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When comparing two different algorithm implementations (thus, not caring for their absolute, but only relative performance) am I better off forcing Java to only run interpreted code?
That is, would I be better off with the -Xint flag on?
I don’t think you’d be better disabling JIT.
Either you decide to measure the abstract, asymptotical performance (and in this case you definitely want the big-O notation), or you decide to measure the performance of a given implementation on a given machine for given input data.
If you decide to go for the latter, then it would be pointless to disable JIT: what you want is to measure performance in a realistic environment, and in a realistic environment you’d generally have JIT compilation.