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https://github.com/pydata/xarray/issues/1163#issuecomment-267094196 https://api.github.com/repos/pydata/xarray/issues/1163 267094196 MDEyOklzc3VlQ29tbWVudDI2NzA5NDE5Ng== 3217406 2016-12-14T17:13:05Z 2016-12-14T17:13:05Z CONTRIBUTOR

I'm pretty sure that of over many versions of CDO NaNs are not properly handled. For example, all the setmiss* commands have a very hard time with NaN's.

I have been using the encoding option but I find it not very intuitive and kind of cumbersome when there are many variables.

I think you're right that actually putting _FillValue = NaN in the variable attribute might be enough to solve most issues with third parties. If it still does not work, then it would be reasonable to raise this issue with each one of the third parties.

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