[netcdfgroup] Accessing a NetCDF and HDF5 file at the same time corrupts the HDF file

• To: netcdfgroup@xxxxxxxxxxxxxxxx
• Subject: [netcdfgroup] Accessing a NetCDF and HDF5 file at the same time corrupts the HDF file
• From: Oliver Lemke <olemke@xxxxxx>
• Date: Fri, 22 Oct 2010 14:24:15 +0200

Hi,

I'm trying to write to a NetCDF file and an HDF5 file at the same time. When I 
call nc_close() the HDF5 file identifier gets corrupted:

#include <netcdf.h>
#include <hdf5.h>

#define H5_FILE "test.h5"
#define NC_FILE "test.nc"

int main (void)
{
  hid_t h5file;
  int ncid;

  h5file = H5Fcreate(H5_FILE, H5F_ACC_TRUNC, H5P_DEFAULT, H5P_DEFAULT);

  nc_create (NC_FILE, NC_CLOBBER, &ncid);
  nc_close (ncid);

  /** Code to write data to the HDF5 file removed for simplicity **/

  H5Fclose (h5file);
  return 0;
}

Using NetCDF 4.1.1 and HDF5 1.8.5, I get the following error when calling 
H5Fclose and the resulting HDF file is empty:

HDF5-DIAG: Error detected in HDF5 (1.8.5) thread 0:
  #000: H5F.c line 1943 in H5Fclose(): invalid file identifier
    major: Invalid arguments to routine
    minor: Inappropriate type

Calling H5Fclose() _before_ nc_close() makes the problem go away. The problem 
also does not occur when linking against NetCDF 3.6.3. Is this possibly a bug 
in nc_close()?

Any help appreciated.

/oliver

• Follow-Ups:
  • Re: [netcdfgroup] Accessing a NetCDF and HDF5 file at the same time corrupts the HDF file
    • From: Ed Hartnett