Difference between revisions of "HPC:Boost"
From HPC wiki
| Line 10: | Line 10: | ||
Code below has been adapted from the Boost [http://www.boost.org/doc/libs/1_57_0/doc/html/mpi/getting_started.html documentation] | Code below has been adapted from the Boost [http://www.boost.org/doc/libs/1_57_0/doc/html/mpi/getting_started.html documentation] | ||
<pre> | <pre> | ||
| + | #include <iostream> | ||
| + | #include <mpi.h> | ||
| + | int main( int argc, char* argv[]) | ||
| + | { | ||
| + | MPI_Init(&argc, &argv); | ||
| + | |||
| + | int rank; | ||
| + | MPI_Comm_rank(MPI_COMM_WORLD, &rank); | ||
| + | if (rank == 0) { | ||
| + | int value = 17; | ||
| + | int result = MPI_Send(&value, 1, MPI_INT, 1, 0, MPI_COMM_WORLD); | ||
| + | if (result == MPI_SUCCESS) | ||
| + | std::cout << "Rank 0 OK!" << std::endl; | ||
| + | } else if (rank == 1) { | ||
| + | int value; | ||
| + | int result = MPI_Recv(&value, 1, MPI_INT, 0, 0, MPI_COMM_WORLD, | ||
| + | MPI_STATUS_IGNORE); | ||
| + | if (result == MPI_SUCCESS && value == 17) | ||
| + | std::cout << "Rank 1 OK!" << std::endl; | ||
| + | } | ||
| + | MPI_Finalize(); | ||
| + | return 0; | ||
| + | } 0; | ||
| + | } | ||
</pre> | </pre> | ||
| Line 16: | Line 40: | ||
===== Boost v1.55.0 ===== | ===== Boost v1.55.0 ===== | ||
| − | The above code snippet is intended to verify Boost.MPI library functionality. | + | The above code snippet is intended to verify Boost.MPI library functionality. Follow the steps below in an interactive node. Launch an interactive session with -n 2 to ensure that the number of processors used in this Boost.MPI test are accounted for |
Load the appropriate Boost version module: | Load the appropriate Boost version module: | ||
<pre> | <pre> | ||
| − | [asrini@consign ~]$ bsub -Is bash | + | [asrini@consign ~]$ bsub -n 2 -Is bash |
[asrini@node062 ~]$ ls boost_test.cpp | [asrini@node062 ~]$ ls boost_test.cpp | ||
| Line 34: | Line 58: | ||
<pre> | <pre> | ||
| − | [asrini@node062 ~]$ mpic++ | + | [asrini@node062 ~]$ mpic++ -W -Wall -I/opt/software/boost/1.55.0/include/ -L/opt/software/boost/1.55.0/lib/ -lboost_mpi -lboost_serialization boost_test.cpp -o Boost |
</pre> | </pre> | ||
| Line 43: | Line 67: | ||
[asrini@node062 ~]$ $ ldd Boost | [asrini@node062 ~]$ $ ldd Boost | ||
| − | linux-vdso.so.1 => ( | + | linux-vdso.so.1 => (0x00007fff3271e000) |
| − | libboost_mpi.so.1.55.0 => /opt/software/boost/1.55.0/lib/libboost_mpi.so.1.55.0 ( | + | libboost_mpi.so.1.55.0 => /opt/software/boost/1.55.0/lib/libboost_mpi.so.1.55.0 (0x00002b7325636000) |
| − | libboost_serialization.so.1.55.0 => /opt/software/boost/1.55.0/lib/libboost_serialization.so.1.55.0 ( | + | libboost_serialization.so.1.55.0 => /opt/software/boost/1.55.0/lib/libboost_serialization.so.1.55.0 (0x00002b7325866000) |
