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Re: Re: MPI error when run directory is a Windows network drive

From: Nick Holford <n.holford>
Date: Fri, 17 Jun 2011 09:54:17 +0200

Bob,

It worked for me too. Just adding -mapall option to the mpiexec and wdir
lines fixes the problem.

Thanks for reading the MPICH documentation for us :-)

Nick

On 17/06/2011 9:17 a.m., alindauer-research
>
> It works for me! Thank you very much.
>
> Andreas.
> Ferrer
> Dr. Andreas Lindauer
> Modeling & Simulation and in vivo ADME
> Dept. of Pharmacokinetics and Metabolism
> R&D Center. Ferrer Internacional S.A.
> Juan de Sada 32, 08028 Barcelona
> Tel +34 93 509 3265
> Fax +34 93 411 2764
> alindauer-research
> www.ferrergrupo.com
>
>
>
>
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> *"Bauer, Robert" <Robert.Bauer
> Enviado por: owner-nmusers
>
> 16/06/2011 19:52
>
>
> Para
> <alindauer-research
> cc
>
> Asunto
> RE: [NMusers] Re: MPI error when run directory is a Windows network
> drive
>
>
>
>
>
>
>
>
>
> Nick and Andreas:
> I managed to get MPI work when running from a windows network drive by
> placing -mapall on every command line to mpiexec. For example,
>
> 1:mpiexec -mapall -wdir "%cd%" -hosts 1 localhost 1 nonmem.exe %*
> 2-[nodes]:-mapall -wdir "%cd%\worker{#-1}" -hosts 1 localhost 1
> nonmem.exe
>
> Robert J. Bauer, Ph.D.
>
> Vice President, Pharmacometrics
>
> ICON Development Solutions
>
> Tel: (215) 616-6428
>
> Mob: (925) 286-0769
>
> Email: Robert.Bauer
>
> Web: _www.icondevsolutions.com_ <outbind://242/www.icondevsolutions.com>
>
>
>
> ------------------------------------------------------------------------
> *From:* owner-nmusers
> [mailto:owner-nmusers
> *alindauer-research
> Sent:* Thursday, June 16, 2011 8:27 AM*
> To:* nmusers*
> Subject:* Re: [NMusers] Re: MPI error when run directory is a Windows
> network drive
>
>
> Nick,
>
> I am having exactly the same problem that you describe. Have you
> already found a solution?
>
> Regards, Andreas.
> Ferrer
> Dr. Andreas Lindauer
> Modeling & Simulation and in vivo ADME
> Dept. of Pharmacokinetics and Metabolism
> R&D Center. Ferrer Internacional S.A.
> Juan de Sada 32, 08028 Barcelona
> Tel +34 93 509 3265
> Fax +34 93 411 2764
> alindauer-research
> www.ferrergrupo.com
>
>
>
>
>
>
> Recicla ¿Necesita imprimir este mensaje? Protejamos el medio
> ambiente. Li cal imprimir aquest missatge? Protegim el medi ambient.
> Do you need to print this message? Let's protect the environment.
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>
> Este mensaje, y en su caso, cualquier fichero anexo al mismo, puede
> contener información confidencial, siendo para uso exclusivo del
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> a terceros sin la autorización expresa del remitente. Si Vd. ha
> recibido este mensaje erróneamente, se ruega lo notifique al remitente
> y proceda a su borrado. Gracias por su colaboración.
>
> This message and its annexed files may contain confidential
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>
>
> *Nick Holford <n.holford
> Enviado por: owner-nmusers
>
> 02/06/2011 17:39
>
>
> Para
> nmusers <nmusers
> cc
>
> Asunto
> [NMusers] Re: MPI error when run directory is a Windows network drive
>
>
>
>
>
>
>
>
>
>
>
> [This the fourth time I have sent this email but it I don't see it
> appearing on nmusers. Sorry if this is the third time for you. Would
> someone please contact me if they see this?]
>
> On 2/06/2011 5:03 a.m., Nick Holford wrote:
> >
> > Hi,
> >
> > I can use nmfe72 to perform an MPI run when executed from the host
> > local C: drive but when I use exactly the same files (control stream
> > file, data file, parafile) copied to a network drive I get an error
> > about the parafile being missing.
> >
> > I'm using NM7.2.0 on WinSrvEnt2003. I get the same error with Intel
> > 11.1 or gfortran compiled versions. Hard coding the run directory in
> > the parafile instead of using %cd% has the same error.
> > nmfe72 without a parafile option works OK with the network drive run
> > directory.
> >
> > Has anyone else had success in getting mpi to execute with a Windows
> > network drive as the run directory?
> >
> > nmfe72 theopd.ctl theopd.lst "-parafile=mpi2.pnm"
> > [...]
> >
> > USING PARALLEL PROFILE mpi2.pnm
> >
> > MPI TRANSFER TYPE SELECTED
> >
> > Starting MPI version of nonmem execution ...
> >
> > PARAFILE NOT FOUND: mpi2.pnm
> >
> >
> > ============= mpi2.pnm ========================
> > $DEFAULTS
> > [nodes]=2
> > $GENERAL
> > NODES=[nodes] PARSE_TYPE=2 PARSE_NUM=200 TIMEOUTI=600 TIMEOUT=1000
> > PARAPRINT=0 TRANSFER_TYPE=1
> > $COMMANDS
> > 1:mpiexec -wdir "%cd%" -hosts 1 localhost 1 <<nmexec>> %*
> > 2-[nodes]:-wdir "%cd%\worker{#-1}" -hosts 1 localhost 1 <<nmexec>>
> > $DIRECTORIES
> > 1:NONE ; FIRST DIRECTORY IS THE COMMON DIRECTORY
> > 2-[nodes]:worker{#-1} ; NEXT SET ARE THE WORKER directories
> >
> > ============= nmmpi.bat created by nmfe72 ========================
> > mpiexec -wdir "%cd%" -hosts 1 localhost 1 nonmem.exe %* : ^
> > -wdir "%cd%\worker1" -hosts 1 localhost 1 nonmem.exe
> >
> >
> >
> >
> >
> >
> > --
> > Nick Holford, Professor Clinical Pharmacology
> > Dept Pharmacology& Clinical Pharmacology
> > University of Auckland,85 Park Rd,Private Bag 92019,Auckland,New Zealand
> > tel:+64(9)923-6730 fax:+64(9)373-7090 mobile:+64(21)46 23 53
> > email:n.holford
> > _http://www.fmhs.auckland.ac.nz/sms/pharmacology/holford
>
> --
> Nick Holford, Professor Clinical Pharmacology
> Dept Pharmacology& Clinical Pharmacology
> University of Auckland,85 Park Rd,Private Bag 92019,Auckland,New Zealand
> tel:+64(9)923-6730 fax:+64(9)373-7090 mobile:+64(21)46 23 53
> email:n.holford
> __http://www.fmhs.auckland.ac.nz/sms/pharmacology/holford
> _
>
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--
Nick Holford, Professor Clinical Pharmacology
Dept Pharmacology& Clinical Pharmacology
University of Auckland,85 Park Rd,Private Bag 92019,Auckland,New Zealand
tel:+64(9)923-6730 fax:+64(9)373-7090 mobile:+64(21)46 23 53
email: n.holford
http://www.fmhs.auckland.ac.nz/sms/pharmacology/holford
Received on Fri Jun 17 2011 - 03:54:17 EDT

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