Lukas Mueller

Seems to have solved the issue, closing this ticket.

Has this issue been fixed?

perl libraries can be upgraded (recompiled) using ```cpan upgrade```.

R packages can be updated usign the command: update.packages(checkBuilt=TRUE, ask=FALSE)

The above methods do not complete the upgrade process and error out.

NOTE: An attempt to fix the issue described below was made in #4030. ``` # To fix these issues in a xen vm, usually the directories in # the js/...

When using a virtual machine, Perl dependencies may be missing because many Perl dependencies are installed from apt in the docker, they are not available in the perl local-lib git...

Also if working with virtual machines, to get slurm working, move the ```/etc/slurm-llnl/slurm.conf``` file to ```/etc/slurm/``` Also, if not yet added, add to ```/etc/slurm/slurm.conf``` (remove any other ```SelectType```s) ``` SelectType=select/cons_res...

On virtual machines, run ```apt install linux-image-5.10.0-15-amd64``` (or similar version - must match version in /etc/xen/...cfg file) in case the files in ```/boot``` in the vm went missing in the...

To get npm to work, the following commands may have to be run on a vm: ``` # remove the node_modules and .npm directories rm -Rf js/node_modules rm -Rf ~/.npm...