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

Re: [mpich-discuss] Problem installing MPICH
by Sahar Amir 05 Aug '14

05 Aug '14

Dear Wesley, Attached is my .log file ... I need to do it this way for further modification I will be testing in a workshop I am attending right now ... Will you help me fix it please ... Thank you very much ... [?] ... Regards, Sahar On Tue, Aug 5, 2014 at 10:23 AM, Bland, Wesley B. <wbland(a)anl.gov> wrote: > This looks like you might not have run the configure script correctly > before running make. Can you send your config.log? > > Also, is there a particular reason that you need to install MPICH from > source. It’s usually easier to just grab one of the versions that installs > automatically. For Mac’s the recommended way of doing this is to use > Homebrew. You can find more information on the Downloads page. For most > installations (unless you’re using some non-default features), this is > sufficient. > > Thanks, > Wesley > > On Aug 5, 2014, at 10:17 AM, Sahar Amir <sahar.amir(a)kaust.edu.sa> wrote: > > > Good morning, > > I am trying to install MPICH on my mac. however when I try to apply the > instruction make 2>&1 | tee m.log > > It gives: > CDPATH="${ZSH_VERSION+.}:" && cd . && /bin/sh > /Data_1/mpich-3.1.2/confdb/missing aclocal-1.14 -I confdb > /Data_1/mpich-3.1.2/confdb/missing: line 81: aclocal-1.14: command not > found > WARNING: 'aclocal-1.14' is missing on your system. > You should only need it if you modified 'acinclude.m4' or > 'configure.ac' or m4 files included by 'configure.ac'. > The 'aclocal' program is part of the GNU Automake package: > <http://www.gnu.org/software/automake> > It also requires GNU Autoconf, GNU m4 and Perl in order to run: > <http://www.gnu.org/software/autoconf> > <http://www.gnu.org/software/m4/> > <http://www.perl.org/> > make: *** [aclocal.m4] Error 127 > > > Regards, > Sahar > > ------------------------------ > This message and its contents, including attachments are intended solely > for the original recipient. If you are not the intended recipient or have > received this message in error, please notify me immediately and delete > this message from your computer system. Any unauthorized use or > distribution is prohibited. Please consider the environment before printing > this email._______________________________________________ > 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 > -- ------------------------------ This message and its contents, including attachments are intended solely for the original recipient. If you are not the intended recipient or have received this message in error, please notify me immediately and delete this message from your computer system. Any unauthorized use or distribution is prohibited. Please consider the environment before printing this email.

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Re: [mpich-discuss] install mpich with hydra installed individually?
by Rajeev Thakur 05 Aug '14

05 Aug '14

You shouldn't need to install Hydra separately. Make sure you are using a recent version of MPICH. If your code fails, send an email here with the error message. Rajeev On Aug 5, 2014, at 10:56 AM, Chun Meng <miracle.chun.2010(a)gmail.com> wrote: > Hi All, > > I have a question about the installation of mpich. > Do I really need to install hydra separately? > Someone told me the source code of hydra is already in the mpich package. > But The model I'm using can not be successfully run without installing hydra individually. > > Any help is appreciated. > > Thanks a lot! > > Best, > Chun > _______________________________________________ > discuss mailing list discuss(a)mpich.org > To manage subscription options or unsubscribe: > https://lists.mpich.org/mailman/listinfo/discuss

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install mpich with hydra installed individually?
by Chun Meng 05 Aug '14

05 Aug '14

Hi All, I have a question about the installation of mpich. Do I really need to install hydra separately? Someone told me the source code of hydra is already in the mpich package. But The model I'm using can not be successfully run without installing hydra individually. Any help is appreciated. Thanks a lot! Best, Chun

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Re: [mpich-discuss] Problem installing MPICH
by Bland, Wesley B. 05 Aug '14

