While chasing a 100% cpu usage bug on latest ubuntu with linux kernel 3.0.0-14, ( https://bugs.freenetproject.org/view.php?id=5336 ) Nextgens and myself verified that passing -XX:ThreadPriorityPolicy=42 to the jvm makes thread priorities work even without the NativeThread library. I'll report in a few days if I have observed the busyloop again while running this way.
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