[R-sig-Debian] Failing to install R 4.0.? on Raspian

Chris Evans chr|@ho|d @end|ng |rom p@yctc@org
Thu Mar 25 08:11:43 CET 2021 

My reply to Dirk crossed with your incoming message Johannes. Thanks both. More inline below.

----- Original Message -----
> From: "Johannes Ranke" <johannes.ranke using jrwb.de>
> To: "Chris Evans" <chrishold using psyctc.org>, "r-sig-debian" <r-sig-debian using r-project.org>
> Cc: "r-sig-debian" <r-sig-debian using r-project.org>, "Dirk Eddelbuettel" <edd using debian.org>
> Sent: Wednesday, 24 March, 2021 15:12:23
> Subject: Re: [R-sig-Debian] Failing to install R 4.0.? on Raspian

> Am Mittwoch, 24. März 2021, 16:00:42 CET schrieb Dirk Eddelbuettel:
>> On 24 March 2021 at 14:47, Chris Evans wrote:
>> | I have just invested very few pennies in a Raspian machine hosted by my
>> | ISP.
>> | 
>> | The machine tells me:
>> | 
>> | root using www:~# cat /etc/os-release
>> | PRETTY_NAME="Raspbian GNU/Linux 10 (buster)"
>> | NAME="Raspbian GNU/Linux"
>> | VERSION_ID="10"
>> | VERSION="10 (buster)"
>> | VERSION_CODENAME=buster
>> | ID=raspbian
>> | 
>> | So I have added a line to /etc/apt/sources.list
>> | 
>> | root using www:~# cat /etc/apt/sources.list
>> | deb http://raspbian.raspberrypi.org/raspbian/ buster main contrib non-free
>> | rpi deb http://archive.raspberrypi.org/debian/ buster main
>> | deb http://cloud.r-project.org/bin/linux/debian buster-cran40/
>> 
>> Hm, doesn't that third line make the heroic assumptions that there were a
>> non x86_64 repository?  So I think the error below may be a side effect.
>> 
>> Just because you are getting armhf packages from some repositories does not
>> imply you get them from all, methinks.  apt may happily look at the
>> binary:all packages which it could install, but then get sidelined by their
>> dependencies which it may not.
> 
> Yes, at one point I did compile armhf arm64 packages for the CRAN repo on a
> raspberry that I still own, but the SD card broke and I do not have use case
> anyways, so I stopped that (this is documented on the CRAN repo). 

Ah, I missed that.  Can you say where?

> So sorry, at the moment, arm packages for current R are not on CRAN.

Understood.

> For the moment, you can install R 3.5.2 from buster, or compile "locally",
> with
> 
> apt-get build-dep r-base
> apt-get source -b r-base
> 
> and install the packages that hopefully will appear.

At that point I went back to installing the default 3.5.2 and installing packages in 
Raspian but I couldn't get the shiny server to install ending up with an "Exec format
error" in the installation.  Seeing that shiny server is supported for Ubuntu but not
for Raspian I then install Ubuntu on the machine and that got me R 3.6.3 using the
code at https://github.com/Aypak/shiny_server_rpi4 and it goes most of the way to 
installing shiny server, see:
https://github.com/Aypak/shiny_server_rpi4/issues/2
I realise that this is now well off the subject line so I will stop here but if
anyone has any thoughts about that error, I would love to hear from them.  I will
wait longer to see if Aypak has advice and will continue things to the Rstudio 
support fora.
 
> Johannes
> 
> P.S.: Of course, if someone would once again upload R to buster-backports (and
> after the release of bullseye to bullseye-backports), this would be no problem
> any more. But that depends on one of the Debian devs to decide they want to
> maintain such a backport.

I confess I didn't understand that but I think it's above my pay grade and abilities
to get into that!  However, if I can help in some no doubt very small way getting 
R 4.0.? on Ubuntu on the Pi I would certainly try but I'm no potential maintainer!

Many thanks both for your inputs and apologies for not knowing my ARM from my AMD/Intel!!


