Project: 2669 (Run 5, Clone 196, Gen 86) seg fault
Posted: Thu Apr 23, 2009 1:48 am
console:
FAHlog:
restarting client...
Code: Select all
[15:43:35]
[15:43:35] *------------------------------*
[15:43:35] Folding@Home Gromacs SMP Core
[15:43:35] Version 2.07 (Sun Apr 19 14:51:09 PDT 2009)
[15:43:35]
[15:43:35] Preparing to commence simulation
[15:43:35] - Ensuring status. Please wait.
[15:43:44] - Looking at optimizations...
[15:43:44] - Working with standard loops on this execution.
[15:43:44] - Files status OK
[15:43:45] - Expanded 4836062 -> 23981533 (decompressed 495.8 percent)
[15:43:45] Called DecompressByteArray: compressed_data_size=4836062 data_size=23
981533, decompressed_data_size=23981533 diff=0
[15:43:45] - Digital signature verified
[15:43:45]
[15:43:45] Project: 2669 (Run 5, Clone 196, Gen 86)
[15:43:45]
[15:43:46] Entering M.D.
NNODES=4, MYRANK=0, HOSTNAME=computenode
NNODES=4, MYRANK=2, HOSTNAME=computenode
NNODES=4, MYRANK=1, HOSTNAME=computenode
NNODES=4, MYRANK=3, HOSTNAME=computenode
NODEID=0 argc=20
NODEID=1 argc=20
NODEID=2 argc=20
NODEID=3 argc=20
:-) G R O M A C S (-:
Groningen Machine for Chemical Simulation
:-) VERSION 4.0.99_development_20090307 (-:
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_03.tpr, VERSION 3.3.99_development_20070618 (single pre
cision)
Note: tpx file_version 48, software version 64
NOTE: The tpr file used for this simulation is in an old format, for less memory
usage and possibly more performance create a new tpr file with an up to date ve
rsion of grompp
Making 1D domain decomposition 1 x 1 x 4
starting mdrun '22878 system'
21750000 steps, 43500.0 ps (continuing from step 21500000, 43000.0 ps).
[15:43:55] Completed 0 out of 250000 steps (0%)
[15:52:54] Completed 2500 out of 250000 steps (1%)
[16:01:54] Completed 5000 out of 250000 steps (2%)
[16:10:55] Completed 7500 out of 250000 steps (3%)
[16:19:55] Completed 10000 out of 250000 steps (4%)
[16:28:55] Completed 12500 out of 250000 steps (5%)
[16:37:53] Completed 15000 out of 250000 steps (6%)
[16:46:51] Completed 17500 out of 250000 steps (7%)
[16:55:48] Completed 20000 out of 250000 steps (8%)
[17:04:47] Completed 22500 out of 250000 steps (9%)
[17:13:45] Completed 25000 out of 250000 steps (10%)
[17:22:43] Completed 27500 out of 250000 steps (11%)
[17:31:38] Completed 30000 out of 250000 steps (12%)
[17:40:33] Completed 32500 out of 250000 steps (13%)
[17:49:30] Completed 35000 out of 250000 steps (14%)
[17:58:31] Completed 37500 out of 250000 steps (15%)
[18:07:29] Completed 40000 out of 250000 steps (16%)
[18:16:25] Completed 42500 out of 250000 steps (17%)
[18:25:19] Completed 45000 out of 250000 steps (18%)
[18:34:08] Completed 47500 out of 250000 steps (19%)
[18:42:58] Completed 50000 out of 250000 steps (20%)
[18:51:48] Completed 52500 out of 250000 steps (21%)
[19:00:41] Completed 55000 out of 250000 steps (22%)
[19:09:33] Completed 57500 out of 250000 steps (23%)
[19:18:26] Completed 60000 out of 250000 steps (24%)
[19:25:51] - Autosending finished units... [April 22 19:25:51 UTC]
[19:25:51] Trying to send all finished work units
[19:25:51] + No unsent completed units remaining.
