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- Let's list all the netCDF files that xarray can't open · 2 ✖
id | html_url | issue_url | node_id | user | created_at | updated_at ▲ | author_association | body | reactions | performed_via_github_app | issue |
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1320993705 | https://github.com/pydata/xarray/issues/2368#issuecomment-1320993705 | https://api.github.com/repos/pydata/xarray/issues/2368 | IC_kwDOAMm_X85OvMOp | maxaragon 39450418 | 2022-11-19T23:46:35Z | 2022-11-20T13:31:45Z | NONE | Found another example from ICON NWP model. Files open with netCDF4 library but not with xarray.
Error: ```TypeError Traceback (most recent call last) Cell In [109], line 1 ----> 1 ds = xr.open_dataset('20200825_hyytiala_icon-iglo-12-23.nc') File ~/.virtualenvs/INAR/lib/python3.10/site-packages/xarray/backends/api.py:531, in open_dataset(filename_or_obj, engine, chunks, cache, decode_cf, mask_and_scale, decode_times, decode_timedelta, use_cftime, concat_characters, decode_coords, drop_variables, inline_array, backend_kwargs, kwargs) 519 decoders = _resolve_decoders_kwargs( 520 decode_cf, 521 open_backend_dataset_parameters=backend.open_dataset_parameters, (...) 527 decode_coords=decode_coords, 528 ) 530 overwrite_encoded_chunks = kwargs.pop("overwrite_encoded_chunks", None) --> 531 backend_ds = backend.open_dataset( 532 filename_or_obj, 533 drop_variables=drop_variables, 534 decoders, 535 kwargs, 536 ) 537 ds = _dataset_from_backend_dataset( 538 backend_ds, 539 filename_or_obj, (...) 547 kwargs, 548 ) 549 return ds File ~/.virtualenvs/INAR/lib/python3.10/site-packages/xarray/backends/netCDF4_.py:569, in NetCDF4BackendEntrypoint.open_dataset(self, filename_or_obj, mask_and_scale, decode_times, concat_characters, decode_coords, drop_variables, use_cftime, decode_timedelta, group, mode, format, clobber, diskless, persist, lock, autoclose) 567 store_entrypoint = StoreBackendEntrypoint() 568 with close_on_error(store): --> 569 ds = store_entrypoint.open_dataset( 570 store, 571 mask_and_scale=mask_and_scale, 572 decode_times=decode_times, 573 concat_characters=concat_characters, 574 decode_coords=decode_coords, 575 drop_variables=drop_variables, 576 use_cftime=use_cftime, 577 decode_timedelta=decode_timedelta, 578 ) 579 return ds File ~/.virtualenvs/INAR/lib/python3.10/site-packages/xarray/backends/store.py:29, in StoreBackendEntrypoint.open_dataset(self, store, mask_and_scale, decode_times, concat_characters, decode_coords, drop_variables, use_cftime, decode_timedelta) 26 vars, attrs = store.load() 27 encoding = store.get_encoding() ---> 29 vars, attrs, coord_names = conventions.decode_cf_variables( 30 vars, 31 attrs, 32 mask_and_scale=mask_and_scale, 33 decode_times=decode_times, 34 concat_characters=concat_characters, 35 decode_coords=decode_coords, 36 drop_variables=drop_variables, 37 use_cftime=use_cftime, 38 decode_timedelta=decode_timedelta, 39 ) 41 ds = Dataset(vars, attrs=attrs) 42 ds = ds.set_coords(coord_names.intersection(vars)) File ~/.virtualenvs/INAR/lib/python3.10/site-packages/xarray/conventions.py:509, in decode_cf_variables(variables, attributes, concat_characters, mask_and_scale, decode_times, decode_coords, drop_variables, use_cftime, decode_timedelta) 507 # Time bounds coordinates might miss the decoding attributes 508 if decode_times: --> 509 _update_bounds_attributes(variables) 511 new_vars = {} 512 for k, v in variables.items(): File ~/.virtualenvs/INAR/lib/python3.10/site-packages/xarray/conventions.py:410, in _update_bounds_attributes(variables) 408 for v in variables.values(): 409 attrs = v.attrs --> 410 has_date_units = "units" in attrs and "since" in attrs["units"] 411 if has_date_units and "bounds" in attrs: 412 if attrs["bounds"] in variables: TypeError: argument of type 'numpy.float32' is not iterable ``` |
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Let's list all the netCDF files that xarray can't open 350899839 | |
1320996459 | https://github.com/pydata/xarray/issues/2368#issuecomment-1320996459 | https://api.github.com/repos/pydata/xarray/issues/2368 | IC_kwDOAMm_X85OvM5r | maxaragon 39450418 | 2022-11-20T00:06:17Z | 2022-11-20T00:06:17Z | NONE | @andersy005 indeed, I have updated xarray and works now, previous version was: ``` INSTALLED VERSIONS commit: None python: 3.10.6 (main, Aug 30 2022, 04:58:14) [Clang 13.1.6 (clang-1316.0.21.2.5)] python-bits: 64 OS: Darwin OS-release: 21.6.0 machine: arm64 processor: i386 byteorder: little LC_ALL: None LANG: None LOCALE: (None, 'UTF-8') libhdf5: 1.12.2 libnetcdf: 4.9.0 xarray: 2022.6.0 pandas: 1.4.4 numpy: 1.23.2 scipy: 1.9.1 netCDF4: 1.6.0 pydap: None h5netcdf: None h5py: None Nio: None zarr: None cftime: 1.6.1 nc_time_axis: None PseudoNetCDF: None rasterio: None cfgrib: None iris: None bottleneck: 1.3.5 dask: None distributed: None matplotlib: 3.5.3 cartopy: None seaborn: 0.12.1 numbagg: None fsspec: None cupy: None pint: None sparse: None flox: None numpy_groupies: None setuptools: 63.4.3 pip: 22.2.2 conda: None pytest: None IPython: 8.5.0 sphinx: None ``` |
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Let's list all the netCDF files that xarray can't open 350899839 |
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