SLURM job dependency

main.job

#!/bin/bash
#SBATCH --job-name=main
#SBATCH --output=main-%j.out
#SBATCH --error=main-%j.err

#SBATCH --account=uni
#SBATCH --partition=uni-u237
#SBATCH --nodes=1-1
#SBATCH --ntasks=1
#SBATCH --cpus-per-task=1


cat current_date.txt && rm current_date.txt

pre.job

#!/bin/bash
#SBATCH --job-name=preprocessing
#SBATCH --output=preprocessing-%j.out
#SBATCH --error=preprocessing-%j.err

#SBATCH --account=uni
#SBATCH --partition=uni-u237
#SBATCH --nodes=1-1
#SBATCH --ntasks=1
#SBATCH --cpus-per-task=1


sleep 10
date >> current_date.txt

run.bash

#! /bin/bash
# Catch return value but print it on STDOUT.
RET="$(sbatch pre.job)" && echo $RET

# Send main job to queue (dependent on previous JOB-ID).
sbatch --dependency=afterok:${RET##* } main.job