Exploiting graphical processing units to enable quantum chemistry calculation of large solvated molecules with conductor-like polarizable continuum models
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TJM-v6_OA.pdf
Size
4.42 MB
Format
Adobe PDF
Checksum (MD5)
9072d02956d7ecaaacd7fbe1d23c07b0
Author(s)
Liu, Fang
Sanchez, David M.
Kulik, Heather Janine
Martínez, Todd J.
Date Issued
October 2018
Journal
International Journal of Quantum Chemistry
Publisher
Wiley
Citation
Liu, Fang et al. "Exploiting graphical processing units to enable quantum chemistry calculation of large solvated molecules with conductor‐like polarizable continuum models." International Journal of Quantum Chemistry 119, 1 (January 2019): e25760 © 2018 Wiley
Version
Author's final manuscript
Abstract
The conductor‐like polarizable continuum model (C‐PCM) with switching/Gaussian smooth discretization is a widely used implicit solvation model in quantum chemistry. We have previously implemented C‐PCM solvation for Hartree‐Fock (HF) and density functional theory (DFT) on graphical processing units (GPUs), enabling the quantum mechanical treatment of large solvated biomolecules. Here, we first propose a GPU‐based algorithm for the PCM conjugate gradient linear solver that greatly improves the performance for very large molecules. The overhead for PCM‐related evaluations now consumes less than 15% of the total runtime for DFT calculations on large molecules. Second, we demonstrate that our algorithms tailored for ground state C‐PCM are transferable to excited state properties. Using a single GPU, our method evaluates the analytic gradient of the linear response PCM time‐dependent density functional theory energy up to 80× faster than a conventional central processing unit (CPU)‐based implementation. In addition, our C‐PCM algorithms are transferable to other methods that require electrostatic potential (ESP) evaluations. For example, we achieve speed‐ups of up to 130× for restricted ESP‐based atomic charge evaluations, when compared to CPU‐based codes. We also summarize and compare the different PCM cavity discretization schemes used in some popular quantum chemistry packages as a reference for both users and developers.
MIT Department
Massachusetts Institute of Technology. Department of Chemical Engineering
Terms of Use
Creative Commons Attribution-Noncommercial-Share Alike
Persistent DSpace Link
DOI of Published Version
https://doi.org/10.1002/qua.25760
