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  • HDF error when trying to write Dataset read with rasterio to NetCDF · 2 ✖

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id html_url issue_url node_id user created_at updated_at ▲ author_association body reactions performed_via_github_app issue
445939304 https://github.com/pydata/xarray/issues/2535#issuecomment-445939304 https://api.github.com/repos/pydata/xarray/issues/2535 MDEyOklzc3VlQ29tbWVudDQ0NTkzOTMwNA== ghost 10137 2018-12-10T19:23:14Z 2018-12-10T19:23:14Z NONE

It seems that this is not a problem with xarray but only with rasterio and netCDF4. Also this fails: ```python import rasterio import netCDF4

with netCDF4.Dataset('test.nc', mode='w') as ds: ds.createDimension('x') ds.createVariable('foo', float, dimensions=('x')) print(ds) `` Commenting outimport rasterio` removes the HDF error. I’ll report this to rasterio.

 
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   HDF error when trying to write Dataset read with rasterio to NetCDF 376389539
443840119 https://github.com/pydata/xarray/issues/2535#issuecomment-443840119 https://api.github.com/repos/pydata/xarray/issues/2535 MDEyOklzc3VlQ29tbWVudDQ0Mzg0MDExOQ== ghost 10137 2018-12-03T19:33:17Z 2018-12-03T19:33:17Z NONE

I have similar problem, when importing rasterio in the same script (not even using it for anything). This fails with HDF error:

import xarray as xa
import numpy as np
#import netCDF4
import rasterio

ds = xa.Dataset()
ds['z'] = (('y', 'x'), np.zeros((100, 100), np.float32))
print(ds)
ds.to_netcdf('test.nc')
ds.close()

with xa.open_dataset('test.nc') as ds:
    print(ds)

If I import netCDF4 before rasterio it works fine (uncomment line 3). This is probably an issue with rasterio somehow.

I installed everything with pip:

$ pip install Cython
$ pip install netCDF4 xarray rasterio numpy

From pip freeze:

affine==2.2.1
attrs==18.2.0
cftime==1.0.3
Click==7.0
click-plugins==1.0.4
cligj==0.5.0
Cython==0.29.1
netCDF4==1.4.2
numpy==1.15.4
pandas==0.23.4
pyparsing==2.3.0
python-dateutil==2.7.5
pytz==2018.7
rasterio==1.0.11
six==1.11.0
snuggs==1.4.2
xarray==0.11.0

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   HDF error when trying to write Dataset read with rasterio to NetCDF 376389539

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