Intermediate Artemis HPC: Automating analysis with job arrays: Glossary

Recall how to connect to Artemis HPC

Recall the difference between batch and interactive jobs

Recall the special Data Transfer Queue

Arrays allow you to submit multiple similar jobs in one script

Submit an array job with option -J i-f:s

Monitor the queue with qstat -t jobid[]

The ^array_index^ construction can be used inside PBS directives

The $PBS_ARRAY_INDEX construction is used elsewhere in your PBS script

The PBS_ARRAY_INDEX can be used to index input data

awk is your friend!

The PBS_JOBNAME variable can also be used to batch analyses

Array jobs can replace FOR loops in PBS scripts