[gradsusr] Opening up NASA GSSTF.3 HDF-EOS5 data in GrADS

Vizy, Edward K ned at jsg.utexas.edu
Fri Oct 18 13:07:27 EDT 2013 

Hi,

I am trying to view the Goddard Satellite-Based Surface Turbulent Fluxes, Daily Grid from MEaSUREs site at: http://disc.gsfc.nasa.gov/daac-bin/DataHoldingsMEASURES.pl in GrADS.

When I go to open the file in GrADS using the following I get the following error message:
ga-> sdfopen GSSTF.3.1998.12.28.he5
Scanning self-describing file:  GSSTF.3.1998.12.28.he5
gadsdf: SDF file has no discernable X coordinate.
  To open this file with GrADS, use a descriptor file with an XDEF entry.
  Documentation is at http://iges.org/grads/gadoc/SDFdescriptorfile.html

However, when I use opendap to open the file it works fine and all of the fields are appropriate magnitudes.  That is:

ga-> sdfopen http://measures.gsfc.nasa.gov/opendap/GSSTF/GSSTF.3/1998/GSSTF.3.1998.12.28.he5
Scanning self-describing file:  http://measures.gsfc.nasa.gov/opendap/GSSTF/GSSTF.3/1998/GSSTF.3.1998.12.28.he5
SDF file has no discernable time coordinate -- using default values.
SDF file http://measures.gsfc.nasa.gov/opendap/GSSTF/GSSTF.3/1998/GSSTF.3.1998.12.28.he5 is open as file 1
LON set to -179.875 179.875
LAT set to -89.875 89.875
LEV set to 0 0
Time values set: 1:1:1:0 1:1:1:0
E set to 1 1

So using the q ctlinfo command I was able to extract and construct a control file for the downloaded HDF-EOS5 data file:

dset ^./GSSTF.3.1998.12.28.he5
title
undef -999
dtype netcdf
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47.125 47.375 47.625 47.875 48.125 48.375 48.625 48.875 49.125 49.375
49.625 49.875 50.125 50.375 50.625 50.875 51.125 51.375 51.625 51.875
52.125 52.375 52.625 52.875 53.125 53.375 53.625 53.875 54.125 54.375
54.625 54.875 55.125 55.375 55.625 55.875 56.125 56.375 56.625 56.875
57.125 57.375 57.625 57.875 58.125 58.375 58.625 58.875 59.125 59.375
59.625 59.875 60.125 60.375 60.625 60.875 61.125 61.375 61.625 61.875
62.125 62.375 62.625 62.875 63.125 63.375 63.625 63.875 64.125 64.375
64.625 64.875 65.125 65.375 65.625 65.875 66.125 66.375 66.625 66.875
67.125 67.375 67.625 67.875 68.125 68.375 68.625 68.875 69.125 69.375
69.625 69.875 70.125 70.375 70.625 70.875 71.125 71.375 71.625 71.875
72.125 72.375 72.625 72.875 73.125 73.375 73.625 73.875 74.125 74.375
74.625 74.875 75.125 75.375 75.625 75.875 76.125 76.375 76.625 76.875
77.125 77.375 77.625 77.875 78.125 78.375 78.625 78.875 79.125 79.375
79.625 79.875 80.125 80.375 80.625 80.875 81.125 81.375 81.625 81.875
82.125 82.375 82.625 82.875 83.125 83.375 83.625 83.875 84.125 84.375
84.625 84.875 85.125 85.375 85.625 85.875 86.125 86.375 86.625 86.875
87.125 87.375 87.625 87.875 88.125 88.375 88.625 88.875 89.125 89.375
89.625 89.875
zdef 1 linear 0 1
tdef 1 linear 00Z01JAN0001 1mn
vars 8
DQ=>dq  0  y,x  sea-air humidity difference
E=>e  0  y,x  latent heat flux
H=>h  0  y,x  sensible heat flux
Qair=>qair  0  y,x  surface air (~10-m) specific humidity
STu=>stu  0  y,x  zonal wind stress
STv=>stv  0  y,x  meridional wind stress
Tot_Precip_Water=>tot_precip_wate  0  y,x  total precipitable water
U=>u  0  y,x  10-m wind speed
endvars

