R kernel always die

[Mario Menezes]

Hi,

  I´m trying to serve R kernel from my jupyterhub installation, but no matter what I try, the kernel always die.

  My jupyterhub installation is working fine, launching single-server notebooks for Python2 and Python3.

  I´ve installed r-essentials directly from Anaconda3 to avoid any conflict; no R installed at the system level.

  After installation, opened the R console (terminal) and run IRkernel::installspec(user = FALSE). The kernel appears in Jupyter menu, together  Python entires.

  I´m running a CentOS7 server, Jupyterhub running by root (sudo was not able to authenticate users), behing a nginx reverse proxy. 

  BTW, how to enable debug information in jupyterhub config?

  Bellow is my conda information, and attached my conda --list information.

  Appreciate any help.

Mario M.

  # conda info

Current conda install:

               platform : linux-64

          conda version : 4.2.12

       conda is private : False

      conda-env version : 4.2.12

    conda-build version : 2.0.2

         python version : 3.5.2.final.0

       requests version : 2.11.1

       root environment : /srv/anaconda3  (writable)

    default environment : /srv/anaconda3

       envs directories : /srv/anaconda3/envs

          package cache : /srv/anaconda3/pkgs

           channel URLs : https://conda.anaconda.org/r/linux-64

                          https://conda.anaconda.org/r/noarch

                          https://repo.continuum.io/pkgs/free/linux-64

                          https://repo.continuum.io/pkgs/free/noarch

                          https://repo.continuum.io/pkgs/pro/linux-64

                          https://repo.continuum.io/pkgs/pro/noarch

            config file : /root/.condarc

           offline mode : False

[Peter Parente]

Hi Mario,

Does your R kernel die immediately or after executing a command? If it's the latter, there's a known problem with the r-base package in Anaconda at the moment tracked here: https://github.com/ContinuumIO/anaconda-issues/issues/1063

conda install 'r-base=3.3.1 1' is a workaround.

Cheers,
Pete

[Mario Menezes]

Hi Peter,

  

   It dies after executing a command, e.g., library("dplyr"). 

   I'll try the workaraound (on Monday :-) and let you know. 

   Thanks for your attention.

   Regards,

Mário M.

[Mario Menezes]

Hi Peter,

   Good news! As you said, installing r-base (3.3.1 1) fixed the problem; I did  a few tests and it seems to be running smoothly now.

  

   Thanks for your help!

   Best regards,

Mário M.

--
Mario O.de Menezes, Ph.D.
"Many are the plans in a man's heart, but is the Lord's purpose that prevails" Pv 19.21
http://www.momenezes.com     -    LinuxUser: #24626

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