How do I run jobs in the queue on deva?

The CCB servers use the GridEngine batch-queuing system for distributed resource management. If you intend to running any jobs using NGS data, or any other long running job, you should submit your job to the queue.

In brief, to submit a job you need to use a shell script. First copy the default script to the directory from which you want to run the job:
cp /package/cbrg/templates/qsub.sh .

Edit this file:

• change the username to your CCB username
• add in the command you want to run

To submit your job to the queue type:
qsub qsub.sh

To see the status of the queue, type:
qstat

Click for a full explanation of how to run jobs in the queue (pdf).