December 2013 - discuss - mailman3.cels.anl.gov

Re: [mpich-discuss] MPI_init very slow with more than 3 nodes
by "Antonio J. Peña" 03 Dec '13

03 Dec '13

Yes, it may be a good idea to look into that. Hopefully somebody in this list with NFS knowledge will give you a hint. Antonio On 12/03/2013 09:48 AM, Bixente BODO GOMEZ wrote: > I send a extract of tcpdump. It seems that the problem is in the file > attribues o locks of nfs. I changed fstab on clients to add these > options: > > nfsvers=3,rw,bg,noac,rsize=8192,wsize=8192 > > but nothing has improved. > > "Antonio J. Peï¿½a" <apenya(a)mcs.anl.gov> escribiï¿½: > >> I don't think this is helping. Maybe tcpdump / wireshark captures >> could be helpful. >> >> Antonio >> >> >> On 12/02/2013 11:44 AM, Bixente BODO GOMEZ wrote: >>> The attachment... >>> >>> >>> _______________________________________________ >>> discuss mailing list discuss(a)mpich.org >>> To manage subscription options or unsubscribe: >>> https://lists.mpich.org/mailman/listinfo/discuss >> >> >> -- >> Antonio J. Peï¿½a >> Postdoctoral Appointee >> Mathematics and Computer Science Division >> Argonne National Laboratory >> 9700 South Cass Avenue, Bldg. 240, Of. 3148 >> Argonne, IL 60439-4847 >> (+1) 630-252-7928 >> apenya(a)mcs.anl.gov >> www.mcs.anl.gov/~apenya > > > > > _______________________________________________ > discuss mailing list discuss(a)mpich.org > To manage subscription options or unsubscribe: > https://lists.mpich.org/mailman/listinfo/discuss -- Antonio J. Peï¿½a Postdoctoral Appointee Mathematics and Computer Science Division Argonne National Laboratory 9700 South Cass Avenue, Bldg. 240, Of. 3148 Argonne, IL 60439-4847 apenya(a)mcs.anl.gov www.mcs.anl.gov/~apenya

1 0

Re: [mpich-discuss] reading from a read only directory
by Rob Latham 03 Dec '13

03 Dec '13

On Sat, Nov 30, 2013 at 08:35:39AM -0600, Jed Brown wrote: > Geoffrey Irving <irving(a)naml.us> writes: > > It's not an issue for me personally anymore: chmod +w . is fine, and > > symlinks would also solve the problem. The question was more about > > the motivation for the code and whether it's an issue anything thinks > > is worth fixing (or fixable at all). That and Jed asked me several > > times to start the thread. :) > > It's not intuitive and does not appear to be documented. Reading from a > read-only directory is a reasonable thing to try and people should not > have to wait through a queue to find out that it doesn't work. Mea culpa. MPI_File_read_ordered is implemented in "stupid mode" right now, and no one ever complained -- we don't pay much attention to shared file pointers. Tell me more about how you are relying on ordered mode, please. The technical issues here: the shared file pointer and ordered mode collectives keep as global state the location of the shared file pointer. Where does it keep this state? Why, in the file system of course. Because using a file system as a message-passing medium is exactly what file systems are good at.... uh, well, maybe not, but it's the most portable option. You can also do this with RMA windows (Rob Ross and I published some papers on this topic back in 05 and 06). Has a few drawbacks but it's got to be better than the file system. Even without the RMA windows, we can still do a better job for ordered mode with MPI_SCAN -- it's just we need some globally-available place to get the old shared file pointer value and stash the new one. In user-space, you'll outperform MPI-IO implementations if you manage the offset yourself. I wrote a little ordered mode shim you can link into your program. Looks like I last seriously did anything with it back in 2008 ? I cleaned up some of the warnings and made it use MPI_Count (remove HAVE_MPI_TYPE_SIZE_X from the makefile if you're on an old system). Caveat: I think the last time I ran this code was on Argonne's Blue Gene /L. Bear in mind the adage about tested code and broken code. ==rob -- Rob Latham Mathematics and Computer Science Division Argonne National Lab, IL USA

1 0

Re: [mpich-discuss] MPI_init very slow with more than 3 nodes
by Bixente BODO GOMEZ 03 Dec '13

03 Dec '13

I send a extract of tcpdump. It seems that the problem is in the file attribues o locks of nfs. I changed fstab on clients to add these options: nfsvers=3,rw,bg,noac,rsize=8192,wsize=8192 but nothing has improved. "Antonio J. Peña" <apenya(a)mcs.anl.gov> escribió: > I don't think this is helping. Maybe tcpdump / wireshark captures > could be helpful. > > Antonio > > > On 12/02/2013 11:44 AM, Bixente BODO GOMEZ wrote: >> The attachment... >> >> >> _______________________________________________ >> discuss mailing list discuss(a)mpich.org >> To manage subscription options or unsubscribe: >> https://lists.mpich.org/mailman/listinfo/discuss > > > -- > Antonio J. Peña > Postdoctoral Appointee > Mathematics and Computer Science Division > Argonne National Laboratory > 9700 South Cass Avenue, Bldg. 240, Of. 3148 > Argonne, IL 60439-4847 > (+1) 630-252-7928 > apenya(a)mcs.anl.gov > www.mcs.anl.gov/~apenya

1 0

Re: [mpich-discuss] This is not a technical request
by Jeff Hammond 02 Dec '13

02 Dec '13

It's probably more effective to file this under "things I learned in grad school" and not worry about it. If the admins responded affirmatively to every request like this, they'd be very busy. Do you have any idea how many stupid things I've said on the internet that I would like admins to delete all record of? :-) Are you actually getting unwanted phone calls because of this single post? I did a google search for my office phone number and it came up with hits on dozens of lists (since it is in the footer of my work email) and I get exactly zero spam calls deriving from this. My cell phone number is on the internet and I don't get spam calls to it. Jeff On Mon, Dec 2, 2013 at 4:20 PM, Feng Xiao <fxiao(a)mymail.mines.edu> wrote: > http://lists.mpich.org/pipermail/discuss/2013-June/000974.html > > Hello, > > One of my previous email was achavied, as shown via the link above, could u > please remove my cell phone number in there? Thanks. > > -- > Feng Xiao > > Doctoral Student > Petroleum Engineering > Colorado School of Mines > > > _______________________________________________ > discuss mailing list discuss(a)mpich.org > To manage subscription options or unsubscribe: > https://lists.mpich.org/mailman/listinfo/discuss -- Jeff Hammond jeff.science(a)gmail.com

1 0

This is not a technical request
by Feng Xiao 02 Dec '13

02 Dec '13

http://lists.mpich.org/pipermail/discuss/2013-June/000974.html Hello, One of my previous email was achavied, as shown via the link above, could u please remove my cell phone number in there? Thanks. -- Feng Xiao Doctoral Student Petroleum Engineering Colorado School of Mines