[19:25:51] - Autosend completed
[19:27:19] Completed 62500 out of 250000 steps (25%)
[19:36:12] Completed 65000 out of 250000 steps (26%)
[19:45:04] Completed 67500 out of 250000 steps (27%)
[19:53:56] Completed 70000 out of 250000 steps (28%)
[20:02:50] Completed 72500 out of 250000 steps (29%)
[20:11:44] Completed 75000 out of 250000 steps (30%)
[20:20:37] Completed 77500 out of 250000 steps (31%)
[20:29:32] Completed 80000 out of 250000 steps (32%)
[20:38:25] Completed 82500 out of 250000 steps (33%)
[20:47:17] Completed 85000 out of 250000 steps (34%)
[20:56:10] Completed 87500 out of 250000 steps (35%)
[21:05:04] Completed 90000 out of 250000 steps (36%)
[21:14:00] Completed 92500 out of 250000 steps (37%)
[21:22:55] Completed 95000 out of 250000 steps (38%)
[21:31:51] Completed 97500 out of 250000 steps (39%)
[21:40:47] Completed 100000 out of 250000 steps (40%)
[21:49:43] Completed 102500 out of 250000 steps (41%)
[21:58:38] Completed 105000 out of 250000 steps (42%)
[22:07:34] Completed 107500 out of 250000 steps (43%)
[22:16:29] Completed 110000 out of 250000 steps (44%)
[22:25:25] Completed 112500 out of 250000 steps (45%)
[22:34:20] Completed 115000 out of 250000 steps (46%)
[22:43:16] Completed 117500 out of 250000 steps (47%)
[22:52:12] Completed 120000 out of 250000 steps (48%)
[23:01:08] Completed 122500 out of 250000 steps (49%)
[23:10:04] Completed 125000 out of 250000 steps (50%)
[23:19:01] Completed 127500 out of 250000 steps (51%)
[23:27:56] Completed 130000 out of 250000 steps (52%)
[23:36:52] Completed 132500 out of 250000 steps (53%)
[23:45:48] Completed 135000 out of 250000 steps (54%)
[23:49:56]
[23:49:56] Folding@home Core Shutdown: INTERRUPTED
[cli_0]: aborting job:
application called MPI_Abort(MPI_COMM_WORLD, 102) - process 0
[cli_2]: aborting job:
Fatal error in MPI_Sendrecv: Error message texts are not available
[0]0:Return code = 102
[0]1:Return code = 0, signaled with Quit
[0]2:Return code = 1
[0]3:Return code = 0, signaled with Segmentation fault
[23:50:00] CoreStatus = 66 (102)
[23:50:00] + Shutdown requested by user. Exiting.***** Got a SIGTERM signal (15)
[23:50:00] Killing all core threads
Folding@Home Client Shutdown.
Code: Select all
[15:43:35]
[15:43:35] *------------------------------*
[15:43:35] Folding@Home Gromacs SMP Core
[15:43:35] Version 2.07 (Sun Apr 19 14:51:09 PDT 2009)
[15:43:35]
[15:43:35] Preparing to commence simulation
[15:43:35] - Ensuring status. Please wait.
[15:43:44] - Looking at optimizations...
[15:43:44] - Working with standard loops on this execution.
[15:43:44] - Files status OK
[15:43:45] - Expanded 4836062 -> 23981533 (decompressed 495.8 percent)
[15:43:45] Called DecompressByteArray: compressed_data_size=4836062 data_size=23981533, decompressed_data_size=23981533 diff=0
[15:43:45] - Digital signature verified
[15:43:45]
[15:43:45] Project: 2669 (Run 5, Clone 196, Gen 86)
[15:43:45]
[15:43:46] Entering M.D.
