[mpich-discuss] mpich install error (libstdc++.so)

Si, Min msi at anl.gov
Thu Oct 18 13:56:59 CDT 2018 

Hi Zhifeng,

Your config.log looks correct to me. Did you run `make clean` before the last successful build ? I am guessing whether some files were not recompiled.

And you could try to compile a simple program and see if it works. E.g., `mpicc -o cpi ./examples/cpi.c`

Min

On 2018/10/18 12:23, Zhifeng Yang wrote:
Hi Min,

Thank you very much for your help. Now I installed MPICH successfully.

However, when I use it for another weather model. It has the following error.

time mpif90    -w -ffree-form -ffree-line-length-none -fconvert=big-endian -frecord-marker=4  -fopenmp   -o test_io_idx test_io_idx.f -L. -lwrfio_int

real    0m0.234s
user    0m0.076s
sys     0m0.042s
if [ -f ../../frame/pack_utils.o -a -f ../../frame/clog.o ] ; then \
          time mpif90    -w -ffree-form -ffree-line-length-none -fconvert=big-endian -frecord-marker=4  -fopenmp   -I../ioapi_share -o diffwrf diffwrf.f \
                ../../frame/pack_utils.o ../../frame/module_internal_header_util.o ../../frame/module_driver_constants.o ../../frame/module_machine.o ../../frame/module_wrf_error.o ../../frame/wrf_debug.o  libwrfio_int.a ; \
        fi
/umbc/xfs1/zzbatmos/users/vy57456/application/gfortran/mpich-3.2.1/lib/libmpi.so: undefined reference to `_intel_fast_memset'
/umbc/xfs1/zzbatmos/users/vy57456/application/gfortran/mpich-3.2.1/lib/libmpi.so: undefined reference to `_intel_fast_memcpy'
/umbc/xfs1/zzbatmos/users/vy57456/application/gfortran/mpich-3.2.1/lib/libmpi.so: undefined reference to `__intel_sse2_strlen'
/umbc/xfs1/zzbatmos/users/vy57456/application/gfortran/mpich-3.2.1/lib/libmpi.so: undefined reference to `__intel_sse2_strncmp'
collect2: error: ld returned 1 exit status
0.03user 0.06system 0:00.31elapsed 31%CPU (0avgtext+0avgdata 9716maxresident)k
144inputs+48outputs (0major+10999minor)pagefaults 0swaps
make[3]: [test_io_idx] Error 1 (ignored)
make[3]: Leaving directory `/umbc/xfs1/zzbatmos/users/vy57456/model/gfortran/wrfchem4_0_c/WRF/external/io_int'

It seems that I used ifort to compile MPICH. But I used gfortran. Any help?

Zhifeng


On Thu, Oct 18, 2018 at 10:19 AM Si, Min <msi at anl.gov<mailto:msi at anl.gov>> wrote:
Hi Zhifeng,

It looks like the Intel c++ compiler icpc is used for linking. Maybe you did not specify `CXX=g++` at configure time.

Please try this (make sure all compilers are with the same version)
./configure <other config options> CC=gcc CXX=g++ FC=gfortran F77=gfortran

If you still see the installation error, please send us the config.log at your build directory together with the error message.

Min
On 2018/10/18 8:28, Zhifeng Yang wrote:
Hi

I tried to install mpich using gcc. However, while make, I got the following error message.

