[R-sig-Debian] Advice on article about installing R on Linux

[Robin Lovelace]

Hi Dirk and all,

Many thanks for the feedback, greatly appreciated.

In response to these comments, and input from Jakub the blog post is now
ready I think:
https://github.com/geocompr/geocompr.github.io/blob/source/content/post/2020/installing-r-spatial-packages-linux.md

I would be very grateful you could take a look over this and provide any
further comments/corrections before I put this out there to the world, in
around 8 hours' time being the plan.

All the best,

Robin

On Sat, Mar 28, 2020 at 8:40 PM Dirk Eddelbuettel <edd using debian.org> wrote:

>
> On 28 March 2020 at 14:04, Robin Lovelace wrote:
> | To the list this time...
> |
> | On Sat, Mar 28, 2020 at 2:03 PM Robin Lovelace <rob00x using gmail.com> wrote:
> |
> | > Hi Dirk,
> | >
> | > Thanks for the quick response.
> | >
> | > I've updated the draft post following your suggestions, see the updated
> | > version, in nice .md format, here:
> | >
> https://github.com/geocompr/geocompr.github.io/blob/installing-on-linux/content/post/2020/installing-r-spatial-packages-linux.md
> | >
> | > Any better? I think so! The key bit for eoan users is this:
> | >
> | > sudo add-apt-repository 'deb
> https://cloud.r-project.org/bin/linux/ubuntu eoan-cran35/'
> | > sudo apt-key adv --keyserver keyserver.ubuntu.com --recv-keys
> E298A3A825C0D65DFD57CBB651716619E084DAB9
> | > sudo add-apt-repository ppa:marutter/c2d4u3.5
> | > sudo apt update
> | > sudo apt install r-base-dev r-cran-sf r-cran-raster r-cran-tmap
> | >
> | > Following your suggestion I have created a Dockerfile to test this:
> | >
> https://github.com/Robinlovelace/geocompr/blob/master/docker/ubuntu-eoan/Dockerfile
>
> Sounds good.  Should there also be a version for bionic as LTS may be more
> widespread?  Personally I am with you as I also run 19.10 -- but if you
> were
> to offer 18.04 then 18.04 + 18.10 + 19.04 + 19.10 users could run it. Seems
> better, no?
>
> | > (Taken with credit from your rocker project work.)
> | >
> | > Unfortunately it fails with the following message:
> | >
> | > W: GPG error: https://cloud.r-project.org/bin/linux/ubuntu
> eoan-cran35/
> | > InRelease: The following signatures couldn't be verified because the
> public
> | > key is not available: NO_PUBKEY 51716619E084DAB9
> | > E: The repository 'https://cloud.r-project.org/bin/linux/ubuntu
> | > eoan-cran35/ InRelease' is not signed.
> | >
> | > Any ideas? I've tried various combinations mentioned here but not luck
> | > yet: https://cran.r-project.org/bin/linux/ubuntu/#secure-apt
>
> I think you are actively importing key 'A' and it tells you it is missing
> key
> 'B' where A != B.  See e.g.
>
>
> https://stackoverflow.com/questions/10255082/installing-r-from-cran-ubuntu-repository-no-public-key-error
>
> | > Regarding Fedora, didn't know that. Is this the message you're
> referring
> | > to? https://copr.fedorainfracloud.org/coprs/iucar/cran/
>
> Yep!
>
> Dirk
>
> | > I will add that link to this section if so:
> | >
> https://github.com/geocompr/geocompr.github.io/blob/installing-on-linux/content/post/2020/installing-r-spatial-packages-linux.md#3-installing-geographic-r-packages-on-other-linux-operating-systems
> | >
> | > All the best,
> | >
> | > Robin
> | >
> | >
> | >
> | > On Sat, Mar 28, 2020 at 12:46 PM Dirk Eddelbuettel <edd using debian.org>
> wrote:
> | >
> | >>
> | >> Hi Robin,
> | >>
> | >> On 28 March 2020 at 10:30, Robin Lovelace wrote:
> | >> | Dear list,
> | >> |
> | >> | I've drafted an article on installing geographic R packages on Linux
> | >> | computers and would appreciate any feedback. Is the following text
> | >> correct,
> | >> | useful and future-proof?:
> | >> |
> | >> | R’s spatial packages can be installed from source on recent (since
> | >> Ubuntu
> | >> | 19.04) versions of this popular operating system, once the
> appropriate
> | >> | repository has been set-up, meaning faster install times (only a few
> | >> | minutes including the installation of upstream dependencies). The
