Mark Shannon <m...@hotpy.org> added the comment:

> I assume there's something wrong with the OP's methodology for profiling.

In a word "cProfile".
All cProfile is doing is measuring the overhead of cProfile.

That the overhead of cProfile has gone up is not surprising. That it has gone 
up so much, is a bit surprising.

My advice would be use a sampling profiling like Scalene.

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