| − | + | libmpi_cxx.so.1 => /usr/lib64/openmpi/lib/libmpi_cxx.so.1 (0x00002b7325ae0000) | |
| − | + | libmpi.so.1 => /usr/lib64/openmpi/lib/libmpi.so.1 (0x00000031d0e00000) | |
| − | + | libstdc++.so.6 => /usr/lib64/libstdc++.so.6 (0x00000031cfe00000) | |
| − | + | libm.so.6 => /lib64/libm.so.6 (0x00000031ce200000) | |
| − | libmpi_cxx.so.1 => /usr/lib64/openmpi/lib/libmpi_cxx.so.1 ( | + | libgcc_s.so.1 => /lib64/libgcc_s.so.1 (0x00000031d0600000) |
| − | libmpi.so.1 => /usr/lib64/openmpi/lib/libmpi.so.1 ( | + | libpthread.so.0 => /lib64/libpthread.so.0 (0x00000031cea00000) |
| − | libstdc++.so.6 => /usr/lib64/libstdc++.so.6 ( | + | libc.so.6 => /lib64/libc.so.6 (0x00000031ce600000) |
| − | libm.so.6 => /lib64/libm.so.6 ( | + | librt.so.1 => /lib64/librt.so.1 (0x00000031cf600000) |
| − | libgcc_s.so.1 => /lib64/libgcc_s.so.1 ( | + | libopen-rte.so.7 => /usr/lib64/openmpi/lib/libopen-rte.so.7 (0x00000031d0a00000) |
| − | libpthread.so.0 => /lib64/libpthread.so.0 ( | + | libopen-pal.so.6 => /usr/lib64/openmpi/lib/libopen-pal.so.6 (0x00000031d0200000) |
| − | libc.so.6 => /lib64/libc.so.6 ( | + | libdl.so.2 => /lib64/libdl.so.2 (0x00000031cee00000) |
| − | librt.so.1 => /lib64/librt.so.1 ( | + | libnsl.so.1 => /lib64/libnsl.so.1 (0x00000031d1600000) |
| − | + | libutil.so.1 => /lib64/libutil.so.1 (0x00000031d2200000) | |
| − | + | libltdl.so.7 => /usr/lib64/libltdl.so.7 (0x00000031cfa00000) | |
| − | libopen-rte.so.7 => /usr/lib64/openmpi/lib/libopen-rte.so.7 ( | + | /lib64/ld-linux-x86-64.so.2 (0x00000031cde00000) |
| − | libopen-pal.so.6 => /usr/lib64/openmpi/lib/libopen-pal.so.6 ( | + | |
| − | libdl.so.2 => /lib64/libdl.so.2 ( | ||
| − | libnsl.so.1 => /lib64/libnsl.so.1 ( | ||
| − | libutil.so.1 => /lib64/libutil.so.1 ( | ||
| − | libltdl.so.7 => /usr/lib64/libltdl.so.7 ( | ||
| − | /lib64/ld-linux-x86-64.so.2 ( | ||
</pre> | </pre> | ||
| Line 72: | Line 91: | ||
<pre> | <pre> | ||
| − | [asrini@node062 ~]$ /Boost | + | |
| − | + | [asrini@node062 ~]$ mpirun -np 2 ./Boost | |
| − | + | Rank 0 OK! | |
| + | Rank 1 OK! | ||
| + | |||
</pre> | </pre> | ||
===== Boost v1.57.0 ===== | ===== Boost v1.57.0 ===== | ||
| − | The above code snippet is intended to verify Boost.MPI library functionality. | + | The above code snippet is intended to verify Boost.MPI library functionality. Follow the steps below in an interactive node. Launch an interactive session with -n 2 to ensure that the number of processors used in this Boost.MPI test are accounted for |
Load the appropriate Boost version module: | Load the appropriate Boost version module: | ||
<pre> | <pre> | ||
| − | [asrini@consign ~]$ bsub -Is bash | + | [asrini@consign ~]$ bsub -n 2 -Is bash |
[asrini@node062 ~]$ ls boost_test.cpp | [asrini@node062 ~]$ ls boost_test.cpp | ||
| Line 97: | Line 118: | ||
<pre> | <pre> | ||
