How to override server.xml for Atlassian SDK?

[Mr. N]

I installed the Atlassian SDK 6.3.12. Now I am developing a plugin for Jira.

And issued with problem, that I can't change the server.xml for tomcat8x (located in target plugin folder). Because every start of atlas-debug or atlas-run this file is overwritten.

How to use custom server.xml?

P.S. motivation: Changing server.xml to handle requests with special characters

[Ted_Epstein]

I am having this problem too. How do we run the SDK Server (Confluence in my case) without performing an entire build, and overwriting server.xml?