Part of Proceedings of Machine Learning and Systems 2 (MLSys 2020)
Alexey Radul, Brian Patton, Dougal Maclaurin, Matthew Hoffman, Rif A. Saurous
We present a general approach to batching arbitrary computations for accelerators such as GPUs. We show orders-of-magnitude speedups using our method on the No U-Turn Sampler (NUTS), a workhorse algorithm in Bayesian statistics. The central challenge of batching NUTS and other Markov chain Monte Carlo algorithms is data-dependent control flow and recursion. We overcome this by mechanically transforming a single-example implementation into a form that explicitly tracks the current program point for each batch member, and only steps forward those in the same place. We present two different batching algorithms: a simpler, previously published one that inherits recursion from the host Python, and a more complex, novel one that implemenents recursion directly and can batch across it. We implement these batching methods as a general program transformation on Python source. Both the batching system and the NUTS implementation presented here are available as part of the popular TensorFlow Probability software package.