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ES dynamic template functionality is broken in Graylog 1.3 #1624
Since Graylog 1.3, the use of clever dynamic template to specify values type and doc_values is not possible anymore. Since you create the index with your own index template, you prevent anyone to specify any special mapping with a dynamic template.
"thread" should here a string, but it is now a long. Note that also doc_values can not be specified anymore for non analyzed fields.