On Wed, Aug 8, 2018 at 3:18 PM, David Knezevic <david.kneze...@akselos.com> wrote:
> On Wed, Aug 8, 2018 at 1:58 PM, Kirk, Benjamin (JSC-EG311) < > benjamin.k...@nasa.gov> wrote: > >> netcdf-4 requires an underlying hdf5 library be found on your system; was >> that properly detected by ./configure? >> > > Thanks, that's helpful! I just installed libhdf-5-dev in Ubuntu "apt-get > install libhdf-5-dev") and now ./configure seems to detects netcdf-4, > e.g. I get this output during configure: > > <<< Configuring library with NetCDF version 4 support >>> > defining -DNOT_NETCDF4 for our Exodus build > > ... > > === configuring in contrib/netcdf/v4 (/home/dknez/software/libmesh_ > build/opt_real/contrib/netcdf/v4) > configure: running /bin/bash /home/dknez/software/libmesh- > src/contrib/netcdf/v4/configure --disable-option-checking > '--prefix=/home/dknez/software/libmesh_install/opt_real/libmesh' > '--enable-everything' '--enable-slepc' '--with-metis=PETSc' > '--with-subdomain-id-bytes=4' '--with-boundary-id-bytes=4' '--disable-glpk' > '--enable-unique-id' '--with-unique-id-bytes=4' '--with-nlopt-include=/home/ > dknez/software/libmesh_install/nlopt/include' > '--with-nlopt-lib=/home/dknez/software/libmesh_install/nlopt/lib' > '--with-capnproto=/home/dknez/software/libmesh_install/capnp' > '--disable-parmetis' '--disable-ifem' '--with-methods=opt' > '--enable-shared' '--disable-netcdf-4' '--disable-testsets' 'CXX=mpicxx' > 'CC=mpicc' 'F77=mpif77' 'FC=mpif90' 'CPPFLAGS= ' 'LIBS= -ldl ' > --cache-file=/dev/null --srcdir=/home/dknez/software/ > libmesh-src/contrib/netcdf/v4 > configure: netCDF 4.4.1.1 > > ... > > Optional Packages: > boost............................ : yes > capnproto........................ : yes > cppunit.......................... : yes > curl............................. : no > eigen............................ : yes > exodus........................... : yes > version....................... : v5.22 > fparser.......................... : yes > build from version............ : release > glpk............................. : no > gmv.............................. : yes > gzstream......................... : yes > hdf5............................. : no > laspack.......................... : no > libhilbert....................... : yes > metis............................ : yes > mpi.............................. : yes > nanoflann........................ : yes > nemesis.......................... : yes > version....................... : v5.22 > netcdf........................... : yes > version....................... : 4 > nlopt............................ : yes > parmetis......................... : no > petsc............................ : no > qhull............................ : yes > sfcurves......................... : no > slepc............................ : no > thread model..................... : pthread > c++ rtti ........................ : yes > tecio............................ : no > tecplot...(vendor binaries)...... : no > tetgen........................... : no > triangle......................... : no > trilinos......................... : no > vtk.............................. : no > > > However, I then tried to read the same netcdf-4 ExodusII file, and I still > get the same error as before. So I guess ExodusII hasn't been configured > with netcdf-4 after all? The line "defining -DNOT_NETCDF4 for our Exodus > build" in the configure output seems to suggest that exodus is not using > netcdf-4, which would explain my issue, do you know what I should do to > resolve this? > I gather that the issue is that my hdf5 build is not being detected by ./configure properly after all, since I have "hdf5............................. : no:. I'll try installing hdf5 from source and see if that fixes it. David ------------------------------------------------------------------------------ Check out the vibrant tech community on one of the world's most engaging tech sites, Slashdot.org! http://sdm.link/slashdot _______________________________________________ Libmesh-users mailing list Libmesh-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/libmesh-users
