Aggregations don't work after upgrade (5.0 -> 5.1)

Elastic Stack Elasticsearch
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I have a pretty basic Logstash setup putting events into Elastic Search with an index per day. The data being added is already in JSON (Suricata EVE). I don't think it gets a whole lot more basic than this.

I just upgraded from 5.0 to 5.1 and then any query using an aggregation (I use term aggregations) do not return any results. If I delete todays index and restart logstash so the index gets recreated I can then again do aggregations.

Is this expected?

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No, it isn't expected.

Do the aggregations just never return? Do you get shard errors? Is there anything in the logs? Do the mappings look particularly different for the different days?

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