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- Opening remote file with OpenDAP protocol returns "_FillValue type mismatch" error · 9 ✖
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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954594196 | https://github.com/pydata/xarray/issues/5882#issuecomment-954594196 | https://api.github.com/repos/pydata/xarray/issues/5882 | IC_kwDOAMm_X8445fOU | saveriogzz 42075938 | 2021-10-29T09:30:40Z | 2021-10-29T09:30:40Z | NONE | Thanks both for your help! Pangeo's notebook works as expected, I will start using that instead of my custom docker image. |
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Opening remote file with OpenDAP protocol returns "_FillValue type mismatch" error 1032694511 | |
954053236 | https://github.com/pydata/xarray/issues/5882#issuecomment-954053236 | https://api.github.com/repos/pydata/xarray/issues/5882 | IC_kwDOAMm_X8443bJ0 | raybellwaves 17162724 | 2021-10-28T17:29:51Z | 2021-10-28T17:29:51Z | CONTRIBUTOR |
I'm on 3.9 sorry I can do a full list of my env as I pull from an internal source but the core ones around netcdf I see netcdf-fortran 4.5.3 Works in the pangeo docker (https://github.com/pangeo-data/pangeo-docker-images/blob/master/pangeo-notebook/environment.yml) if that helps
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Opening remote file with OpenDAP protocol returns "_FillValue type mismatch" error 1032694511 | |
954028015 | https://github.com/pydata/xarray/issues/5882#issuecomment-954028015 | https://api.github.com/repos/pydata/xarray/issues/5882 | IC_kwDOAMm_X8443U_v | dopplershift 221526 | 2021-10-28T16:55:26Z | 2021-10-28T16:55:26Z | CONTRIBUTOR | Can you post the full traceback you get? |
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Opening remote file with OpenDAP protocol returns "_FillValue type mismatch" error 1032694511 | |
953986135 | https://github.com/pydata/xarray/issues/5882#issuecomment-953986135 | https://api.github.com/repos/pydata/xarray/issues/5882 | IC_kwDOAMm_X8443KxX | saveriogzz 42075938 | 2021-10-28T16:02:11Z | 2021-10-28T16:02:22Z | NONE | Sorry, that is in fact confusing! The original python 3.7 is my jupyter lab running in docker, while 3.6 and 3.8 are brand new conda environments.
Unfortunately the error is still the same. |
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Opening remote file with OpenDAP protocol returns "_FillValue type mismatch" error 1032694511 | |
953921596 | https://github.com/pydata/xarray/issues/5882#issuecomment-953921596 | https://api.github.com/repos/pydata/xarray/issues/5882 | IC_kwDOAMm_X84427A8 | dopplershift 221526 | 2021-10-28T14:49:26Z | 2021-10-28T14:49:26Z | CONTRIBUTOR | @saveriogzz I'm confused why you posted results for 3.6 and 3.8, given that the original issue looks like it was posted for 3.7. 🤨 At any rate, looks like your original issue, the output from Your Python 3.8 environment does have an old version of libnetcdf. Can you try doing |
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Opening remote file with OpenDAP protocol returns "_FillValue type mismatch" error 1032694511 | |
952622521 | https://github.com/pydata/xarray/issues/5882#issuecomment-952622521 | https://api.github.com/repos/pydata/xarray/issues/5882 | IC_kwDOAMm_X844x925 | saveriogzz 42075938 | 2021-10-27T07:35:09Z | 2021-10-27T07:35:09Z | NONE | this one for python 3.6 ``` packages in environment at /home/myself/miniconda3/envs/py36:Name Version Build Channellibnetcdf 4.7.4 nompi_h56d31a8_107 conda-forge ``` and this one for 3.8 ``` packages in environment at /home/myself/miniconda3/envs/py38:Name Version Build Channellibnetcdf 4.6.1 h2053bdc_4 |
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Opening remote file with OpenDAP protocol returns "_FillValue type mismatch" error 1032694511 | |
952246143 | https://github.com/pydata/xarray/issues/5882#issuecomment-952246143 | https://api.github.com/repos/pydata/xarray/issues/5882 | IC_kwDOAMm_X844wh9_ | dopplershift 221526 | 2021-10-26T19:29:52Z | 2021-10-26T19:29:52Z | CONTRIBUTOR | @saveriogzz what is the output of |
