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  • djhoese · 2 ✖

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  • Let's list all the netCDF files that xarray can't open · 2 ✖

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  • CONTRIBUTOR · 2 ✖
id html_url issue_url node_id user created_at updated_at ▲ author_association body reactions performed_via_github_app issue
419166240 https://github.com/pydata/xarray/issues/2368#issuecomment-419166240 https://api.github.com/repos/pydata/xarray/issues/2368 MDEyOklzc3VlQ29tbWVudDQxOTE2NjI0MA== djhoese 1828519 2018-09-06T16:54:43Z 2018-09-06T16:55:11Z CONTRIBUTOR

@rabernat For the groups NetCDF files I had in mind the NASA L1B data files for the satellite instrument VIIRS onboard Suomi-NPP and NOAA-20 satellites. You can see an example file here.

The summary of the ncdump is:

``` netcdf VNP02IMG.A2018008.0000.001.2018061001540 { dimensions: number_of_scans = 202 ; number_of_lines = 6464 ; number_of_pixels = 6400 ; number_of_LUT_values = 65536 ;

... lots of global attributes ...

group: scan_line_attributes { variables: double scan_start_time(number_of_scans) ; scan_start_time:long_name = "Scan start time (TAI93)" ; scan_start_time:units = "seconds" ; scan_start_time:_FillValue = -999.9 ; scan_start_time:valid_min = 0. ; scan_start_time:valid_max = 2000000000. ; ... lots of other variables in this group ...

group: observation_data { variables: ushort I04(number_of_lines, number_of_pixels) ; I04:long_name = "I-band 04 earth view radiance" ; I04:units = "Watts/meter^2/steradian/micrometer" ; I04:_FillValue = 65535US ; I04:valid_min = 0US ; I04:valid_max = 65527US ; I04:scale_factor = 6.104354e-05f ; I04:add_offset = 0.0016703f ; I04:flag_values = 65532US, 65533US, 65534US ; I04:flag_meanings = "Missing_EV Bowtie_Deleted Cal_Fail" ;

```

When I first started out with xarray I assumed I would be able to do something like:

import xarray as xr nc = xr.open_dataset('VNP02IMG.A2018008.0000.001.2018061001540.nc') band_data = nc['observation_data/I04']

Which I can't do, but can do with the python netcdf4 library:

``` In [7]: from netCDF4 import Dataset

In [8]: nc = Dataset('VNP02IMG.A2018008.0000.001.2018061001540.nc')

In [9]: nc['observation_data/I04'] Out[9]: <class 'netCDF4._netCDF4.Variable'> ```

I understand that I can provide the group keyword to open_dataset but then I have to open the file twice if I want to get the global attributes. So any interface I had set up in my code to pass around one object with all of the file contents won't work. That isn't xarray's fault and shouldn't necessarily be something xarray has to solve, but it is a type of NetCDF4 file that is valid and can't be read "perfectly" with xarray.

 
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   Let's list all the netCDF files that xarray can't open 350899839
413849756 https://github.com/pydata/xarray/issues/2368#issuecomment-413849756 https://api.github.com/repos/pydata/xarray/issues/2368 MDEyOklzc3VlQ29tbWVudDQxMzg0OTc1Ng== djhoese 1828519 2018-08-17T12:26:42Z 2018-08-17T12:26:42Z CONTRIBUTOR

This is mentioned elsewhere (can't find the issue right now) and may be out of scope for this issue but I'm going to say it anyway: opening a NetCDF file with groups was not as easy as I wanted it to be when first starting out with xarray.

 
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   Let's list all the netCDF files that xarray can't open 350899839

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