Fix JIRA issue URI selection for JIRA installs which are not on the domain root

Summary: Fixes T4859. See that for details.

Test Plan:

• Verified things still work on my local (domain root) install.
• Added some unit tests.
• Did not verify a non-root install since I don't have one handy, hopefully @salehe can help.

Reviewers: btrahan

Reviewed By: btrahan

Subscribers: salehe, epriestley

Maniphest Tasks: T4859

Differential Revision: https://secure.phabricator.com/D8836