Re: restart files not written.

From: Aron Broom (broomsday_at_gmail.com)
Date: Thu May 09 2013 - 20:52:19 CDT

are you out of disk space/quota?

On Thu, May 9, 2013 at 8:25 PM, Yarrow Madrona <amadrona_at_uci.edu> wrote:

> Hello NAMD Gurus,
>
> I have created 5 DCD's in succession by restarting from the previous
> restart files. Any help would be appreciated. I can't figure out why it
> can't write the restart files for the sixth run.
> However, on the sixth run i get the following error message:
>
> FINISHED WRITING RESTART COORDINATES
> WRITING VELOCITIES TO RESTART FILE AT STEP 2993000
> FINISHED WRITING RESTART VELOCITIES
> WRITING EXTENDED SYSTEM TO RESTART FILE AT STEP 2993000
> WRITING COORDINATES TO DCD FILE AT STEP 2994000
> WRITING COORDINATES TO RESTART FILE AT STEP 2994000
> FATAL ERROR: Error on write to binary file eq006.restart.coor:
> Input/output error
> [0] Stack Traceback:
> [0:0] _Z8NAMD_errPKc+0xba [0x53de7a]
> [0:1] _ZN6Output10coordinateEiiP6VectorP11FloatVectorR7Lattice+0xb5d
> [0xa00a5d]
> [0:2]
>
> _ZN24CkIndex_CollectionMaster39_call_receivePositions_CollectVectorMsgEPvP16CollectionMaster+0xcde
> [0x54fb1e]
> [0:3] _Z15_processHandlerPvP11CkCoreState+0x810 [0xb36e90]
> [0:4] CsdScheduler+0x411 [0xc37a21]
> [0:5] _ZN9ScriptTcl7Tcl_runEPvP10Tcl_InterpiPPc+0x25d [0xa77fdd]
> [0:6] TclInvokeStringCommand+0x88 [0xc8a128]
> [0:7] [0xc8cd47]
> [0:8] [0xc8e162]
> [0:9] Tcl_EvalEx+0x16 [0xc8e986]
> [0:10] Tcl_FSEvalFileEx+0x151 [0xcf0b31]
> [0:11] Tcl_EvalFile+0x2e [0xcf0cee]
> [0:12] _ZN9ScriptTcl4loadEPc+0xf [0xa7655f]
> [0:13] main+0x425 [0x541e85]
> [0:14] __libc_start_main+0xfd [0x35f4e1ecdd]
> [0:15] [0x4fafe9]
> TACC: MPI job exited with code: 1
>
> TACC: Shutdown complete. Exiting.
>
>
> 28794,1
>
>
>
>
>
>
> Bot
>
>
>
>
>
> --
> Yarrow Madrona
>
> Graduate Student
> Molecular Biology and Biochemistry Dept.
> University of California, Irvine
> Natural Sciences I, Rm 2403
> Irvine, CA 92697
>
>
>
>

-- 
Aron Broom M.Sc
PhD Student
Department of Chemistry
University of Waterloo

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