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  • Problem opening unstructured grid ocean forecasts with 4D vertical coordinates · 2 ✖

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  • CONTRIBUTOR · 2 ✖
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782188310 https://github.com/pydata/xarray/issues/2233#issuecomment-782188310 https://api.github.com/repos/pydata/xarray/issues/2233 MDEyOklzc3VlQ29tbWVudDc4MjE4ODMxMA== jthielen 3460034 2021-02-19T16:34:23Z 2021-02-19T16:41:05Z CONTRIBUTOR

I've seen this issue come up a few more times recently, so I wanted to ask: in lieu of a "full fix" (a la https://github.com/pydata/xarray/pull/2405, with deep data model changes holding up the PR), would there be support for a partial coordinate-renaming-based fix? I'd imagine something like the following:

To read in netCDF like the following,

<class 'netCDF4._netCDF4.Dataset'> root group (NETCDF4 data model, file format HDF5): Conventions: CDM-Extended-CF history: Written by CFPointWriter title: Extract Points data from Grid file /data/ldm/pub/native/grid/NCEP/RR/CONUS_13km/RR_CONUS_13km_20210219_1400.grib2.ncx3#LambertConformal_337X451-40p01N-98p14W featureType: timeSeriesProfile time_coverage_start: 2021-02-19T16:00:00Z time_coverage_end: 2021-02-19T16:00:00Z geospatial_lat_min: 42.0295 geospatial_lat_max: 42.0305 geospatial_lon_min: -93.6405 geospatial_lon_max: -93.6395 dimensions(sizes): profile(1), station(1), isobaric(37), station_name_strlen(10), station_description_strlen(34) variables(dimensions): float32 isobaric(station, profile, isobaric), float32 u-component_of_wind_isobaric(station, profile, isobaric), float32 v-component_of_wind_isobaric(station, profile, isobaric), float32 Temperature_isobaric(station, profile, isobaric), float32 Relative_humidity_isobaric(station, profile, isobaric), |S1 station_name(station, station_name_strlen), |S1 station_description(station, station_description_strlen), float64 latitude(station), float64 longitude(station), float64 time(station, profile) groups:

(note the problematic isobaric(station, profile, isobaric)), one could specify a kwarg to xr.open_dataset to rename it,

python ds = xr.open_dataset("my_problematic_file.nc", rename_vars={'isobaric': 'isobaric_coord'})

thus giving

<xarray.Dataset> Dimensions: (isobaric: 37, profile: 1, station: 1) Dimensions without coordinates: isobaric, profile, station Data variables: u-component_of_wind_isobaric (station, profile, isobaric) float32 ... v-component_of_wind_isobaric (station, profile, isobaric) float32 ... Temperature_isobaric (station, profile, isobaric) float32 ... Relative_humidity_isobaric (station, profile, isobaric) float32 ... station_name (station) |S10 ... station_description (station) |S34 ... latitude (station) float64 ... longitude (station) float64 ... time (station, profile) datetime64[ns] ... isobaric_coord (station, profile, isobaric) float32 ... Attributes: Conventions: CDM-Extended-CF history: Written by CFPointWriter title: Extract Points data from Grid file /data/ldm/pub/na... featureType: timeSeriesProfile time_coverage_start: 2021-02-19T16:00:00Z time_coverage_end: 2021-02-19T16:00:00Z geospatial_lat_min: 42.0295 geospatial_lat_max: 42.0305 geospatial_lon_min: -93.6405 geospatial_lon_max: -93.6395

 
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   Problem opening unstructured grid ocean forecasts with 4D vertical coordinates 332471780
397365916 https://github.com/pydata/xarray/issues/2233#issuecomment-397365916 https://api.github.com/repos/pydata/xarray/issues/2233 MDEyOklzc3VlQ29tbWVudDM5NzM2NTkxNg== ocefpaf 950575 2018-06-14T16:58:03Z 2018-06-14T17:01:17Z CONTRIBUTOR

It is not ideal but you can workaround that by dropping the siglay variable.

python ds = xr.open_dataset(url, drop_variables='siglay')

 
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   Problem opening unstructured grid ocean forecasts with 4D vertical coordinates 332471780

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