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

Re: [mpich-discuss] Intel Xeon Phi support?
by Nikoloutsakos Nikolaos 09 May '14

09 May '14

Hi again, Im trying to follow your steps, (if any documentation or experience would be great!) so here is my configure: ./configure --prefix=/opt/mvapich_icc_mic/ --disable-fc --disable-f77 --host=i686-linux-gnu --build=x86_64-k1om-linux CC=icc CXX=icpc CFLAGS=-mmic CPPFLAGS=-mmic CXXFLAGS=-mmic now i got a problem with make: make all-recursive make[1]: Entering directory `/home/nikoloutsa/Downloads/mpich-3.1' Making all in /home/nikoloutsa/Downloads/mpich-3.1/src/mpl make[2]: Entering directory `/home/nikoloutsa/Downloads/mpich-3.1/src/mpl' CCLD libmpl.la ld: src/.libs/mplstr.o: Relocations in generic ELF (EM: 181) src/.libs/mplstr.o: could not read symbols: File in wrong format make[2]: *** [libmpl.la] Error 1 make[2]: Leaving directory `/home/nikoloutsa/Downloads/mpich-3.1/src/mpl' make[1]: *** [all-recursive] Error 1 make[1]: Leaving directory `/home/nikoloutsa/Downloads/mpich-3.1' make: *** [all] Error 2 Sorry if my question is very trivial but i have no clue. Thank you very much. Nikos Στις 2014-05-10 01:58, Balaji, Pavan έγραψε: > Hello, > > You need to build MPICH for the MIC as well, not just the application. > > So CFLAGS need to be set to -mmic for MPICH’s configure too, and that > copy needs to be installed on the MIC. > > Here’s a rough list of steps: > > 1. Configure MPICH with -mmic. Build. Install. > > 2. Copy the install directory to the MIC. > > 3. Configure MPICH without -mmic (for the host). Build. Install. > > 4. Make sure the install path for MPICH on both the host and the MIC > is the same. > > — Pavan > > On May 9, 2014, at 2:57 PM, Nikoloutsakos Nikolaos > <nikoloutsa(a)ceid.upatras.gr> wrote: > >> Yes i am familiar with that, have you ever tried it? >> I get the following error: >> $mpicc -mmic -show mpi_hello_world.c >> $icc -mmic mpi_hello_world.c -o mpi_hello_world >> -I/opt/mpich_icc/include -L/opt/mpich_icc/lib -Wl,-rpath >> -Wl,/opt/mpich_icc/lib -lmpich -lopa -lmpl -lrt -lpthread >> >> x86_64-k1om-linux-ld: skipping incompatible >> /opt/mpich_icc/lib/libmpich.so when searching for -lmpich >> x86_64-k1om-linux-ld: skipping incompatible >> /opt/mpich_icc/lib/libmpich.a when searching for -lmpich >> x86_64-k1om-linux-ld: cannot find -lmpich >> x86_64-k1om-linux-ld: skipping incompatible >> /opt/mpich_icc/lib/libopa.so when searching for -lopa >> x86_64-k1om-linux-ld: skipping incompatible >> /opt/mpich_icc/lib/libopa.a when searching for -lopa >> x86_64-k1om-linux-ld: cannot find -lopa >> x86_64-k1om-linux-ld: skipping incompatible >> /opt/mpich_icc/lib/libmpl.so when searching for -lmpl >> x86_64-k1om-linux-ld: skipping incompatible >> /opt/mpich_icc/lib/libmpl.a when searching for -lmpl >> x86_64-k1om-linux-ld: cannot find -lmp >> >> Without the -mmic argument i dont have any linking problems. >> >> Thanks for the feedback. >> >> Στις 2014-05-09 16:03, Harms, Kevin N. έγραψε: >>> add -mmic to the CFLAGS/LDFLAGS if you want to run in native mode. >>> kevin >>>> Hello, >>>> I just installed MPICH 3.1 "several improvements to Intel Xeon Phi >>>> (contributed by Intel and NEC)". >>>> I used icc to compile mpich. >>>> I can't figure out how to create an executable for xeon phi. >>>> Any hints from anyone using mpich with phi? >>>> Thank you all. >>>> _______________________________________________ >>>> 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 >> _______________________________________________ >> 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] Intel Xeon Phi support?
by Balaji, Pavan 09 May '14

