HPC:Queues

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PMACS HPC Cluster Queues

Beginning June 1st, 2015 , only the following queues will be available for use:

1. normal (default) : Intended for non-interactive jobs, the default reservations are 1 vCPU core and 6GB of RAM. Per user job limit: 1000. No Run Limit.
2. interactive : Intended for interactive jobs, the default reservations are 1 vCPU core and 6GB of RAM. Per user job limit: 10. Run Limit: 8hrs.
3. denovo : Intended for big-memory jobs. The default reservations are 1 CPU core and 24 GB of RAM. Per user job limit: 32. Run Limit: 5days.

$ bqueues
QUEUE_NAME      PRIO STATUS          MAX JL/U JL/P JL/H NJOBS  PEND   RUN  SUSP
normal           30  Open:Active       - 1000    -    -     0     0     0     0
interactive      30  Open:Active       -    -    -    -     1     0     1     0
denovo           30  Open:Active       -   32    -    -     0     0     0     0

Example usage of LSF commands

Documented here are a few of the commonly used LSF commands. They are NOT intended for copy-paste purposes, but are intended to provide some guidelines on how these can be used.

Batch (non-interactive) Job submission

To run a job in batch mode:

$ bsub <script_name> 

Example:

$ bsub sh sleep.sh
Job <9990021> is submitted to default queue <normal>.

To run a job in batch mode that needs more RAM:

$ bsub -M <memory_required> <script_name> 

Example (job that requires 30GB of RAM):

$ bsub -M 30720 sh sleep.sh
Job <9990022> is submitted to default queue <normal>.