Re: [gmx-users] Excessive memory usage of mdrun

2015-10-06 Thread Sotirios Dionysios I. Papadatos
: gromacs.org_gmx-users-boun...@maillist.sys.kth.se <gromacs.org_gmx-users-boun...@maillist.sys.kth.se> on behalf of mpign...@bidmc.harvard.edu <mpign...@bidmc.harvard.edu> Sent: Monday, September 28, 2015 9:12 PM To: gromacs.org_gmx-users@maillist.sys.kth.se Subject: [gmx-users] Excessive

[gmx-users] Excessive memory usage of mdrun

2015-09-28 Thread mpignata
Good morning, I'm trying to simulate a protein system on an HPC cluster called Orchestra, that use gromacs 5.0.4. The system size is 39126 atoms and is made by the protein, 12160 water molecules, one Na+ and one Cl-. Of this system I've already made a run of 50 ns on my workstation without