I have recently updated to HTTPS for my JIRA instance and need to update the application links to reflect the change. I want to know how to edit the application links, do I need to go to the database and do this if so where? Or just delete them and recreate them? Will I get locked out as JIRA is my user db or will the project links break in bamboo, like it warns me now?
You should be able to add or edit application links from JIRA: https://confluence.atlassian.com/jira060/adding-an-application-link-370705802.html. No need to do any direct db changes. I am not sure about bamboo project links and was not able to google info concerning it. I guess that they should be fine once you adjust the link.
I warmly recommend keeping a "backdoor" open, in case you do lose access to it. An user hosted in the internal directory with admin privilegies have saved me a few times doing similar things with confluence, using a JIRA user directory.
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