1 0

Re: [mpich-discuss] MPI_init very slow with more than 3 nodes
by "Antonio J. Peña" 02 Dec '13

02 Dec '13

I don't think this is helping. Maybe tcpdump / wireshark captures could be helpful. Antonio On 12/02/2013 11:44 AM, Bixente BODO GOMEZ wrote: > The attachment... > > > _______________________________________________ > discuss mailing list discuss(a)mpich.org > To manage subscription options or unsubscribe: > https://lists.mpich.org/mailman/listinfo/discuss -- Antonio J. Peï¿½a Postdoctoral Appointee Mathematics and Computer Science Division Argonne National Laboratory 9700 South Cass Avenue, Bldg. 240, Of. 3148 Argonne, IL 60439-4847 (+1) 630-252-7928 apenya(a)mcs.anl.gov www.mcs.anl.gov/~apenya

1 0

Re: [mpich-discuss] discuss Digest, Vol 14, Issue 2
by Ken Raffenetti 02 Dec '13

02 Dec '13

Please try some of the suggested debugging techniques mentioned already on this thread, e.g. printing out your function arguments. Your problem appears to be unrelated to MPICH and instead related to general programming errors. ----- Original Message ----- > From: "Soheil Hooshdaran" <shooshdaran577(a)gmail.com> > To: discuss(a)mpich.org > Sent: Monday, December 2, 2013 10:32:40 AM > Subject: Re: [mpich-discuss] discuss Digest, Vol 14, Issue 2 > > > > Why is my count zero? I am giving a formula for count, and am > Bcasting the variable 'n'. > > > > On Mon, Dec 2, 2013 at 5:36 PM, < discuss-request(a)mpich.org > wrote: > > > Send discuss mailing list submissions to > discuss(a)mpich.org > > To subscribe or unsubscribe via the World Wide Web, visit > https://lists.mpich.org/mailman/listinfo/discuss > or, via email, send a message with subject or body 'help' to > discuss-request(a)mpich.org > > You can reach the person managing the list at > discuss-owner(a)mpich.org > > When replying, please edit your Subject line so it is more specific > than "Re: Contents of discuss digest..." > > > Today's Topics: > > 1. Re: Undefined reference to MPL (Jeff Hammond) > 2. Re: Undefined reference to MPL (Pavan Balaji) > 3. Re: MPI_Recv problem (Pavan Balaji) > 4. Re: MPI_Recv problem (Soheil Hooshdaran) > > > ---------------------------------------------------------------------- > > Message: 1 > Date: Mon, 2 Dec 2013 07:47:33 -0600 > From: Jeff Hammond < jeff.science(a)gmail.com > > To: " discuss(a)mpich.org " < discuss(a)mpich.org > > Subject: Re: [mpich-discuss] Undefined reference to MPL > Message-ID: < F3664C9C-8F59-41F7-A15D-2B0F47D7D785(a)gmail.com > > Content-Type: text/plain; charset=utf-8 > > "mpicc -show" will give you all the flags you need to link MPICH (or > MVAPICH). You're missing more than one library. > > Jeff > > Sent from my iPhone > > > On Dec 2, 2013, at 2:48 AM, Francisco Pastor < paco(a)ceam.es > > > wrote: > > > > Hi > > > > I can only see -lmpich. Maybe should try -lmpl. > > > > MPI_PATH=/usr/local/mpich2-1.0.5p4 > > PAR_INCS=-I$(MPI_PATH)/src/include > > PAR_LIBS=-L$(MPI_PATH)/lib/ -lmpich > > > > > > In the meantime I installed mpich2-1.05p4 and the compilation has > > worked. Should I try to recompile with mpich-3.0.4 adding -lmpl? > > > > Thank you very much > > > > El 29/11/2013 11:37, Reuti escribi?: > >> Hi, > >> > >>> Am 29.11.2013 um 09:07 schrieb Francisco Pastor: > >>> > >>> I recently installed mpich 3.0.4 in order to compile a > >>> meteorological model, RAMS 6.0. We installed the model time ago > >>> with mpich2-1.0.5p4. Now we want to build a new cluster under > >>> Ubuntu 12.04 and MPICH. > >>> > >>> When building the model I get this messages, the last ones in a > >>> longer list, and maybe they are related to mpich. As a new user > >>> of mpich I'm not sure where the problem is coming from. Should I > >>> install an older mpich2 version? > >>> > >>> Thanks for your help > >> How is RAMS linked during build - maybe it uses not the mpi... > >> wrappers but links directly and missed to include -lmpl > >> > >> -- Reuti > >> > >> > >>> /usr/local/lib//libmpich.a(param_vals.o):param_vals.c:(.text+0xb4d): > >>> more undefined references to `MPL_env2bool' follow > >>> /usr/local/lib//libmpich.a(param_vals.o): In function > >>> `MPIR_Param_init_params': > >>> param_vals.c:(.text+0xbac): undefined reference to > >>> `MPL_env2range' > >>> param_vals.c:(.text+0xbd1): undefined reference to > >>> `MPL_env2range' > >>> param_vals.c:(.text+0xbf6): undefined reference to > >>> `MPL_env2range' > >>> param_vals.c:(.text+0xc1b): undefined reference to > >>> `MPL_env2range' > >>> param_vals.c:(.text+0xc38): undefined reference to `MPL_env2int' > >>> param_vals.c:(.text+0xc55): undefined reference to `MPL_env2int' > >>> /usr/local/lib//libmpich.a(mpid_init.o): In function `MPID_Init': > >>> mpid_init.c:(.text+0x194): undefined reference to `MPL_env2bool' > >>> /usr/local/lib//libmpich.a(mpid_vc.o): In function > >>> `MPIDI_Populate_vc_node_ids': > >>> mpid_vc.c:(.text+0xb66): undefined reference to `MPL_env2int' > >>> mpid_vc.c:(.text+0xb7d): undefined reference to `MPL_env2int' > >>> /usr/local/lib//libmpich.a(mpi_t_util.o): In function > >>> `MPIU_Tool_strncpy': > >>> mpi_t_util.c:(.text+0x49c): undefined reference to `MPL_strncpy' > >>> make: *** [rams-6.0-opt] Error 1 > >>> > >>> -- > >>> ----------- > >>> 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 informaci?n 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 reenv?o a su direcci?n electr?nica; no deber? copiar el > >>> mensaje ni divulgar su contenido a ninguna persona. > >>> > >>> Su direcci?n de correo electr?nico junto a sus datos personales > >>> forman parte de un fichero titularidad de la Fundaci?n de la > >>> Comunidad Valenciana Centro de Estudios Ambientales del > >>> Mediterr?neo - CEAM, con CIF: G-46957213, cuya finalidad es la > >>> de mantener el contacto con Ud. De acuerdo con la Ley Org?nica > >>> 15/1999, usted puede ejercitar sus derechos de acceso, > >>> rectificaci?n, cancelaci?n y, en su caso, oposici?n enviando una > >>> solicitud por escrito, acompa?ada de una fotocopia de su DNI > >>> dirigida a: Fundaci?n de la Comunidad Valenciana Centro de > >>> Estudios Ambientales del Mediterr?neo - CEAM. C/ Charles R. > >>> Darwin, 14. Parque Tecnol?gico.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 Fundaci?n de la Comunidad Valenciana Centro de > >>> Estudios Ambientales del Mediterr?neo - 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: Fundaci?n de la Comunidad Valenciana > >>> Centro de Estudios Ambientales del Mediterr?neo - CEAM. C/ > >>> Charles R. Darwin, 14. Parque Tecnol?gico.