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https://github.com/pydata/xarray/issues/1533#issuecomment-537518889 https://api.github.com/repos/pydata/xarray/issues/1533 537518889 MDEyOklzc3VlQ29tbWVudDUzNzUxODg4OQ== 2448579 2019-10-02T14:28:01Z 2019-10-02T14:28:01Z MEMBER

Nice example!

I tracked this down to 1. as_variable being called when extracting the index. This seems sensible. https://github.com/pydata/xarray/blob/21705e61503fb49f000186c0d556e5623bd5ac82/xarray/core/merge.py#L413-L420 2. as_variable being called again in the expand_variable_dicts call in merge_core (should be avoided): https://github.com/pydata/xarray/blob/21705e61503fb49f000186c0d556e5623bd5ac82/xarray/core/merge.py#L493-L497

We need to replace the appropriate objects in aligned with IndexVariables from indexes if indexes is not None.

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