Chris

> 
>> 
>> Dirk
>> 
>> | root using www:~#
>> | 
>> | and added the key using
>> | 
>> | apt-key adv --keyserver keys.gnupg.net --recv-key
>> | 'E19F5F87128899B192B1A2C2AD5F960A256A04AF'
>> | 
>> | following
>> | https://cran.r-project.org/bin/linux/debian/#debian-buster-stable
>> | 
>> | apt-get update
>> | 
>> | runs fine but apt install -t buster-cran40 r-base gets me this:
>> | 
>> | root using www:~# apt install -t buster-cran40 r-base
>> | Reading package lists... Done
>> | Building dependency tree
>> | Reading state information... Done
>> | Some packages could not be installed. This may mean that you have
>> | requested an impossible situation or if you are using the unstable
>> | distribution that some required packages have not yet been created
>> | or been moved out of Incoming.
>> | The following information may help to resolve the situation:
>> | 
>> | The following packages have unmet dependencies:
>> |  r-base : Depends: r-base-core (>= 4.0.4-1~bustercran.0) but it is not
>> |  going to be installed|
>> |           Depends: r-recommended (= 4.0.4-1~bustercran.0) but it is not
>> |           going to be installed Recommends: r-base-html but it is not
>> |           going to be installed
>> |           Recommends: r-doc-html but it is not going to be installed
>> | 
>> | E: Unable to correct problems, you have held broken packages.
>> | 
>> | 
>> | aptitude why-not r-base says:
>> | 
>> | root using www:~# aptitude why-not r-base
>> | Not currently installed
>> | The candidate version 4.0.4-1~bustercran.0 has priority optional
>> | No dependencies require to remove r-base
>> | 
>> | and aptitude install r-base says
>> | 
>> | root using www:~# aptitude install r-base
>> | 
>> | The following NEW packages will be installed:
>> |   gfortran{a} gfortran-8{a} icu-devtools{a} libblas-dev{a} libblas3{a}
>> |   libbz2-dev{a} libdrm-amdgpu1{a} libdrm-common{a} libdrm-nouveau2{a}
>> |   libdrm-radeon1{a} libdrm2{a} libfile-basedir-perl{a}
>> |   libfile-desktopentry-perl{a} libfile-mimeinfo-perl{a} libfontenc1{a}
>> |   libgfortran-8-dev{a} libgfortran4{a} libgfortran5{a} libgl1{a}
>> |   libgl1-mesa-dri{a} libglapi-mesa{a} libglvnd0{a} libglx-mesa0{a}
>> |   libglx0{a} libicu-dev{a} libio-stringy-perl{a}
>> |   libipc-system-simple-perl{a} libjpeg-dev{a} libjpeg62-turbo-dev{a}
>> |   liblapack-dev{a} liblapack3{a} libllvm9{a} liblzma-dev{a}
>> |   libncurses-dev{a} libncurses5-dev{a} libnet-dbus-perl{a} libpcre16-3{a}
>> |   libpcre2-16-0{a} libpcre2-32-0{a} libpcre2-dev{a} libpcre2-posix0{a}
>> |   libpcre3-dev{a} libpcre32-3{a} libpcrecpp0v5{a} libpng-dev{a}
>> |   libpng-tools{a} libreadline-dev{a} libsensors-config{a} libsensors5{a}
>> |   libtcl8.6{a} libtie-ixhash-perl{a} libtk8.6{a} libx11-protocol-perl{a}
>> |   libxaw7{a} libxcb-dri2-0{a} libxcb-dri3-0{a} libxcb-glx0{a}
>> |   libxcb-present0{a} libxcb-shape0{a} libxcb-sync1{a}
>> |   libxml-parser-perl{a} libxml-twig-perl{a} libxml-xpathengine-perl{a}
>> |   libxmu6{a} libxshmfence1{a} libxss1{a} libxv1{a} libxxf86dga1{a}
>> |   libxxf86vm1{a} pkg-config{a} r-base{b} r-base-core{a} r-base-dev{ab}
>> |   r-base-html{a} r-cran-boot{ab} r-cran-class{a} r-cran-cluster{a}
>> |   r-cran-codetools{ab} r-cran-foreign{a} r-cran-kernsmooth{a}
>> |   r-cran-lattice{a} r-cran-mass{a} r-cran-matrix{a} r-cran-mgcv{a}
>> |   r-cran-nlme{a} r-cran-nnet{a} r-cran-rpart{a} r-cran-spatial{a}
>> |   r-cran-survival{a} r-doc-html{a} r-recommended{ab} unzip{a}
>> |   x11-utils{a} x11-xserver-utils{a} xdg-utils{a} zip{a} zlib1g-dev{a}
>> | 
>> | 0 packages upgraded, 97 newly installed, 0 to remove and 0 not upgraded.
>> | Need to get 1,812 kB/89.4 MB of archives. After unpacking 716 MB will be
>> | used.|
>> | The following packages have unmet dependencies:
>> |  r-cran-boot : Depends: r-base-core (>= 4.0.4-1~bustercran.0) but 3.5.2-1
>> |  is to be installed|
>> |                Depends: r-api-4.0 which is a virtual package and is not
>> |                provided by any available package|
>> |  r-cran-codetools : Depends: r-base-core (>= 4.0.4-1~bustercran.0) but
>> |  3.5.2-1 is to be installed|