[15:43:55] Completed 0 out of 250000 steps (0%)
[15:52:54] Completed 2500 out of 250000 steps (1%)
[16:01:54] Completed 5000 out of 250000 steps (2%)
[16:10:55] Completed 7500 out of 250000 steps (3%)
[16:19:55] Completed 10000 out of 250000 steps (4%)
[16:28:55] Completed 12500 out of 250000 steps (5%)
[16:37:53] Completed 15000 out of 250000 steps (6%)
[16:46:51] Completed 17500 out of 250000 steps (7%)
[16:55:48] Completed 20000 out of 250000 steps (8%)
[17:04:47] Completed 22500 out of 250000 steps (9%)
[17:13:45] Completed 25000 out of 250000 steps (10%)
[17:22:43] Completed 27500 out of 250000 steps (11%)
[17:31:38] Completed 30000 out of 250000 steps (12%)
[17:40:33] Completed 32500 out of 250000 steps (13%)
[17:49:30] Completed 35000 out of 250000 steps (14%)
[17:58:31] Completed 37500 out of 250000 steps (15%)
[18:07:29] Completed 40000 out of 250000 steps (16%)
[18:16:25] Completed 42500 out of 250000 steps (17%)
[18:25:19] Completed 45000 out of 250000 steps (18%)
[18:34:08] Completed 47500 out of 250000 steps (19%)
[18:42:58] Completed 50000 out of 250000 steps (20%)
[18:51:48] Completed 52500 out of 250000 steps (21%)
[19:00:41] Completed 55000 out of 250000 steps (22%)
[19:09:33] Completed 57500 out of 250000 steps (23%)
[19:18:26] Completed 60000 out of 250000 steps (24%)
[19:25:51] - Autosending finished units... [April 22 19:25:51 UTC]
[19:25:51] Trying to send all finished work units
[19:25:51] + No unsent completed units remaining.
[19:25:51] - Autosend completed
[19:27:19] Completed 62500 out of 250000 steps (25%)
[19:36:12] Completed 65000 out of 250000 steps (26%)
[19:45:04] Completed 67500 out of 250000 steps (27%)
[19:53:56] Completed 70000 out of 250000 steps (28%)
[20:02:50] Completed 72500 out of 250000 steps (29%)
[20:11:44] Completed 75000 out of 250000 steps (30%)
[20:20:37] Completed 77500 out of 250000 steps (31%)
[20:29:32] Completed 80000 out of 250000 steps (32%)
[20:38:25] Completed 82500 out of 250000 steps (33%)
[20:47:17] Completed 85000 out of 250000 steps (34%)
[20:56:10] Completed 87500 out of 250000 steps (35%)
[21:05:04] Completed 90000 out of 250000 steps (36%)
[21:14:00] Completed 92500 out of 250000 steps (37%)
[21:22:55] Completed 95000 out of 250000 steps (38%)
[21:31:51] Completed 97500 out of 250000 steps (39%)
[21:40:47] Completed 100000 out of 250000 steps (40%)
[21:49:43] Completed 102500 out of 250000 steps (41%)
[21:58:38] Completed 105000 out of 250000 steps (42%)
[22:07:34] Completed 107500 out of 250000 steps (43%)
[22:16:29] Completed 110000 out of 250000 steps (44%)
[22:25:25] Completed 112500 out of 250000 steps (45%)
[22:34:20] Completed 115000 out of 250000 steps (46%)
[22:43:16] Completed 117500 out of 250000 steps (47%)
[22:52:12] Completed 120000 out of 250000 steps (48%)
[23:01:08] Completed 122500 out of 250000 steps (49%)
[23:10:04] Completed 125000 out of 250000 steps (50%)
[23:19:01] Completed 127500 out of 250000 steps (51%)
[23:27:56] Completed 130000 out of 250000 steps (52%)
[23:36:52] Completed 132500 out of 250000 steps (53%)
[23:45:48] Completed 135000 out of 250000 steps (54%)
[23:49:56]
[23:49:56] Folding@home Core Shutdown: INTERRUPTED
[23:50:00] CoreStatus = 66 (102)
[23:50:00] + Shutdown requested by user. Exiting.***** Got a SIGTERM signal (15)
[23:50:00] Killing all core threads
Folding@Home Client Shutdown.