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After some testing I found that my physics simulation was taking about 120ms each step, after removing the trace() methods, it went down to about 1ms

I had about 12 of them in the whole physics step from start to finish for debugging reasons. Also they were tracing things like array.size() or list.get(0).myParameter, etc.

If i use trace("start") as an example, just a primitive String it only takes 1ms or less, but trace(object) seems to take very long. Can you please confirm if this is true?

Thanks.

Maybe it depends on the object itself.
When you pass an object the .toString() method of that obj is invoked. I suspect that's where most of the time is spent. The trace() method uses log4j to log data, which is not that expensive in terms of cpu time.

Cheers