My current versions of JIRA and Confluence have non-compliant (according to our own internal audit) versions of Tomcat and I want to find out if upgrading JIRA and Confluence will actually remediate this or if I have to manage my own Tomcat container and do the WAR installation route.
I believe the individual product's Supported Platform page is your best bet.
The JIRA one is pretty straight-forward. You can easily navigate through versions of a product using the version selector –
image2016-7-8 10:14:47.png
You could use the Atlassian SDK to quickly download, install, and check each version locally on your computer using the below guide.
https://confluence.atlassian.com/confkb/how-to-determine-your-version-of-tomcat-and-java-331914173.html
Unfortunately, there's no easy way to do this, and no documented list I can find.
Also, for later versions, there is no "WAR installation route"
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