09 May '14

Hello, You need to build MPICH for the MIC as well, not just the application. So CFLAGS need to be set to -mmic for MPICH’s configure too, and that copy needs to be installed on the MIC. Here’s a rough list of steps: 1. Configure MPICH with -mmic. Build. Install. 2. Copy the install directory to the MIC. 3. Configure MPICH without -mmic (for the host). Build. Install. 4. Make sure the install path for MPICH on both the host and the MIC is the same. — Pavan On May 9, 2014, at 2:57 PM, Nikoloutsakos Nikolaos <nikoloutsa(a)ceid.upatras.gr> wrote: > Yes i am familiar with that, have you ever tried it? > I get the following error: > $mpicc -mmic -show mpi_hello_world.c > $icc -mmic mpi_hello_world.c -o mpi_hello_world -I/opt/mpich_icc/include -L/opt/mpich_icc/lib -Wl,-rpath -Wl,/opt/mpich_icc/lib -lmpich -lopa -lmpl -lrt -lpthread > > x86_64-k1om-linux-ld: skipping incompatible /opt/mpich_icc/lib/libmpich.so when searching for -lmpich > x86_64-k1om-linux-ld: skipping incompatible /opt/mpich_icc/lib/libmpich.a when searching for -lmpich > x86_64-k1om-linux-ld: cannot find -lmpich > x86_64-k1om-linux-ld: skipping incompatible /opt/mpich_icc/lib/libopa.so when searching for -lopa > x86_64-k1om-linux-ld: skipping incompatible /opt/mpich_icc/lib/libopa.a when searching for -lopa > x86_64-k1om-linux-ld: cannot find -lopa > x86_64-k1om-linux-ld: skipping incompatible /opt/mpich_icc/lib/libmpl.so when searching for -lmpl > x86_64-k1om-linux-ld: skipping incompatible /opt/mpich_icc/lib/libmpl.a when searching for -lmpl > x86_64-k1om-linux-ld: cannot find -lmp > > Without the -mmic argument i dont have any linking problems. > > Thanks for the feedback. > > Στις 2014-05-09 16:03, Harms, Kevin N. έγραψε: >> add -mmic to the CFLAGS/LDFLAGS if you want to run in native mode. >> kevin >>> Hello, >>> I just installed MPICH 3.1 "several improvements to Intel Xeon Phi >>> (contributed by Intel and NEC)". >>> I used icc to compile mpich. >>> I can't figure out how to create an executable for xeon phi. >>> Any hints from anyone using mpich with phi? >>> Thank you all. >>> _______________________________________________ >>> 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 > _______________________________________________ > 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] Intel Xeon Phi support?
by Nikoloutsakos Nikolaos 09 May '14