05 Aug '14

This looks like you might not have run the configure script correctly before running make. Can you send your config.log? Also, is there a particular reason that you need to install MPICH from source. It’s usually easier to just grab one of the versions that installs automatically. For Mac’s the recommended way of doing this is to use Homebrew. You can find more information on the Downloads page. For most installations (unless you’re using some non-default features), this is sufficient. Thanks, Wesley On Aug 5, 2014, at 10:17 AM, Sahar Amir <sahar.amir(a)kaust.edu.sa<mailto:[email protected]>> wrote: Good morning, I am trying to install MPICH on my mac. however when I try to apply the instruction make 2>&1 | tee m.log It gives: CDPATH="${ZSH_VERSION+.}:" && cd . && /bin/sh /Data_1/mpich-3.1.2/confdb/missing aclocal-1.14 -I confdb /Data_1/mpich-3.1.2/confdb/missing: line 81: aclocal-1.14: command not found WARNING: 'aclocal-1.14' is missing on your system. You should only need it if you modified 'acinclude.m4' or 'configure.ac<http://configure.ac/>' or m4 files included by 'configure.ac<http://configure.ac/>'. The 'aclocal' program is part of the GNU Automake package: <http://www.gnu.org/software/automake> It also requires GNU Autoconf, GNU m4 and Perl in order to run: <http://www.gnu.org/software/autoconf> <http://www.gnu.org/software/m4/> <http://www.perl.org/> make: *** [aclocal.m4] Error 127 Regards, Sahar ________________________________ This message and its contents, including attachments are intended solely for the original recipient. If you are not the intended recipient or have received this message in error, please notify me immediately and delete this message from your computer system. Any unauthorized use or distribution is prohibited. Please consider the environment before printing this email._______________________________________________ discuss mailing list discuss(a)mpich.org<mailto:[email protected]> To manage subscription options or unsubscribe: https://lists.mpich.org/mailman/listinfo/discuss

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Problem installing MPICH
by Sahar Amir 05 Aug '14

05 Aug '14

Good morning, I am trying to install MPICH on my mac. however when I try to apply the instruction make 2>&1 | tee m.log It gives: CDPATH="${ZSH_VERSION+.}:" && cd . && /bin/sh /Data_1/mpich-3.1.2/confdb/missing aclocal-1.14 -I confdb /Data_1/mpich-3.1.2/confdb/missing: line 81: aclocal-1.14: command not found WARNING: 'aclocal-1.14' is missing on your system. You should only need it if you modified 'acinclude.m4' or 'configure.ac' or m4 files included by 'configure.ac'. The 'aclocal' program is part of the GNU Automake package: <http://www.gnu.org/software/automake> It also requires GNU Autoconf, GNU m4 and Perl in order to run: <http://www.gnu.org/software/autoconf> <http://www.gnu.org/software/m4/> <http://www.perl.org/> make: *** [aclocal.m4] Error 127 Regards, Sahar -- ------------------------------ This message and its contents, including attachments are intended solely for the original recipient. If you are not the intended recipient or have received this message in error, please notify me immediately and delete this message from your computer system. Any unauthorized use or distribution is prohibited. Please consider the environment before printing this email.

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Re: [mpich-discuss] Problem with mpi_type_create_f90_real
by marco restelli 05 Aug '14

05 Aug '14

2014-08-05 14:07 GMT+0200, Rajeev Thakur <thakur(a)mcs.anl.gov>: > It is a known bug in MPICH. > http://trac.mpich.org/projects/mpich/ticket/1769 OK, thank you. Marco

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Re: [mpich-discuss] Problem with mpi_type_create_f90_real
by Rajeev Thakur 05 Aug '14