| − | [asrini@node062 ~]$ mpic++ | + | [asrini@node062 ~]$ mpic++ -W -Wall -I/opt/software/boost/1.57.0/include/ -L/opt/software/boost/1.57.0/lib/ -lboost_mpi -lboost_serialization boost_test.cpp -o Boost |
</pre> | </pre> | ||
| − | Verify that the executable created was indeed compiled against this version of Boost. Notice the path to libboost_mpi.so.1. | + | Verify that the executable created was indeed compiled against this version of Boost. Notice the path to libboost_mpi.so.1.57.0 in the output below: |
<pre> | <pre> | ||
[asrini@node062 ~]$ ldd Boost | [asrini@node062 ~]$ ldd Boost | ||
| − | linux-vdso.so.1 => ( | + | linux-vdso.so.1 => (0x00007fff9b7ff000) |
| − | libboost_mpi.so.1.57.0 => /opt/software/boost/1.57.0/lib/libboost_mpi.so.1.57.0 ( | + | libboost_mpi.so.1.57.0 => /opt/software/boost/1.57.0/lib/libboost_mpi.so.1.57.0 (0x00002b83ef4fe000) |
| − | libboost_serialization.so.1.57.0 => /opt/software/boost/1.57.0/lib/libboost_serialization.so.1.57.0 ( | + | libboost_serialization.so.1.57.0 => /opt/software/boost/1.57.0/lib/libboost_serialization.so.1.57.0 (0x00002b83ef72e000) |
| − | + | libmpi_cxx.so.1 => /usr/lib64/openmpi/lib/libmpi_cxx.so.1 (0x00002b83ef998000) | |
| − | |||
| − | |||
| − | |||
| − | libmpi_cxx.so.1 => /usr/lib64/openmpi/lib/libmpi_cxx.so.1 ( | ||
libmpi.so.1 => /usr/lib64/openmpi/lib/libmpi.so.1 (0x00000031d0e00000) | libmpi.so.1 => /usr/lib64/openmpi/lib/libmpi.so.1 (0x00000031d0e00000) | ||
libstdc++.so.6 => /usr/lib64/libstdc++.so.6 (0x00000031cfe00000) | libstdc++.so.6 => /usr/lib64/libstdc++.so.6 (0x00000031cfe00000) | ||
| Line 121: | Line 138: | ||
libc.so.6 => /lib64/libc.so.6 (0x00000031ce600000) | libc.so.6 => /lib64/libc.so.6 (0x00000031ce600000) | ||
librt.so.1 => /lib64/librt.so.1 (0x00000031cf600000) | librt.so.1 => /lib64/librt.so.1 (0x00000031cf600000) | ||
| − | |||
| − | |||
libopen-rte.so.7 => /usr/lib64/openmpi/lib/libopen-rte.so.7 (0x00000031d0a00000) | libopen-rte.so.7 => /usr/lib64/openmpi/lib/libopen-rte.so.7 (0x00000031d0a00000) | ||
libopen-pal.so.6 => /usr/lib64/openmpi/lib/libopen-pal.so.6 (0x00000031d0200000) | libopen-pal.so.6 => /usr/lib64/openmpi/lib/libopen-pal.so.6 (0x00000031d0200000) | ||
| Line 130: | Line 145: | ||
libltdl.so.7 => /usr/lib64/libltdl.so.7 (0x00000031cfa00000) | libltdl.so.7 => /usr/lib64/libltdl.so.7 (0x00000031cfa00000) | ||
/lib64/ld-linux-x86-64.so.2 (0x00000031cde00000) | /lib64/ld-linux-x86-64.so.2 (0x00000031cde00000) | ||
| − | |||
</pre> | </pre> | ||
| Line 137: | Line 151: | ||
<pre> | <pre> | ||
| − | [asrini@node062 ~]$ ./Boost | + | [asrini@node062 ~]$ mpirun -np 2 ./Boost |
| − | + | Rank 0 OK! | |
| − | + | Rank 1 OK! | |
</pre> | </pre> | ||
Revision as of 15:27, 19 March 2015
Contents
Boost
There are currently three different versions of Boost C++ Libraries installed on all the PMACS cluster nodes.
