Hmm, that's a weird one. Is SELinux on and enforcing on that setup?
~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]]
>
> _______________________________________________
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> R-SIG-Fedora@r-project.org
> https://stat.ethz.ch/mailman/listinfo/r-sig-fedora
>
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