PBSPro environment issues with OOD

[rodgers.355 (Morgan Rodgers)]

Folks,

Apologies for not responding with this idea earlier. This question is essentially a duplicate of Question About Passing Environment Variables for PBS Job - #2 by rodgers.355.

The idea is to write a wrapper for qsub to SSH to a login node and launch from there. To support that sort of workflow many of OnDemand’s adapters including the one for PBSPro support overriding the default scheduler commands (qsub, qstat, …) using the bin_overrides section of the PBSPro cluster config.

@efranz

Another option is to use the wrapper script to actually execute the qsub command via ssh to a login node. That would ensure you have the same environment as you would when submitting from the login node.

This issue describes a request on how to use ssh and the individual who posted the issue actually provided a repo with a set of wrappers that appear to work for Slurm .