I'm running ESS in similar HPC circumstances, and have adopted a similar
solution to the one in Lionel Henry's post. I tend to keep a shell script
along the lines of the following in every project, and it works 'fine'. It's
singularity, but I think apptainer is equivalent. Just in case it helps.
```
pwd=$(realpath ${PWD})
project_root=$(realpath $(git rev-parse --show-toplevel || echo ${pwd))
extra=--bind
$HOME/.Xauthority,$HOME/.Xdefaults,$HOME/.Xresources,$HOME/.emacs.d,$HOME/.ssh
--env DISPLAY=$DISPLAY # in real life, $extra is defined in elsewhere and is
only used in interactive sessions, not in e.g. makefiles.
cmd=R
image=bioconductor_docker_3.18-R-4.3.2.sif
singularity exec --bind ${project_root},/tmp --pwd ${pwd} --containall
--cleanenv --env
SQLITE_TMPDIR=/tmp,BIOCPARALLEL_WORKER_NUMBER=2,GITHUB_PAT=${GITHUB_PAT}
${extra} ${image} ${cmd} $@
```
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