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Opening remote file with OpenDAP protocol returns "_FillValue type mismatch" error 1032694511 | |
949892277 | https://github.com/pydata/xarray/issues/5882#issuecomment-949892277 | https://api.github.com/repos/pydata/xarray/issues/5882 | IC_kwDOAMm_X844njS1 | saveriogzz 42075938 | 2021-10-22T19:03:19Z | 2021-10-23T15:04:06Z | NONE | Thanks for trying out! I have installed xarray with conda in a newly conda environment (both python 3.6 and 3.8), but I still receive the error: @raybellwaves which python version are you using? Output of <tt>xr.open_dataset("http://opendap.tudelft.nl/thredds/dodsC/IDRA/2019/10/01/IDRA_2019-10-01_11-00_raw_data.nc")</tt>Traceback (most recent call last): File "/home/sguzzo/miniconda3/envs/py36/lib/python3.6/site-packages/xarray/backends/file_manager.py", line 199, in _acquire_with_cache_info file = self._cache[self._key] File "/home/sguzzo/miniconda3/envs/py36/lib/python3.6/site-packages/xarray/backends/lru_cache.py", line 53, in __getitem__ value = self._cache[key] KeyError: [<class 'netCDF4._netCDF4.Dataset'>, ('http://opendap.tudelft.nl/thredds/dodsC/IDRA/2019/10/01/IDRA_2019-10-01_11-00_raw_data.nc',), 'r', (('clobber', True), ('diskless', False), ('format', 'NETCDF4'), ('persist', False))] During handling of the above exception, another exception occurred: Traceback (most recent call last): File "<stdin>", line 1, in <module> File "/home/sguzzo/miniconda3/envs/py36/lib/python3.6/site-packages/xarray/backends/api.py", line 500, in open_dataset **kwargs, File "/home/sguzzo/miniconda3/envs/py36/lib/python3.6/site-packages/xarray/backends/netCDF4_.py", line 558, in open_dataset autoclose=autoclose, File "/home/sguzzo/miniconda3/envs/py36/lib/python3.6/site-packages/xarray/backends/netCDF4_.py", line 380, in open return cls(manager, group=group, mode=mode, lock=lock, autoclose=autoclose) File "/home/sguzzo/miniconda3/envs/py36/lib/python3.6/site-packages/xarray/backends/netCDF4_.py", line 328, in __init__ self.format = self.ds.data_model File "/home/sguzzo/miniconda3/envs/py36/lib/python3.6/site-packages/xarray/backends/netCDF4_.py", line 389, in ds return self._acquire() File "/home/sguzzo/miniconda3/envs/py36/lib/python3.6/site-packages/xarray/backends/netCDF4_.py", line 383, in _acquire with self._manager.acquire_context(needs_lock) as root: File "/home/sguzzo/miniconda3/envs/py36/lib/python3.6/contextlib.py", line 81, in __enter__ return next(self.gen) File "/home/sguzzo/miniconda3/envs/py36/lib/python3.6/site-packages/xarray/backends/file_manager.py", line 187, in acquire_context file, cached = self._acquire_with_cache_info(needs_lock) File "/home/sguzzo/miniconda3/envs/py36/lib/python3.6/site-packages/xarray/backends/file_manager.py", line 205, in _acquire_with_cache_info file = self._opener(*self._args, **kwargs) File "src/netCDF4/_netCDF4.pyx", line 2330, in netCDF4._netCDF4.Dataset.__init__ File "src/netCDF4/_netCDF4.pyx", line 1948, in netCDF4._netCDF4._ensure_nc_success OSError: [Errno -45] NetCDF: Not a valid data type or _FillValue type mismatch: b'http://opendap.tudelft.nl/thredds/dodsC/IDRA/2019/10/01/IDRA_2019-10-01_11-00_raw_data.nc' |
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Opening remote file with OpenDAP protocol returns "_FillValue type mismatch" error 1032694511 | |
949880645 | https://github.com/pydata/xarray/issues/5882#issuecomment-949880645 | https://api.github.com/repos/pydata/xarray/issues/5882 | IC_kwDOAMm_X844ngdF | raybellwaves 17162724 | 2021-10-22T18:45:02Z | 2021-10-22T18:45:02Z | CONTRIBUTOR | Seemed ok for me. You could try installing with conda: http://xarray.pydata.org/en/stable/getting-started-guide/installing.html#instructions |
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Opening remote file with OpenDAP protocol returns "_FillValue type mismatch" error 1032694511 |
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