>> |                     Depends: r-api-4.0 which is a virtual package and is
>> |                     not provided by any available package|
>> |  r-base : Depends: r-base-core (>= 4.0.4-1~bustercran.0) but 3.5.2-1 is to
>> |  be installed r-recommended : Depends: r-base-core (>=
>> |  4.0.4-1~bustercran.0) but 3.5.2-1 is to be installed r-base-dev :
>> |  Depends: r-base-core (>= 4.0.4-1~bustercran.0) but 3.5.2-1 is to be
>> |  installed|
>> | The following actions will resolve these dependencies:
>> |      Keep the following packages at their current version:
>> | 1)     r-base [Not Installed]
>> | 2)     r-base-dev [Not Installed]
>> | 3)     r-cran-boot [Not Installed]
>> | 4)     r-cran-codetools [Not Installed]
>> | 5)     r-recommended [Not Installed]
>> | 
>> |      Leave the following dependencies unresolved:
>> | 6)     r-base-core recommends r-recommended
>> | 7)     r-base-core recommends r-base-dev
>> | 
>> | I assume that I have some part of R 3.5.? stuck in the apt system from
>> | previously installing R from the default raspian repositories (stupid of
>> | me).  There is nothing in /usr/lib/R (no directory) nor does /usr/bin/R
>> | exist and I have (in desperation: not something I remember doing often
>> | with Debian machines) even rebooted the machine but no change.
>> | 
>> | I could wipe the machine and start over and not install R until after
>> | adding the buster line deb http://cloud.r-project.org/bin/linux/debian
>> | buster-cran40/
>> | to /etc/apt/sources.list and doing apt-get update
>> | 
>> | However, I thought I'd check things out here first. Thanks in advance for
>> | any suggestions.
>> | 
>> | Chris
>> | 
>> | --
>> | Small contribution in our coronavirus rigours:
>> | https://www.coresystemtrust.org.uk/home/free-options-to-replace-paper-core
>> | -forms-during-the-coronavirus-pandemic/
>> | 
>> | Chris Evans <chris using psyctc.org> Visiting Professor, University of Sheffield
>> | <chris.evans using sheffield.ac.uk> I do some consultation work for the
>> | University of Roehampton <chris.evans using roehampton.ac.uk> and other places|
>> | but <chris using psyctc.org> remains my main Email address.  I have a work web
> site at:
>> |    https://www.psyctc.org/psyctc/
>> | 
>> | and a site I manage for CORE and CORE system trust at:
>> |    http://www.coresystemtrust.org.uk/
>> | 
>> | I have "semigrated" to France, see:
>> |    https://www.psyctc.org/pelerinage2016/semigrating-to-france/
>> |    https://www.psyctc.org/pelerinage2016/register-to-get-updates-from-pele
>> |    rinage2016/|
>> | If you want an Emeeting, I am trying to keep them to Thursdays and my
> diary is at:
>> |    https://www.psyctc.org/pelerinage2016/ceworkdiary/
>> | 
>> | Beware: French time, generally an hour ahead of UK.
>> | 
>> | _______________________________________________
>> | R-SIG-Debian mailing list
>> | R-SIG-Debian using r-project.org
>> | https://stat.ethz.ch/mailman/listinfo/r-sig-debian
> 
> 
> --
> Johannes Ranke
> Wissenschaftlicher Berater
> 07624 8099027
> https://jrwb.de

-- 
Small contribution in our coronavirus rigours: 
https://www.coresystemtrust.org.uk/home/free-options-to-replace-paper-core-forms-during-the-coronavirus-pandemic/

Chris Evans <chris using psyctc.org> Visiting Professor, University of Sheffield <chris.evans using sheffield.ac.uk>
I do some consultation work for the University of Roehampton <chris.evans using roehampton.ac.uk> and other places
but <chris using psyctc.org> remains my main Email address.  I have a work web site at:
   https://www.psyctc.org/psyctc/
and a site I manage for CORE and CORE system trust at:
   http://www.coresystemtrust.org.uk/
I have "semigrated" to France, see: 
   https://www.psyctc.org/pelerinage2016/semigrating-to-france/ 
   https://www.psyctc.org/pelerinage2016/register-to-get-updates-from-pelerinage2016/

If you want an Emeeting, I am trying to keep them to Thursdays and my diary is at:
   https://www.psyctc.org/pelerinage2016/ceworkdiary/
Beware: French time, generally an hour ahead of UK.

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