Hi Pierre, I've installed again HDF5 with the Fortran and C++ interfaces and with SZIP compression and there is an error:
---------------------------------------------------- 14:51:elisabettastrazzeri@MacBook-Pro-di-Elisabetta:hdf5-1.8.14:$> ./configure --prefix=/usr/local/hdf5 --enable-fortran \ --enable-cxx --with-szlib=PATH_TO_SZIP configure: WARNING: you should use --build, --host, --target configure: WARNING: invalid host type: --enable-cxx checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a thread-safe mkdir -p... /sw/bin/gmkdir -p checking for gawk... gawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking whether make supports nested variables... (cached) yes checking whether to enable maintainer-specific portions of Makefiles... no checking build system type... configure: error: /bin/sh bin/config.sub --enable-cxx failed configure: WARNING: cache variable ac_cv_build contains a newline ------------------------------------------------------ Thank you My Kindest Regards Elisabetta On Wed, Jul 8, 2015 at 12:22 PM, Elisabetta Strazzeri < [email protected]> wrote: > Hi Pierre, > this is the situation of hdf5 in my computer: > > 11:34:elisabettastrazzeri@MacBook-Pro-di-Elisabetta:FortranCode:$> ls > /usr/local/hdf5-1.8.14/bin > > *COPYING* *compile* *dependencies* *install-sh* > *make_err* *missing* output_filter.sh *trace* > > *buildhdf5* *config.guess* *deploy* *iostats* > *make_overflow* *mkdirs* *release* *yodconfigure* > > *chkmanifest* *config.sub* distdep *locate_sw* > *make_vers* *mkinstalldirs* *snapshot* > > *cmakehdf5* *depcomp* *h5vers* ltmain.sh > *makehelp* *newer* test-driver > > 12:10:elisabettastrazzeri@MacBook-Pro-di-Elisabetta:FortranCode:$> ls > /usr/local/hdf5-1.8.14/lib > > ls: /usr/local/hdf5-1.8.14/lib: No such file or directory > > 12:10:elisabettastrazzeri@MacBook-Pro-di-Elisabetta:FortranCode:$> > > It's missing the libraries folder. > > 1. I've installed hdf5 following the instructions in the page : > https://www.hdfgroup.org/ftp/HDF5/current/src/unpacked/release_docs/INSTALL > . > > 2. The code in fortran is not parallel and I've tried to use h5fc instead > of h5pfc. > > 3. The informations on my gfortran version are: > > 12:21:elisabettastrazzeri@MacBook-Pro-di-Elisabetta:hdf5-1.8.14:$> > gfortran -v > > Using built-in specs. > > COLLECT_GCC=gfortran > > > COLLECT_LTO_WRAPPER=/usr/local/gfortran/libexec/gcc/x86_64-apple-darwin14/4.9.2/lto-wrapper > > Target: x86_64-apple-darwin14 > > Configured with: ../gcc-4.9.2/configure --prefix=/usr/local/gfortran > --with-gmp=/opt/gcc-4.8 --enable-languages=c,c++,fortran,objc,obj-c++ > --build=x86_64-apple-darwin14 > > Thread model: posix > > gcc version 4.9.2 (GCC) > > Thank you > > My Kindest Regards > > Elisabetta > > On Mon, Jul 6, 2015 at 2:17 PM, Pierre de Buyl < > [email protected]> wrote: > >> Hi, >> >> On Sun, Jul 05, 2015 at 02:00:30PM +0300, Elisabetta Strazzeri wrote: >> > my set in bashrc is this : >> > >> > export HDF5=/usr/local/hdf5-1.8.14 >> > export PATH=$PATH:${HDF5}/bin >> > export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:${HDF5}/lib >> > >> > but when I have to use it with hdf5, it doesn't work. >> >> can you post the result of >> >> ls /usr/local/hdf5-1.8.14/bin >> ls /usr/local/hdf5-1.8.14/lib >> >> >> This would help to diagnose the problem. A few more questions: >> 1. How did you install hdf5? If you compiled it yourself you should make >> sure >> that you have enabled the parallel feature. >> 2. Is your code parallel? If not, you can use h5fc instead of h5pfc >> 3. It also matters to match the fortran compiler used to compile HDF5 and >> the >> one you use to build your code. >> >> Pierre >> >> > >> > >> > On Sun, Jul 5, 2015 at 1:20 PM, Elisabetta Strazzeri < >> > [email protected]> wrote: >> > >> > > Hi Pierre, >> > > >> > > the command : which h5pfc doesn't give me any location of the >> directory >> > > so I need to setup the shell variable Path and others. >> > > is there a tutorial of how to set the variables in the bash_profile? >> > > >> > > thank you >> > > my kindest regards >> > > Elisabetta >> > > >> > > On Wed, Jul 1, 2015 at 8:55 PM, Pierre de Buyl < >> > > [email protected]> wrote: >> > > >> > >> Hi Elisabetta, >> > >> >> > >> The information you give is a bit light. If h5pfc is indeed >> installed, its >> > >> location will be returned by the command >> > >> >> > >> which h5pfc >> > >> >> > >> Note that depending on where you installed HDF5 on your computer, >> you may >> > >> need >> > >> to setup your environment (the shell variables PATH and others). >> > >> >> > >> Pierre >> > >> >> > >> On Wed, Jul 01, 2015 at 07:35:20PM +0300, Elisabetta Strazzeri wrote: >> > >> > Hello everyone! >> > >> > >> > >> > I’m working with a MacBook Pro OS X Yosemite Version 10.10.4 >> > >> > I’ve installed h5pfc and I’m running a Fortran based software, but >> I >> > >> read this error: >> > >> > >> > >> > 19:18:elisabettastrazzeri@MacBook-Pro-di-Elisabetta:FortranCode:$> >> make >> > >> > h5pfc -O3 -cpp -fno-range-check -ffree-line-length-none >> -ffast-math >> > >> -c parameters.F90 >> > >> > make: h5pfc: No such file or directory >> > >> > make: *** [parameters.o] Error 1 >> > >> > >> > >> > Where is the problem? >> > >> > >> > >> > Thank you very much >> > >> > My Kindest Regards >> > >> > Elisabetta >> > >> >> > >> >> > >> _______________________________________________ >> > >> Hdf-forum is for HDF software users discussion. >> > >> [email protected] >> > >> >> http://lists.hdfgroup.org/mailman/listinfo/hdf-forum_lists.hdfgroup.org >> > >> Twitter: https://twitter.com/hdf5 >> > > >> > > >> > > >> >> > _______________________________________________ >> > Hdf-forum is for HDF software users discussion. >> > [email protected] >> > http://lists.hdfgroup.org/mailman/listinfo/hdf-forum_lists.hdfgroup.org >> > Twitter: https://twitter.com/hdf5 >> >> >> -- >> ----------------------------------------------------------- >> Pierre de Buyl >> KU Leuven - Institute for Theoretical Physics >> T +32 16 3 27355 >> W http://pdebuyl.be/ >> ----------------------------------------------------------- >> >> _______________________________________________ >> Hdf-forum is for HDF software users discussion. >> [email protected] >> http://lists.hdfgroup.org/mailman/listinfo/hdf-forum_lists.hdfgroup.org >> Twitter: https://twitter.com/hdf5 >> > >
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