libtool: link: icpc -shared  src/binding/cxx/.libs/initcxx.o   -Wl,-rpath,/home/vy57456/zzbatmos_user/application/gfortran/source_code/mpich-3.2.1/lib/.libs -Wl,-rpath,/cm/shared/apps/gcc/4.8.4/lib/../lib -Wl,-rpath,/home/vy57456/zzbatmos_user/application/gfortran/mpich-3.2.1/lib -Wl,-rpath,/cm/shared/apps/gcc/4.8.4/lib/../lib lib/.libs/libmpi.so -lpthread -L/cm/shared/apps/intel/composer_xe/2015.5.223/ipp/../compiler/lib/intel64 -L/cm/shared/apps/intel/composer_xe/2015.5.223/ipp/lib/intel64 -L/cm/shared/apps/intel/composer_xe/2015.5.223/compiler/lib/intel64 -L/cm/shared/apps/intel/composer_xe/2015.5.223/mkl/lib/intel64 -L/cm/shared/apps/intel/composer_xe/2015.5.223/tbb/lib/intel64/gcc4.4 -L/cm/shared/apps/slurm/14.11.11/lib64/slurm -L/cm/shared/apps/slurm/14.11.11/lib64 -L/usr/cluster/contrib/hdf5/install-1.8.16/lib -L/cm/shared/apps/acml/current/ifort64/lib -L/cm/shared/apps/slurm/14.11.11/lib64/../lib64 -L/cm/shared/apps/slurm/14.11.11/lib64/../lib64/ -L/cm/shared/apps/gcc/4.8.4/lib/gcc/x86_64-unknown-linux-gnu/4.8.4/ -L/cm/shared/apps/gcc/4.8.4/lib/gcc/x86_64-unknown-linux-gnu/4.8.4/../../../../lib64 -L/cm/shared/apps/gcc/4.8.4/lib/gcc/x86_64-unknown-linux-gnu/4.8.4/../../../../lib64/ -L/lib/../lib64 -L/lib/../lib64/ -L/usr/lib/../lib64 -L/usr/lib/../lib64/ -L/cm/shared/apps/intel/composer_xe/2015.5.223/ipp/../compiler/lib/intel64/ -L/cm/shared/apps/intel/composer_xe/2015.5.223/ipp/lib/intel64/ -L/cm/shared/apps/intel/composer_xe/2015.5.223/compiler/lib/intel64/ -L/cm/shared/apps/intel/composer_xe/2015.5.223/mkl/lib/intel64/ -L/cm/shared/apps/intel/composer_xe/2015.5.223/tbb/lib/intel64/gcc4.4/ -L/cm/shared/apps/slurm/14.11.11/lib64/slurm/ -L/cm/shared/apps/slurm/14.11.11/lib64/ -L/usr/cluster/contrib/hdf5/install-1.8.16/lib/ -L/cm/shared/apps/acml/current/ifort64/lib/ -L/cm/shared/apps/gcc/4.8.4/lib/gcc/x86_64-unknown-linux-gnu/4.8.4/../../../ -L/lib64 -L/lib/ -L/usr/lib64 -L/usr/lib -limf -lirng -lm -lipgo -ldecimal -lcilkrts /cm/shared/apps/gcc/4.8.4/lib/../lib/libstdc++.so -lintlc -lsvml -lgcc -lgcc_s -lirc_s -ldl -lc  -O2   -Wl,-soname -Wl,libmpicxx.so.12 -o lib/.libs/libmpicxx.so.12.1.1
/cm/shared/apps/gcc/4.8.4/lib/../lib/libstdc++.so: could not read symbols: File in wrong format
make[2]: *** [lib/libmpicxx.la<http://libmpicxx.la>] Error 1
make[2]: Leaving directory `/umbc/xfs1/zzbatmos/users/vy57456/application/gfortran/source_code/mpich-3.2.1'
make[1]: *** [all-recursive] Error 1
make[1]: Leaving directory `/umbc/xfs1/zzbatmos/users/vy57456/application/gfortran/source_code/mpich-3.2.1'
make: *** [all] Error 2


Do you have any experience on this error? Thank you

Zhifeng



_______________________________________________
discuss mailing list     discuss at mpich.org<mailto:discuss at mpich.org>
To manage subscription options or unsubscribe:
https://lists.mpich.org/mailman/listinfo/discuss


_______________________________________________
discuss mailing list     discuss at mpich.org<mailto:discuss at mpich.org>
To manage subscription options or unsubscribe:
https://lists.mpich.org/mailman/listinfo/discuss



_______________________________________________
discuss mailing list     discuss at mpich.org<mailto:discuss at mpich.org>
To manage subscription options or unsubscribe:
https://lists.mpich.org/mailman/listinfo/discuss


-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://lists.mpich.org/pipermail/discuss/attachments/20181018/e903d26d/attachment.html>
-------------- next part --------------
_______________________________________________
discuss mailing list     discuss at mpich.org
To manage subscription options or unsubscribe:
https://lists.mpich.org/mailman/listinfo/discuss

More information about the discuss mailing list