I am compiling openmpi-3.1.2 on CentOS 7 with GCC 7.3 installed in /opt/GCC7. My
setup is "debug" as I had some trouble with MPI lib.
When I run a ldd command on libmpi_usempi.so it shows that it load
libgfortran.so.4 (from GCC 7.3) but also libgfortran.so.3 (from system GCC
4.8.5) and there is a conflict message when linking MPI applications.
I do not know how to remove this dependancie on libgfortran.so.3.
Thanks for your advices
Patrick
$ldd /opt/openmpi-GCC73/3.1.2/lib/libmpi_usempi.so
linux-vdso.so.1 => (0x00007fffd9b33000)
libmpi_mpifh.so.40 => /opt/openmpi-GCC73/3.1.2/lib/libmpi_mpifh.so.40
(0x00007f3efb75f000)
libmpi.so.40 => /opt/openmpi-GCC73/3.1.2/lib/libmpi.so.40
(0x00007f3efb1d9000)
libopen-rte.so.40 => /opt/openmpi-GCC73/3.1.2/lib/libopen-rte.so.40
(0x00007f3efadf6000)
libopen-pal.so.40 => /opt/openmpi-GCC73/3.1.2/lib/libopen-pal.so.40
(0x00007f3efa8d4000)
libnuma.so.1 => /lib64/libnuma.so.1 (0x00007f3efa6c8000)
libudev.so.1 => /lib64/libudev.so.1 (0x00007f3efa4b2000)
libdl.so.2 => /lib64/libdl.so.2 (0x00007f3efa2ae000)
librt.so.1 => /lib64/librt.so.1 (0x00007f3efa0a6000)
libutil.so.1 => /lib64/libutil.so.1 (0x00007f3ef9ea3000)
libz.so.1 => /lib64/libz.so.1 (0x00007f3ef9c8d000)
*libgfortran.so.3*=> /lib64/libgfortran.so.3 (0x00007f3ef996b000) <<== system
GCC 4.8.5
libm.so.6 => /lib64/libm.so.6 (0x00007f3ef9669000)
libquadmath.so.0 => /opt/GCC73/lib64/libquadmath.so.0 (0x00007f3ef942a000)
libc.so.6 => /lib64/libc.so.6 (0x00007f3ef905d000)
libgcc_s.so.1 => /opt/GCC73/lib64/libgcc_s.so.1 (0x00007f3ef8e46000)
libpthread.so.0 => /lib64/libpthread.so.0 (0x00007f3ef8c2a000)
*libgfortran.so.4*=> /opt/GCC73/lib/../lib64/libgfortran.so.4
(0x00007f3ef8858000) <<== /opt GCC 7.3.0
/lib64/ld-linux-x86-64.so.2 (0x00007f3efbbbe000)
libcap.so.2 => /lib64/libcap.so.2 (0x00007f3ef8653000)
libdw.so.1 => /lib64/libdw.so.1 (0x00007f3ef840c000)
libattr.so.1 => /lib64/libattr.so.1 (0x00007f3ef8207000)
libelf.so.1 => /lib64/libelf.so.1 (0x00007f3ef7fef000)
liblzma.so.5 => /lib64/liblzma.so.5 (0x00007f3ef7dc9000)
libbz2.so.1 => /lib64/libbz2.so.1 (0x00007f3ef7bb9000)
I've run several configurations for building OpenMPI, below is the last one
which fails too.
module load Compilers-GCC73
export BASE=/opt
export MPIVERS=3.1.2
export DESTMPI=$BASE/openmpi-GCC73/$MPIVERS
tar xvfz openmpi-$MPIVERS.tar.gz
cd openmpi-$MPIVERS
mkdir build
cd build/
CC=$(which gcc) CXX=$(which g++) FC=$(which gfortran)
LDFLAGS="-L/opt/GCC73/lib64 -L/opt/GCC73/lib" \
../configure --prefix=$DESTMPI --enable-mpirun-prefix-by-default
--disable-dlopen \
--enable-mca-no-build=openib --without-verbs --enable-mpi-cxx --enable-debug
--enable-mem-debug --without-slurm
make -j 8
make check
make install
Gfortran is in the PATH and LD_LIBRARY_PATH is set when module is loaded.
$which gfortran
/opt/GCC73/bin/gfortran
$echo $LD_LIBRARY_PATH
/opt/GCC73/lib64:/opt/GCC73/lib
Building a basic fortran application with gfortran 7.3.0 do no show any
reference to libgfortran.so.3:
$ldd a.out
linux-vdso.so.1 => (0x00007fff620e8000)
*libgfortran.so.4* => /opt/GCC73/lib64/libgfortran.so.4 (0x00007f5e7b573000)
libm.so.6 => /lib64/libm.so.6 (0x00007f5e7b271000)
libgcc_s.so.1 => /opt/GCC73/lib64/libgcc_s.so.1 (0x00007f5e7b05a000)
libquadmath.so.0 => /opt/GCC73/lib64/libquadmath.so.0 (0x00007f5e7ae1b000)
libc.so.6 => /lib64/libc.so.6 (0x00007f5e7aa4e000)
/lib64/ld-linux-x86-64.so.2 (0x00007f5e7b945000)
--
===================================================================
| Equipe M.O.S.T. | |
| Patrick BEGOU | mailto:patrick.be...@grenoble-inp.fr |
| LEGI | |
| BP 53 X | Tel 04 76 82 51 35 |
| 38041 GRENOBLE CEDEX | Fax 04 76 82 52 71 |
===================================================================
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