OpenMM-Python-Force: Deploying Accelerated Python Modules in Molecular Dynamics Simulation

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Bibliografski detalji
Izdano u:	arXiv.org (Dec 24, 2024), p. n/a
Glavni autor:	Wang, Zhi
Daljnji autori:	Wen, Yan
Izdano:	Cornell University Library, arXiv.org
Teme:	Python Source code Modules Data exchange Molecular dynamics Tensors
Online pristup:	Citation/Abstract Full text outside of ProQuest
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Opis
Sažetak:	We present OpenMM-Python-Force, a plugin designed to extend OpenMM's functionality by enabling integration of energy and force calculations from external Python programs via a callback mechanism. During molecular dynamics simulations, data exchange can be implemented through torch.Tensor or numpy.ndarray, depending on the specific use case. This enhancement significantly expands OpenMM's capabilities, facilitating seamless integration of accelerated Python modules within molecular dynamics simulations. This approach represents a general solution that can be adapted to other molecular dynamics engines beyond OpenMM. The source code is openly available at https://github.com/bytedance/OpenMM-Python-Force.
ISSN:	2331-8422
Izvor:	Engineering Database