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 informaci?n 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 reenv?o a su direcci?n electr?nica; no deber? copiar el > > mensaje ni divulgar su contenido a ninguna persona. > > > > Su direcci?n de correo electr?nico junto a sus datos personales > > forman parte de un fichero titularidad de la Fundaci?n de la > > Comunidad Valenciana Centro de Estudios Ambientales del > > Mediterr?neo - CEAM, con CIF: G-46957213, cuya finalidad es la de > > mantener el contacto con Ud. De acuerdo con la Ley Org?nica > > 15/1999, usted puede ejercitar sus derechos de acceso, > > rectificaci?n, cancelaci?n y, en su caso, oposici?n enviando una > > solicitud por escrito, acompa?ada de una fotocopia de su DNI > > dirigida a: Fundaci?n de la Comunidad Valenciana Centro de > > Estudios Ambientales del Mediterr?neo - CEAM. C/ Charles R. > > Darwin, 14. Parque Tecnol?gico.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 Fundaci?n de la Comunidad Valenciana Centro de > > Estudios Ambientales del Mediterr?neo - 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: Fundaci?n de la Comunidad Valenciana Centro de Estudios > > Ambientales del Mediterr?neo - CEAM. C/ Charles R. Darwin, 14. > > Parque Tecnol?gico.46980 PATERNA (Valencia). > > > > > > > > _______________________________________________ > > discuss mailing list discuss(a)mpich.org > > To manage subscription options or unsubscribe: > > https://lists.mpich.org/mailman/listinfo/discuss > > > ------------------------------ > > Message: 2 > Date: Mon, 2 Dec 2013 07:49:21 -0600 > From: Pavan Balaji < balaji(a)mcs.anl.gov > > To: discuss(a)mpich.org > Subject: Re: [mpich-discuss] Undefined reference to MPL > Message-ID: < 0416767D-97DF-432A-93AF-7469A62C84A7(a)mcs.anl.gov > > Content-Type: text/plain; charset=windows-1252 > > > Actually, you are missing two: libmpl and libopa. But the latter > might not be used for most common platforms. > > A second option, that we are still experimenting with, is to build > mpich as a shared library. On more platforms libtool should generate > automatic inter-library dependencies. So when you link against > libmpich, it should automatically pick up the remaining libraries. > We had this working earlier, though I haven?t tried it in a while. > > ? Pavan > > On Dec 2, 2013, at 7:47 AM, Jeff Hammond < jeff.science(a)gmail.com > > wrote: > > > "mpicc -show" will give you all the flags you need to link MPICH > > (or MVAPICH). You're missing more than one library. > > > > Jeff > > > > Sent from my iPhone > > > >> On Dec 2, 2013, at 2:48 AM, Francisco Pastor < paco(a)ceam.es > > >> wrote: > >> > >> Hi > >> > >> I can only see -lmpich. Maybe should try -lmpl. > >> > >> MPI_PATH=/usr/local/mpich2-1.0.5p4 > >> PAR_INCS=-I$(MPI_PATH)/src/include > >> PAR_LIBS=-L$(MPI_PATH)/lib/ -lmpich > >> > >> > >> In the meantime I installed mpich2-1.05p4 and the compilation has > >> worked. Should I try to recompile with mpich-3.0.4 adding -lmpl? > >> > >> Thank you very much > >> > >> El 29/11/2013 11:37, Reuti escribi?: > >>> Hi, > >>> > >>>> Am 29.11.2013 um 09:07 schrieb Francisco Pastor: > >>>> > >>>> I recently installed mpich 3.0.4 in order to compile a > >>>> meteorological model, RAMS 6.0. We installed the model time ago > >>>> with mpich2-1.0.5p4. Now we want to build a new cluster under > >>>> Ubuntu 12.04 and MPICH. > >>>> > >>>> When building the model I get this messages, the last ones in a > >>>> longer list, and maybe they are related to mpich. As a new user > >>>> of mpich I'm not sure where the problem is coming from. Should > >>>> I install an older mpich2 version? > >>>> > >>>> Thanks for your help > >>> How is RAMS linked during build - maybe it uses not the mpi... > >>> wrappers but links directly and missed to include -lmpl > >>> > >>> -- Reuti > >>> > >>> > >>>> /usr/local/lib//libmpich.a(param_vals.o):param_vals.c:(.text+0xb4d): > >>>> more undefined references to `MPL_env2bool' follow > >>>> /usr/local/lib//libmpich.a(param_vals.o): In function > >>>> `MPIR_Param_init_params': > >>>> param_vals.c:(.text+0xbac): undefined reference to > >>>> `MPL_env2range' > >>>> param_vals.c:(.text+0xbd1): undefined reference to > >>>> `MPL_env2range' > >>>> param_vals.c:(.text+0xbf6): undefined reference to > >>>> `MPL_env2range' > >>>> param_vals.c:(.text+0xc1b): undefined reference to > >>>> `MPL_env2range' > >>>> param_vals.c:(.text+0xc38): undefined reference to `MPL_env2int' > >>>> param_vals.c:(.text+0xc55): undefined reference to `MPL_env2int' > >>>> /usr/local/lib//libmpich.a(mpid_init.o): In function > >>>> `MPID_Init': > >>>> mpid_init.c:(.text+0x194): undefined reference to `MPL_env2bool' > >>>> /usr/local/lib//libmpich.a(mpid_vc.o): In function > >>>> `MPIDI_Populate_vc_node_ids': > >>>> mpid_vc.c:(.text+0xb66): undefined reference to `MPL_env2int' > >>>> mpid_vc.c:(.text+0xb7d): undefined reference to `MPL_env2int' > >>>> /usr/local/lib//libmpich.a(mpi_t_util.o): In function > >>>> `MPIU_Tool_strncpy': > >>>> mpi_t_util.c:(.text+0x49c): undefined reference to `MPL_strncpy' > >>>> make: *** [rams-6.0-opt] Error 1 > >>>> > >>>> -- > >>>> ----------- > >>>> 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 informaci?n 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 reenv?o a su direcci?n electr?nica; no > >>>> deber? copiar el mensaje ni divulgar su contenido a ninguna > >>>> persona. > >>>> > >>>> Su direcci?n de correo electr?nico junto a sus datos personales > >>>> forman parte de un fichero titularidad de la Fundaci?n de la > >>>> Comunidad Valenciana Centro de Estudios Ambientales del > >>>> Mediterr?neo - CEAM, con CIF: G-46957213, cuya finalidad es la > >>>> de mantener el contacto con Ud. De acuerdo con la Ley Org?nica > >>>> 15/1999, usted puede ejercitar sus derechos de acceso, > >>>> rectificaci?n, cancelaci?n y, en su caso, oposici?n enviando > >>>> una solicitud por escrito, acompa?ada de una fotocopia de su > >>>> DNI dirigida a: Fundaci?n de la Comunidad Valenciana Centro de > >>>> Estudios Ambientales del Mediterr?neo - CEAM. C/ Charles R. > >>>> Darwin, 14. Parque Tecnol?gico.