March 2015 - discuss - mailman3.cels.anl.gov

Re: [mpich-discuss] MPICH V3.0.4 - Unable to compile simple code
by Jeff Hammond 02 Mar '15

02 Mar '15

You're going to need to provide more information for someone to help you. I see this issue has been encountered in the past with PGI: http://trac.mpich.org/projects/mpich/ticket/1073. Jeff On Mon, Mar 2, 2015 at 1:31 PM, Kush Patel <kushpatel000(a)gmail.com> wrote: > Hello, > > I'm having trouble getting a simple "Hello World" code to compile. The > following errors occur when I try to call MPI_INIT. > > /usr/bin/ld: Warning: alignment 16 of symbol `_Cmpifcmb3' in > /usr/local/lib/libmpich.a(setbot.o) is smaller than 32 in > /usr/local/lib/libmpich.a(setbotf.o) > /usr/bin/ld: Warning: alignment 16 of symbol `_Cmpifcmb5' in > /usr/local/lib/libmpich.a(setbot.o) is smaller than 32 in > /usr/local/lib/libmpich.a(setbotf.o) > /usr/bin/ld: Warning: alignment 16 of symbol `_Cmpifcmb7' in > /usr/local/lib/libmpich.a(setbot.o) is smaller than 32 in > /usr/local/lib/libmpich.a(setbotf.o) > /usr/bin/ld: Warning: alignment 16 of symbol `_Cmpifcmb9' in > /usr/local/lib/libmpich.a(setbot.o) is smaller than 32 in > /usr/local/lib/libmpich.a(setbotf.o) > > I have been unable to find a solution to this. > > Thank you, > > -- > Kush Patel > University of Houston > > _______________________________________________ > 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 http://jeffhammond.github.io/ _______________________________________________ discuss mailing list discuss(a)mpich.org To manage subscription options or unsubscribe: https://lists.mpich.org/mailman/listinfo/discuss

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MPICH V3.0.4 - Unable to compile simple code
by Kush Patel 02 Mar '15

02 Mar '15

Hello, I'm having trouble getting a simple "Hello World" code to compile. The following errors occur when I try to call MPI_INIT. /usr/bin/ld: Warning: alignment 16 of symbol `_Cmpifcmb3' in /usr/local/lib/libmpich.a(setbot.o) is smaller than 32 in /usr/local/lib/libmpich.a(setbotf.o) /usr/bin/ld: Warning: alignment 16 of symbol `_Cmpifcmb5' in /usr/local/lib/libmpich.a(setbot.o) is smaller than 32 in /usr/local/lib/libmpich.a(setbotf.o) /usr/bin/ld: Warning: alignment 16 of symbol `_Cmpifcmb7' in /usr/local/lib/libmpich.a(setbot.o) is smaller than 32 in /usr/local/lib/libmpich.a(setbotf.o) /usr/bin/ld: Warning: alignment 16 of symbol `_Cmpifcmb9' in /usr/local/lib/libmpich.a(setbot.o) is smaller than 32 in /usr/local/lib/libmpich.a(setbotf.o) I have been unable to find a solution to this. Thank you, -- Kush Patel University of Houston _______________________________________________ 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 scatter algorithms for BlueGene/P
by Khalid Hasanov 01 Mar '15

01 Mar '15

Pavan, thank you for your reply. I will try to find out from the sources as you suggested. Regards, Khalid On Mon, Mar 2, 2015 at 1:38 AM, Balaji, Pavan <balaji(a)anl.gov> wrote: > > BG/P is such an ancient machine, that we don't even remember anymore, > unfortunately. > > You might be able to pull out the old releases of mpich (the ones where > there used to be a dcmfd device in the src/mpid directory), and check. > > -- Pavan > > > On Mar 1, 2015, at 6:36 PM, Khalid Hasanov <xalid.h(a)gmail.com> wrote: > > > > Hello, > > > > First of all, I am not sure if this group is the right place for this > question. If not I apologize for asking unrelated question. > > > > I read two papers about optimizing MPI collective communications on BG/L > and BG/P. > > (Optimization of MPI Collective Communication on BlueGene/L Systems > > and MPI Collective Communications on The Blue Gene/P Supercomputer: > Algorithms and Optimizations respectively). However, these two papers do > not mention anything about MPI scatter and gather operations, I wonder if > these two collective operations have been optimized for BlueGene or they > use exactly the same algorithms from MPICH. Any reference appreciated. > > > > > > Best regards, > > Khalid > > _______________________________________________ > > 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 _______________________________________________ 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 scatter algorithms for BlueGene/P
by Balaji, Pavan 01 Mar '15

