April 2014 - discuss - mailman3.cels.anl.gov

Re: [mpich-discuss] illegal ioctl
by Lu, Huiwei 20 Apr '14

20 Apr '14

It’s possible your system is running out of memory or other system resources that cause the MPI job to abort. — Huiwei Lu Postdoc Appointee Mathematics and Computer Science Division, Argonne National Laboratory http://www.mcs.anl.gov/~huiweilu/ On Apr 20, 2014, at 9:49 AM, Balaji, Pavan <balaji(a)anl.gov> wrote: > > This is not an MPICH problem. It means that your application is asking MPICH to kill it using “MPI_Abort”. > > — Pavan > > On Apr 20, 2014, at 7:48 AM, Hans-Joachim Werner <werner(a)theochem.uni-stuttgart.de> wrote: > >> On my system large jobs die with messages like this: >> >> Last System Error Message from Task 3:: Inappropriate ioctl for device >> application called MPI_Abort(comm=0x84000004, 11) - process 3 >> >> Does anybody know how this can be avoided? Maybe a stack overflow? >> >> Joachim Werner >> >> >> >> _______________________________________________ >> discuss mailing list discuss(a)mpich.org >> To manage subscription options or unsubscribe: >> https://lists.mpich.org/mailman/listinfo/discuss > > _______________________________________________ > discuss mailing list discuss(a)mpich.org > To manage subscription options or unsubscribe: > https://lists.mpich.org/mailman/listinfo/discuss

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Re: [mpich-discuss] illegal ioctl
by Balaji, Pavan 20 Apr '14

20 Apr '14

This is not an MPICH problem. It means that your application is asking MPICH to kill it using “MPI_Abort”. — Pavan On Apr 20, 2014, at 7:48 AM, Hans-Joachim Werner <werner(a)theochem.uni-stuttgart.de> wrote: > On my system large jobs die with messages like this: > > Last System Error Message from Task 3:: Inappropriate ioctl for device > application called MPI_Abort(comm=0x84000004, 11) - process 3 > > Does anybody know how this can be avoided? Maybe a stack overflow? > > Joachim Werner > > > > _______________________________________________ > discuss mailing list discuss(a)mpich.org > To manage subscription options or unsubscribe: > https://lists.mpich.org/mailman/listinfo/discuss

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illegal ioctl
by Hans-Joachim Werner 20 Apr '14

20 Apr '14

On my system large jobs die with messages like this: Last System Error Message from Task 3:: Inappropriate ioctl for device application called MPI_Abort(comm=0x84000004, 11) - process 3 Does anybody know how this can be avoided? Maybe a stack overflow? Joachim Werner

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Re: [mpich-discuss] Problem met when installing mpich on a linux server
by Balaji, Pavan 19 Apr '14

19 Apr '14

Are you installing mpich on an NFS mounted directory? My guess is that the time stamps are screwed up. Can you delete the mpich directory and untar from the tarball once again? — Pavan On Apr 19, 2014, at 11:04 PM, Fenglei Qi <fqi(a)iastate.edu> wrote: > Hi Balaji, > > The problem is still there after passing -disable-maintainer-model. I attched c.txt and m.txt below. > > > On Sat, Apr 19, 2014 at 10:49 PM, Balaji, Pavan <balaji(a)anl.gov> wrote: > > Which version of mpich are you using? This typically happens when you have a timestamp mismatch and make thinks it needs to rerun autotools. You can try passing --disable-maintainer-mode to configure to help with that. > > — Pavan > > On Apr 19, 2014, at 10:47 PM, Fenglei Qi <fqi(a)iastate.edu> wrote: > > > Hi all, > > > > I tried to install mpich on a server with redhat system. I can configure mpich successfully but I met problems when I tried to build mpich. It threw out a warning: 'aclocal-1.14' is missing on your system. I checked the system and I found out that my system only has aclocal-1.11. Since I don't have privilege to install software so I can't update it. Any suggestion for further installation? I attached m.txt and c.txt below. Thanks. > > > > -- > > Fenglei Qi > > > > Research Assistant > > Mechanical Engineering > > Iowa State University > > _______________________________________________ > > discuss mailing list discuss(a)mpich.org > > To manage subscription options or unsubscribe: > > https://lists.mpich.org/mailman/listinfo/discuss > > _______________________________________________ > discuss mailing list discuss(a)mpich.org > To manage subscription options or unsubscribe: > https://lists.mpich.org/mailman/listinfo/discuss > > > > -- > Fenglei Qi > > Research Assistant > Mechanical Engineering > Iowa State University > <m.txt><c.txt>_______________________________________________ > discuss mailing list discuss(a)mpich.org > To manage subscription options or unsubscribe: > https://lists.mpich.org/mailman/listinfo/discuss