09 May '14

Yes i am familiar with that, have you ever tried it? I get the following error: $mpicc -mmic -show mpi_hello_world.c $icc -mmic mpi_hello_world.c -o mpi_hello_world -I/opt/mpich_icc/include -L/opt/mpich_icc/lib -Wl,-rpath -Wl,/opt/mpich_icc/lib -lmpich -lopa -lmpl -lrt -lpthread x86_64-k1om-linux-ld: skipping incompatible /opt/mpich_icc/lib/libmpich.so when searching for -lmpich x86_64-k1om-linux-ld: skipping incompatible /opt/mpich_icc/lib/libmpich.a when searching for -lmpich x86_64-k1om-linux-ld: cannot find -lmpich x86_64-k1om-linux-ld: skipping incompatible /opt/mpich_icc/lib/libopa.so when searching for -lopa x86_64-k1om-linux-ld: skipping incompatible /opt/mpich_icc/lib/libopa.a when searching for -lopa x86_64-k1om-linux-ld: cannot find -lopa x86_64-k1om-linux-ld: skipping incompatible /opt/mpich_icc/lib/libmpl.so when searching for -lmpl x86_64-k1om-linux-ld: skipping incompatible /opt/mpich_icc/lib/libmpl.a when searching for -lmpl x86_64-k1om-linux-ld: cannot find -lmp Without the -mmic argument i dont have any linking problems. Thanks for the feedback. Στις 2014-05-09 16:03, Harms, Kevin N. έγραψε: > add -mmic to the CFLAGS/LDFLAGS if you want to run in native mode. > > kevin > >> Hello, >> >> I just installed MPICH 3.1 "several improvements to Intel Xeon Phi >> (contributed by Intel and NEC)". >> I used icc to compile mpich. >> I can't figure out how to create an executable for xeon phi. >> Any hints from anyone using mpich with phi? >> >> Thank you all. >> _______________________________________________ >> 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] Intel Xeon Phi support?
by Harms, Kevin N. 09 May '14

09 May '14

add -mmic to the CFLAGS/LDFLAGS if you want to run in native mode. kevin >Hello, > >I just installed MPICH 3.1 "several improvements to Intel Xeon Phi >(contributed by Intel and NEC)". >I used icc to compile mpich. >I can't figure out how to create an executable for xeon phi. >Any hints from anyone using mpich with phi? > >Thank you all. >_______________________________________________ >discuss mailing list discuss(a)mpich.org >To manage subscription options or unsubscribe: >https://lists.mpich.org/mailman/listinfo/discuss

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Intel Xeon Phi support?
by Nikoloutsakos Nikolaos 09 May '14

09 May '14

Hello, I just installed MPICH 3.1 "several improvements to Intel Xeon Phi (contributed by Intel and NEC)". I used icc to compile mpich. I can't figure out how to create an executable for xeon phi. Any hints from anyone using mpich with phi? Thank you all.

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Re: [mpich-discuss] Does MPICH implements polling mechanism on MPI_Recv?
by Anatoly G 08 May '14

08 May '14

Thank you. Anatoly. On Thu, May 8, 2014 at 3:57 PM, Balaji, Pavan <balaji(a)anl.gov> wrote: > > This is expected. Currently, the only way to not have MPICH poll is to > configure with --with-device=ch3:sock. Please note that this can cause > performance loss (the polling is helpful for performance in the common > case). > > We are planning to allow this in the default build as well in the future. > > — Pavan > > On May 8, 2014, at 7:54 AM, Anatoly G <anatolyrishon(a)gmail.com> wrote: > > > Dear MPICH forum. > > I created an endless MPI program. > > In this program each process calls MPI_Recv from other process, w/o any > MPI_Send. > > When I execute this program I see each process takes ~ 100% CPU core. > > Is this behavior (I suppose polling) is normal? > > May I reduce MPI_Recv CPU penalty? > > > > Regards, > > Anatoly. > > <mpi_polling.cpp>_______________________________________________ > > 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] Does MPICH implements polling mechanism on MPI_Recv?
by Balaji, Pavan 08 May '14

08 May '14

This is expected. Currently, the only way to not have MPICH poll is to configure with --with-device=ch3:sock. Please note that this can cause performance loss (the polling is helpful for performance in the common case). We are planning to allow this in the default build as well in the future. — Pavan On May 8, 2014, at 7:54 AM, Anatoly G <anatolyrishon(a)gmail.com> wrote: > Dear MPICH forum. > I created an endless MPI program. > In this program each process calls MPI_Recv from other process, w/o any MPI_Send. > When I execute this program I see each process takes ~ 100% CPU core. > Is this behavior (I suppose polling) is normal? > May I reduce MPI_Recv CPU penalty? > > Regards, > Anatoly. > <mpi_polling.cpp>_______________________________________________ > discuss mailing list discuss(a)mpich.org > To manage subscription options or unsubscribe: > https://lists.mpich.org/mailman/listinfo/discuss

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Does MPICH implements polling mechanism on MPI_Recv?
by Anatoly G 08 May '14

08 May '14

Dear MPICH forum. I created an endless MPI program. In this program each process calls MPI_Recv from other process, w/o any MPI _Send. When I execute this program I see each process takes ~ 100% CPU core. Is this behavior (I suppose polling) is normal? May I reduce MPI_Recv CPU penalty? Regards, Anatoly.

