[ncl-talk] hdf issue with netcdf4 files
Will Hobbs
will.hobbs at utas.edu.au
Mon Apr 1 18:58:25 MDT 2019
Hi all
I recently (like, yesterday) upgraded to v 6.6.2. The install works fine, except that when I access any netcdf4 files (either using addfile() or ncl_filedump) I get an enormous list of HDF5 error messages (see below). I do not get the same errors using ncdump. I have version 1.10.5 of hdf5 (which I think is up to date)
The functionality and scripts work just fine, and I can get over this using 2>/dev/null, but I wonder if anyone else has had this problem or is aware of flag to turn off the the stream of messages.
I’m happy to send a file across, but this seemas to be happening with a lot of my netCDF files
Will
(sample of output from a single file below – the full message is just enormous..)
NC4_open: path ACCESS1-0_historical_r1i1p1_WOD_profiles_watermass_1956-2005.nc mode 4096 params 0
HDF5 error messages turned on.
nc4_open_file: path ACCESS1-0_historical_r1i1p1_WOD_profiles_watermass_1956-2005.nc mode 4096
nc4_grp_list_add: name /
nc4_rec_read_metadata: grp->hdr.name /
found dataset pdum
found dataset mass
found dataset bounds
found dataset depth
found dataset dz
found dataset lat
found dataset lon
found dataset time
found dataset WODid
found dataset Sprof
found dataset Tprof
found dataset S
found dataset T
found dataset Z
ERROR: Invalid _NCProperties attribute
*** NetCDF-4 Internal Metadata: int_ncid 0x10000 ext_ncid 0x10000
FILE - path: ACCESS1-0_historical_r1i1p1_WOD_profiles_watermass_1956-2005.nc cmode: 0x1008 parallel: 0 redef: 0 fill_mode: 0 no_write: 1 next_nc_grpid: 1
GROUP - / nc_grpid: 0 nvars: 14 natts: 0
DIMENSION - dimid: 0 name: pdum len: 29985 unlimited: 0
DIMENSION - dimid: 1 name: mass len: 4 unlimited: 0
DIMENSION - dimid: 2 name: bounds len: 2 unlimited: 0
DIMENSION - dimid: 3 name: depth len: 96 unlimited: 0
VARIABLE - varid: 0 name: pdum ndims: 1 dimscale: 1 dimids: 0
VARIABLE - varid: 1 name: mass ndims: 1 dimscale: 1 dimids: 1
VARIABLE - varid: 2 name: bounds ndims: 1 dimscale: 1 dimids: 2
VARIABLE - varid: 3 name: depth ndims: 1 dimscale: 1 dimids: 3
VARIABLE - varid: 4 name: dz ndims: 1 dimscale: 0 dimids: 3
VARIABLE - varid: 5 name: lat ndims: 1 dimscale: 0 dimids: 0
VARIABLE - varid: 6 name: lon ndims: 1 dimscale: 0 dimids: 0
VARIABLE - varid: 7 name: time ndims: 1 dimscale: 0 dimids: 0
VARIABLE - varid: 8 name: WODid ndims: 1 dimscale: 0 dimids: 0
VARIABLE - varid: 9 name: Sprof ndims: 2 dimscale: 0 dimids: 0 3
VARIABLE - varid: 10 name: Tprof ndims: 2 dimscale: 0 dimids: 0 3
VARIABLE - varid: 11 name: S ndims: 2 dimscale: 0 dimids: 0 1
VARIABLE - varid: 12 name: T ndims: 2 dimscale: 0 dimids: 0 1
VARIABLE - varid: 13 name: Z ndims: 3 dimscale: 0 dimids: 0 1 2
NC4_inq: ncid 0x10000
nc4_att_list_add: name end_year
nc4_att_list_add: name start_year
nc4_att_list_add: name member
nc4_att_list_add: name experiment
nc4_att_list_add: name model
nc4_att_list_add: name creation_script
nc4_att_list_add: name creation_data
nc4_att_list_add: name description
nc_inq_attname: ncid 0x10000 varid -1 attnum 0
nc_inq_attname: ncid 0x10000 varid -1 attnum 0
NC4_inq_att: ncid 0x10000 varid -1 name end_year
nc4_get_att: ncid 0x10000 varid -1 name end_year attnum -1 mem_type 0
NC4_inq_att: ncid 0x10000 varid -1 name end_year
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