05 Aug '14

It is a known bug in MPICH. http://trac.mpich.org/projects/mpich/ticket/1769 Rajeev On Aug 5, 2014, at 4:22 AM, marco restelli <mrestelli(a)gmail.com> wrote: > Hi, > I have a problem using mpi_type_create_f90_real: I can compile the > attached code but when I run it I get > > $ mpiexec -n 1 ./mpitest > Fatal error in MPI_Allreduce: Invalid MPI_Op, error stack: > MPI_Allreduce(861)......: MPI_Allreduce(sbuf=0x7fff02a4eec0, > rbuf=0x7fff02a4eed0, count=1, dtype=USER<f90_real>, MPI_SUM, > MPI_COMM_WORLD) failed > MPIR_SUM_check_dtype(97): MPI_Op MPI_SUM operation not defined for > this datatype > > I am using: > > $ mpif90 -v > mpif90 for MPICH2 version 1.5 > > > Is this a problem in my use of mpi_type_create_f90_real or in mpich? > > Thanks, > Marco > > > program mpitest > > use mpi > implicit none > > integer, parameter :: wp = selected_real_kind(12,307) > integer, parameter :: & > wp_p = precision(1.0_wp), & > wp_r = range(1.0_wp) > > integer :: wp_mpi, mpi_id, ierr > real(wp) :: res > > ! MPI setup > call mpi_init(ierr) > call mpi_comm_rank(mpi_comm_world,mpi_id,ierr) > > !wp_mpi = mpi_double_precision ! works fine > call mpi_type_create_f90_real(wp_p,wp_r,wp_mpi,ierr) > > call mpi_allreduce( real(mpi_id,wp) , res , 1 , & > wp_mpi,mpi_sum,mpi_comm_world, ierr) > write(*,*) "res = ",res > > call mpi_finalize(ierr) > > end program mpitest > _______________________________________________ > 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 with mpi_type_create_f90_real
by marco restelli 05 Aug '14

05 Aug '14

Hi, I have a problem using mpi_type_create_f90_real: I can compile the attached code but when I run it I get $ mpiexec -n 1 ./mpitest Fatal error in MPI_Allreduce: Invalid MPI_Op, error stack: MPI_Allreduce(861)......: MPI_Allreduce(sbuf=0x7fff02a4eec0, rbuf=0x7fff02a4eed0, count=1, dtype=USER<f90_real>, MPI_SUM, MPI_COMM_WORLD) failed MPIR_SUM_check_dtype(97): MPI_Op MPI_SUM operation not defined for this datatype I am using: $ mpif90 -v mpif90 for MPICH2 version 1.5 Is this a problem in my use of mpi_type_create_f90_real or in mpich? Thanks, Marco program mpitest use mpi implicit none integer, parameter :: wp = selected_real_kind(12,307) integer, parameter :: & wp_p = precision(1.0_wp), & wp_r = range(1.0_wp) integer :: wp_mpi, mpi_id, ierr real(wp) :: res ! MPI setup call mpi_init(ierr) call mpi_comm_rank(mpi_comm_world,mpi_id,ierr) !wp_mpi = mpi_double_precision ! works fine call mpi_type_create_f90_real(wp_p,wp_r,wp_mpi,ierr) call mpi_allreduce( real(mpi_id,wp) , res , 1 , & wp_mpi,mpi_sum,mpi_comm_world, ierr) write(*,*) "res = ",res call mpi_finalize(ierr) end program mpitest

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Re: [mpich-discuss] MPI profiling help
by Lu, Huiwei 04 Aug '14