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Re: [mpich-discuss] Problem met when installing mpich on a linux server
by Fenglei Qi 19 Apr '14

19 Apr '14

Hi Balaji, The problem is still there after passing -disable-maintainer-model. I attched c.txt and m.txt below. On Sat, Apr 19, 2014 at 10:49 PM, Balaji, Pavan <balaji(a)anl.gov> wrote: > > Which version of mpich are you using? This typically happens when you > have a timestamp mismatch and make thinks it needs to rerun autotools. You > can try passing --disable-maintainer-mode to configure to help with that. > > — Pavan > > On Apr 19, 2014, at 10:47 PM, Fenglei Qi <fqi(a)iastate.edu> wrote: > > > Hi all, > > > > I tried to install mpich on a server with redhat system. I can configure > mpich successfully but I met problems when I tried to build mpich. It threw > out a warning: 'aclocal-1.14' is missing on your system. I checked the > system and I found out that my system only has aclocal-1.11. Since I don't > have privilege to install software so I can't update it. Any suggestion for > further installation? I attached m.txt and c.txt below. Thanks. > > > > -- > > Fenglei Qi > > > > Research Assistant > > Mechanical Engineering > > Iowa State University > > _______________________________________________ > > discuss mailing list discuss(a)mpich.org > > To manage subscription options or unsubscribe: > > https://lists.mpich.org/mailman/listinfo/discuss > > _______________________________________________ > discuss mailing list discuss(a)mpich.org > To manage subscription options or unsubscribe: > https://lists.mpich.org/mailman/listinfo/discuss > -- *Fenglei Qi* Research Assistant Mechanical Engineering Iowa State University

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Re: [mpich-discuss] Problem met when installing mpich on a linux server
by Fenglei Qi 19 Apr '14

19 Apr '14

Hi Pavan, I'm using MPICH-3.1. I will try with your method. Thanks On Sat, Apr 19, 2014 at 10:49 PM, Balaji, Pavan <balaji(a)anl.gov> wrote: > > Which version of mpich are you using? This typically happens when you > have a timestamp mismatch and make thinks it needs to rerun autotools. You > can try passing --disable-maintainer-mode to configure to help with that. > > — Pavan > > On Apr 19, 2014, at 10:47 PM, Fenglei Qi <fqi(a)iastate.edu> wrote: > > > Hi all, > > > > I tried to install mpich on a server with redhat system. I can configure > mpich successfully but I met problems when I tried to build mpich. It threw > out a warning: 'aclocal-1.14' is missing on your system. I checked the > system and I found out that my system only has aclocal-1.11. Since I don't > have privilege to install software so I can't update it. Any suggestion for > further installation? I attached m.txt and c.txt below. Thanks. > > > > -- > > Fenglei Qi > > > > Research Assistant > > Mechanical Engineering > > Iowa State University > > _______________________________________________ > > discuss mailing list discuss(a)mpich.org > > To manage subscription options or unsubscribe: > > https://lists.mpich.org/mailman/listinfo/discuss > > _______________________________________________ > discuss mailing list discuss(a)mpich.org > To manage subscription options or unsubscribe: > https://lists.mpich.org/mailman/listinfo/discuss > -- *Fenglei Qi* Research Assistant Mechanical Engineering Iowa State University

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Problem met when installing mpich on a linux server
by Fenglei Qi 19 Apr '14

19 Apr '14

Hi all, I tried to install mpich on a server with redhat system. I can configure mpich successfully but I met problems when I tried to build mpich. It threw out a warning: 'aclocal-1.14' is missing on your system. I checked the system and I found out that my system only has aclocal-1.11. Since I don't have privilege to install software so I can't update it. Any suggestion for further installation? I attached m.txt and c.txt below. Thanks. -- *Fenglei Qi* Research Assistant Mechanical Engineering Iowa State University

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Re: [mpich-discuss] Problem met when installing mpich on a linux server
by Balaji, Pavan 19 Apr '14

19 Apr '14

Which version of mpich are you using? This typically happens when you have a timestamp mismatch and make thinks it needs to rerun autotools. You can try passing --disable-maintainer-mode to configure to help with that. — Pavan On Apr 19, 2014, at 10:47 PM, Fenglei Qi <fqi(a)iastate.edu> wrote: > Hi all, > > I tried to install mpich on a server with redhat system. I can configure mpich successfully but I met problems when I tried to build mpich. It threw out a warning: 'aclocal-1.14' is missing on your system. I checked the system and I found out that my system only has aclocal-1.11. Since I don't have privilege to install software so I can't update it. Any suggestion for further installation? I attached m.txt and c.txt below. Thanks. > > -- > Fenglei Qi > > Research Assistant > Mechanical Engineering > Iowa State University > _______________________________________________ > discuss mailing list discuss(a)mpich.org > To manage subscription options or unsubscribe: > https://lists.mpich.org/mailman/listinfo/discuss

