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World Community Grid Forums
Category: Completed Research
Forum: Microbiome Immunity Project
Thread: Batch 4786 errors - reading of AtomPair failed |
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Thread Status: Active Total posts in this thread: 10
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PMH_UK
Veteran Cruncher UK Joined: Apr 26, 2007 Post Count: 786 Status: Offline Project Badges: 
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All 9 batch 4786 workunits I got errored with message - reading of AtomPair failed
----------------------------------------Mine were on Linux but re-send failed same on Windows. Result Name OS type OS version App Version Number Status Sent Time Time Due / Return Time CPU Time / Elapsed Time (hours) Claimed/ Granted BOINC Credit MIP1_ 00004786_ 0053_ 2-- Linux 3.2.0-126-generic - In Progress 9/19/17 21:01:20 9/29/17 21:01:20 0.00 0.0 / 0.0 MIP1_ 00004786_ 0053_ 1-- Microsoft Windows 8.1 x64 Edition, (06.03.9600.00) 711 Error 9/19/17 19:15:00 9/19/17 21:01:14 0.00 0.2 / 0.0 MIP1_ 00004786_ 0053_ 0-- Linux 3.13.0-119-generic 711 Error 9/19/17 17:20:27 9/19/17 19:14:51 0.00 0.0 / 0.0 Result Log Result Name: MIP1_ 00004786_ 0053_ 0-- <core_client_version>7.2.42</core_client_version> <![CDATA[ <message> process exited with code 1 (0x1, -255) </message> <stderr_txt> [2017- 9-19 20:15:18:] :: BOINC:: Initializing ... ok. [2017- 9-19 20:15:18:] :: BOINC :: boinc_init() INFO: result number = 0 BOINC:: Setting up shared resources ... ok. BOINC:: Setting up semaphores ... ok. BOINC:: Updating status ... ok. BOINC:: Registering timer callback... ok. BOINC:: Worker initialized successfully. command: ../../projects/www.worldcommunitygrid.org/wcgrid_mip1_rosetta_7.11_x86_64-pc-linux-gnu -in::file::zip MIP1_databasev2.zip @./MIP1_00004786.flags -out::file::silent result_silent.out -run:jran 999204918 -nstruct 24 -out::level 100 -run::no_scorefile true Registering options.. Registered extra options. Initializing broker options ... Registered extra options. Initializing core... Initializing options.... ok Options::initialize() Options::adding_options() Options::initialize() Check specs. Options::initialize() End reached Loaded options.... ok Processed options.... ok Initializing random generators... ok Initialization complete. Setting WU description ... Unpacking zip data: ../../projects/www.worldcommunitygrid.org/mip1.MIP1_databasev2.zip Setting database description ... Setting up checkpointing ... Setting up graphics native ... set_shared_memory_fully_initialized ... abrelax ... abrelax.run Setting up folding (abrelax) ... ERROR: ERROR: reading of AtomPair failed. ERROR:: Exit from: src/core/scoring/constraints/ConstraintIO.cc line: 569 [0x2e6a9e1] [0x445f56d] [0x36a4048] [0x36a432d] [0x36a4410] [0x36a8b6e] [0xfa5862] [0xfa8344] [0xfb17c2] [0x411ed4] [0x4795614] [0x4795746] [0x9658e6] BOINC:: Error reading and gzipping output datafile: default.out 20:15:21 (5708): called boinc_finish(1) </stderr_txt> ]]> Result Name: MIP1_ 00004786_ 0053_ 1-- <core_client_version>7.2.47</core_client_version> <![CDATA[ <message> Incorrect function. (0x1) - exit code 1 (0x1) </message> <stderr_txt> [2017- 9-19 16:58:58:] :: BOINC:: Initializing ... ok. [2017- 9-19 16:58:58:] :: BOINC :: boinc_init() INFO: result number = 1 BOINC:: Setting up shared resources ... ok. BOINC:: Setting up semaphores ... ok. BOINC:: Updating status ... ok. BOINC:: Registering timer callback... ok. BOINC:: Worker initialized successfully. command: projects/www.worldcommunitygrid.org/wcgrid_mip1_rosetta_7.11_windows_intelx86 -in::file::zip MIP1_databasev2.zip @./MIP1_00004786.flags -out::file::silent result_silent.out -run:jran 999204918 -nstruct 24 -out::level 100 -run::no_scorefile true Registering options.. Registered extra options. Initializing broker options ... Registered extra options. Initializing core... Initializing options.... ok Options::initialize() Options::adding_options() Options::initialize() Check specs. Options::initialize() End reached Loaded options.... ok Processed options.... ok Initializing random generators... ok Initialization complete. Initializing options.... ok Options::initialize() Options::adding_options() Options::initialize() Check specs. Options::initialize() End reached Loaded options.... ok Processed options.... ok Initializing random generators... ok Initialization complete. Unpacking zip data: ../../projects/www.worldcommunitygrid.org/mip1.MIP1_databasev2.zip Setting database description ... Setting up checkpointing ... abrelax ... abrelax.run Setting up folding (abrelax) ... ERROR: ERROR: reading of AtomPair failed. ERROR:: Exit from: ..\..\..\src\core\scoring\constraints\ConstraintIO.cc line: 569 BOINC:: Error reading and gzipping output datafile: default.out 16:59:18 (7372): called boinc_finish(1) </stderr_txt> ]]> Paul.
Paul.
