For our jira instance, we have more than 310,000 issues. And every time it took us more than one hour to fully re-indexing from Administrator page. Unfortunately, our jira application had to out of service for same time. That's painful for our users.
We are about to set up re-indexing plugin which can use IssueIndexManager.reIndexAll(). Good thing is we can do it silently, without any maintenance window. But I am not sure what's the potential impact if we did this way.
Please kindly advise!
I'd be interested in knowing why you have to force a re-index every night, what version of Jira are you using?
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