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Problem met when installing mpich on a linux server
by Fenglei Qi 19 Apr '14

19 Apr '14

Hi all, I tried to install mpich on a server with redhat system. I can configure mpich successfully but I met problems when I tried to build mpich. It threw out a warning: 'aclocal-1.14' is missing on your system. I checked the system and I found out that my system only has aclocal-1.11. Since I don't have privilege to install software so I can't update it. Any suggestion for further installation? I attached m.txt and c.txt below. Thanks. -- *Fenglei Qi* Research Assistant Mechanical Engineering Iowa State University

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Re: [mpich-discuss] Running mpi from bash script
by Reuti 17 Apr '14

17 Apr '14

Hi, Am 17.04.2014 um 11:35 schrieb Francisco Pastor: > The point is that I am using a program, meteorological model RAMS, that was running fine with this mpich2 version. And it runs fine from the command line. > > If the system works, should I upgrade? Will it work with my program? Can I install two different versions at the same time or should I delete the older one? Is there any chance to run Well, using a new version usually means to recompile the application to gain advantage of it. Did you compile it on your own, or is this a binary you downloaded somewhere? -- Reuti > Thanks > > El 17/04/2014 11:06, Reuti escribió: >> Hi, >> >> Am 17.04.2014 um 10:04 schrieb Francisco Pastor: >> >>> I need to daily run an mpi job from a bash script. I have prepared the script and run from the command line, this works fine. But when I try to execute at a later time with at (at -f my_script now +1 minute) the parallel processes do not start. >>> >>> These are the significant parts of my script: >>> >>> # path to mpi executables >>> ruta_mpi=/usr/local/mpich2-1.0.5p4/bin >> This version of MPICH is quite old. Please use a more recent one, where the necessity for starting an MPD beforehand does no longer exist. >> >> -- Reuti >> >> >>> # Function that checks if mpd processes are ok (checks mpdtrace output, five nodes should be up) >>> Comprueba_MPD() >>> { >>> mpdtrace > log.mpd >>> wc -l log.mpd > check.mpd >>> check1=`awk '{ print $1 }' check.mpd` >>> if [ $check1 -eq 5 ]; >>> then >>> echo "Salida de mpdtrace correcta, hosts=$check1" >>> else >>> echo "Salida de mpdtrace incorrecta, hosts=$check1" >>> $ruta_mpi/mpdboot -n 5 & >>> sleep 10 >>> mpdtrace >>> fi >>> } >>> >>> >>> # Run rams60 program with mpirun >>> time $ruta_mpi/mpirun -n 21 ./rams60 -f RAMSIN.operatiu >>> >>> I am sure missing something but I can't find out what's going on. >>> >>> Thanks in advance >>> >>> -- >>> ----------- >>> Dr. Francisco Pastor >>> Meteorology department, Instituto Universitario CEAM-UMH >>> http://www.ceam.es >>> ----------- >>> Mendeley profile: http://www.mendeley.com/profiles/francisco-pastor1/ >>> Google Scholar: http://scholar.google.com/citations?user=V3mmCdkAAAAJ&hl=es >>> Researcher ID: http://www.researcherid.com/rid/B-8331-2008 >>> Cosis profile: http://www.cosis.net/profile/francisco.pastor >>> ----------- >>> mail: paco(a)ceam.es >>> skype: paco.pastor.guzman >>> ----------- >>> Parque Tecnologico, C/ Charles R. Darwin, 14 >>> 46980 PATERNA (Valencia), Spain >>> Tlf. 96 131 82 27 - Fax. 96 131 81 90 >>> >>> >>> --------------------------------------------------------------------- >>> Este mensaje y los ficheros anexos son confidenciales. Los mismos contienen información reservada de la empresa que no puede ser difundida. Si usted ha recibido este correo por error, tenga la amabilidad de eliminarlo de su sistema y avisar al remitente mediante reenvío a su dirección electrónica; no deberá copiar el mensaje ni divulgar su contenido a ninguna persona. >>> >>> Su dirección de correo electrónico junto a sus datos personales forman parte de un fichero titularidad de la Fundación de la Comunidad Valenciana Centro de Estudios Ambientales del Mediterráneo - CEAM, con CIF: G-46957213, cuya finalidad es la de mantener el contacto con Ud. De acuerdo con la Ley Orgánica 15/1999, usted puede ejercitar sus derechos de acceso, rectificación, cancelación y, en su caso, oposición enviando una solicitud por escrito, acompañada de una fotocopia de su DNI dirigida a: Fundación de la Comunidad Valenciana Centro de Estudios Ambientales del Mediterráneo - CEAM. C/ Charles R. Darwin, 