[Pytables-users] reading image data from h5 file

[Hanneke S. <H.S...@ge...>]

Dear Francesc (and others),

I need help on the following:
For my research I have to edit radar images. These images are stored in 
HDF5 format. However when I want to

open the file I get the error code as printed below.
The radar image is stored in /image1/image_data and consist of 8-bit data, 
stored in a 2-dimensional array

of 256 rows x 256 columns. I want to save only the image data in a matrix.

I assume that the image dataset is not yet implemented in pytables. Could 
you tell me if this can be done

easily or could you maybe tell me how I could do this "myself" (I have some 
colleagues at university who are

skilled in python.) If you want I can send you an example of a radar h5-file.

Kind regards,

Hanneke Schuurmans

 >>> from numarray import *
 >>> from tables import*
 >>> f=openFile('I:/HDF5/radar.h5')
C:\Python23\lib\site-packages\tables\File.py:188: UserWarning: 
'I:/HDF5/radar.h5' does exist, is an HDF5

file, but has not a PyTables format.
   Trying to guess what's here from HDF5 metadata. I can't promise you getting
   the correct objects, but I will do my best!.
   warnings.warn( \
Info: Can't deal with multidimensional attribute 'geo_product_corners' in 
node 'geographic'.
Info: Can't deal with multidimensional attribute 'radar_location' in node 
'radar1'.
Info: Can't deal with multidimensional attribute 'radar_location' in node 
'radar2'.
C:\Python23\lib\site-packages\tables\Group.py:229: UserWarning: Class ID 
'IMAGE' for Leaf /image1/image_data

is unknown and will become <UnImplemented> type.
   (class_, self._g_join(name)), UserWarning)
 >>> f
File(filename='I:/HDF5/radar.h5', title=None, mode='r', trMap={}, 
rootUEP='/', filters=Filters())
/ (Group) None
/geographic (Group) None
/image1 (Group) None
/image1/image_data (UnImplemented(256, 256), zlib(9)) None
   NOTE: <The UnImplemented object represents a PyTables unimplemented
          dataset present in the 'I:/HDF5/radar.h5' HDF5 file.
          If you wanna see this kind of HDF5 dataset implemented in
          PyTables, please, contact the developers.>

/overview (Group) None
/radar1 (Group) None
/radar2 (Group) None
/image1/calibration (Group) None
/image1/statistics (Group) None
/geographic/map_projection (Group) None

ir. J.M. (Hanneke) Schuurmans (PhD student)
Department of Physical Geography
Faculty of Geosciences, Utrecht University, The Netherlands
E-mail: h.s...@ge...
Telephone: +31(0)30-2532988 (direct), +31(0)30-2532749 (secretary)
Fax: +31(0)30-2531145
Visiting address: Heidelberglaan 2, Utrecht
Postal address: P.O.Box 80.115, 3508 TC Utrecht