Is there there a way to limit the number of job submissions for GATK Queue?

gpratt

My lab is trying to use Queue, but out pipeline is spawning very large number of jobs (as would be expected). Our lab has very spiky data processing requiernments and it would be useful to be able to limit the number of jobs queue submits at a time so other, non-queue jobs can process in parallel. Is this possible?

Thanks

Carneiro

Are you not using a job scheduler/dispatcher (LSF, GridEngine, ...) ? Queue's job is to dispatch all jobs that can be done in parallel, LSF manages when to run based on resource availability.