> | >> following
> | >> | bash commands should install key geographic R packages on Ubuntu
> 19.04,
> | >> | 19.10 or 20.04:
> | >>
> | >> I wonder if we should provide these for "bionic" (18.04) and onwards
> as
> | >> that
> | >> is (for a few more weeks) the reigning LTS.  Also, saying 19.04 here
> and
> | >> pointing to eoan sounds fishy. 19.04 is "disco" IIRC.
> | >>
> | >> I also *strongly* recommend you bullet-proof this by starting from a
> plain
> | >> ubuntu:$VERSION container and test it.
> | >>
> | >> | sudo -i
> | >> | echo 'deb https://cloud.r-project.org/bin/linux/ubuntu
> eoan-cran35/' |
> | >> sudo
> | >> | tee -a /etc/apt/sources.list
> | >>
> | >> The cool kids all use a new file in /etc/apt/sources.list.d/ now look
> in
> | >> yours.  The you can just copy and/or shell redirect.
> | >>
> | >> | sudo apt-key adv --keyserver keyserver.ubuntu.com --recv-keys
> | >> | E298A3A825C0D65DFD57CBB651716619E084DAB9
> | >>
> | >> I never remember if apt-add-repository works with this too.
> | >>
> | >> | sudo apt update
> | >> | sudo apt install r-base-dev r-cran-sf r-cran-raster r-cran-tmap
> | >> |
> | >> | If you are using an older version of Ubuntu and don’t want to
> upgrade to
> | >> | the next Long Term Support release (20.04), see instructions at
> | >> | github.com/r-spatial/sf.
> | >> |
> | >> | 3. Other operating systems
> | >> | If you are in the fortunate position of switching to Linux and being
> | >> able
> | >> | to choose the distribution that best fits your needs, it’s worth
> | >> thinking
> | >> | about which distribution will be both user-friendly (more on that
> soon),
> | >> | performant and future-proof. Ubuntu is a solid choice, with a large
> user
> | >> | community and repositories such as ‘ubuntugis’ providing more
> up-to-date
> | >> | versions of upstream geographic libraries such as GDAL.
> | >> |
> | >> | QGIS is also well-supported on on Ubuntu.
> | >>
> | >> And you could mention the Rutter PPA here -- another 4k binary
> packages!
> | >>
> | >> | However, you can install R and key geographic packages on other
> | >> operating
> | >> | systems, although it may take longer. Useful links on installing R
> and
> | >> | geographic libraries are provided below for reference:
> | >> |
> | >> | Installing R on Debian is covered on the CRAN website. Upstream
> | >> | dependencies such as GDAL can be installed on recent versions of
> Debian,
> | >> | such as buster, with commands such as apt-get install libgdal-dev
> as per
> | >> | instructions on the rocker/geospatial.
> | >> |
> | >> | Full article here:
> | >> |
> | >>
> https://github.com/geocompr/geocompr.github.io/blob/installing-on-linux/content/post/2020/installing-r-spatial-packages-linux.Rmd
> | >>
> | >> We could/should also shout out to Fedora who now have a repo with all
> | >> (!!) of
> | >> CRAN (!!) as per a recent email by Inaki "somewhere" (r-devel?
> | >> r-pkg-devel?)
> | >>
> | >> | Planning to publish this on Monday, thanks in advance for any
> feedback.
> | >>
> | >> It's good. Sorry for not responding sooner. The raw Rmd was hard to
> read;
> | >> I
> | >> tend to just push .md to GitHub (when I have R-code free writeups like
> | >> this
> | >> which is almost all of them) as that is always rendered to read.
> | >>
> | >> Dirk
> | >>
> | >> | Robin
> | >> |
> | >> | P.s. I noticed in the process of writing this that eoan
> instructions are
> | >> | missing here:
> | >> |
> | >> | https://cran.r-project.org/bin/linux/ubuntu/README.html
> | >> |
> | >> | Worth updating them?
> | >> |
> | >> |       [[alternative HTML version deleted]]
> | >> |
> | >> | _______________________________________________
> | >> | R-SIG-Debian mailing list
> | >> | R-SIG-Debian using r-project.org
> | >> | https://stat.ethz.ch/mailman/listinfo/r-sig-debian
> | >>
> | >> --
> | >> http://dirk.eddelbuettel.com | @eddelbuettel | edd using debian.org
> | >>
> | >
>
> --
> http://dirk.eddelbuettel.com | @eddelbuettel | edd using debian.org
>

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