Interactive jobs started inside Interactive Desktop don't export environment variables (Slurm)

jeff.ohrstrom · February 22, 2021, 2:32pm

We recently had to fix this for our Slurm cluster too at OSC

You can see here how we did it. We just set export SLURM_EXPORT_ENV=ALL in the batch_connect.before_script portion of our submit yml.

github.com

OSC/osc-ood-config/blob/8687ec754d334ee17bd4004e3aa95e82819cf0ec/ondemand.osc.edu/apps/bc_desktop/submit/vdi.yml.erb#L6-L15


batch_connect:
  before_script: |
    # Export the module function if it exists
    [[ $(type -t module) == "function"  ]] && export -f module
    # MATE acts strange in pitzer-exp and doesn't like /var/run/$(id -u)
    export XDG_RUNTIME_DIR="$TMPDIR/xdg_runtime"
    # reset SLURM_EXPORT_ENV so that things like srun & sbatch work out of the box
    export SLURM_EXPORT_ENV=ALL

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Interactive jobs started inside Interactive Desktop don't export environment variables (Slurm)

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