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1. Activate you R Conda Environment.

2. Start R.

3. Install the IRkernel package.

4. Exit R.

5. Deactivate your Conda environment.

6. Copy the created kernelspec into your home ~/.local/share/jupyter/kernels/ folder.

7. Update the kernel.json.

[salexan5@mblog2 ~]$ module load miniconda3/24.3.0
[salexan5@mblog2 ~]$ conda activate /project/arcc<project-name>/software/conda-envs/r_4.3.3_env/
(/project/arcc<project-name>/software/conda-envs/r_4.3.3_env) [salexan5@mblog2 ~]$ R
> install.packages('IRkernel')
...
also installing the dependencies ‘fastmap’, ‘fansi’, ‘utf8’, ‘htmltools’, ‘pillar’, ‘base64enc’, ‘repr’, ‘evaluate’, ‘IRdisplay’, ‘pbdZMQ’, ‘crayon’, ‘jsonlite’, ‘uuid’, ‘digest’
...
* DONE (IRkernel)

[salexan5@mblog2 ~]$ ls /project/arcc<project-name>/software/conda-envs/r_4.3.3_env/lib/R/library/IRkernel/kernelspec/
kernel.js  kernel.json  logo-64x64.png  logo-svg.svg

[salexan5@mblog2 ~]$ cat /project/arcc<project-name>/software/conda-envs/r_4.3.3_env/lib/R/library/IRkernel/kernelspec/kernel.json
{"argv": ["R", "--slave", "-e", "IRkernel::main()", "--args", "{connection_file}"],
 "display_name":"R",
 "language":"R"
}

[salexan5@mblog2 ~]$ cd .local/share/jupyter/kernels/
[salexan5@mblog2 kernel]$ mkdir r_4.3.3
[salexan5@mblog2 kernel]$ cd r_4.3.3
[salexan5@mblog2 r_4.3.3]$ cp /project/arcc<project-name>/software/conda-envs/r_4.3.3_env/lib/R/library/IRkernel/kernelspec/* .

[salexan5@mblog2 r_4.3.3]$ cat kernel.json
{"argv": ["/project/arcc<project-name>/software/conda-envs/r_4.3.3_env/bin/R", "--slave", "-e", "IRkernel::main()", "--args", "{connection_file}"],
 "display_name":"R_4.3.3 (local)",
 "language":"R"
}

# Cell Output:
'/cluster/medbow/project/arcc<project-name>/software/conda-envs/r_4.3.3_env/lib/R/library'

# Cell Output:
"Package" "LibPath" "Version" "Priority"
"base" "base" "/cluster/medbow/project/arcc<project-name>/software/conda-envs/r_4.3.3_env/lib/R/library" "4.3.3" "base"
...
"vctrs" "vctrs" "/cluster/medbow/project/arcc<project-name>/software/conda-envs/r_4.3.3_env/lib/R/library" "0.6.5" NA