Documentation for JIRA 4.0. Documentation for other versions of JIRA is available too. 
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Certain operations in JIRA can take quite some time to do. These operations include:
The duration of each operation depends on the number of issues it has to work on. We will be looking at improving the performance of these operations in JIRA in the next few months.
If you need to delete a large project, change project's workflow scheme (or activate workflow), or run the integrity checker, please do so during times when JIRA is not being heavily used.
With Bulk Operations, please either perform these during off-peak periods or choose to work with smaller sets of issues.