In bash, you can run commands in parallel by terminating them with an "&", rather than a ";". I thought that running commands in parallel on Stampede would help them finish quicker, since I had a job limit of one. However, by doing this I inadvertently submitted the parallel commands to my user nodes, rather than the job nodes, which is against Stampede user policy. So, after having my account terminated for improper conduct, I contacted TACC and they reactivated my account. Since, I've only had the chance to do basic simulations on the new system.
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