[netcdfgroup] netcdf4/hdf problem

• To: netcdfgroup@xxxxxxxxxxxxxxxx
• Subject: [netcdfgroup] netcdf4/hdf problem
• From: Jim Edwards <jedwards@xxxxxxxx>
• Date: Thu, 6 May 2010 11:15:08 -0600

I am using netcdf-4.1.1 and hdf5 1.8.4-patch1 on an AIX 5.3 system

I am opening several netcdf3 format files to read and writing using the
parallel
netcdf4 nf90_open_par method.   I was crashing on trying to close one of the
files opened to write with a meaningless 'HDF error' message string.  So I
rebuilt netcdf with --enable-logging ( Can you consider implementing this
feature using an environment variable instead of requiring a recompile?)
and now I am crashing earlier in the program.   When I try to use ncdump to
look at one of the files written I get ...

HDF5-DIAG: Error detected in HDF5 (1.8.4-patch1) thread 0:
  #000: H5F.c line 1514 in H5Fopen(): unable to open file
    major: File accessability
    minor: Unable to open file
  #001: H5F.c line 1309 in H5F_open(): unable to read superblock
    major: File accessability
    minor: Read failed
  #002: H5Fsuper.c line 322 in H5F_super_read(): unable to load superblock
    major: Object cache
    minor: Unable to protect metadata
  #003: H5AC.c line 1831 in H5AC_protect(): H5C_protect() failed.
    major: Object cache
    minor: Unable to protect metadata
  #004: H5C.c line 6160 in H5C_protect(): can't load entry
    major: Object cache
    minor: Unable to load metadata into cache
  #005: H5C.c line 10990 in H5C_load_entry(): unable to load entry
    major: Object cache
    minor: Unable to load metadata into cache
  #006: H5Fsuper_cache.c line 467 in H5F_sblock_load(): truncated file
    major: File accessability
    minor: File has been truncated
/contrib/netcdf-4.1.1-mpi/bin/ncdump: camrun.cam2.h0.0000-01-01-00000.nc:
HDF error

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    • From: Jim Edwards