14. Parque Tecnológico.46980 PATERNA (Valencia). >>> >>> This message and the attached files are confidential. They contain reserved information belonging to our centre and are not to be broadcast. If you have received this email by mistake, please delete it from your system and alert the sender by returning it to his/her email address. You must not copy or divulge the contents of the message to anyone. >>> >>> Your email address and personal data are included in a file belonging to the Fundación de la Comunidad Valenciana Centro de Estudios Ambientales del Mediterráneo - CEAM, con CIF: G-46957213. The purpose of this file is to allow us to keep in contact with you. In accordance with Organic Law 15/1999, you are permitted to access, rectify, cancel or oppose the contents of this file by submitting a written request, accompanied by a photocopy of your DNI, to: Fundación de la Comunidad Valenciana Centro de Estudios Ambientales del Mediterráneo - CEAM. C/ Charles R. Darwin, 14. Parque Tecnológico.46980 PATERNA (Valencia). >>> >>> >>> >>> _______________________________________________ >>> discuss mailing list discuss(a)mpich.org >>> To manage subscription options or unsubscribe: >>> https://lists.mpich.org/mailman/listinfo/discuss >>> >> _______________________________________________ >> discuss mailing list discuss(a)mpich.org >> To manage subscription options or unsubscribe: >> https://lists.mpich.org/mailman/listinfo/discuss >> >> > > -- > ----------- > Dr. Francisco Pastor > Meteorology department, Instituto Universitario CEAM-UMH > http://www.ceam.es > ----------- > Mendeley profile: http://www.mendeley.com/profiles/francisco-pastor1/ > Google Scholar: http://scholar.google.com/citations?user=V3mmCdkAAAAJ&hl=es > Researcher ID: http://www.researcherid.com/rid/B-8331-2008 > Cosis profile: http://www.cosis.net/profile/francisco.pastor > ----------- > mail: paco(a)ceam.es > skype: paco.pastor.guzman > ----------- > Parque Tecnologico, C/ Charles R. Darwin, 14 > 46980 PATERNA (Valencia), Spain > Tlf. 96 131 82 27 - Fax. 96 131 81 90 > > > --------------------------------------------------------------------- > Este mensaje y los ficheros anexos son confidenciales. Los mismos contienen información reservada de la empresa que no puede ser difundida. Si usted ha recibido este correo por error, tenga la amabilidad de eliminarlo de su sistema y avisar al remitente mediante reenvío a su dirección electrónica; no deberá copiar el mensaje ni divulgar su contenido a ninguna persona. > > Su dirección de correo electrónico junto a sus datos personales forman parte de un fichero titularidad de la Fundación de la Comunidad Valenciana Centro de Estudios Ambientales del Mediterráneo - CEAM, con CIF: G-46957213, cuya finalidad es la de mantener el contacto con Ud. De acuerdo con la Ley Orgánica 15/1999, usted puede ejercitar sus derechos de acceso, rectificación, cancelación y, en su caso, oposición enviando una solicitud por escrito, acompañada de una fotocopia de su DNI dirigida a: Fundación de la Comunidad Valenciana Centro de Estudios Ambientales del Mediterráneo - CEAM. C/ Charles R. Darwin, 14. Parque Tecnológico.46980 PATERNA (Valencia). > > This message and the attached files are confidential. They contain reserved information belonging to our centre and are not to be broadcast. If you have received this email by mistake, please delete it from your system and alert the sender by returning it to his/her email address. You must not copy or divulge the contents of the message to anyone. > > Your email address and personal data are included in a file belonging to the Fundación de la Comunidad Valenciana Centro de Estudios Ambientales del Mediterráneo - CEAM, con CIF: G-46957213. The purpose of this file is to allow us to keep in contact with you. In accordance with Organic Law 15/1999, you are permitted to access, rectify, cancel or oppose the contents of this file by submitting a written request, accompanied by a photocopy of your DNI, to: Fundación de la Comunidad Valenciana Centro de Estudios Ambientales del Mediterráneo - CEAM. C/ Charles R. Darwin, 14. Parque Tecnológico.46980 PATERNA (Valencia). > > > > _______________________________________________ > discuss mailing list discuss(a)mpich.org > To manage subscription options or unsubscribe: > https://lists.mpich.org/mailman/listinfo/discuss >

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