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 Lemieux supercomputer with 3000 Alpha EV6.8 processors (see Running PGENESIS on Lemieux for details). We have also ported the code to the recently installed 2000 processor Cray XT3.  For simulations with very large memory requirements (up to 256GB), we have installed PGENESIS on rachel, an HP Marvel computer (SMP architecture).  Inquiries regarding PGENESIS grant applications and use of PGENESIS on PSC machines may be sent to pgenesis@psc.edu.

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?