04 Aug '14

I have tried MPICH 3.1.2 on our BG/Q system. It was built fine. Here is the log: $ which powerpc64-bgq-linux-gcc /bgsys/drivers/V1R2M1/ppc64/gnu-linux/bin/powerpc64-bgq-linux-gcc $ ./configure --host=powerpc64-bgq-linux --with-device=pamid:BGQ --with-file-system=bg+bglockless $ grep '^CC=' config.log CC='powerpc64-bgq-linux-gcc' $ make -j 32 Arnamoy: can you try again with ‘pamid:BGQ’? I am using the options given in mpich-3.1.2/README, which said '--with-device=pamid:BGQ’ instead of '--with-device=pamid’. — Huiwei Lu Postdoc Appointee Mathematics and Computer Science Division, Argonne National Laboratory http://www.mcs.anl.gov/~huiweilu/ On Aug 4, 2014, at 10:26 AM, Antonio J. Peña <apenya(a)mcs.anl.gov> wrote: > > Hi, > > For the MPICH 3.1.2, that's a known issue of the IBM compiler that we have recently worked around. Please try to pull the most recent source from our repository. > > For the others, at a glance I have no clue of what may be wrong there. We will need your full configure log and make errors. Anyway, I'm CC'ing the discuss mailing list, where other folks with more experience building MPICH in BG/Q may give you a hint. > > > On 08/04/2014 10:20 AM, Arnamoy Bhattacharyya wrote: >> Hi Antonio; >> >> Can I bug you again a bit? It's not on MPI profiling but how to install and use different versions of MPICH in BG/Q. So I have followed the instructions from this webpage (https://wiki.mpich.org/mpich/index.php/BGQ#override_configure_settings_with…) and I build with the first method (building with gnu toolchain) >> >> I do: >> >> 1. export PATH=$PATH:/bgsys/drivers/V1R2M1/ppc64/gnu-linux/bin >> 2. ./configure --prefix=<directory> --host=powerpc64-bgq-linux --with-device=pamid >> 3. make >> 4. make install >> >> I have tried this method for MPICH-1.5, MPICH 3.0.1, MPICH 3.1.2, but not a single succeeded in "make" (the errors I have given below). >> >> Am I missing something in the building process? Can you tell me what I am doing wrong? >> >> Thanks again; >> >> ERRORS: >> >> MPI 1.5 : >> >> /home/arnamoy/summer14/mpi-1.5/mpi-src/src/mpid/pamid/include/../src/pt2pt/mpidi_recv.h: In function 'MPIDI_Recv': >> /home/arnamoy/summer14/mpi-1.5/mpi-src/src/mpid/pamid/include/../src/pt2pt/mpidi_recv.h:120: error: 'struct MPIDI_Request' has no member named 'userbuf' >> /home/arnamoy/summer14/mpi-1.5/mpi-src/src/mpid/pamid/include/../src/pt2pt/mpidi_recv.h:121: error: 'struct MPIDI_Request' has no member named 'userbufcount' >> /home/arnamoy/summer14/mpi-1.5/mpi-src/src/mpid/pamid/include/../src/pt2pt/mpidi_recv.h:122: error: 'struct MPIDI_Request' has no member named 'datatype' >> >> >> MPI 3.0.1 : >> >> In file included from /home/arnamoy/summer14/mpi-3.0.1/mpi-src/src/mpid/pamid/include/../src/pt2pt/mpid_irecv.h:26, >> from /home/arnamoy/summer14/mpi-3.0.1/mpi-src/src/mpid/pamid/include/mpidpost.h:38, >> from ./src/include/mpiimpl.h:3739, >> from src/mpi/attr/attrutil.c:16: >> /home/arnamoy/summer14/mpi-3.0.1/mpi-src/src/mpid/pamid/include/../src/pt2pt/mpidi_recv.h: In function 'MPIDI_Recv': >> /home/arnamoy/summer14/mpi-3.0.1/mpi-src/src/mpid/pamid/include/../src/pt2pt/mpidi_recv.h:120: error: 'struct MPIDI_Request' has no member named 'userbuf' >> /home/arnamoy/summer14/mpi-3.0.1/mpi-src/src/mpid/pamid/include/../src/pt2pt/mpidi_recv.h:121: error: 'struct MPIDI_Request' has no member named 'userbufcount' >> /home/arnamoy/summer14/mpi-3.0.1/mpi-src/src/mpid/pamid/include/../src/pt2pt/mpidi_recv.h:122: error: 'struct MPIDI_Request' has no member named 'datatype' >> >> MPI 3.1.2 >> >> "src/binding/fortran/mpif_h/setbotf.f", line 1.7: 1515-019 (S) Syntax is incorrect. >> "src/binding/fortran/mpif_h/setbotf.f", line 1.26: 1515-019 (S) Syntax is incorrect. >> "src/binding/fortran/mpif_h/setbotf.f", line 2.1: 1515-019 (S) Syntax is incorrect. > > > -- > 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 > > 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

