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There is a directory named "comptest" in user.home being created after jsdt builds, I assume from jsdt unit tests. Its not good to put things in "user.home" during the build (if ever). One option is to change the test to use user.dir instead. But, best way is to use Java's tmp directory ... I forget the exact api call, but should be pretty easy/transparent ... if you can find the test that does it. (It might have been this way for a while ... not sure ... but easy to notice since build server crashed and started with a clean "home" directory.)
Created by org.eclipse.wst.jsdt.core.tests.util.Util
Changed to user.dir