PGENESIS at PSC

Parallel GENESIS is installed on supercomputers at PSC where it may be used by U.S.-based researchers free of charge, subject to approval of a submitted application.  The primary production platform is the Cray XT3. Inquiries regarding PGENESIS grant applications and use of PGENESIS on PSC machines may be sent to pgenesis@psc.edu.

A set of example PGENESIS scripts, batch job file, and sample output is available. If you have an XT3 account, these same files can be found in the /usr/local/packages/genesis/example directory on BigBen.

In your application for computing time, it will help the reviewers if you include the following information:

• What are the time and memory requirements for a single run and on what hardware?
• If parameter estimation, what automated search technique(s) are you using, if any? Do you have an estimate of how many individual simulation runs are needed for convergence?
• If a network model, what is the network structure (number of cells, connectivity pattern, and number of compartments per cell). What are the range of axonal delays, and what is the expected timestep size?
• Would you desire to scale this model up to even larger sizes than can be simulated in reasonable time on current hardware?