re: [R-sig-Fedora] R 4.0.0 rebuild status

2020-06-23 Thread Iñaki Ucar
Maybe Elliott? On Tue, 23 Jun 2020 at 15:01, Tom Callaway wrote: > > At this point, I simply don't have the time. > > Tom > > On Tue, Jun 23, 2020, 6:06 AM Iñaki Ucar wrote: >> >> On Tue, 9 Jun 2020 at 10:21, Iñaki Ucar wrote: >> > >> >

Re: [R-sig-Fedora] R 4.0.0 rebuild status

2020-06-23 Thread Iñaki Ucar
On Tue, 9 Jun 2020 at 10:21, Iñaki Ucar 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 >

Re: [R-sig-Fedora] R 4.0.0 rebuild status

2020-06-09 Thread Iñaki Ucar
On Tue, 9 Jun 2020 at 04:42, 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

Re: [R-sig-Fedora] Changing the BLAS from openblas on a F32 box

2020-05-28 Thread Iñaki Ucar
FYI, USE_LOCKING=1 has been toggled in Fedora, so the next openblas release (0.3.9-3) will be thread-safe by default. On Wed, 27 May 2020 at 23:46, Iñaki Ucar wrote: > > On Wed, 27 May 2020 at 23:03, Gavin Simpson wrote: > > > > Thanks (again) Iñaki. > > > > Ther

Re: [R-sig-Fedora] Changing the BLAS from openblas on a F32 box

2020-05-27 Thread Iñaki Ucar
On Wed, 27 May 2020 at 23:03, Gavin Simpson wrote: > > Thanks (again) Iñaki. > > There was a typo in my reply above. I should have said: I *can't* > answer the question re USE_LOCKING=1. :) > Those other suggestions are really helpful too; I really didn't > understand what the difference was

Re: [R-sig-Fedora] Changing the BLAS from openblas on a F32 box

2020-05-27 Thread Iñaki Ucar
On Wed, 27 May 2020 at 21:40, Gavin Simpson wrote: > > Thanks Iñaki, that is exactly what i was looking for, esp the last > option which I have now configured as an alias for easy remembering. > > I can answer the question re USE_LOCKING=1. I think that using both > those options is required to

Re: [R-sig-Fedora] Changing the BLAS from openblas on a F32 box

2020-05-27 Thread Iñaki Ucar
Hi Gavin, On Wed, 27 May 2020 at 01:15, Gavin Simpson wrote: > > Dear list, > > What is the recommended incantation on Fedora 32 to swap out the > openblas BLAS that the packaged (rpm) version of R-core installs for > ATLAS? I'm afraid there is no official mechanism in place to do that yet.

Re: [R-sig-Fedora] R 4.0.0

2020-05-16 Thread Iñaki Ucar
On Sat, 16 May 2020 at 10:26, José Abílio Matos wrote: > > On Saturday, 16 May 2020 00.38.34 WEST Iñaki Ucar wrote: > > Sorry, but I'm not sure I'm following you. How does having > > /usr/lib64/R/library as system library prevent you from testing > > r-devel? &

Re: [R-sig-Fedora] R 4.0.0

2020-05-15 Thread Iñaki Ucar
On Sat, 16 May 2020 at 00:49, José Abílio Matos wrote: > > If we take the example from python where I have installed versions from python > 3.4 to 3.9 (that is yet in alpha stage). > > # rpm -qf /usr/bin/python3.? > python34-3.4.10-10.fc32.x86_64 > python35-3.5.9-1.fc32.x86_64 >

Re: [R-sig-Fedora] R 4.0.0

2020-05-15 Thread Iñaki Ucar
On Fri, 15 May 2020 at 11:58, José Abílio Matos wrote: > > On Thursday, 14 May 2020 23.58.02 WEST Iñaki Ucar wrote: > > But we still have to rebuild the packages anyway, and this setup > > doesn't force us to actually rebuild them, nor the user to update > > them. So a

Re: [R-sig-Fedora] R 4.0.0

2020-05-14 Thread Iñaki Ucar
On Fri, 15 May 2020 at 00:23, José Abílio Matos wrote: > > On Thursday, 14 May 2020 21.30.13 WEST Iñaki Ucar wrote: > > Mmmh... but then you have to change that in the packages' SPEC and > > rebuild them anyway when you update R. So... what's the advantage of > > this? &

Re: [R-sig-Fedora] R 4.0.0

2020-05-14 Thread Iñaki Ucar
On Thu, 14 May 2020 at 21:41, José Abílio Matos wrote: > > On Monday, 11 May 2020 16.47.55 WEST Iñaki Ucar wrote: > > AFAIK, there's this commitment only for patch versions. In fact, the > > path for the personal library is: > > > > ~/R/x86_64-redhat-linux-gnu-l

Re: [R-sig-Fedora] R 4.0.0

2020-05-11 Thread Iñaki Ucar
On Mon, 11 May 2020 at 16:29, Tom Callaway wrote: > > Hmmm. That seems like a rather heavy dependency, given that I think we've > only been forced to do rebuilds for everything as a result of 4.0.0 and > 3.4.0. That's just coincidence, because if you browse old NEWS, you can see "packages [doing

