Magma is accessed by first loading the module

module load chpc/math/magma/2.26

and then simply executing the command

magma

However, Magma is licensed software and only licensed to run on the large memory nodes (usually called the “fat nodes).

You will thus need to request a fat node using qsub for an interactive session _or_ by submitting a job script.

To request a login shell on a fat node use

qsub -I -P PROJECTID -q bigmem -l ncpus=4 -W group_list=bigmemq

where you must replace PROJECTID by your project name.

If you receive the error message:

qsub: Bad GID for job execution

then you do not currently have access to the bigmem queue and must ask your PI to request that access through our Helpdesk.

Otherwise you should see a message similar to

qsub: waiting for job 4068905.sched01 to start

Note: the job ID number (“4068905” in the above example) will be different for you.

Depending on how busy the bigmem queue is you could wait several minutes (or hours) for the session to start — which is why it is preferrable to use a job script.

Please see the CHPC Quick Start Guide and PBSPro Scheduler Guide for information on job scripts and the scheduler used on the CHPC cluster.

This video demonstrates job scripts for the bigmem queue and fat nodes:

• Advanced Jobscripts Demo