In JIRA, Admin, System Info there is a very useful section that shows the Modified files. However the bin/setenv.sh and conf/server.xml files don't seem to be recorded as modified files at least in JIRA 6.2.x
Atlassian, is that intentional?
I believe JIRA only picks up on modified files under the JIRA-INSTALL/atlasian-jira directory. Changes made to files under JIRA-INSTALL/bin, ../conf, etc. won't be picked up in the list. That said, it's expected that the modified files list wouldn't pick up on setenv.sh and server.xml.
Hope that helps!
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