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https://github.com/pydata/xarray/issues/2547#issuecomment-436695050 https://api.github.com/repos/pydata/xarray/issues/2547 436695050 MDEyOklzc3VlQ29tbWVudDQzNjY5NTA1MA== 6628425 2018-11-07T16:53:14Z 2018-11-07T16:53:14Z MEMBER

The _FillValue encoding seems to be preserved with your desired value in my example: ``` $ ncdump -h result.nc netcdf result { dimensions: time = 366 ; y = 200 ; x = 200 ; variables: int64 time(time) ; time:units = "days since 2000-01-01 00:00:00" ; time:calendar = "proleptic_gregorian" ; short Rg(time, y, x) ; Rg:_FillValue = -1s ; Rg:long_name = "HWSD sub sum content" ; Rg:units = "percent wt" ; Rg:valid_range = 97., 103. ; double latitude(y, x) ; latitude:_FillValue = -99999. ; double longitude(y, x) ; longitude:_FillValue = -99999. ;

// global attributes: :Conventions = "CF-1.0" ; :content = "HARMONIZED WORLD SOIL DATABASE; first it was aggregated to one global file; then the missing areas were filled with interpolated data; then separate tiles were extracted" ; :scaling_factor = "20" ; ``` Is the time encoding important for your land surface model? That does change in my example (see the units attribute); you might need some special logic to handle that.

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