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Former Member
Cruncher Joined: May 22, 2018 Post Count: 0 Status: Offline |
Seeing the same error on a lot of resends.
----------------------------------------Result Name: MIP1_ 00004786_ 0302_ 1-- <core_client_version>7.2.42</core_client_version> <![CDATA[ <message> process exited with code 1 (0x1, -255) </message> <stderr_txt> [2017- 9-20 13:29:33:] :: BOINC:: Initializing ... ok. [2017- 9-20 13:29:33:] :: BOINC :: boinc_init() INFO: result number = 1 BOINC:: Setting up shared resources ... ok. BOINC:: Setting up semaphores ... ok. BOINC:: Updating status ... ok. BOINC:: Registering timer callback... ok. BOINC:: Worker initialized successfully. command: ../../projects/www.worldcommunitygrid.org/wcgrid_mip1_rosetta_7.11_x86_64-pc-linux-gnu -in::file::zip MIP1_databasev2.zip @./MIP1_00004786.flags -out::file::silent result_silent.out -run:jran 184234649 -nstruct 24 -out::level 100 -run::no_scorefile true Registering options.. Registered extra options. Initializing broker options ... Registered extra options. Initializing core... Initializing options.... ok Options::initialize() Options::adding_options() Options::initialize() Check specs. Options::initialize() End reached Loaded options.... ok Processed options.... ok Initializing random generators... ok Initialization complete. Setting WU description ... Unpacking zip data: ../../projects/www.worldcommunitygrid.org/mip1.MIP1_databasev2.zip Setting database description ... Setting up checkpointing ... Setting up graphics native ... set_shared_memory_fully_initialized ... abrelax ... abrelax.run Setting up folding (abrelax) ... ERROR: ERROR: reading of AtomPair failed. ERROR:: Exit from: src/core/scoring/constraints/ConstraintIO.cc line: 569 [0x2e6a9e1] [0x445f56d] [0x36a4048] [0x36a432d] [0x36a4410] [0x36a8b6e] [0xfa5862] [0xfa8344] [0xfb17c2] [0x411ed4] [0x4795614] [0x4795746] [0x9658e6] BOINC:: Error reading and gzipping output datafile: default.out 13:29:35 (8338): called boinc_finish(1) </stderr_txt> ===================================== All get the same error so far, more to come. MIP1_ 00004802_ 0203_ 2 MIP1_ 00004802_ 0241_ 1 MIP1_ 00004802_ 0221_ 1 MIP1_ 00004803_ 0007_0 MIP1_ 00004803_ 0026_ 0 MIP1_ 00004802_ 0387_ 2 MIP1_ 00004809_ 0389_ 0 MIP1_ 00004809_ 0390_ 0 MIP1_ 00004809_ 0123_ 0 MIP1_ 00004809_ 0388_ 0 MIP1_ 00004809_ 0394_ 0 MIP1_ 00004791_ 0258_ 1 MIP1_ 00004855_ 0258_ 0 MIP1_ 00004855_ 0257_ 0 MIP1_ 00004855_ 0247_ 0 [Edit 6 times, last edit by Former Member at Sep 20, 2017 10:32:04 AM] |
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mito7
Advanced Cruncher Slovakia Joined: Oct 12, 2008 Post Count: 58 Status: Offline Project Badges: 
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I have got 47 that errored out throughout the night.
----------------------------------------From batches: 4783, 4784, 4786, 4791, 4793, 4801, 4802, 4804, 4807, 4808, 4809, 4811, 4813, 4819, 4826, 4828  |
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TPCBF
Master Cruncher USA Joined: Jan 2, 2011 Post Count: 2173 Status: Offline Project Badges: 
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When I noticed this evening that my "production", which had been fairly stable since the last WU outage, had dropped off more than the usual variation, I noticed as well that a quite a number of WUs (from different batches) all are failing within seconds
ERROR: ERROR: reading of AtomPair failed. Ralf  |
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Snowweasel
Cruncher United States Joined: Nov 22, 2005 Post Count: 33 Status: Offline Project Badges: 
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I think there must have been a bad batch or some issue on the server end. I've had over 50 quit almost immediately due to "computational errors" but have 2 previous files running fine.
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Mumak
Senior Cruncher Joined: Dec 7, 2012 Post Count: 477 Status: Offline Project Badges:
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4792, 4817, 4818, 4830, 4835, 4847, 4856, 4863 affected too.
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armstrdj
Former World Community Grid Tech Joined: Oct 21, 2004 Post Count: 695 Status: Offline Project Badges:
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Thanks for reporting we are investigating.
Thanks, armstrdj |
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armstrdj
Former World Community Grid Tech Joined: Oct 21, 2004 Post Count: 695 Status: Offline Project Badges:
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We are stopping the sending out of new work until we determine the issue and can clean up the problem workunits.
Thanks, armstrdj |
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TPCBF
Master Cruncher USA Joined: Jan 2, 2011 Post Count: 2173 Status: Offline Project Badges:
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We are stopping the sending out of new work until we determine the issue and can clean up the problem workunits. Thank you, hope you find the reason(s) soon...Thanks, armstrdj Ralf |
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armstrdj
Former World Community Grid Tech Joined: Oct 21, 2004 Post Count: 695 Status: Offline Project Badges:
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Please follow this thread for updates on this issue:
https://www.worldcommunitygrid.org/forums/wcg/viewpostinthread?post=550013 Thanks, armstrdj |
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