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 Fundaci?n de la Comunidad Valenciana Centro de > >>>> Estudios Ambientales del Mediterr?neo - 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: Fundaci?n de la Comunidad Valenciana > >>>> Centro de Estudios Ambientales del Mediterr?neo - CEAM. C/ > >>>> Charles R. Darwin, 14. Parque Tecnol?gico.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 informaci?n 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 reenv?o a su direcci?n electr?nica; no deber? copiar el > >> mensaje ni divulgar su contenido a ninguna persona. > >> > >> Su direcci?n de correo electr?nico junto a sus datos personales > >> forman parte de un fichero titularidad de la Fundaci?n de la > >> Comunidad Valenciana Centro de Estudios Ambientales del > >> Mediterr?neo - CEAM, con CIF: G-46957213, cuya finalidad es la de > >> mantener el contacto con Ud. De acuerdo con la Ley Org?nica > >> 15/1999, usted puede ejercitar sus derechos de acceso, > >> rectificaci?n, cancelaci?n y, en su caso, oposici?n enviando una > >> solicitud por escrito, acompa?ada de una fotocopia de su DNI > >> dirigida a: Fundaci?n de la Comunidad Valenciana Centro de > >> Estudios Ambientales del Mediterr?neo - CEAM. C/ Charles R. > >> Darwin, 14. Parque Tecnol?gico.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 Fundaci?n de la Comunidad Valenciana Centro de > >> Estudios Ambientales del Mediterr?neo - 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: Fundaci?n de la Comunidad Valenciana > >> Centro de Estudios Ambientales del Mediterr?neo - CEAM. C/ > >> Charles R. Darwin, 14. Parque Tecnol?gico.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 > > -- > Pavan Balaji > http://www.mcs.anl.gov/~balaji > > > > ------------------------------ > > Message: 3 > Date: Mon, 2 Dec 2013 07:51:21 -0600 > From: Pavan Balaji < balaji(a)mcs.anl.gov > > To: Soheil Hooshdaran < shooshdaran577(a)gmail.com > > Cc: discuss(a)mpich.org > Subject: Re: [mpich-discuss] MPI_Recv problem > Message-ID: < 636EEA47-AAD0-4146-AB5F-BDFDD92C0B17(a)mcs.anl.gov > > Content-Type: text/plain; charset=windows-1252 > > > Did you try printing how many bytes you are receiving before calling > MPI_Recv? > > ? Pavan > > On Dec 1, 2013, at 11:43 PM, Soheil Hooshdaran < > shooshdaran577(a)gmail.com > wrote: > > > Hello. Please tell me what is wrong with my program that it doesn't > > goes no further than executing MPI_Send() for the first time. > > The file is attached > > > > > > On Sat, Nov 30, 2013 at 7:02 PM, Soheil Hooshdaran < > > shooshdaran577(a)gmail.com > wrote: > > So what do I have to do now, sir? Especially regarding my Bcast()s > > a,d Recv()s > > > > > > On Sat, Nov 30, 2013 at 1:05 AM, Pavan Balaji < balaji(a)mcs.anl.gov > > > wrote: > > > > Please keep discuss(a)mpich.org cc?ed. > > > > On Nov 29, 2013, at 2:19 PM, Soheil Hooshdaran < > > shooshdaran577(a)gmail.com > wrote: > > > executing send for the 3th time > > > executed send for the 3th time, sending 40 bytes > > > Fatal error in MPI_Recv: Message truncated, error stack: > > > MPI_Recv(184).....................: MPI_Recv(buf=0xbff95c98, > > > count=0, MPI_INT, src=0, tag=1, MPI_COMM_WORLD, > > > status=0xbff95c70) failed > > > MPIDI_CH3U_Receive_data_found(131): Message from rank 0 and tag 1 > > > truncated; 160 bytes received but buffer size is 0 > > > > I don?t think I can explain the error any better than what the > > message above already says. > > > > -- > > Pavan Balaji > > http://www.mcs.anl.gov/~balaji > > > > > > <p1_Hooshdaran_static[debug].cpp> > > -- > Pavan Balaji > http://www.mcs.anl.gov/~balaji > > > > ------------------------------ > > Message: 4 > Date: Mon, 2 Dec 2013 17:36:06 +0330 > From: Soheil Hooshdaran < shooshdaran577(a)gmail.com > > To: Pavan Balaji < balaji(a)mcs.anl.gov > > Cc: discuss(a)mpich.org > Subject: Re: [mpich-discuss] MPI_Recv problem > Message-ID: > <CAKtsx+9b-bOuPkpcr9Tv3Gd0o6H==_ woFowbo4YrB0UDLwPKbA(a)mail.gmail.com > > > Content-Type: text/plain; charset="utf-8" > > What should I use? > > Even the statement right after MPI_Sent doesn't execute. My code has > something like this: > //////////////////////in the root process > while(i<iWorldSize) > { > cout << "executing send for the " < MPI_Send( A[i], n/iWorldSize * m, MPI_INT, i, itag, MPI_COMM_WORLD ); > sent++; > cout << "executed send for the " < n/iWorldSize * m << " bytes to processor " < > i+=n/iWorldSize; > }//end while > > > ////////////////////in the slave process > while(sent) > { > cout << "**********sent= " << sent << endl; > cout << "\n\n\n**********Executing receive*******" << endl; > MPI_Recv(&buffer, n/iWorldSize*m, MPI_INT, 0, itag, MPI_COMM_WORLD, > &status); > sent=0; > cout << "**********receive executed***********" << endl; > } > > > On Mon, Dec 2, 2013 at 5:21 PM, Pavan Balaji < balaji(a)mcs.anl.gov > > wrote: > > > > > Did you try printing how many bytes you are receiving before > > calling > > MPI_Recv? > > > > ? Pavan > > > > On Dec 1, 2013, at 11:43 PM, Soheil Hooshdaran < > > shooshdaran577(a)gmail.com > > > wrote: > > > > > Hello. Please tell me what is wrong with my program that it > > > doesn't goes > > no further than executing MPI_Send() for the first time. > > > The file is attached > > > > > > > > > On Sat, Nov 30, 2013 at 7:02 PM, Soheil Hooshdaran < > > shooshdaran577(a)gmail.com > wrote: > > > So what do I have to do now, sir? Especially regarding my > > > Bcast()s a,d > > Recv()s > > > > > > > > > On Sat, Nov 30, 2013 at 1:05 AM, Pavan Balaji < > > > balaji(a)mcs.anl.gov > > > wrote: > > > > > > Please keep discuss(a)mpich.org cc?ed. > > > > > > On Nov 29, 2013, at 2:19 PM, Soheil Hooshdaran < > > > shooshdaran577(a)gmail.com > > > wrote: > > > > executing send for the 3th time > > > > executed send for the 3th time, sending 40 bytes > > > > Fatal error in MPI_Recv: Message truncated, error stack: > > > > MPI_Recv(184).....................: MPI_Recv(buf=0xbff95c98, > > > > count=0, > > MPI_INT, src=0, tag=1, MPI_COMM_WORLD, status=0xbff95c70) failed > > > > MPIDI_CH3U_Receive_data_found(131): Message from rank 0 and tag > > > > 1 > > truncated; 160 bytes received but buffer size is 0 > > > > > > I don?t think I can explain the error any better than what the > > > message > > above already says. > > > > > > -- > > > Pavan Balaji > > > http://www.mcs.anl.gov/~balaji > > > > > > > > > <p1_Hooshdaran_static[debug].cpp> > > > > -- > > Pavan Balaji > > http://www.mcs.anl.gov/~balaji > > > > >

