How to import HDF5 files with SZIP filter

I have some data in the dataset "winspec_STD" but i have tried to use h5read function to access that dataset without any luck. I want to load each of the 2x1341x1x1x1 chunks to a matlab matrix. I dont know if the reason of the error is the szip filter or something else (my first time dealing with .h5 files, so not really experienced with them). I have explored the files also with the HDFView as another post in MATLAB Answers suggested, but didnt provide much more information. The size of the chunks really confuses me, i also tried to extract just a portion of the data with h5read, but again no result.

>> h5info('190516-004.h5')

ans = 

  struct with fields:

      Filename: 'C:\.....\190516-004.h5'
          Name: '/'
        Groups: []
      Datasets: [4×1 struct]
     Datatypes: []
         Links: []
    Attributes: []

>> h5disp('190516-004.h5', '/winspec_STD')
HDF5 190516-004.h5 
Dataset 'winspec_STD' 
    Size:  2x1341x21x1x1
    MaxSize:  2x1341x21x1x1
    Datatype:   H5T_IEEE_F32LE (single)
    ChunkSize:  2x1341x1x1x1
    Filters:  szip
    FillValue:  0.000000
 
>> data1 = h5read('190516-004.h5', '/winspec_STD')
Error using h5readc
The HDF5 library encountered an error and produced the following stack trace information:

    H5PL__find         can't open directory
    H5PL_load          search in paths failed
    H5Z_pipeline       required filter 'szip' is not registered
    H5D__chunk_lock    data pipeline read failed
    H5D__chunk_read    unable to read raw data chunk
    H5D__read          can't read data
    H5Dread            can't read data

Error in h5read (line 58)
[data,var_class] = h5readc(Filename,Dataset,start,count,stride);

Thank you

Rergards

Sergio

Answer 1

[Shivam Sardana]

szip filter is not supported by h5read. szip filter depends on third-party compression libraries. To read the file which includes use of szip filter, you must install HDF5 filter plugin. You can refer to this documentation link for more details on importing HDF5 files: https://www.mathworks.com/help/matlab/import_export/importing-hierarchical-data-format-hdf5-files.html