Looking at the easyconfig, you probably need to add some extra args: https://github.com/easybuilders/easybuild-easyconfigs/blob/develop/easybuild/easyconfigs/e/ESMF/ESMF-8.3.0-foss-2022a.eb#L31-L32
On Fri, 31 Mar 2023 at 17:17, Alan O'Cais <[email protected]> wrote: > Hi Alexandre, > > I don't see mpifort linking against `-lpnetcdf`. Maybe check the logs and > see if it is actually picking up on PnetCDF being available? > > Alan > > On Fri, 31 Mar 2023 at 16:01, Strube, Alexandre <[email protected]> > wrote: > >> I am trying to install ESMF-8.3.0-foss-2022a.eb here. I always end up >> with this error at the install step: >> >> make chkdir_apps >> >> make[5]: Entering directory >> '/dev/shm/strube1/jurecadc/ESMF/8.3.0/foss-2022a/esmf-8.3.0/src/apps/ESMF_PrintInfo' >> >> make[5]: Leaving directory >> '/dev/shm/strube1/jurecadc/ESMF/8.3.0/foss-2022a/esmf-8.3.0/src/apps/ESMF_PrintInfo' >> >> mpifort -m64 -mcmodel=small -pthread -Wl,--no-as-needed -fopenmp >> -L/p/project/ccstao/cstao05/easybuild/jurecadc/software/ESMF/8.3.0-foss-2022a/lib >> -L/p/software/jurecadc/stages/2023/software/netCDF/4.9.0-gompi-2022a/lib64 >> -L/p/software/jurecadc/stages/2023/software/netCDF-Fortran/4.6.0-gompi-2022a/lib >> -L/p/software/jurecadc/stages/2023/software/bzip2/1.0.8-GCCcore-11.3.0/lib64 >> -L/p/software/jurecadc/stages/2023/software/bzip2/1.0.8-GCCcore-11.3.0/lib >> -L/p/software/jurecadc/stages/2023/software/netCDF/4.9.0-gompi-2022a/lib64 >> -L/p/software/jurecadc/stages/2023/software/netCDF/4.9.0-gompi-2022a/lib >> -L/p/software/jurecadc/stages/2023/software/GCCcore/11.3.0/lib64 >> -L/p/software/jurecadc/stages/2023/software/GCCcore/11.3.0/lib >> -L/p/software/jurecadc/stages/2023/software/GCCcore/11.3.0/lib/gcc/x86_64-pc-linux-gnu/11.3.0/../../../../lib64/ >> -Wl,-rpath,/p/project/ccstao/cstao05/easybuild/jurecadc/software/ESMF/8.3.0-foss-2022a/lib >> -Wl,-rpath,/p/software/jurecadc/stages/2023/software/PnetCDF/1.12.3-gompi-2022a/lib64 >> -Wl,-rpath,/p/software/jurecadc/stages/2023/software/PnetCDF/1.12.3-gompi-2022a/lib >> -Wl,-rpath,/p/software/jurecadc/stages/2023/software/libarchive/3.6.1-GCCcore-11.3.0/lib64 >> -Wl,-rpath,/p/software/jurecadc/stages/2023/software/libarchive/3.6.1-GCCcore-11.3.0/lib >> -Wl,-rpath,/p/software/jurecadc/stages/2023/software/netCDF-C++4/4.3.1-gompi-2022a/lib64 >> -Wl,-rpath,/p/software/jurecadc/stages/2023/software/netCDF-C++4/4.3.1-gompi-2022a/lib >> -Wl,-rpath,/p/software/jurecadc/stages/2023/software/netCDF-Fortran/4.6.0-gompi-2022a/lib64 >> -Wl,-rpath,/p/software/jurecadc/stages/2023/software/netCDF-Fortran/4.6.0-gompi-2022a/lib >> -Wl,-rpath,/p/software/jurecadc/stages/2023/software/netCDF/4.9.0-gompi-2022a/lib64 >> -Wl,-rpath,/p/software/jurecadc/stages/2023/software/netCDF/4.9.0-gompi-2022a/lib >> -Wl,-rpath,/p/software/jurecadc/stages/2023/software/FFTW.MPI/3.3.10-gompi-2022a/lib64 >> -Wl,-rpath,/p/software/jurecadc/stages/2023/software/FFTW.MPI/3.3.10-gompi-2022a/lib >> -Wl,-rpath,/p/software/jurecadc/stages/2023/software/ScaLAPACK/2.2.0-gompi-2022a-fb/lib64 >> -Wl,-rpath,/p/software/jurecadc/stages/2023/software/ScaLAPACK/2.2.0-gompi-2022a-fb/lib >> -Wl,-rpath,/p/software/jurecadc/stages/2023/software/FlexiBLAS/3.2.0-GCC-11.3.0/lib64 >> -Wl,-rpath,/p/software/jurecadc/stages/2023/software/FlexiBLAS/3.2.0-GCC-11.3.0/lib >> -Wl,-rpath,/p/software/jurecadc/stages/2023/software/GCCcore/11.3.0/lib64 >> -Wl,-rpath,/p/software/jurecadc/stages/2023/software/GCCcore/11.3.0/lib >> -Wl,-rpath,/p/software/jurecadc/stages/2023/software/netCDF/4.9.0-gompi-2022a/lib64 >> -Wl,-rpath,/p/software/jurecadc/stages/2023/software/netCDF-Fortran/4.6.0-gompi-2022a/lib >> -Wl,-rpath,/p/software/jurecadc/stages/2023/software/bzip2/1.0.8-GCCcore-11.3.0/lib64 >> -Wl,-rpath,/p/software/jurecadc/stages/2023/software/bzip2/1.0.8-GCCcore-11.3.0/lib >> -Wl,-rpath,/p/software/jurecadc/stages/2023/software/netCDF/4.9.0-gompi-2022a/lib64 >> -Wl,-rpath,/p/software/jurecadc/stages/2023/software/netCDF/4.9.0-gompi-2022a/lib >> -Wl,-rpath,/p/software/jurecadc/stages/2023/software/GCCcore/11.3.0/lib64 >> -Wl,-rpath,/p/software/jurecadc/stages/2023/software/GCCcore/11.3.0/lib >> -Wl,-rpath,/p/software/jurecadc/stages/2023/software/GCCcore/11.3.0/lib/gcc/x86_64-pc-linux-gnu/11.3.0/../../../../lib64/ >> -o >> /p/project/ccstao/cstao05/easybuild/jurecadc/software/ESMF/8.3.0-foss-2022a/bin/ESMF_PrintInfo >> /dev/shm/strube1/jurecadc/ESMF/8.3.0/foss-2022a/esmf-8.3.0//obj/objO/Linux.gfortran.64.openmpi.default/src/apps/ESMF_PrintInfo/ESMF_PrintInfo.o >> -lesmf -lrt -lstdc++ -ldl >> -L/p/software/jurecadc/stages/2023/software/PnetCDF/1.12.3-gompi-2022a/lib64 >> -L/p/software/jurecadc/stages/2023/software/PnetCDF/1.12.3-gompi-2022a/lib >> -L/p/software/jurecadc/stages/2023/software/libarchive/3.6.1-GCCcore-11.3.0/lib64 >> -L/p/software/jurecadc/stages/2023/software/libarchive/3.6.1-GCCcore-11.3.0/lib >> -L/p/software/jurecadc/stages/2023/software/netCDF-C++4/4.3.1-gompi-2022a/lib64 >> -L/p/software/jurecadc/stages/2023/software/netCDF-C++4/4.3.1-gompi-2022a/lib >> -L/p/software/jurecadc/stages/2023/software/netCDF-Fortran/4.6.0-gompi-2022a/lib64 >> -L/p/software/jurecadc/stages/2023/software/netCDF-Fortran/4.6.0-gompi-2022a/lib >> -L/p/software/jurecadc/stages/2023/software/netCDF/4.9.0-gompi-2022a/lib64 >> -L/p/software/jurecadc/stages/2023/software/netCDF/4.9.0-gompi-2022a/lib >> -L/p/software/jurecadc/stages/2023/software/FFTW.MPI/3.3.10-gompi-2022a/lib64 >> -L/p/software/jurecadc/stages/2023/software/FFTW.MPI/3.3.10-gompi-2022a/lib >> -L/p/software/jurecadc/stages/2023/software/ScaLAPACK/2.2.0-gompi-2022a-fb/lib64 >> -L/p/software/jurecadc/stages/2023/software/ScaLAPACK/2.2.0-gompi-2022a-fb/lib >> -L/p/software/jurecadc/stages/2023/software/FlexiBLAS/3.2.0-GCC-11.3.0/lib64 >> -L/p/software/jurecadc/stages/2023/software/FlexiBLAS/3.2.0-GCC-11.3.0/lib >> -L/p/software/jurecadc/stages/2023/software/GCCcore/11.3.0/lib64 >> -L/p/software/jurecadc/stages/2023/software/GCCcore/11.3.0/lib -lflexiblas >> -lgfortran -lnetcdf -lnetcdff -lnetcdf -lnetcdf -lpioc >> >> /p/software/jurecadc/stages/2023/software/binutils/2.38-GCCcore-11.3.0/bin/ld: >> /p/software/jurecadc/stages/2023/software/netCDF/4.9.0-gompi-2022a/lib64/libnetcdf.so: >> undefined reference to symbol 'ncmpi_inq_dim' >> >> /p/software/jurecadc/stages/2023/software/binutils/2.38-GCCcore-11.3.0/bin/ld: >> /p/software/jurecadc/stages/2023/software/PnetCDF/1.12.3-gompi-2022a/lib64/libpnetcdf.so.4: >> error adding symbols: DSO missing from command line >> >> collect2: error: ld returned 1 exit status >> >> >> Our FOSS should be the same as upstream, except we default to MKL. >> >> The `ncmpi_inq_dim` is from PnetCDF, which I added to the dependencies. >> If I don’t, I get the same undefined reference error anyway. >> >> Any hints? >> >> >> Dr. Alexandre Strube >> [email protected] >> Helmholtz AI >> Jülich Supercomputing Centre >> Forschungszentrum Juelich GmbH >> 52425 Jülich, Germany >> Phone: +49 2461 61-3866 >> >> JSC is the coordinator of the >> John von Neumann Institute for Computing (NIC) >> and member of the >> Gauss Centre for Supercomputing (GCS) >> >>