This control file allows me to open the data file up, but when I go to display any variable I get the following error message:
ga-> d u
Error: Variable U not in netcdf file
Data Request Error:  Error for variable 'u'
  Error ocurred at column 1
DISPLAY error:  Invalid expression
  Expression = u

I then tried to change dtype netcdf to read  dtype hdf5_grid.  When I do this then try to display a variable I get the following:
ga-> d u
HDF5-DIAG: Error detected in HDF5 (1.8.7) thread 0:
  #000: H5D.c line 334 in H5Dopen2(): not found
    major: Dataset
    minor: Object not found
  #001: H5Gloc.c line 430 in H5G_loc_find(): can't find object
    major: Symbol table
    minor: Object not found
  #002: H5Gtraverse.c line 905 in H5G_traverse(): internal path traversal failed
    major: Symbol table
    minor: Object not found
  #003: H5Gtraverse.c line 688 in H5G_traverse_real(): traversal operator failed
    major: Symbol table
    minor: Callback failed
  #004: H5Gloc.c line 385 in H5G_loc_find_cb(): object 'U' doesn't exist
    major: Symbol table
    minor: Object not found
Error: H5Dopen2 failed for variable U
Error: Variable U not in HDF5 file
Data Request Error:  Error for variable 'u'
  Error ocurred at column 1
DISPLAY error:  Invalid expression
  Expression = u

Does anyone have any suggestions about what may be wrong and/or how the control file should read so as to be able to open up this data?
My GrADS build information is as follows:

Config: v2.0.2 little-endian readline printim grib2 netcdf hdf4-sds hdf5 opendap-grids,stn geotiff shapefile
Grid Analysis and Display System (GrADS) Version 2.0.2
Copyright (c) 1988-2011 by Brian Doty and the
Institute for Global Environment and Society (IGES)
This program is distributed WITHOUT ANY WARRANTY
See file COPYRIGHT for more information.

Built Thu Nov  8 13:55:26 EST 2012 for x86_64-unknown-linux-gnu

This version of GrADS has been configured with the following options:
  o Built on a LITTLE ENDIAN machine
  o Athena Widget GUI DISABLED
  o Command line editing ENABLED
      http://tiswww.case.edu/php/chet/readline/rltop.html
  o printim command for image output ENABLED
      http://www.zlib.net
      http://www.libpng.org/pub/png/libpng.html
      http://www.libgd.org/Main_Page
  o GRIB2 interface ENABLED
      http://www.ijg.org
      http://www.ece.uvic.ca/~mdadams/jasper
      http://www.nco.ncep.noaa.gov/pmb/codes/GRIB2
      g2clib-1.4.0
  o NetCDF interface ENABLED
      http://www.unidata.ucar.edu/software/netcdf
      netcdf 4.1.2 of Oct  5 2011 11:54:30 $
  o OPeNDAP gridded data interface ENABLED
  o OPeNDAP station data interface ENABLED
      http://iges.org/grads/gadoc/supplibs.html
      libgadap 2.0
  o HDF4 and HDF5 interfaces ENABLED
      http://hdfgroup.org
      HDF 4.2r3
      HDF5 1.8.7
  o GeoTIFF and KML/TIFF output ENABLED
      http://www.libtiff.org
      http://geotiff.osgeo.org
  o KML contour output ENABLED
  o Shapefile interface ENABLED
      http://shapelib.maptools.org


Many thanks
Ned


Dr. Edward "Ned" Vizy
Research Engineer/Scientist Associate V
Jackson School of Geosciences
Department of Geological Sciences
The University of Texas at Austin
2275 Speedway C9000
Austin, Texas 78712
e-mail: ned at jsg.utexas.edu<mailto:ned at jsg.utexas.edu>
phone: 512-585-1937


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