- Install IRkernel.
Begin by starting `R`; the default on the CZ and RZ is `/usr/bin/R` and then install `IRkernel` with `install.packages('IRkernel')`:
janeh@rzslic4:~/.local/share/jupyter/kernels$ R
R version 3.6.0 (2019年04月26日) -- "Planting of a Tree"
Copyright (C) 2019 The R Foundation for Statistical Computing
Platform: x86_64-redhat-linux-gnu (64-bit)
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> install.packages('IRkernel')
Installing package into '/usr/lib64/R/library'
(as 'lib' is unspecified)
Warning in install.packages("IRkernel") :
'lib = "/usr/lib64/R/library"' is not writable
Would you like to use a personal library instead? (yes/No/cancel) n
Error in install.packages("IRkernel") : unable to install packages
> install.packages('IRkernel')
Installing package into '/usr/lib64/R/library'
(as 'lib' is unspecified)
Warning in install.packages("IRkernel") :
'lib = "/usr/lib64/R/library"' is not writable
Would you like to use a personal library instead? (yes/No/cancel) y
Would you like to create a personal library
'~/R/x86_64-redhat-linux-gnu-library/3.6'
to install packages into? (yes/No/cancel) y
--- Please select a CRAN mirror for use in this session ---I chose "75" as my CRAN mirror. A series of downloading/installing messages then followed, terminating with
Successful IRkernel install * installing *source* package 'IRkernel' ... ** package 'IRkernel' successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package 'IRkernel' finding HTML links ... done Comm-class html CommManager-class html IRkernel-package html comm_manager html installspec html log html main html ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (IRkernel)
The downloaded source packages are in
'/tmp/janeh/Rtmp9uEWd6/downloaded_packages'
2. Create `kernel.json`
Create `~/.local/share/jupyter/kernels/R` and `~/.local/share/jupyter/kernels/R/kernel.json`, populating `kernel.json` with
{"argv": ["/usr/bin/R", "--quiet", "-e", "IRkernel::main()", "--args", "{connection_file}"],
"display_name":"test R",
"language":"R"
}You can, of course, change the display name to whatever you like and also use a different R binary in place of the default `/usr/bin/R`, if you like.
3. Sign in to JupyterHub and find R kernel
Log in to JupyterHub and you will see your display name, e.g. "test R", as an available kernel when you try to start a new notebook.