Boost v1.41.0 is the system default version and can be linked to programs without any additional work.
Note : The default version of Boost may not include all the desired libraries. For example MPI library bindings may not work as expected.
Additional versions of Boost
Boost v1.55.0 and v1.57.0 are both available as modules. The example C++ code below can be used to test Boost v1.55.0 and v1.57.0 functionality on the PMACS cluster but not the system default version.
Code below has been adapted from the Boost documentation
#include <iostream>
#include <mpi.h>
int main( int argc, char* argv[])
{
MPI_Init(&argc, &argv);
int rank;
MPI_Comm_rank(MPI_COMM_WORLD, &rank);
if (rank == 0) {
int value = 17;
int result = MPI_Send(&value, 1, MPI_INT, 1, 0, MPI_COMM_WORLD);
if (result == MPI_SUCCESS)
std::cout << "Rank 0 OK!" << std::endl;
} else if (rank == 1) {
int value;
int result = MPI_Recv(&value, 1, MPI_INT, 0, 0, MPI_COMM_WORLD,
MPI_STATUS_IGNORE);
if (result == MPI_SUCCESS && value == 17)
std::cout << "Rank 1 OK!" << std::endl;
}
MPI_Finalize();
return 0;
} 0;
}
Copy the code above into a file called boost_test.cpp
Boost v1.55.0
The above code snippet is intended to verify Boost.MPI library functionality. Follow the steps below in an interactive node. Launch an interactive session with -n 2 to ensure that the number of processors used in this Boost.MPI test are accounted for
Load the appropriate Boost version module:
[asrini@consign ~]$ bsub -n 2 -Is bash [asrini@node062 ~]$ ls boost_test.cpp boost_test.cpp [asrini@node062 ~]$ module load openmpi-1.5.4-x86_64 [asrini@node062 ~]$ module load boost-1.55.0
Now compile the code against the version of Boost you are testing.
[asrini@node062 ~]$ mpic++ -W -Wall -I/opt/software/boost/1.55.0/include/ -L/opt/software/boost/1.55.0/lib/ -lboost_mpi -lboost_serialization boost_test.cpp -o Boost
Verify that the executable created was indeed compiled against this version of Boost. Notice the path to libboost_mpi.so.1.55.0 in the output below:
[asrini@node062 ~]$ $ ldd Boost linux-vdso.so.1 => (0x00007fff3271e000) libboost_mpi.so.1.55.0 => /opt/software/boost/1.55.0/lib/libboost_mpi.so.1.55.0 (0x00002b7325636000) libboost_serialization.so.1.55.0 => /opt/software/boost/1.55.0/lib/libboost_serialization.so.1.55.0 (0x00002b7325866000) libmpi_cxx.so.1 => /usr/lib64/openmpi/lib/libmpi_cxx.so.1 (0x00002b7325ae0000) libmpi.so.1 => /usr/lib64/openmpi/lib/libmpi.so.1 (0x00000031d0e00000) libstdc++.so.6 => /usr/lib64/libstdc++.so.6 (0x00000031cfe00000) libm.so.6 => /lib64/libm.so.6 (0x00000031ce200000) libgcc_s.so.1 => /lib64/libgcc_s.so.1 (0x00000031d0600000) libpthread.so.0 => /lib64/libpthread.so.0 (0x00000031cea00000) libc.so.6 => /lib64/libc.so.6 (0x00000031ce600000) librt.so.1 => /lib64/librt.so.1 (0x00000031cf600000) libopen-rte.so.7 => /usr/lib64/openmpi/lib/libopen-rte.so.7 (0x00000031d0a00000) libopen-pal.so.6 => /usr/lib64/openmpi/lib/libopen-pal.so.6 (0x00000031d0200000) libdl.so.2 => /lib64/libdl.so.2 (0x00000031cee00000) libnsl.so.1 => /lib64/libnsl.so.1 (0x00000031d1600000) libutil.so.1 => /lib64/libutil.so.1 (0x00000031d2200000) libltdl.so.7 => /usr/lib64/libltdl.so.7 (0x00000031cfa00000) /lib64/ld-linux-x86-64.so.2 (0x00000031cde00000)
Test run this program:
[asrini@node062 ~]$ mpirun -np 2 ./Boost Rank 0 OK! Rank 1 OK!