Re: [R-sig-Fedora] R 4.0.0

2020-05-09 Thread Iñaki Ucar
On Sat, 9 May 2020 at 05:46, Tom Callaway wrote: > > Thinking out loud here... do we want to have some macro magic to embed a > dependency on an R(ABI) provides? Where R 4.0.0 would provide R(ABI) = 4 > and all R packages built against it would pick up Requires: R(ABI) = 4 ? Note that

Re: [R-sig-Fedora] R 4.0.0

2020-05-04 Thread Iñaki Ucar
On Mon, 4 May 2020 at 19:15, Tom Callaway wrote: > > Hi folks, > > As expected of a new major release of R, there is a break in compatibility > for R packages. From the NEWS entry for 4.0.0: > >Packages need to be (re-)installed under this version (4.0.0) of R. > > This has two impacts on

Re: [R-sig-Fedora] R package RPMs for Fedora

2020-05-04 Thread Iñaki Ucar
On Mon, 4 May 2020 at 18:34, José Abílio Matos wrote: > > Hi Iñaki, > just tangentially related to this subject, what is the status of the copr > that you have > related with automatic build of R packages? Hi, José, the Copr repo is working great! I wrote a brief note about it [1], and the

Re: [R-sig-Fedora] R package RPMs for Fedora

2020-05-04 Thread Iñaki Ucar
opefully as his schedule permits, he can respond. I imagined he was very busy, but didn't know he was moving. Thanks! > On May 4, 2020, at 9:14 AM, Iñaki Ucar wrote: > > Hi all, > > Three months ago, I wrote to Martyn Plummer (to his Warwick email) and > offered my help to main

[R-sig-Fedora] R package RPMs for Fedora

2020-05-04 Thread Iñaki Ucar
Hi all, Three months ago, I wrote to Martyn Plummer (to his Warwick email) and offered my help to maintain and modernize this [1] rather updated README, but received no response. Does anyone know how to reach him, or maybe I should contact CRAN directly? [1]

Re: [R-sig-Fedora] library ( vctrs ) + library ( ggplot2 )

2020-02-26 Thread Iñaki Ucar
On Wed, 26 Feb 2020 at 09:11, Orlando Ramirez wrote: > > Hi i need use these 2 librarys ( vctrs ) and ( ggplot2 ) , and the 2 > librarys are installed in my Rstudio > > RStudio > Version 1.2.5033 > © 2009-2019 RStudio, Inc. > "Orange Blossom" (330255dd, 2019-12-04) > but i got all times thesse

[R-sig-Fedora] CRAN RPM repositories available

2020-02-08 Thread Iñaki Ucar
Hi all, I apologize if you are receiving multiple copies of this email, but I'm cross-posting because I believe this may be of interest to a wider audience than just R-SIG-Fedora. This is to announce that I'm maintaining a Copr project [1] that provides RPM repos for Fedora 30, 31 and rawhide

Re: [R-sig-Fedora] R (language) + install.packages("DMwR") :

2020-02-07 Thread Iñaki Ucar
On Fri, 7 Feb 2020 at 00:30, Orlando Ramirez wrote: > > Hi:please i am working on fedora 31, then i installed R (language), and i > want to install a R package ("DMwR"), but i get these warning messages ...: > > The downloaded source packages are in > ‘/tmp/RtmpCBUyte/downloaded_packages’ >

Re: [R-sig-Fedora] R from EPEL 8 missing dependency on glibc-langpack

2019-10-07 Thread Iñaki Ucar
Reported here: https://github.com/CentOS/sig-cloud-instance-images/issues/154 Iñaki On Mon, 7 Oct 2019 at 14:52, Iñaki Ucar wrote: > > On Mon, 7 Oct 2019 at 11:13, Jeroen Ooms wrote: > > > > I think R from EPEL 8 is missing a dependency on glibc-langpack-en or > > simil

Re: [R-sig-Fedora] R from EPEL 8 missing dependency on glibc-langpack

2019-10-07 Thread Iñaki Ucar
On Mon, 7 Oct 2019 at 11:13, Jeroen Ooms wrote: > > I think R from EPEL 8 is missing a dependency on glibc-langpack-en or > similar. Testing with the new CentOS 8 docker image: This never was a dependency. There is no reason to depend particularly on an English locale. >docker run -it

Re: [R-sig-Fedora] Fedora 29 upgrade: texlive-scheme-medium may depend on R (texlive-includernw)

2018-11-10 Thread Iñaki Ucar
On Sat, 10 Nov 2018 at 19:12, Roger Bivand wrote: > > My point exactly. It should only run R RHOME to check for the existence of > R (if this is what it does) at run time, not at install time. If it then, > at run time, does not find R, or having found R does not find knitr > (though Sweave is

Re: [R-sig-Fedora] Fedora 29 upgrade: texlive-scheme-medium may depend on R

2018-11-10 Thread Iñaki Ucar
On Sat, 10 Nov 2018 at 15:17, Roger Bivand wrote: > > On upgrading my F28 to F29, I've found that R-core and a number of R > packages: > > R-evaluate R-glue R-highr R-knitr R-magrittr R-markdown R-mime R-stringi > R-stringr R-yaml > > are installed, although I only ever install R from source and