After you compiled HDF5 with MinGW and CMake did you run the HDF5 tests? If all the tests pass then this would indicate an error in your Makefiles. If lots of the tests fail then this would indicate an error in the CMake side of things. -- Mike Jackson <www.bluequartz.net>
On Apr 17, 2012, at 3:06 PM, Stéphane Backaert wrote: > Allen, > > I just checked: H5_HAVE_PARALLEL is set to 1 in the file H5pubconf.h. And I > put libhdf5_f90cstub in my LDFLAGS... > I must admit that I am a bit lost this time! > Is there a way to test the libraries ? I mean, the compilation process does > not complain, my CMake parameters, sent before, are right, so I guess that my > link process is wrong... > By the way, why libhdf5_f90cstub is present with CMake and not with autotools? > > All of this is due to the CMake...grrr > > Best, > > Stephane > > On Apr 17, 2012, at 8:41 PM, Allen D Byrne wrote: > >> Stéphane, >> The undefined references seem to indicate it is looking for parallel >> references? Maybe the fortran library failed to build properly, or didn't >> include a parallel library? Is H5_HAVE_PARALLEL defined in the H5pubconf.h >> file? h5pset_fapl_mpio_c is in the H5FDmpiof.c file which should be in the >> libhdf5_f90cstub library. >> >> Allen >> >> > Allen, >> > >> > I will look into this HDF5-CMake issue a bit further: I think I can learn >> > a lot from this investigation! >> > But now I would like make some progress. >> > Basically, my only problem is the linking of my code with the hdf5-vfd >> > libraries. I can link my code with h5 libraries compiled with >> > configure/make, with h5pfc (easy) but also without it. Actually, I already >> > took care of those libraries explicitly/manually in my makefile. So I can >> > link without h5pfc. >> > >> > With the CMake libraries (and thus without h5pfc), here is the kind of >> > messages I get when I link my code with hdf5: >> > >> > /home/ucl/tfl/sbackaer/local/stow/hdf5-vfd-1.8.8_cmake/lib/libhdf5_fortran.a(H5_ff.f90.o): >> > In function `h5lib_mp_h5open_f_': >> > /home/ucl/tfl/sbackaer/local/build/hdf5-vfd-1.8.8/fortran/src/H5_ff.f90:(.text+0x2e): >> > undefined reference to `h5init_types_c_' >> > /home/ucl/tfl/sbackaer/local/build/hdf5-vfd-1.8.8/fortran/src/H5_ff.f90:(.text+0xba): >> > undefined reference to `h5init_flags_c_' >> > /home/ucl/tfl/sbackaer/local/build/hdf5-vfd-1.8.8/fortran/src/H5_ff.f90:(.text+0xc8): >> > undefined reference to `h5init1_flags_c_' >> > ... >> > /home/ucl/tfl/sbackaer/local/build/hdf5-vfd-1.8.8/fortran/src/H5FDmpioff.f90:(.text+0x17): >> > undefined reference to `h5pset_fapl_mpio_c_' >> > /home/ucl/tfl/sbackaer/local/stow/hdf5-vfd-1.8.8_cmake/lib/libhdf5_fortran.a(H5FDmpioff.f90.o): >> > In function `h5fdmpio_mp_h5pget_fapl_mpio_f_': >> > /home/ucl/tfl/sbackaer/local/build/hdf5-vfd-1.8.8/fortran/src/H5FDmpioff.f90:(.text+0x27): >> > undefined reference to `h5pget_fapl_mpio_c_' >> > /home/ucl/tfl/sbackaer/local/stow/hdf5-vfd-1.8.8_cmake/lib/libhdf5_fortran.a(H5FDmpioff.f90.o): >> > In function `h5fdmpio_mp_h5pset_dxpl_mpio_f_': >> > /home/ucl/tfl/sbackaer/local/build/hdf5-vfd-1.8.8/fortran/src/H5FDmpioff.f90:(.text+0x37): >> > undefined reference to `h5pset_dxpl_mpio_c_' >> > /home/ucl/tfl/sbackaer/local/stow/hdf5-vfd-1.8.8_cmake/lib/libhdf5_fortran.a(H5FDmpioff.f90.o): >> > In function `h5fdmpio_mp_h5pget_dxpl_mpio_f_': >> > /home/ucl/tfl/sbackaer/local/build/hdf5-vfd-1.8.8/fortran/src/H5FDmpioff.f90:(.text+0x47): >> > undefined reference to `h5pget_dxpl_mpio_c_' >> > /home/ucl/tfl/sbackaer/local/stow/hdf5-vfd-1.8.8_cmake/lib/libhdf5_fortran.a(H5FDmpioff.f90.o): >> > In function `h5fdmpio_mp_h5pset_fapl_mpiposix_f_': >> > /home/ucl/tfl/sbackaer/local/build/hdf5-vfd-1.8.8/fortran/src/H5FDmpioff.f90:(.text+0x74): >> > undefined reference to `h5pset_fapl_mpiposix_c_' >> > /home/ucl/tfl/sbackaer/local/stow/hdf5-vfd-1.8.8_cmake/lib/libhdf5_fortran.a(H5FDmpioff.f90.o): >> > In function `h5fdmpio_mp_h5pget_fapl_mpiposix_f_': >> > /home/ucl/tfl/sbackaer/local/build/hdf5-vfd-1.8.8/fortran/src/H5FDmpioff.f90:(.text+0x90): >> > undefined reference to `h5pget_fapl_mpiposix_c_' >> > >> > There are hundreds of lines like those!! All messages are only related to >> > libhdf5_fortran.a. >> > >> > I had to adapt my makefile because there are two new libraries: >> > libhdf5_f90cstub and libhdf5_hl_f90cstub but it is the same explicit way >> > of linking as "configure/make"! >> > >> > Is this mean something for anyone?? I know what a undefined reference >> > means, why there?? >> > >> > Best, >> > >> > Stephane >> > >> > _______________________________________________ >> > Hdf-forum is for HDF software users discussion. >> > [email protected] >> > http://mail.hdfgroup.org/mailman/listinfo/hdf-forum_hdfgroup.org >> > > > _______________________________________________ > Hdf-forum is for HDF software users discussion. > [email protected] > http://mail.hdfgroup.org/mailman/listinfo/hdf-forum_hdfgroup.org _______________________________________________ Hdf-forum is for HDF software users discussion. [email protected] http://mail.hdfgroup.org/mailman/listinfo/hdf-forum_hdfgroup.org