1 0

Re: [mpich-discuss] MPI_init very slow with more than 3 nodes
by Bixente BODO GOMEZ 02 Dec '13

02 Dec '13

The attachment...

1 0

Re: [mpich-discuss] MPI_init very slow with more than 3 nodes
by Bixente BODO GOMEZ 02 Dec '13

02 Dec '13

Hello. The network guys have reviewed the logs of the switches and have found no problems. I have removed the nfs server from the machine file and with two working nodes the delays have appeared. Todays delays have been of 4 minutes to over an hour. The attachment contains an excerpt from syslog that has appeared several times on a node when the delay was large. I don't know if that can help. Bixente. Pavan Balaji <balaji(a)mcs.anl.gov> escribió: > Try to ssh between the nodes and see how long it takes. It might > give some hint on what’s going on. > > — Pavan > > On Nov 29, 2013, at 5:21 AM, Bixente BODO GOMEZ <bixente.bodo(a)ehu.es> wrote: > >> Hi. >> >> In the attachment I send the tests I've done. Yesterday I had to >> wait 20 minutes; now only 4 or 6. >> I will ask about the network. >> >> >> Pavan Balaji <balaji(a)mcs.anl.gov> escribió: >> >>> It is possible there’s something really slow on your network. >>> Just to eliminate MPI_INIT as a possible cause, can you try a >>> non-MPI program: maybe /bin/true or /bin/hostname? >>> >>> % mpiexec -f fila5 -np 8 /bin/true >>> >>> — Pavan >>> >>> On Nov 28, 2013, at 8:10 AM, Bixente BODO GOMEZ >>> <bixente.bodo(a)ehu.es> wrote: >>> >>>> Goods. >>>> >>>> I'm testing a mpich cluster (3.0.4) with 7 nodes quad core, >>>> Ubuntu 12.04. The master has the home directory >>>> and the nodes get it by nfs. I have change RPCNFSDCOUN from 8 to 64. >>>> >>>> The programs go fine with master and ONE of the other nodes, but >>>> when I start them with more nodes, >>>> MPI_Init (I think so) takes long time (~20 minutes). At these >>>> time in all nodes there is many network >>>> (read and write) and master's hard disk activity. For exemple: >>>> >>>> mpiu@u105251:~$ date; mpirun -f fila5 -np 8 test/hello; date >>>> mié nov 27 15:17:29 CET 2013 >>>> Hola desde el procesador u105251. 0 de 8 >>>> Hola desde el procesador u105251. 1 de 8 >>>> Hola desde el procesador u105251. 2 de 8 >>>> Hola desde el procesador u105251. 3 de 8 >>>> Hola desde el procesador u103972. 4 de 8 >>>> Hola desde el procesador u103972. 5 de 8 >>>> Hola desde el procesador u103972. 6 de 8 >>>> Hola desde el procesador u103972. 7 de 8 >>>> mié nov 27 15:17:30 CET 2013 >>>> mpiu@u105251:~$ date; mpirun -f fila5 -np 16 test/hello; date >>>> mié nov 27 15:17:39 CET 2013 >>>> Hola desde el procesador u105251. 2 de 16 >>>> Hola desde el procesador u105251. 0 de 16 >>>> Hola desde el procesador u105251. 1 de 16 >>>> Hola desde el procesador u105251. 3 de 16 >>>> Hola desde el procesador u103972. 4 de 16 >>>> Hola desde el procesador u103950. 8 de 16 >>>> Hola desde el procesador u103976.12 de 16 >>>> Hola desde el procesador u103972. 5 de 16 >>>> Hola desde el procesador u103950. 9 de 16 >>>> Hola desde el procesador u103976.13 de 16 >>>> Hola desde el procesador u103972. 7 de 16 >>>> Hola desde el procesador u103950.10 de 16 >>>> Hola desde el procesador u103976.14 de 16 >>>> Hola desde el procesador u103972. 6 de 16 >>>> Hola desde el procesador u103950.11 de 16 >>>> Hola desde el procesador u103976.15 de 16 >>>> mié nov 27 15:36:18 CET 2013 >>>> mpiu@u105251:~$ >>>> >>>> When the programs start, i.e. since the first C instrucction, >>>> they run fine. For that I think that the problem >>>> is MPI_init >>>> >>>> Anybody kowns why? >>>> Thank. >>>> >>>> _______________________________________________ >>>> discuss mailing list discuss(a)mpich.org >>>> To manage subscription options or unsubscribe: >>>> https://lists.mpich.org/mailman/listinfo/discuss >>> >>> -- >>> Pavan Balaji >>> http://www.mcs.anl.gov/~balaji >>> >>> _______________________________________________ >>> discuss mailing list discuss(a)mpich.org >>> To manage subscription options or unsubscribe: >>> https://lists.mpich.org/mailman/listinfo/discuss >> >> >> <test.txt>_______________________________________________ >> discuss mailing list discuss(a)mpich.org >> To manage subscription options or unsubscribe: >> https://lists.mpich.org/mailman/listinfo/discuss > > -- > Pavan Balaji > http://www.mcs.anl.gov/~balaji > > _______________________________________________ > discuss mailing list discuss(a)mpich.org > To manage subscription options or unsubscribe: > https://lists.mpich.org/mailman/listinfo/discuss

