Code: Select all
[02:50:30] Project: 6904 (Run 2, Clone 35, Gen 21)
[02:50:30]
[02:50:30] Entering M.D.
[02:50:36] Using Gromacs checkpoints
:-) G R O M A C S (-:
Groningen Machine for Chemical Simulation
:-) VERSION 4.5.3 (-:
Written by Emile Apol, Rossen Apostolov, Herman J.C. Berendsen,
Aldert van Buuren, Pär Bjelkmar, Rudi van Drunen, Anton Feenstra,
Gerrit Groenhof, Peter Kasson, Per Larsson, Pieter Meulenhoff,
Teemu Murtola, Szilard Pall, Sander Pronk, Roland Schulz,
Michael Shirts, Alfons Sijbers, Peter Tieleman,
Berk Hess, David van der Spoel, and Erik Lindahl.
Copyright (c) 1991-2000, University of Groningen, The Netherlands.
Copyright (c) 2001-2010, The GROMACS development team at
Uppsala University & The Royal Institute of Technology, Sweden.
check out http://www.gromacs.org for more information.
:-) Gromacs (-:
[02:50:46] Mapping NT from 16 to 16
Reading file work/wudata_02.tpr, VERSION 4.5.4-dev-20110530-cc815 (single precision)
Starting 16 threads
Reading checkpoint file work/wudata_02.cpt generated: Thu Oct 20 22:28:57 2011
Making 1D domain decomposition 16 x 1 x 1
starting mdrun 'Overlay'
5500000 steps, 22000.0 ps (continuing from step 5353685, 21414.7 ps).
[02:51:32] Resuming from checkpoint
[02:51:44] Verified work/wudata_02.log
[02:51:45] Verified work/wudata_02.trr
[02:51:45] Verified work/wudata_02.xtc
[02:51:45] Verified work/wudata_02.edr
[02:51:47] Completed 103685 out of 250000 steps (41%)
0.
[03:27:47] Completed 105000 out of 250000 steps (42%)
[04:31:50] Completed 107500 out of 250000 steps (43%)
[05:35:37] Completed 110000 out of 250000 steps (44%)
[06:39:26] Completed 112500 out of 250000 steps (45%)
[07:43:19] Completed 115000 out of 250000 steps (46%)
[08:47:06] Completed 117500 out of 250000 steps (47%)
[08:50:12] - Autosending finished units... [October 21 08:50:12 UTC]
[08:50:12] Trying to send all finished work units
[08:50:12] + No unsent completed units remaining.
[08:50:12] - Autosend completed
[09:50:55] Completed 120000 out of 250000 steps (48%)
[10:54:54] Completed 122500 out of 250000 steps (49%)
[11:58:43] Completed 125000 out of 250000 steps (50%)
[13:02:38] Completed 127500 out of 250000 steps (51%)
[14:06:27] Completed 130000 out of 250000 steps (52%)
[14:50:12] - Autosending finished units... [October 21 14:50:12 UTC]
[14:50:12] Trying to send all finished work units
[14:50:12] + No unsent completed units remaining.
[14:50:12] - Autosend completed
[15:10:13] Completed 132500 out of 250000 steps (53%)
[16:14:09] Completed 135000 out of 250000 steps (54%)
[17:17:58] Completed 137500 out of 250000 steps (55%)
[18:21:53] Completed 140000 out of 250000 steps (56%)
[19:25:42] Completed 142500 out of 250000 steps (57%)
[20:29:32] Completed 145000 out of 250000 steps (58%)
[20:50:12] - Autosending finished units... [October 21 20:50:12 UTC]
[20:50:12] Trying to send all finished work units
[20:50:12] + No unsent completed units remaining.
[20:50:12] - Autosend completed
[21:33:26] Completed 147500 out of 250000 steps (59%)
[22:37:21] Completed 150000 out of 250000 steps (60%)
[23:41:14] Completed 152500 out of 250000 steps (61%)
[00:45:16] Completed 155000 out of 250000 steps (62%)
[01:49:08] Completed 157500 out of 250000 steps (63%)
[02:50:12] - Autosending finished units... [October 22 02:50:12 UTC]
[02:50:12] Trying to send all finished work units
[02:50:12] + No unsent completed units remaining.
[02:50:12] - Autosend completed
[02:53:04] Completed 160000 out of 250000 steps (64%)
[03:56:58] Completed 162500 out of 250000 steps (65%)
[05:00:48] Completed 165000 out of 250000 steps (66%)
[06:04:50] Completed 167500 out of 250000 steps (67%)
[07:08:45] Completed 170000 out of 250000 steps (68%)
[08:12:42] Completed 172500 out of 250000 steps (69%)
[08:50:12] - Autosending finished units... [October 22 08:50:12 UTC]
[08:50:12] Trying to send all finished work units
[08:50:12] + No unsent completed units remaining.
[08:50:12] - Autosend completed
[09:16:33] Completed 175000 out of 250000 steps (70%)
[10:20:24] Completed 177500 out of 250000 steps (71%)
[11:24:24] Completed 180000 out of 250000 steps (72%)
[12:28:18] Completed 182500 out of 250000 steps (73%)
[13:32:15] Completed 185000 out of 250000 steps (74%)
[14:36:01] Completed 187500 out of 250000 steps (75%)
[14:50:12] - Autosending finished units... [October 22 14:50:12 UTC]
[14:50:12] Trying to send all finished work units
[14:50:12] + No unsent completed units remaining.
[14:50:12] - Autosend completed
[15:39:46] Completed 190000 out of 250000 steps (76%)
[16:43:32] Completed 192500 out of 250000 steps (77%)
[17:47:12] Completed 195000 out of 250000 steps (78%)
[18:50:58] Completed 197500 out of 250000 steps (79%)
[19:54:53] Completed 200000 out of 250000 steps (80%)
[20:50:12] - Autosending finished units... [October 22 20:50:12 UTC]
[20:50:12] Trying to send all finished work units
[20:50:12] + No unsent completed units remaining.
[20:50:12] - Autosend completed
[20:58:41] Completed 202500 out of 250000 steps (81%)
[22:02:37] Completed 205000 out of 250000 steps (82%)
[23:06:26] Completed 207500 out of 250000 steps (83%)
[00:10:16] Completed 210000 out of 250000 steps (84%)
[01:14:11] Completed 212500 out of 250000 steps (85%)
[02:17:58] Completed 215000 out of 250000 steps (86%)
[02:50:12] - Autosending finished units... [October 23 02:50:12 UTC]
[02:50:12] Trying to send all finished work units
[02:50:12] + No unsent completed units remaining.
[02:50:12] - Autosend completed
[03:21:53] Completed 217500 out of 250000 steps (87%)
[04:25:40] Completed 220000 out of 250000 steps (88%)
[05:29:25] Completed 222500 out of 250000 steps (89%)
[06:33:16] Completed 225000 out of 250000 steps (90%)
[07:37:03] Completed 227500 out of 250000 steps (91%)
[08:40:49] Completed 230000 out of 250000 steps (92%)
[08:50:12] - Autosending finished units... [October 23 08:50:12 UTC]
[08:50:12] Trying to send all finished work units
[08:50:12] + No unsent completed units remaining.
[08:50:12] - Autosend completed
[09:44:41] Completed 232500 out of 250000 steps (93%)
[10:48:29] Completed 235000 out of 250000 steps (94%)
[11:52:23] Completed 237500 out of 250000 steps (95%)
[12:56:08] Completed 240000 out of 250000 steps (96%)
[13:59:57] Completed 242500 out of 250000 steps (97%)
[14:50:12] - Autosending finished units... [October 23 14:50:12 UTC]
[14:50:12] Trying to send all finished work units
[14:50:12] + No unsent completed units remaining.
[14:50:12] - Autosend completed
[15:03:54] Completed 245000 out of 250000 steps (98%)
[16:07:39] Completed 247500 out of 250000 steps (99%)
[17:11:32] Completed 250000 out of 250000 steps (100%)
Writing final coordinates.
Average load imbalance: 3.2 %
Part of the total run time spent waiting due to load imbalance: 1.1 %
Parallel run - timing based on wallclock.
NODE (s) Real (s) (%)
Time: 224458.061 224458.061 100.0
2d14h20:58
(Mnbf/s) (GFlops) (ns/day) (hour/ns)
Performance: 568.373 29.899 0.225 106.532
Thanx for Using GROMACS - Have a Nice Day
[17:11:58] DynamicWrapper: Finished Work Unit: sleep=10000
[17:12:08]
[17:12:08] Finished Work Unit:
[17:12:08] - Reading up to 121544064 from "work/wudata_02.trr": Read 121544064
[17:12:10] trr file hash check passed.
[17:12:10] - Reading up to 108872964 from "work/wudata_02.xtc": Read 108872964
[17:12:11] xtc file hash check passed.
[17:12:11] edr file hash check passed.
[17:12:11] logfile size: 237728
[17:12:11] Leaving Run
[17:12:14] - Writing 230827748 bytes of core data to disk...
[17:13:34] Done: 230827236 -> 222473512 (compressed to 3.3 percent)
[17:13:34] ... Done.
[17:15:38] - Shutting down core
[17:15:38]
[17:15:38] Folding@home Core Shutdown: FINISHED_UNIT
[17:15:51] CoreStatus = 64 (100)
[17:15:51] Unit 2 finished with 74 percent of time to deadline remaining.
[17:15:51] Updated performance fraction: 0.733084
[17:15:51] Sending work to server
[17:15:51] Project: 6904 (Run 2, Clone 35, Gen 21)
[17:15:51] + Attempting to send results [October 23 17:15:51 UTC]
[17:15:51] - Reading file work/wuresults_02.dat from core
[17:15:51] (Read 222474024 bytes from disk)
[17:15:51] Connecting to http://130.237.232.237:8080/
[17:15:51] - Couldn't send HTTP request to server
[17:15:51] + Could not connect to Work Server (results)
[17:15:51] (130.237.232.237:8080)
[17:15:51] + Retrying using alternative port
[17:15:51] Connecting to http://130.237.232.237:80/
[17:15:51] - Couldn't send HTTP request to server
[17:15:51] + Could not connect to Work Server (results)
[17:15:51] (130.237.232.237:80)
[17:15:51] - Error: Could not transmit unit 02 (completed October 23) to work server.
[17:15:51] - 1 failed uploads of this unit.
[17:15:51] Keeping unit 02 in queue.
[17:15:51] Trying to send all finished work units
[17:15:51] Project: 6904 (Run 2, Clone 35, Gen 21)
[17:15:51] + Attempting to send results [October 23 17:15:51 UTC]
[17:15:51] - Reading file work/wuresults_02.dat from core
[17:15:51] (Read 222474024 bytes from disk)
[17:15:51] Connecting to http://130.237.232.237:8080/
[17:15:51] - Couldn't send HTTP request to server
[17:15:51] + Could not connect to Work Server (results)
[17:15:51] (130.237.232.237:8080)
[17:15:51] + Retrying using alternative port
[17:15:51] Connecting to http://130.237.232.237:80/
[17:15:51] - Couldn't send HTTP request to server
[17:15:51] + Could not connect to Work Server (results)
[17:15:51] (130.237.232.237:80)
[17:15:51] - Error: Could not transmit unit 02 (completed October 23) to work server.
[17:15:51] - 2 failed uploads of this unit.
[17:15:51] + Attempting to send results [October 23 17:15:51 UTC]
[17:15:51] - Reading file work/wuresults_02.dat from core
[17:15:52] (Read 222474024 bytes from disk)
[17:15:52] Connecting to http://130.237.165.141:8080/
[17:15:52] - Couldn't send HTTP request to server
[17:15:52] + Could not connect to Work Server (results)
[17:15:52] (130.237.165.141:8080)
[17:15:52] + Retrying using alternative port
[17:15:52] Connecting to http://130.237.165.141:80/
[17:15:52] - Couldn't send HTTP request to server
[17:15:52] + Could not connect to Work Server (results)
[17:15:52] (130.237.165.141:80)
[17:15:52] Could not transmit unit 02 to Collection server; keeping in queue.
[17:15:52] + Sent 0 of 1 completed units to the server
[17:15:52] - Preparing to get new work unit...
[17:15:52] Cleaning up work directory
[17:15:52] + Attempting to get work packet
[17:15:52] Passkey found
[17:15:52] - Will indicate memory of 3500 MB
[17:15:52] - Connecting to assignment server
[17:15:52] Connecting to http://assign.stanford.edu:8080/
[17:15:52] Posted data.
[17:15:52] Initial: ED82; - Successful: assigned to (130.237.232.237).
[17:15:52] + News From Folding@Home: Welcome to Folding@Home
[17:15:52] Loaded queue successfully.
[17:15:52] Sent data
[17:15:52] Connecting to http://130.237.232.237:8080/
[17:16:05] Posted data.
[17:16:05] Initial: 0000; - Receiving payload (expected size: 57215436)
[17:16:39] - Downloaded at ~1643 kB/s
[17:16:39] - Averaged speed for that direction ~1730 kB/s
[17:16:39] + Received work.
[17:16:39] Trying to send all finished work units
[17:16:39] Project: 6904 (Run 2, Clone 35, Gen 21)
[17:16:39] + Attempting to send results [October 23 17:16:39 UTC]
[17:16:39] - Reading file work/wuresults_02.dat from core
[17:16:39] (Read 222474024 bytes from disk)
[17:16:39] Connecting to http://130.237.232.237:8080/
[17:16:39] - Couldn't send HTTP request to server
[17:16:39] + Could not connect to Work Server (results)
[17:16:39] (130.237.232.237:8080)
[17:16:39] + Retrying using alternative port
[17:16:39] Connecting to http://130.237.232.237:80/
[17:16:39] - Couldn't send HTTP request to server
[17:16:39] + Could not connect to Work Server (results)
[17:16:39] (130.237.232.237:80)
[17:16:39] - Error: Could not transmit unit 02 (completed October 23) to work server.
[17:16:39] - 3 failed uploads of this unit.
[17:16:39] + Attempting to send results [October 23 17:16:39 UTC]
[17:16:39] - Reading file work/wuresults_02.dat from core
[17:16:39] (Read 222474024 bytes from disk)
[17:16:39] Connecting to http://130.237.165.141:8080/
[17:16:39] - Couldn't send HTTP request to server
[17:16:39] + Could not connect to Work Server (results)
[17:16:39] (130.237.165.141:8080)
[17:16:39] + Retrying using alternative port
[17:16:39] Connecting to http://130.237.165.141:80/
[17:16:39] - Couldn't send HTTP request to server
[17:16:39] + Could not connect to Work Server (results)
[17:16:39] (130.237.165.141:80)
[17:16:39] Could not transmit unit 02 to Collection server; keeping in queue.
[17:16:39] + Sent 0 of 1 completed units to the server
[17:16:39] + Closed connections
[17:16:39]
[17:16:39] + Processing work unit
[17:16:39] Core required: FahCore_a5.exe
[17:16:39] Core found.
[17:16:39] Working on queue slot 03 [October 23 17:16:39 UTC]
[17:16:39] + Working ...
[17:16:39] - Calling './FahCore_a5.exe -dir work/ -nice 19 -suffix 03 -np 16 -checkpoint 10 -verbose -lifeline 1898 -version 634'