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arXiv · 2407.13712

Enabling MPI communication within Numba/LLVM JIT-compiled Python code using numba-mpi v1.0

Kacper Derlatka·Maciej Manna·Oleksii Bulenok·David Zwicker·Sylwester Arabas
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Abstract

The numba-mpi package offers access to the Message Passing Interface (MPI) routines from Python code that uses the Numba just-in-time (JIT) compiler. As a result, high-performance and multi-threaded Python code may utilize MPI communication facilities without leaving the JIT-compiled code blocks, which is not possible with the mpi4py package, a higher-level Python interface to MPI. For debugging purposes, numba-mpi retains full functionality of the code even if the JIT compilation is disabled. The numba-mpi API constitutes a thin wrapper around the C API of MPI and is built around Numpy arrays including handling of non-contiguous views over array slices. Project development is hosted at GitHub leveraging the mpi4py/setup-mpi workflow enabling continuous integration tests on Linux (MPICH, OpenMPI & Intel MPI), macOS (MPICH & OpenMPI) and Windows (MS MPI). The paper covers an overview of the package features, architecture and performance. As of v1.0, the following MPI routines are exposed and covered by unit tests: size/rank, [i]send/[i]recv, wait[all|any], test[all|any], allreduce, bcast, barrier, scatter/[all]gather & wtime. The package is implemented in pure Python and depends on numpy, numba and mpi4py (the latter used at initialization and as a source of utility routines only). The performance advantage of using numba-mpi compared to mpi4py is depicted with a simple example, with entirety of the code included in listings discussed in the text. Application of numba-mpi for handling domain decomposition in numerical solvers for partial differential equations is presented using two external packages that depend on numba-mpi: py-pde and PyMPDATA-MPI.

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Kacper Derlatka, Maciej Manna, Oleksii Bulenok, David Zwicker, Sylwester Arabas. 2024-07-01. Enabling MPI communication within Numba/LLVM JIT-compiled Python code using numba-mpi v1.0. https://doi.org/10.1016/j.softx.2024.101897

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