If you are a master user with responsibility for verifying source files in a multiuser environment, you will almost always want to drop database indexes to improve verification performance. You will be prompted to drop indexes when you verify the application, or you can drop indexes at a time of your own choosing by selecting Prepare > Drop Repository Indexes.
When you drop indexes, you are prompted to restore the indexes when you analyze the files. If you want to restore indexes at a time of your own choosing, choose Prepare > Restore Repository Indexes.