1 0

Re: [mpich-discuss] discuss Digest, Vol 14, Issue 2
by Soheil Hooshdaran 02 Dec '13

02 Dec '13

Why is my count zero? I am giving a formula for count, and am Bcasting the variable 'n'. On Mon, Dec 2, 2013 at 5:36 PM, <discuss-request(a)mpich.org> wrote: > Send discuss mailing list submissions to > discuss(a)mpich.org > > To subscribe or unsubscribe via the World Wide Web, visit > https://lists.mpich.org/mailman/listinfo/discuss > or, via email, send a message with subject or body 'help' to > discuss-request(a)mpich.org > > You can reach the person managing the list at > discuss-owner(a)mpich.org > > When replying, please edit your Subject line so it is more specific > than "Re: Contents of discuss digest..." > > > Today's Topics: > > 1. Re: Undefined reference to MPL (Jeff Hammond) > 2. Re: Undefined reference to MPL (Pavan Balaji) > 3. Re: MPI_Recv problem (Pavan Balaji) > 4. Re: MPI_Recv problem (Soheil Hooshdaran) > > > ---------------------------------------------------------------------- > > Message: 1 > Date: Mon, 2 Dec 2013 07:47:33 -0600 > From: Jeff Hammond <jeff.science(a)gmail.com> > To: "discuss(a)mpich.org" <discuss(a)mpich.org> > Subject: Re: [mpich-discuss] Undefined reference to MPL > Message-ID: <F3664C9C-8F59-41F7-A15D-2B0F47D7D785(a)gmail.com> > Content-Type: text/plain; charset=utf-8 > > "mpicc -show" will give you all the flags you need to link MPICH (or > MVAPICH). You're missing more than one library. > > Jeff > > Sent from my iPhone > > > On Dec 2, 2013, at 2:48 AM, Francisco Pastor <paco(a)ceam.es> wrote: > > > > Hi > > > > I can only see -lmpich. Maybe should try -lmpl. > > > > MPI_PATH=/usr/local/mpich2-1.0.5p4 > > PAR_INCS=-I$(MPI_PATH)/src/include > > PAR_LIBS=-L$(MPI_PATH)/lib/ -lmpich > > > > > > In the meantime I installed mpich2-1.05p4 and the compilation has > worked. Should I try to recompile with mpich-3.0.4 adding -lmpl? > > > > Thank you very much > > > > El 29/11/2013 11:37, Reuti escribi?: > >> Hi, > >> > >>> Am 29.11.2013 um 09:07 schrieb Francisco Pastor: > >>> > >>> I recently installed mpich 3.0.4 in order to compile a meteorological > model, RAMS 6.0. We installed the model time ago with mpich2-1.0.5p4. Now > we want to build a new cluster under Ubuntu 12.04 and MPICH. > >>> > >>> When building the model I get this messages, the last ones in a longer > list, and maybe they are related to mpich. As a new user of mpich I'm not > sure where the problem is coming from. Should I install an older mpich2 > version? > >>> > >>> Thanks for your help > >> How is RAMS linked during build - maybe it uses not the mpi... wrappers > but links directly and missed to include -lmpl > >> > >> -- Reuti > >> > >> > >>> /usr/local/lib//libmpich.a(param_vals.o):param_vals.c:(.text+0xb4d): > more undefined references to `MPL_env2bool' follow > >>> /usr/local/lib//libmpich.a(param_vals.o): In function > `MPIR_Param_init_params': > >>> param_vals.c:(.text+0xbac): undefined reference to `MPL_env2range' > >>> param_vals.c:(.text+0xbd1): undefined reference to `MPL_env2range' > >>> param_vals.c:(.text+0xbf6): undefined reference to `MPL_env2range' > >>> param_vals.c:(.text+0xc1b): undefined reference to `MPL_env2range' > >>> param_vals.c:(.text+0xc38): undefined reference to `MPL_env2int' > >>> param_vals.c:(.text+0xc55): undefined reference to `MPL_env2int' > >>> /usr/local/lib//libmpich.a(mpid_init.o): In function `MPID_Init': > >>> mpid_init.c:(.text+0x194): undefined reference to `MPL_env2bool' > >>> /usr/local/lib//libmpich.a(mpid_vc.o): In function > `MPIDI_Populate_vc_node_ids': > >>> mpid_vc.c:(.text+0xb66): undefined reference to `MPL_env2int' > >>> mpid_vc.c:(.text+0xb7d): undefined reference to `MPL_env2int' > >>> /usr/local/lib//libmpich.a(mpi_t_util.o): In function > `MPIU_Tool_strncpy': > >>> mpi_t_util.c:(.text+0x49c): undefined reference to `MPL_strncpy' > >>> make: *** [rams-6.0-opt] Error 1 > >>> > >>> -- > >>> ----------- > >>> 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 informaci?n 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 reenv?o a su > direcci?n electr?nica; no deber? copiar el mensaje ni divulgar su contenido > a ninguna persona. > >>> > >>> Su direcci?n de correo electr?nico junto a sus datos personales forman > parte de un fichero titularidad de la Fundaci?n de la Comunidad Valenciana > Centro de Estudios Ambientales del Mediterr?neo - CEAM, con CIF: > G-46957213, cuya finalidad es la de mantener el contacto con Ud. De acuerdo > con la Ley Org?nica 15/1999, usted puede ejercitar sus derechos de acceso, > rectificaci?n, cancelaci?n y, en su caso, oposici?n enviando una solicitud > por escrito, acompa?ada de una fotocopia de su DNI dirigida a: Fundaci?n de > la Comunidad Valenciana Centro de Estudios Ambientales del Mediterr?neo - > CEAM. C/ Charles R. Darwin, 14. Parque Tecnol?gico.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 Fundaci?n de la Comunidad Valenciana Centro de Estudios Ambientales > del Mediterr?neo - 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: Fundaci?n de la Comunidad Valenciana Centro de > Estudios Ambientales del Mediterr?neo - CEAM. C/ Charles R. Darwin, 14. > Parque Tecnol?gico.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 informaci?n 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 reenv?o a su > direcci?n electr?nica; no deber? copiar el mensaje ni divulgar su contenido > a ninguna persona. > > > > Su direcci?n de correo electr?nico junto a sus datos personales forman > parte de un fichero titularidad de la Fundaci?n de la Comunidad Valenciana > Centro de Estudios Ambientales del Mediterr?neo - CEAM, con CIF: > G-46957213, cuya finalidad es la de mantener el contacto con Ud. De acuerdo > con la Ley Org?nica 15/1999, usted puede ejercitar sus derechos de acceso, > rectificaci?n, cancelaci?n y, en su caso, oposici?n enviando una solicitud > por escrito, acompa?ada de una fotocopia de su DNI dirigida a: Fundaci?n de > la Comunidad Valenciana Centro de Estudios Ambientales del Mediterr?neo - > CEAM. C/ Charles R. Darwin, 14. Parque Tecnol?gico.