[Date Prev][Date Next][Thread Prev][Thread Next][Date Index][Thread Index]

[netCDF #IDJ-549001]: Problem installing netcdf-4.1.3 with hdf5

This archive contains answers to questions sent to Unidata support through mid-2025. Note that the archive is no longer being updated. We provide the archive for reference; many of the answers presented here remain technically correct, even if somewhat outdated. For the most up-to-date information on the use of NSF Unidata software and data services, please consult the Software Documentation first.

  • Subject: [netCDF #IDJ-549001]: Problem installing netcdf-4.1.3 with hdf5
  • Date: Fri, 28 Dec 2012 14:00:41 -0700
Hi Alejandro,
 
> I'm trying to buid netcdf-4.1.3.
> 
> I am using hdf5-1.8.9 wich had be donne with zlib-1.2.7 and szip-2.1.
> 
> I type
> cd netcdf-4.1.3/
> export CC=icc
> export CXX=icpc
> export F77=ifort
> export FC=ifort
> export CPP='icc -E'
> export CXXCPP='icpc -E'
> export F90=ifort
> 
> CPPFLAGS=-I/hdf5/local/include LDFLAGS=-L/hdf5/local/lib ./configure
> 
> And configure ends good (attached config.log)
> 
> So i continued with:
> make check install 2>&1 | tee make.log
> 
> After some minutes i got:
> ...
> ================================================
> 1 of 26 tests failed
> Please report to address@hidden
> ================================================
> make[2]: *** [check-TESTS] Error 1
> make[2]: Leaving directory `/netcdf-4.1.3/h5_test'
> make[1]: *** [check-am] Error 2
> make[1]: Leaving directory `/netcdf-4.1.3/h5_test'
> make: *** [check-recursive] Error 1
> 
> (attached make.log)
> 
> Looking for the error in make.log i found:
> 
> PASS: tst_h_atts4
> HDF5-DIAG: Error detected in HDF5 (1.8.9) thread 0:
> #000: H5Z.c line 1376 in H5Zget_filter_info(): Filter not defined
> major: Invalid arguments to routine
> minor: Bad value
> #001: H5Z.c line 1019 in H5Z_find(): required filter is not registered
> major: Data filters
> minor: Object not found
> 
> *** Checking HDF5 variable functions.
> *** Checking HDF5 boolean variables...ok.
> *** Checking HDF5 variable with unlimited dimension...ok.
> *** Checking HDF5 deflate filter setting and getting...Sorry! Unexpected
> result, tst_h_vars.c, line: 230
> FAIL: tst_h_vars

This indicates the HDF5 library can't find zlib.  When you build HDF5, you 
need to configure it with the --with-zlib= option to tell it where to find 
the zlib library.  The value of that option should point to a directory above
the lib and include directories that contain the libz library and header 
file.

Then rebuild the netCDF library and this problem should go away.  I hope
this helps ...

--Russ

Russ Rew                                         UCAR Unidata Program
address@hidden                      http://www.unidata.ucar.edu



Ticket Details
===================
Ticket ID: IDJ-549001
Department: Support netCDF
Priority: Normal
Status: Closed