Array Job

**Array Jobs on TSCC**

We can specify in the submission parameters that we want to submit an array job. Here is an example. Notice the -t flag, that tells TSCC to use an array job to process this. Since we have 4 commands here, we will use -t 1-4.

    #!/bin/bash
    #PBS -N run_homer
    #PBS -o run_homer.sh.out
    #PBS -e run_homer.sh.err
    #PBS -l walltime=5:00:00
    #PBS -l nodes=1:ppn=1
    #PBS -q hotel
    #PBS -t 1-4
    
    cmd[1]="STAR --all-my-flags"
    cmd[2]="STAR --all-my-new-flags"
    cmd[3]="STAR --all-my-third-flags"
    cmd[4]="STAR --all-my-fourth-flags"
    
    eval ${cmd[$PBS_ARRAYID]}