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 Fundaci?n de la Comunidad Valenciana Centro de Estudios Ambientales del > Mediterr?neo - 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: Fundaci?n de la Comunidad Valenciana Centro de > Estudios Ambientales del Mediterr?neo - CEAM. C/ Charles R. Darwin, 14. > Parque Tecnol?gico.46980 PATERNA (Valencia). > > > > > > > > _______________________________________________ > > discuss mailing list discuss(a)mpich.org > > To manage subscription options or unsubscribe: > > https://lists.mpich.org/mailman/listinfo/discuss > > > ------------------------------ > > Message: 2 > Date: Mon, 2 Dec 2013 07:49:21 -0600 > From: Pavan Balaji <balaji(a)mcs.anl.gov> > To: discuss(a)mpich.org > Subject: Re: [mpich-discuss] Undefined reference to MPL > Message-ID: <0416767D-97DF-432A-93AF-7469A62C84A7(a)mcs.anl.gov> > Content-Type: text/plain; charset=windows-1252 > > > Actually, you are missing two: libmpl and libopa. But the latter might > not be used for most common platforms. > > A second option, that we are still experimenting with, is to build mpich > as a shared library. On more platforms libtool should generate automatic > inter-library dependencies. So when you link against libmpich, it should > automatically pick up the remaining libraries. We had this working > earlier, though I haven?t tried it in a while. > > ? Pavan > > On Dec 2, 2013, at 7:47 AM, Jeff Hammond <jeff.science(a)gmail.com> wrote: > > > "mpicc -show" will give you all the flags you need to link MPICH (or > MVAPICH). You're missing more than one library. > > > > Jeff > > > > Sent from my iPhone > > > >> On Dec 2, 2013, at 2:48 AM, Francisco Pastor <paco(a)ceam.es> wrote: > >> > >> Hi > >> > >> I can only see -lmpich. Maybe should try -lmpl. > >> > >> MPI_PATH=/usr/local/mpich2-1.0.5p4 > >> PAR_INCS=-I$(MPI_PATH)/src/include > >> PAR_LIBS=-L$(MPI_PATH)/lib/ -lmpich > >> > >> > >> In the meantime I installed mpich2-1.05p4 and the compilation has > worked. Should I try to recompile with mpich-3.0.4 adding -lmpl? > >> > >> Thank you very much > >> > >> El 29/11/2013 11:37, Reuti escribi?: > >>> Hi, > >>> > >>>> Am 29.11.2013 um 09:07 schrieb Francisco Pastor: > >>>> > >>>> I recently installed mpich 3.0.4 in order to compile a meteorological > model, RAMS 6.0. We installed the model time ago with mpich2-1.0.5p4. Now > we want to build a new cluster under Ubuntu 12.04 and MPICH. > >>>> > >>>> When building the model I get this messages, the last ones in a > longer list, and maybe they are related to mpich. As a new user of mpich > I'm not sure where the problem is coming from. Should I install an older > mpich2 version? > >>>> > >>>> Thanks for your help > >>> How is RAMS linked during build - maybe it uses not the mpi... > wrappers but links directly and missed to include -lmpl > >>> > >>> -- Reuti > >>> > >>> > >>>> /usr/local/lib//libmpich.a(param_vals.o):param_vals.c:(.text+0xb4d): > more undefined references to `MPL_env2bool' follow > >>>> /usr/local/lib//libmpich.a(param_vals.o): In function > `MPIR_Param_init_params': > >>>> param_vals.c:(.text+0xbac): undefined reference to `MPL_env2range' > >>>> param_vals.c:(.text+0xbd1): undefined reference to `MPL_env2range' > >>>> param_vals.c:(.text+0xbf6): undefined reference to `MPL_env2range' > >>>> param_vals.c:(.text+0xc1b): undefined reference to `MPL_env2range' > >>>> param_vals.c:(.text+0xc38): undefined reference to `MPL_env2int' > >>>> param_vals.c:(.text+0xc55): undefined reference to `MPL_env2int' > >>>> /usr/local/lib//libmpich.a(mpid_init.o): In function `MPID_Init': > >>>> mpid_init.c:(.text+0x194): undefined reference to `MPL_env2bool' > >>>> /usr/local/lib//libmpich.a(mpid_vc.o): In function > `MPIDI_Populate_vc_node_ids': > >>>> mpid_vc.c:(.text+0xb66): undefined reference to `MPL_env2int' > >>>> mpid_vc.c:(.text+0xb7d): undefined reference to `MPL_env2int' > >>>> /usr/local/lib//libmpich.a(mpi_t_util.o): In function > `MPIU_Tool_strncpy': > >>>> mpi_t_util.c:(.text+0x49c): undefined reference to `MPL_strncpy' > >>>> make: *** [rams-6.0-opt] Error 1 > >>>> > >>>> -- > >>>> ----------- > >>>> 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 informaci?n 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 reenv?o a su > direcci?n electr?nica; no deber? copiar el mensaje ni divulgar su contenido > a ninguna persona. > >>>> > >>>> Su direcci?n de correo electr?nico junto a sus datos personales > forman parte de un fichero titularidad de la Fundaci?n de la Comunidad > Valenciana Centro de Estudios Ambientales del Mediterr?neo - CEAM, con CIF: > G-46957213, cuya finalidad es la de mantener el contacto con Ud. De acuerdo > con la Ley Org?nica 15/1999, usted puede ejercitar sus derechos de acceso, > rectificaci?n, cancelaci?n y, en su caso, oposici?n enviando una solicitud > por escrito, acompa?ada de una fotocopia de su DNI dirigida a: Fundaci?n de > la Comunidad Valenciana Centro de Estudios Ambientales del Mediterr?neo - > CEAM. C/ Charles R. Darwin, 14. Parque Tecnol?gico.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 Fundaci?n de la Comunidad Valenciana Centro de Estudios Ambientales > del Mediterr?neo - 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: Fundaci?n de la Comunidad Valenciana Centro de > Estudios Ambientales del Mediterr?neo - CEAM. C/ Charles R. Darwin, 14. > Parque Tecnol?gico.