01 Mar '15

BG/P is such an ancient machine, that we don't even remember anymore, unfortunately. You might be able to pull out the old releases of mpich (the ones where there used to be a dcmfd device in the src/mpid directory), and check. -- Pavan > On Mar 1, 2015, at 6:36 PM, Khalid Hasanov <xalid.h(a)gmail.com> wrote: > > Hello, > > First of all, I am not sure if this group is the right place for this question. If not I apologize for asking unrelated question. > > I read two papers about optimizing MPI collective communications on BG/L and BG/P. > (Optimization of MPI Collective Communication on BlueGene/L Systems > and MPI Collective Communications on The Blue Gene/P Supercomputer: Algorithms and Optimizations respectively). However, these two papers do not mention anything about MPI scatter and gather operations, I wonder if these two collective operations have been optimized for BlueGene or they use exactly the same algorithms from MPICH. Any reference appreciated. > > > Best regards, > Khalid > _______________________________________________ > 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

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MPI scatter algorithms for BlueGene/P
by Khalid Hasanov 01 Mar '15

01 Mar '15

Hello, First of all, I am not sure if this group is the right place for this question. If not I apologize for asking unrelated question. I read two papers about optimizing MPI collective communications on BG/L and BG/P. (Optimization of MPI Collective Communication on BlueGene/L Systems and MPI Collective Communications on The Blue Gene/P Supercomputer: Algorithms and Optimizations respectively). However, these two papers do not mention anything about MPI scatter and gather operations, I wonder if these two collective operations have been optimized for BlueGene or they use exactly the same algorithms from MPICH. Any reference appreciated. Best regards, Khalid _______________________________________________ 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] mpich 3 shared libraries install
by Balaji, Pavan 01 Mar '15

01 Mar '15

John, Did you use mpicc, etc., to build your program? If yes, you shouldn't have to do the below steps. -- Pavan > On Mar 1, 2015, at 9:47 AM, John Hancock <jhancock1975(a)gmail.com> wrote: > > I am making a suggestion about an addition to the installation guide. > > We may want to include some instructions on how to update one's system to use new libraries created as part of the compilation process. > > The mpich 3.1.4 install guide suggests readers may want to run the configure script with a prefix option. > > After installing mpich, I ran the pmandel example program. It terminated with the following error message, "error while loading shared libraries: libmpi.so.12: cannot open shared object file: No such file or directory." > > We found it necessary to update all nodes to use the new libraries created during compilation. > > We needed to add a file to the ld.so.conf.d directory with one line in it containing the path to mpich libraries. The path to the mpich libraries is <<prefix>>/lib, where <<prefix>> is the prefix used in the configure phase of the installation process. We added this file to all nodes. > > In addition, we needed to run the ldconfig command on all nodes to make the system fully aware of the new libraries. > > After that, we were able to successfully run the pmandel program. > > We may want to include some language in the install guide that informs the reader that it may be necessary to take similar steps to complete the installation process. > > > -John > _______________________________________________ > 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

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mpich 3 shared libraries install
by John Hancock 01 Mar '15

01 Mar '15

I am making a suggestion about an addition to the installation guide. We may want to include some instructions on how to update one's system to use new libraries created as part of the compilation process. The mpich 3.1.4 install guide suggests readers may want to run the configure script with a prefix option. After installing mpich, I ran the pmandel example program. It terminated with the following error message, "error while loading shared libraries: libmpi.so.12: cannot open shared object file: No such file or directory." We found it necessary to update all nodes to use the new libraries created during compilation. We needed to add a file to the ld.so.conf.d directory with one line in it containing the path to mpich libraries. The path to the mpich libraries is <<prefix>>/lib, where <<prefix>> is the prefix used in the configure phase of the installation process. We added this file to all nodes. In addition, we needed to run the ldconfig command on all nodes to make the system fully aware of the new libraries. After that, we were able to successfully run the pmandel program. We may want to include some language in the install guide that informs the reader that it may be necessary to take similar steps to complete the installation process. -John _______________________________________________ discuss mailing list discuss(a)mpich.org To manage subscription options or unsubscribe: https://lists.mpich.org/mailman/listinfo/discuss

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