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Re: [mpich-discuss] problem when configure mpich
by Yan Bai 07 May '14

07 May '14

Many thanks to your quick response. It still doesn’t work. I used this configure line ./configure --prefix=/users/ybai5/mpich2-install F77=$ABSOFT/bin/af90\ FC=$ABSOFT/bin/af90 --with-pm=mpd and got this error: configure: error: The selected Fortran 90 compiler /Applications/Absoft11.5/bin/af90 does not work with the selected Fortran 77 compiler /Applications/Absoft11.5/bin/af90. Use the environment variables FC and F77 respectively to select compatible Fortran compilers. The check here tests to see if a main program compiled with the Fortran 90 compiler can link with a subroutine compiled with the Fortran 77 compiler. It’s so weird. If you need, I can send the log files. Thanks a million! Best Yan On May 7, 2014, at 7:54 PM, Rajeev Thakur <thakur(a)mcs.anl.gov> wrote: > Try setting both FC and F77 to af90. > > Rajeev > > On May 7, 2014, at 6:33 PM, Yan Bai <yanbai06(a)gmail.com> wrote: > >> Hello >> >> I was trying to install mpich-3.1 but stopped at the first step: configuration. The Fortran compiler I have is absoft. I tried both the configuration command given by Readme file of mpich-3.1 and the configuration line given by Absoft. Both have the following error message: >> >> configure: error: The selected Fortran 90 compiler /Applications/Absoft11.5/bin/af90 does not work with the selected Fortran 77 compiler /Applications/Absoft11.5/bin/af77. Use the environment variables FC and F77 respectively to select compatible Fortran compilers. The check here tests to see if a main program compiled with the Fortran 90 compiler can link with a subroutine compiled with the Fortran 77 compiler. >> >> Attached please find the log files. >> >> I really appreciate your help! >> >> Best regards >> >> Yan >> ------------------ >> Yan Bai >> 216 Harkness Hall, RC 270156 >> Department of Economics >> University of Rochester >> 585.275.4196 (office) >> 585.256.2309 (fax) >> yanbai06(a)gmail.com >> https://sites.google.com/site/yanbai06/ >> >> <sentMPI.zip> > > _______________________________________________ > 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 when configure mpich
by Rajeev Thakur 07 May '14

07 May '14

Try setting both FC and F77 to af90. Rajeev On May 7, 2014, at 6:33 PM, Yan Bai <yanbai06(a)gmail.com> wrote: > Hello > > I was trying to install mpich-3.1 but stopped at the first step: configuration. The Fortran compiler I have is absoft. I tried both the configuration command given by Readme file of mpich-3.1 and the configuration line given by Absoft. Both have the following error message: > > configure: error: The selected Fortran 90 compiler /Applications/Absoft11.5/bin/af90 does not work with the selected Fortran 77 compiler /Applications/Absoft11.5/bin/af77. Use the environment variables FC and F77 respectively to select compatible Fortran compilers. The check here tests to see if a main program compiled with the Fortran 90 compiler can link with a subroutine compiled with the Fortran 77 compiler. > > Attached please find the log files. > > I really appreciate your help! > > Best regards > > Yan > ------------------ > Yan Bai > 216 Harkness Hall, RC 270156 > Department of Economics > University of Rochester > 585.275.4196 (office) > 585.256.2309 (fax) > yanbai06(a)gmail.com > https://sites.google.com/site/yanbai06/ > > <sentMPI.zip>

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