On Mon, 12 Jun 2023 at 13:19, Tom Callaway <spo...@gmail.com> 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 SELinux*. Instead, let's figure this
out, because the answer is to set the proper labels or permissions.
Iñaki
>
> ~spot
>
> On Mon, Jun 12, 2023, 6:55 AM Alexandre Courtiol <
> alexandre.court...@gmail.com> wrote:
>
> > Dear Fedora-R enthusiasts,
> >
> > We are experiencing some issues with the binary releases of R 4.3 for
> > Fedora 37 & 38 when running it on our infrastructure.
> >
> > The issue is that packages won't install, unless the (default) staged
> > installation process for packages is switched off (--no-staged-install).
> >
> > It seems to be related to the fact that we are storing R libraries on a
> > drive mounted via samba share.
> >
> > Interestingly, installing R from sources does not cause the issue.
> > When using other OS (e.g. Arch) on the same infrastructure, the problem
> > also disappears.
> >
> > We are looking for a way out that would allow users to install R packages
> > as usual and that would ideally not force the admin to install R from
> > sources.
> >
> > The issue should be reproducible as follows:
> >
> > 1. Mount the share:
> >
> > $ mount -t cifs //server/share /mnt/share -o ...options...
> >
> > 2. Put R library onto the share:
> >
> > $ mkdir /mnt/share/R
> > $ ln -s /mnt/share/R ~/R
> >
> > 3. Install a package that has dependencies (It doesn't matter whether the
> > dependencies actually have to be installed or not. E.g. if you install all
> > of the dependencies of 'dplyr' and then install 'dplyr' itself in an extra
> > call to 'install.packages', the problem will still be triggered.):
> >
> > $ Rscript -e "install.packages('dplyr', repos='https://cloud.r-project.org
> > ')"
> >
> > 4. The installation will fail while trying to move the package to its final
> > location:
> >
> > mv: cannot move
> > '/mnt/share/R/x86_64-redhat-linux-gnu-library/4.3/00LOCK-dplyr/00new/dplyr'
> > to '/mnt/share/R/x86_64-redhat-linux-gnu-library/4.3/dplyr': Permission
> > denied
> > ERROR: moving to final location failed
> >
> > 5. Moving the folder as described in the error manually from the shell
> > succeeds:
> >
> > $ mv
> > /mnt/share/R/x86_64-redhat-linux-gnu-library/4.3/00LOCK-dplyr/00new/dplyr
> > /mnt/share/R/x86_64-redhat-linux-gnu-library/4.3/dplyr
> > $ # => works
> >
> > And if R is either compiled from source (taking the usual
> > "configure/make/make install" route) or installed from Conda, the
> > permission error at step 4 doesn't happen. We also tested creating the
> > binary RPM package on the same machine, and the result was the same as
> > installing the binary package from the repo (i.e. error).
> >
> > ++
> >
> >
> > --
> > Alexandre Courtiol, www.datazoogang.de
> >
> > [[alternative HTML version deleted]]
> >
> > _______________________________________________
> > R-SIG-Fedora mailing list
> > R-SIG-Fedora@r-project.org
> > https://stat.ethz.ch/mailman/listinfo/r-sig-fedora
> >
>
> [[alternative HTML version deleted]]
>
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--
Iñaki Úcar
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