Project: 2669 (Run 1, Clone 138, Gen 21)
Posted: Thu Aug 27, 2009 10:03 am
This could be related to the problem with WUs running on only one core, the payload was even smaller but it didnt start the WU, not even with the 2.08 core.
Code: Select all
[09:57:00] Initial: 0000; - Receiving payload (expected size: 1142751)Code: Select all
[09:56:51] - Autosending finished units... [August 27 09:56:51 UTC]
[09:56:51] Trying to send all finished work units
[09:56:51] + No unsent completed units remaining.
[09:56:51] - Autosend completed
[09:56:51] - Preparing to get new work unit...
[09:56:51] + Attempting to get work packet
[09:56:51] - Will indicate memory of 752 MB
[09:56:51] - Connecting to assignment server
[09:56:51] Connecting to http://assign.stanford.edu:8080/
[09:56:54] Posted data.
[09:56:54] Initial: 40AB; - Successful: assigned to (171.64.65.56).
[09:56:54] + News From Folding@Home: Welcome to Folding@Home
[09:56:54] Loaded queue successfully.
[09:56:54] Connecting to http://171.64.65.56:8080/
[09:57:00] Posted data.
[09:57:00] Initial: 0000; - Receiving payload (expected size: 1142751)
[09:57:10] - Downloaded at ~111 kB/s
[09:57:10] - Averaged speed for that direction ~109 kB/s
[09:57:10] + Received work.
[09:57:10] + Closed connections
[09:57:10]
[09:57:10] + Processing work unit
[09:57:10] At least 4 processors must be requested.Core required: FahCore_a2.exe
[09:57:10] Core found.
[09:57:10] Working on queue slot 07 [August 27 09:57:10 UTC]
[09:57:10] + Working ...
[09:57:10] - Calling './mpiexec -np 4 -host 127.0.0.1 ./FahCore_a2.exe -dir work/ -suffix 07 -checkpoint 30 -forceasm -verbose -lifeline 4399 -version 624'
[09:57:10]
[09:57:10] *------------------------------*
[09:57:10] Folding@Home Gromacs SMP Core
[09:57:10] Version 2.08 (Mon May 18 14:47:42 PDT 2009)
[09:57:10]
[09:57:10] Preparing to commence simulation
[09:57:10] - Ensuring status. Please wait.
[09:57:19] - Assembly optimizations manually forced on.
[09:57:19] - Not checking prior termination.
[09:57:20] - Expanded 1142239 -> 17887233 (decompressed 1565.9 percent)
[09:57:20] Called DecompressByteArray: compressed_data_size=1142239 data_size=17887233, decompressed_data_size=17887233 diff=0
[09:57:20] - Digital signature verified
[09:57:20]
[09:57:20] Project: 2669 (Run 1, Clone 138, Gen 21)
[09:57:20]
[09:57:21] Assembly optimizations on if available.
[09:57:21] Entering M.D.
NNODES=4, MYRANK=0, HOSTNAME=ubuntu
NNODES=4, MYRANK=1, HOSTNAME=ubuntu
NNODES=4, MYRANK=2, HOSTNAME=ubuntu
NODEID=1 argc=22
NODEID=0 argc=22
NNODES=4, MYRANK=3, HOSTNAME=ubuntu
NODEID=2 argc=22
:-) G R O M A C S (-:
NODEID=3 argc=22
Groningen Machine for Chemical Simulation
:-) VERSION 4.0.99_development_20090425 (-:
Written by David van der Spoel, Erik Lindahl, Berk Hess, and others.
Copyright (c) 1991-2000, University of Groningen, The Netherlands.
Copyright (c) 2001-2008, The GROMACS development team,
check out http://www.gromacs.org for more information.
:-) mdrun (-:
Reading file work/wudata_07.tpr, VERSION 3.3.99_development_20070618 (single precision)
-------------------------------------------------------
Program mdrun, VERSION 4.0.99_development_20090425
Source code file: smalloc.c, line: 147
Fatal error:
Not enough memory. Failed to calloc 2773589135 elements of size 4 for block->index
(called from file tpxio.c, line 1180)
For more information and tips for trouble shooting please check the GROMACS Wiki at
http://wiki.gromacs.org/index.php/Errors
-------------------------------------------------------
Thanx for Using GROMACS - Have a Nice Day
: Cannot allocate memory
Error on node 0, will try to stop all the nodes
Halting parallel program mdrun on CPU 0 out of 4
gcq#0: Thanx for Using GROMACS - Have a Nice Day
[cli_0]: aborting job:
application called MPI_Abort(MPI_COMM_WORLD, -1) - process 0