Hi Basil,
> I have compiled parallel netcdf 4.1.2 using xlf and xlc compilers on
> bluegene/P and os linux suse. The compilation was successful and I got all
> the libraries, include files and executables (as for as I know). However,
> "make check" showed the following errors:
>
> ================================================
> 2 of 25 tests failed
> Please report to address@hidden
> ================================================
> make[2]: *** [check-TESTS] Error 1
> make[2]: Leaving directory
> `/gpfs/home/basitali/netcdf413_hdf186_zlib125/netcdf-4.1.2/h5_test'
> make[1]: *** [check-am] Error 2
> make[1]: Leaving directory
> `/gpfs/home/basitali/netcdf413_hdf186_zlib125/netcdf-4.1.2/h5_test'
> make: *** [check-recursive] Error 1
>
> The makecheck.log file is attached for your review. I am wondering if these
> errors would have any effect on the parrallel make of netcdf? If yes what I
> could do to get rid of these errors. I used the following configure command
> for compiling netcdf 4.1.2
>
> ./configure --prefix=/home/basitali/netCDF_4.1.2 CC=mpixlc CXX=mpixlcxx
> FC=mpixlf90 F77=mpixlf90 CFLAGS="-I/home/basitali/netCDF_4.1.2/include
> -DIBMR2Fortran -I/opt/share/zlib/1.2.5/bgp-ibm/include
> -I/opt/share/hdf5/1.8.9/bgp-ibm/include"
> LIBS="-L/home/basitali/netCDF_4.1.2/lib -L/opt/share/zlib/1.2.5/bgp-ibm/lib
> -L/opt/share/hdf5/1.8.9/bgp-ibm/lib -lnetcdf -lm -lhdf5_hl -lhdf5_fortran
> -lhdf5 -lz -lm" FFLAGS="-g -I/home/basitali/netCDF_4.1.2/include"
> FCFLAGS="-I/home/basitali/netCDF_4.1.2/include -DIBMR2Fortran
> -I/opt/share/zlib/1.2.5/bgp-ibm/include
> -I/opt/share/hdf5/1.8.9/bgp-ibm/include"
> FLIBS="-L/home/basitali/netCDF_4.1.2/lib -lnetcdff
> -L/opt/share/zlib/1.2.5/bgp-ibm/lib -L/opt/share/hdf5/1.8.9/bgp-ibm/lib
> -lnetcdf -lm -lhdf5_hl -lhdf5_fortran -lhdf5 -lz -lm"
> CXXFLAGS="-DIBMR2Fortran -I/home/basitali/netCDF_4.1.2/include
> -I/opt/share/zlib/1.2.5/bgp-ibm/include
> -I/opt/share/hdf5/1.8.9/bgp-ibm/include" CPPFLAGS="-DIBMR2Fortran
> -I/home/basitali/netCDF_4.1.2/include -I/opt
/share/zlib/1.2.5/bgp-ibm/include -I/opt/share/hdf5/1.8.9/bgp-ibm/include"
--enable-parallel --with-zlib=/opt/share/zlib/1.2.5/bgp-ibm
--with-hdf5=/opt/share/hdf5/1.8.9/bgp-ibm --enable-pnetcdf
--with-pnetcdf=/home/basitali/pnetcdf -disable-dap --disable-shared
I'm guessing the problem may be that you're encountering a bug in the 4.1.2
version of netCDF,
from this entry in the netCDF 4.1.3 RELEASE_NOTES:
Fix bug that prevents netCDF-4/HDF5 files created with
netCDF-4.1.2 from being read by earlier versions of
netCDF or HDF5 versions before 1.8.7.
[NCF-23]
https://www.unidata.ucar.edu/jira/browse/NCF-23
I may be wrong about that, but the error message in the file you attached
indicated a failure
to open an HDF5 file, as described in the bug web page ...
> Please advise.
My advice would be to try either the 4.1.3 version of netCDF or the more recent
4.2.1.1 C-netCDF and
the 4.2 Fortran-netCDF releases, building the C library first and then the
Fortran library, following
the instructions here:
For 4.1.3:
http://www.unidata.ucar.edu/software/netcdf/docs/netcdf-install/
For 4.2.1.1:
http://www.unidata.ucar.edu/software/netcdf/docs/building.html
Sorry, but we lost our parallel-netCDF expertise when the developer got lured
away last year, so
I can't answer the question about the parallel make. I also see you're not
setting the environment
variables MPICC, MPIFC, and MPIF77, as recommended in a address@hidden mailing
list,
but I'm not sure if that's a problem:
http://lists.mcs.anl.gov/pipermail/parallel-netcdf/2011-June/001193.html
--Russ
Russ Rew UCAR Unidata Program
address@hidden http://www.unidata.ucar.edu
Ticket Details
===================
Ticket ID: OTC-268927
Department: Support netCDF
Priority: Normal
Status: Closed
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