Boost v1.57.0
The above code snippet is intended to verify Boost.MPI library functionality. Follow the steps below in an interactive node. Launch an interactive session with -n 2 to ensure that the number of processors used in this Boost.MPI test are accounted for
Load the appropriate Boost version module:
[asrini@consign ~]$ bsub -n 2 -Is bash [asrini@node062 ~]$ ls boost_test.cpp boost_test.cpp [asrini@node061 ~]$ module load openmpi-1.5.4-x86_64 [asrini@node061 ~]$ module load boost-1.57.0
Now compile the code against the version of Boost you are testing.
[asrini@node062 ~]$ mpic++ -W -Wall -I/opt/software/boost/1.57.0/include/ -L/opt/software/boost/1.57.0/lib/ -lboost_mpi -lboost_serialization boost_test.cpp -o Boost
Verify that the executable created was indeed compiled against this version of Boost. Notice the path to libboost_mpi.so.1.57.0 in the output below:
[asrini@node062 ~]$ ldd Boost linux-vdso.so.1 => (0x00007fff9b7ff000) libboost_mpi.so.1.57.0 => /opt/software/boost/1.57.0/lib/libboost_mpi.so.1.57.0 (0x00002b83ef4fe000) libboost_serialization.so.1.57.0 => /opt/software/boost/1.57.0/lib/libboost_serialization.so.1.57.0 (0x00002b83ef72e000) libmpi_cxx.so.1 => /usr/lib64/openmpi/lib/libmpi_cxx.so.1 (0x00002b83ef998000) libmpi.so.1 => /usr/lib64/openmpi/lib/libmpi.so.1 (0x00000031d0e00000) libstdc++.so.6 => /usr/lib64/libstdc++.so.6 (0x00000031cfe00000) libm.so.6 => /lib64/libm.so.6 (0x00000031ce200000) libgcc_s.so.1 => /lib64/libgcc_s.so.1 (0x00000031d0600000) libpthread.so.0 => /lib64/libpthread.so.0 (0x00000031cea00000) libc.so.6 => /lib64/libc.so.6 (0x00000031ce600000) librt.so.1 => /lib64/librt.so.1 (0x00000031cf600000) libopen-rte.so.7 => /usr/lib64/openmpi/lib/libopen-rte.so.7 (0x00000031d0a00000) libopen-pal.so.6 => /usr/lib64/openmpi/lib/libopen-pal.so.6 (0x00000031d0200000) libdl.so.2 => /lib64/libdl.so.2 (0x00000031cee00000) libnsl.so.1 => /lib64/libnsl.so.1 (0x00000031d1600000) libutil.so.1 => /lib64/libutil.so.1 (0x00000031d2200000) libltdl.so.7 => /usr/lib64/libltdl.so.7 (0x00000031cfa00000) /lib64/ld-linux-x86-64.so.2 (0x00000031cde00000)
Test run this program:
[asrini@node062 ~]$ mpirun -np 2 ./Boost Rank 0 OK! Rank 1 OK!