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 informaci?n 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 reenv?o a su > direcci?n electr?nica; no deber? copiar el mensaje ni divulgar su contenido > a ninguna persona. > >> > >> Su direcci?n de correo electr?nico junto a sus datos personales forman > parte de un fichero titularidad de la Fundaci?n de la Comunidad Valenciana > Centro de Estudios Ambientales del Mediterr?neo - CEAM, con CIF: > G-46957213, cuya finalidad es la de mantener el contacto con Ud. De acuerdo > con la Ley Org?nica 15/1999, usted puede ejercitar sus derechos de acceso, > rectificaci?n, cancelaci?n y, en su caso, oposici?n enviando una solicitud > por escrito, acompa?ada de una fotocopia de su DNI dirigida a: Fundaci?n de > la Comunidad Valenciana Centro de Estudios Ambientales del Mediterr?neo - > CEAM. C/ Charles R. Darwin, 14. Parque Tecnol?gico.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 Fundaci?n de la Comunidad Valenciana Centro de Estudios Ambientales > del Mediterr?neo - 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: Fundaci?n de la Comunidad Valenciana Centro de > Estudios Ambientales del Mediterr?neo - CEAM. C/ Charles R. Darwin, 14. > Parque Tecnol?gico.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 > > -- > Pavan Balaji > http://www.mcs.anl.gov/~balaji > > > > ------------------------------ > > Message: 3 > Date: Mon, 2 Dec 2013 07:51:21 -0600 > From: Pavan Balaji <balaji(a)mcs.anl.gov> > To: Soheil Hooshdaran <shooshdaran577(a)gmail.com> > Cc: discuss(a)mpich.org > Subject: Re: [mpich-discuss] MPI_Recv problem > Message-ID: <636EEA47-AAD0-4146-AB5F-BDFDD92C0B17(a)mcs.anl.gov> > Content-Type: text/plain; charset=windows-1252 > > > Did you try printing how many bytes you are receiving before calling > MPI_Recv? > > ? Pavan > > On Dec 1, 2013, at 11:43 PM, Soheil Hooshdaran <shooshdaran577(a)gmail.com> > wrote: > > > Hello. Please tell me what is wrong with my program that it doesn't goes > no further than executing MPI_Send() for the first time. > > The file is attached > > > > > > On Sat, Nov 30, 2013 at 7:02 PM, Soheil Hooshdaran < > shooshdaran577(a)gmail.com> wrote: > > So what do I have to do now, sir? Especially regarding my Bcast()s a,d > Recv()s > > > > > > On Sat, Nov 30, 2013 at 1:05 AM, Pavan Balaji <balaji(a)mcs.anl.gov> > wrote: > > > > Please keep discuss(a)mpich.org cc?ed. > > > > On Nov 29, 2013, at 2:19 PM, Soheil Hooshdaran <shooshdaran577(a)gmail.com> > wrote: > > > executing send for the 3th time > > > executed send for the 3th time, sending 40 bytes > > > Fatal error in MPI_Recv: Message truncated, error stack: > > > MPI_Recv(184).....................: MPI_Recv(buf=0xbff95c98, count=0, > MPI_INT, src=0, tag=1, MPI_COMM_WORLD, status=0xbff95c70) failed > > > MPIDI_CH3U_Receive_data_found(131): Message from rank 0 and tag 1 > truncated; 160 bytes received but buffer size is 0 > > > > I don?t think I can explain the error any better than what the message > above already says. > > > > -- > > Pavan Balaji > > http://www.mcs.anl.gov/~balaji > > > > > > <p1_Hooshdaran_static[debug].cpp> > > -- > Pavan Balaji > http://www.mcs.anl.gov/~balaji > > > > ------------------------------ > > Message: 4 > Date: Mon, 2 Dec 2013 17:36:06 +0330 > From: Soheil Hooshdaran <shooshdaran577(a)gmail.com> > To: Pavan Balaji <balaji(a)mcs.anl.gov> > Cc: discuss(a)mpich.org > Subject: Re: [mpich-discuss] MPI_Recv problem > Message-ID: > <CAKtsx+9b-bOuPkpcr9Tv3Gd0o6H==_ > woFowbo4YrB0UDLwPKbA(a)mail.gmail.com> > Content-Type: text/plain; charset="utf-8" > > What should I use? > > Even the statement right after MPI_Sent doesn't execute. My code has > something like this: > //////////////////////in the root process > while(i<iWorldSize) > { > cout << "executing send for the " < MPI_Send( A[i], n/iWorldSize * m, MPI_INT, i, itag, MPI_COMM_WORLD ); > sent++; > cout << "executed send for the " < n/iWorldSize * m << " bytes to processor " < > i+=n/iWorldSize; > }//end while > > > ////////////////////in the slave process > while(sent) > { > cout << "**********sent= " << sent << endl; > cout << "\n\n\n**********Executing receive*******" << endl; > MPI_Recv(&buffer, n/iWorldSize*m, MPI_INT, 0, itag, MPI_COMM_WORLD, > &status); > sent=0; > cout << "**********receive executed***********" << endl; > } > > > On Mon, Dec 2, 2013 at 5:21 PM, Pavan Balaji <balaji(a)mcs.anl.gov> wrote: > > > > > Did you try printing how many bytes you are receiving before calling > > MPI_Recv? > > > > ? Pavan > > > > On Dec 1, 2013, at 11:43 PM, Soheil Hooshdaran <shooshdaran577(a)gmail.com > > > > wrote: > > > > > Hello. Please tell me what is wrong with my program that it doesn't > goes > > no further than executing MPI_Send() for the first time. > > > The file is attached > > > > > > > > > On Sat, Nov 30, 2013 at 7:02 PM, Soheil Hooshdaran < > > shooshdaran577(a)gmail.com> wrote: > > > So what do I have to do now, sir? Especially regarding my Bcast()s a,d > > Recv()s > > > > > > > > > On Sat, Nov 30, 2013 at 1:05 AM, Pavan Balaji <balaji(a)mcs.anl.gov> > > wrote: > > > > > > Please keep discuss(a)mpich.org cc?ed. > > > > > > On Nov 29, 2013, at 2:19 PM, Soheil Hooshdaran < > shooshdaran577(a)gmail.com> > > wrote: > > > > executing send for the 3th time > > > > executed send for the 3th time, sending 40 bytes > > > > Fatal error in MPI_Recv: Message truncated, error stack: > > > > MPI_Recv(184).....................: MPI_Recv(buf=0xbff95c98, count=0, > > MPI_INT, src=0, tag=1, MPI_COMM_WORLD, status=0xbff95c70) failed > > > > MPIDI_CH3U_Receive_data_found(131): Message from rank 0 and tag 1 > > truncated; 160 bytes received but buffer size is 0 > > > > > > I don?t think I can explain the error any better than what the message > > above already says. > > > > > > -- > > > Pavan Balaji > > > http://www.mcs.anl.gov/~balaji > > > > > > > > > <p1_Hooshdaran_static[debug].cpp> > > > > -- > > Pavan Balaji > > http://www.mcs.anl.gov/~balaji > > > > >

1 0