From: Abhishek TYAGI (atyagiaa_at_connect.ust.hk)
Date: Tue Oct 24 2017 - 06:42:32 CDT
Hi,
It seems to me that on hpc you need to add +idlepoll next to charmrun
Best
Abhi
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________________________________
From: owner-namd-l_at_ks.uiuc.edu <owner-namd-l_at_ks.uiuc.edu> on behalf of Zahra Mohammadi <mohammadizahra94_at_gmail.com>
Sent: Tuesday, October 24, 2017 7:12:55 PM
To: namd-l_at_ks.uiuc.edu
Subject: namd-l: FATAL ERROR: cuda_check_progress polled 1000000 times over ...
Hi eveyone,
I was wondering if anybody who knows about my problem or has any related experiences, help me with my problem.
I am runnig a common MD simulation of a protein in a water box. My simulation is running on High Performance Computer Cluster (HPCC). After the minimization process (3000 steps) when it ends my problem occurs which is at the beginning of MD simulation process. I get this FATAL error which is below:
Charm++ fatal error:
FATAL ERROR: cuda_check_progress polled 1000000 times over 100.825342 s on step 1181
I searched and found nothing about it to solve my problem. In advance, I appreciate all of the help.
Thanks
Zahra
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