CODEWITHSUNDEEP
linuxmpigfortranhdf5fftw
HinnyTsang
HinnyTsang

Reputation: 26

Question about compiling sources code with HDF5 and mpi

When I am trying to compile the source code by 'make', the first steps that creating the '.o' files are running fine, and all '.o' files could be compiled normally. However, when compiling the executable file:

mpifort -fopenmp -O3 -o MyEXE sth.o main.o -L/usr/local/share/fftw-3.3.8/lib -lfftw3_mpi -lfftw3 -lm -L/usr/local/share/mpich-3.2/lib -lmpi -lz -L/usr/local/share/hdf5-1.8.18/lib                                                                               -lhdf5_fortran -lhdf5hl_fortran -lhdf5_hl -lhdf5 -fPIC

it gots the following error:

/usr/bin/ld: /usr/local/share/hdf5-1.8.18/lib/libhdf5.a(H5PL.o): undefined reference to symbol 'dlclose@@GLIBC_2.2.5'
//lib/x86_64-linux-gnu/libdl.so.2: error adding symbols: DSO missing from command line
collect2: error: ld returned 1 exit status

How could I solve this problem? Some pages suggest that it is due to the '-ldl- flag when calling c++ compiler, but I couldn't find a way to make it suitable for my cases.

Upvotes: 0

Views: 416

Answers (1)

jacob
jacob

Reputation: 1630

The pages were right. Your HDF5 library libhdf5.a uses the function dlclose, which is defined in the library libdl. To use it, you need to simply add -ldl at the end of your mpifort command line.

Upvotes: 1

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