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Re: [mpich-discuss] MPI profiling help
by "Antonio J. Peña" 04 Aug '14

04 Aug '14

Hi, For the MPICH 3.1.2, that's a known issue of the IBM compiler that we have recently worked around. Please try to pull the most recent source from our repository. For the others, at a glance I have no clue of what may be wrong there. We will need your full configure log and make errors. Anyway, I'm CC'ing the discuss mailing list, where other folks with more experience building MPICH in BG/Q may give you a hint. On 08/04/2014 10:20 AM, Arnamoy Bhattacharyya wrote: > Hi Antonio; > > Can I bug you again a bit? It's not on MPI profiling but how to > install and use different versions of MPICH in BG/Q. So I have > followed the instructions from this webpage > (https://wiki.mpich.org/mpich/index.php/BGQ#override_configure_settings_with…) > and I build with the first method (building with gnu toolchain) > > I do: > > 1. export PATH=$PATH:/bgsys/drivers/V1R2M1/ppc64/gnu-linux/bin > 2. ./configure --prefix=<directory> --host=powerpc64-bgq-linux > --with-device=pamid > 3. make > 4. make install > > I have tried this method for MPICH-1.5, MPICH 3.0.1, MPICH 3.1.2, but > not a single succeeded in "make" (the errors I have given below). > > Am I missing something in the building process? Can you tell me what > I am doing wrong? > > Thanks again; > > ERRORS: > > MPI 1.5 : > > /home/arnamoy/summer14/mpi-1.5/mpi-src/src/mpid/pamid/include/../src/pt2pt/mpidi_recv.h: > In function 'MPIDI_Recv': > /home/arnamoy/summer14/mpi-1.5/mpi-src/src/mpid/pamid/include/../src/pt2pt/mpidi_recv.h:120: > error: 'struct MPIDI_Request' has no member named 'userbuf' > /home/arnamoy/summer14/mpi-1.5/mpi-src/src/mpid/pamid/include/../src/pt2pt/mpidi_recv.h:121: > error: 'struct MPIDI_Request' has no member named 'userbufcount' > /home/arnamoy/summer14/mpi-1.5/mpi-src/src/mpid/pamid/include/../src/pt2pt/mpidi_recv.h:122: > error: 'struct MPIDI_Request' has no member named 'datatype' > > > MPI 3.0.1 : > > In file included from > /home/arnamoy/summer14/mpi-3.0.1/mpi-src/src/mpid/pamid/include/../src/pt2pt/mpid_irecv.h:26, > from > /home/arnamoy/summer14/mpi-3.0.1/mpi-src/src/mpid/pamid/include/mpidpost.h:38, > from ./src/include/mpiimpl.h:3739, > from src/mpi/attr/attrutil.c:16: > /home/arnamoy/summer14/mpi-3.0.1/mpi-src/src/mpid/pamid/include/../src/pt2pt/mpidi_recv.h: > In function 'MPIDI_Recv': > /home/arnamoy/summer14/mpi-3.0.1/mpi-src/src/mpid/pamid/include/../src/pt2pt/mpidi_recv.h:120: > error: 'struct MPIDI_Request' has no member named 'userbuf' > /home/arnamoy/summer14/mpi-3.0.1/mpi-src/src/mpid/pamid/include/../src/pt2pt/mpidi_recv.h:121: > error: 'struct MPIDI_Request' has no member named 'userbufcount' > /home/arnamoy/summer14/mpi-3.0.1/mpi-src/src/mpid/pamid/include/../src/pt2pt/mpidi_recv.h:122: > error: 'struct MPIDI_Request' has no member named 'datatype' > > MPI 3.1.2 > > "src/binding/fortran/mpif_h/setbotf.f", line 1.7: 1515-019 (S) Syntax > is incorrect. > "src/binding/fortran/mpif_h/setbotf.f", line 1.26: 1515-019 (S) Syntax > is incorrect. > "src/binding/fortran/mpif_h/setbotf.f", line 2.1: 1515-019 (S) Syntax > is incorrect. -- 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

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