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Here is an example script for running dependent jobs on Oscar.
# first job - no dependencies
jobID_1=$(sbatch job1.sh | cut -f 4 -d' ')
# second job - depends on job1
jobID_2=$(sbatch --dependency=afterok:$jobID_1 job2.sh | cut -f 4 -d' ')
# third job - depends on job2
sbatch --dependency=afterany:$jobID_2 job3.sh
There are 3 batch jobs. Each job has it's own batch script: job1.sh, job2,sh, jobs.sh. The script above (script.sh) submits the three jobs.
line 4: job1 is submitted.
line 7: job2 depends on job1 finishing successfully.
line 10: job3 depends on job2 finishing successfully.
To use the above script to submit the 3 jobs, run the script as follows: