Code: Select all
[19:33:10] Project: 7504 (Run 19, Clone 11, Gen 0)
[19:33:10]
[19:33:10] Assembly optimizations on if available.
[19:33:10] Entering M.D.
:-) 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 (-:
Reading file work/wudata_07.tpr, VERSION 4.5.3-dev-20101129-58a6b (single precision)
Starting 8 threads
Making 2D domain decomposition 4 x 2 x 1
starting mdrun 'KPC in water'
500000 steps, 2000.0 ps.
[19:33:16] Mapping NT from 8 to 8
[19:33:16] Completed 0 out of 500000 steps (0%)
Step 6, time 0.024 (ps) LINCS WARNING
relative constraint deviation after LINCS:
rms 0.008367, max 0.214761 (between atoms 2120 and 2121)
bonds that rotated more than 90 degrees:
atom 1 atom 2 angle previous, current, constraint length
2120 2121 101.2 0.0919 0.1120 0.0922
2126 2127 99.4 0.0921 0.1008 0.0922
Step 7, time 0.028 (ps) LINCS WARNING
relative constraint deviation after LINCS:
rms 0.002713, max 0.066975 (between atoms 2126 and 2127)
bonds that rotated more than 90 degrees:
atom 1 atom 2 angle previous, current, constraint length
2126 2127 92.1 0.1008 0.0983 0.0922
Step 8, time 0.032 (ps) LINCS WARNING
relative constraint deviation after LINCS:
rms 0.005786, max 0.127879 (between atoms 2120 and 2121)
bonds that rotated more than 90 degrees:
atom 1 atom 2 angle previous, current, constraint length
2120 2121 97.4 0.0931 0.1039 0.0922
2126 2127 98.2 0.0983 0.1016 0.0922
Step 9, time 0.036 (ps) LINCS WARNING
relative constraint deviation after LINCS:
rms 0.006935, max 0.194229 (between atoms 2126 and 2127)
bonds that rotated more than 90 degrees:
atom 1 atom 2 angle previous, current, constraint length
2126 2127 101.1 0.1016 0.1101 0.0922
NOTE: Turning on dynamic load balancing
Step 10, time 0.04 (ps) LINCS WARNING
relative constraint deviation after LINCS:
rms 0.028186, max 0.840337 (between atoms 2126 and 2127)
bonds that rotated more than 90 degrees:
atom 1 atom 2 angle previous, current, constraint length
2120 2121 95.4 0.0898 0.1019 0.0922
2126 2127 123.0 0.1101 0.1696 0.0922
Step 11, time 0.044 (ps) LINCS WARNING
relative constraint deviation after LINCS:
rms 192.414480, max 3864.146240 (between atoms 2115 and 2118)
bonds that rotated more than 90 degrees:
atom 1 atom 2 angle previous, current, constraint length
2118 2126 112.3 0.2094 178.7684 0.1664
2118 2127 104.3 0.1585 174.2906 0.1664
2126 2127 117.5 0.1696 3.2380 0.0922
2136 2144 109.0 0.1522 0.9631 0.1522
2136 2138 113.3 0.1526 1.1632 0.1526
2138 2141 105.5 0.1522 0.5683 0.1522
2144 2146 107.2 0.1335 0.4836 0.1335
2144 2145 115.5 0.1229 0.2654 0.1229
2146 2148 91.7 0.1449 0.4996 0.1449
2091 2094 106.9 0.1526 1.5871 0.1526
2109 2111 107.9 0.1335 82.3349 0.1335
2109 2110 96.1 0.1229 13.1070 0.1229
2111 2113 105.6 0.1446 129.0341 0.1449
2113 2132 99.2 0.1520 178.8563 0.1522
2113 2115 95.9 0.1520 463.1650 0.1526
2132 2134 98.1 0.1335 38.1713 0.1335
2132 2133 109.8 0.1229 38.3856 0.1229
2094 2097 154.1 0.1526 0.1679 0.1526
2089 2091 130.5 0.1526 7.4305 0.1526
2069 2085 146.7 0.1522 0.3818 0.1522
2085 2087 109.7 0.1335 1.5452 0.1335
2085 2086 135.6 0.1229 0.4953 0.1229
Segmentation fault
[19:33:17] CoreStatus = 8B (139)
[19:33:17] Client-core communications error: ERROR 0x8b
[19:33:17] Deleting current work unit & continuing...
[19:33:27] Trying to send all finished work units
[19:33:27] + No unsent completed units remaining.
[19:33:27] - Preparing to get new work unit...
[19:33:27] Cleaning up work directory
[19:33:27] + Attempting to get work packet
[19:33:27] Passkey found
[19:33:27] - Will indicate memory of 3800 MB
[19:33:27] - Connecting to assignment server
[19:33:27] Connecting to http://assign.stanford.edu:8080/
[19:33:28] Posted data.
[19:33:28] Initial: 8F80; - Successful: assigned to (128.143.199.97).
[19:33:28] + News From Folding@Home: Welcome to Folding@Home
[19:33:28] Loaded queue successfully.
[19:33:28] Sent data
[19:33:28] Connecting to http://128.143.199.97:8080/
[19:33:29] Posted data.
[19:33:29] Initial: 0000; - Receiving payload (expected size: 1510591)
[19:33:32] - Downloaded at ~491 kB/s
[19:33:32] - Averaged speed for that direction ~502 kB/s
[19:33:32] + Received work.
[19:33:32] + Closed connections
[19:33:37]
[19:33:37] + Processing work unit
[19:33:37] Core required: FahCore_a3.exe
[19:33:37] Core found.
[19:33:37] Working on queue slot 08 [November 10 19:33:37 UTC]
[19:33:37] + Working ...
[19:33:37] - Calling './FahCore_a3.exe -dir work/ -nice 19 -suffix 08 -np 8 -checkpoint 30 -verbose -lifeline 1487 -version 634'
[19:33:37]
[19:33:37] *------------------------------*
[19:33:37] Folding@Home Gromacs SMP Core
[19:33:37] Version 2.27 (Dec. 15, 2010)
[19:33:37]
[19:33:37] Preparing to commence simulation
[19:33:37] - Looking at optimizations...
[19:33:37] - Created dyn
[19:33:37] - Files status OK
[19:33:38] - Expanded 1510079 -> 2700832 (decompressed 178.8 percent)
[19:33:38] Called DecompressByteArray: compressed_data_size=1510079 data_size=2700832, decompressed_data_size=2700832 diff=0
[19:33:38] - Digital signature verified
[19:33:38]
[19:33:38] Project: 7504 (Run 19, Clone 11, Gen 0)
[19:33:38]
[19:33:38] Assembly optimizations on if available.
[19:33:38] Entering M.D.
:-) 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 (-:
Reading file work/wudata_08.tpr, VERSION 4.5.3-dev-20101129-58a6b (single precision)
Starting 8 threads
Making 2D domain decomposition 4 x 2 x 1
starting mdrun 'KPC in water'
500000 steps, 2000.0 ps.
[19:33:44] Mapping NT from 8 to 8
[19:33:44] Completed 0 out of 500000 steps (0%)
Step 6, time 0.024 (ps) LINCS WARNING
relative constraint deviation after LINCS:
rms 0.008367, max 0.214761 (between atoms 2120 and 2121)
bonds that rotated more than 90 degrees:
atom 1 atom 2 angle previous, current, constraint length
2120 2121 101.2 0.0919 0.1120 0.0922
2126 2127 99.4 0.0921 0.1008 0.0922
Step 7, time 0.028 (ps) LINCS WARNING
relative constraint deviation after LINCS:
rms 0.002713, max 0.066975 (between atoms 2126 and 2127)
bonds that rotated more than 90 degrees:
atom 1 atom 2 angle previous, current, constraint length
2126 2127 92.1 0.1008 0.0983 0.0922
Step 8, time 0.032 (ps) LINCS WARNING
relative constraint deviation after LINCS:
rms 0.005786, max 0.127879 (between atoms 2120 and 2121)
bonds that rotated more than 90 degrees:
atom 1 atom 2 angle previous, current, constraint length
2120 2121 97.4 0.0931 0.1039 0.0922
2126 2127 98.2 0.0983 0.1016 0.0922
Step 9, time 0.036 (ps) LINCS WARNING
relative constraint deviation after LINCS:
rms 0.006935, max 0.194229 (between atoms 2126 and 2127)
bonds that rotated more than 90 degrees:
atom 1 atom 2 angle previous, current, constraint length
2126 2127 101.1 0.1016 0.1101 0.0922
NOTE: Turning on dynamic load balancing
Step 10, time 0.04 (ps) LINCS WARNING
relative constraint deviation after LINCS:
rms 0.028172, max 0.840337 (between atoms 2126 and 2127)
bonds that rotated more than 90 degrees:
atom 1 atom 2 angle previous, current, constraint length
2120 2121 95.4 0.0898 0.1019 0.0922
2126 2127 123.0 0.1101 0.1696 0.0922
Step 11, time 0.044 (ps) LINCS WARNING
relative constraint deviation after LINCS:
rms 192.318370, max 3864.146240 (between atoms 2115 and 2118)
bonds that rotated more than 90 degrees:
atom 1 atom 2 angle previous, current, constraint length
2118 2126 112.3 0.2094 178.7684 0.1664
2118 2127 104.3 0.1585 174.2906 0.1664
2126 2127 117.5 0.1696 3.2380 0.0922
2136 2144 109.0 0.1522 0.9631 0.1522
2136 2138 113.3 0.1526 1.1632 0.1526
2138 2141 105.5 0.1522 0.5683 0.1522
2144 2146 107.2 0.1335 0.4836 0.1335
2144 2145 115.5 0.1229 0.2654 0.1229
2146 2148 91.7 0.1449 0.4996 0.1449
2089 2091 130.5 0.1526 7.4305 0.1526
2091 2094 106.9 0.1526 1.5871 0.1526
2109 2111 107.9 0.1335 82.3349 0.1335
2109 2110 96.1 0.1229 13.1070 0.1229
2111 2113 105.6 0.1446 129.0341 0.1449
2113 2132 99.2 0.1520 178.8563 0.1522
2113 2115 95.9 0.1520 463.1650 0.1526
2132 2134 98.1 0.1335 38.1713 0.1335
2132 2133 109.8 0.1229 38.3856 0.1229
2094 2097 154.1 0.1526 0.1679 0.1526
2069 2085 146.7 0.1522 0.3818 0.1522
2085 2087 109.7 0.1335 1.5452 0.1335
2085 2086 135.6 0.1229 0.4953 0.1229
Segmentation fault
[19:33:45] CoreStatus = 8B (139)
[19:33:45] Client-core communications error: ERROR 0x8b
[19:33:45]
Folding@Home will go to sleep for 1 day as there have been 5 consecutive Cores executed which failed to complete a work unit.
[19:33:45] (To wake it up early, quit the application and restart it.)
[19:33:45] If problems persist, please visit our website at http://folding.stanford.edu for help.
[19:33:45] + Sleeping...
[19:36:56] - Autosending finished units... [November 10 19:36:56 UTC]
[19:36:56] Trying to send all finished work units
[19:36:56] + No unsent completed units remaining.
[19:36:56] - Autosend completed