Abstract
A recently proposed method for accelerating current molecular dynamics algorithms, used for the simulation of classical particles at finite temperatures, is reviewed (Mazzola and Sorella, Phys Rev Lett 118:015703, 2017). This method is based on an efficient implementation of a first- order Langevin dynamics modified in a way to reduce the autocorrelation times and the time step error for the integration of the stochastic equations of motion. This work represents an improvement upon previously known algorithms that, on one hand, are too much simplified to be used in realistic simulations and, on the other hand, are too much complicated and computationally demanding for their practical implementations. The details of the method are presented with few applications to standard test cases on Lennard-Jones models at various temperatures. In particular it is shown that this technique represents an ideal tool for ab initio molecular dynamics, when the Born-Oppenheimer energy surface is estimated by computationally demanding methods, such as, for instance, the quantum Monte Carlo stochastic approach.
References
Allen M, Tildesley D (1987) Computer simulation of liquids. Oxford University Press, Oxford
Attaccalite C, Sorella S (2008) Stable liquid hydrogen at high pressure by a novel ab initio molecular-dynamics calculation. Phys Rev Lett 100:114501. https://doi.org/10.1103/PhysRevLett.100.114501
Bennett CH (1975) Mass tensor molecular dynamics. J Comput Phys 19:267
Ceriotti M, Bussi G, Parrinello M (2009) Langevin equation with colored noise for constant-temperature molecular dynamics simulations. Phys Rev Lett 102(2):20601
Ceriotti M, Parrinello M, Markland TE, Manolopoulos DE (2010) Efficient stochastic thermostatting of path integral molecular dynamics. J Chem Phys 133:124104
Dawson W, Gygi F (2018) Equilibration and analysis of first-principles molecular dynamics simulations of water. J Chem Phys 148(12):124501. https://doi.org/10.1063/1.5018116
Dykstra CE, Frenking G, Kim KS, Scuseria G (2005) Theory and applications of computational chemistry: the first forty years. Elsevier, Amsterdam
Foulkes WMC, Mitas L, Needs RJ, Rajagopal G (2001) Quantum monte carlo simulations of solids. Rev Mod Phys 73(1):33–83. https://doi.org/10.1103/RevModPhys.73.33
Grossman JC, Schwegler E, Draeger EW, Gygi F, Galli G (2004) Towards an assessment of the accuracy of density functional theory for first principles simulations of water. J Chem Phys 120:300
Kohn W, Sham LJ (1965) Self-consistent equations including exchange and correlation effects. Phys Rev 140(4A):A1133–A1138. https://doi.org/10.1103/PhysRev.140.A1133
Kühne TD, Krack M, Parrinello M (2009) Static and dynamical properties of liquid water from first principles by a novel car-parrinello-like approach. J Chem Theory Comput 5(2):235–241. https://doi.org/10.1021/ct800417q
Loubeyre P, LeToullec R, Hausermann D, Hanfland M, Hemley RJ, Mao HK, Finger LW (1996) X-ray diffraction and equation of state of hydrogen at megabar pressures. Nature 383:702 EP –. https://doi.org/10.1038/383702a0
Luo Y, Zen A, Sorella S (2014) Abinitio molecular dynamics with noisy forces: validating the quantum monte carlo approach with benchmark calculations of molecular vibrational properties. J Chem Phys 141(19):194112. https://doi.org/10.1063/1.4901430
Mazzola G, Sorella S (2017) Accelerating ab initio molecular dynamics and probing the weak dispersive forces in dense liquid hydrogen. Phys Rev Lett 118:015703. https://doi.org/10.1103/PhysRevLett.118.015703
Mazzola G, Zen A, Sorella S (2012) Finite-temperature electronic simulations without the born-oppenheimer constraint. J Chem Phys 137(13):134112. https://doi.org/10.1063/1.4755992
Mazzola G, Yunoki S, Sorella S (2014) Unexpectedly high pressure for molecular dissociation in liquid hydrogen by electronic simulation. Nat Commun 5:3487. https://doi.org/10.1038/ncomms4487
Mazzola G, Helled R, Sorella S (2018) Phase diagram of hydrogen and a hydrogen-helium mixture at planetary conditions by quantum monte carlo simulations. Phys Rev Lett 120:025701. https://doi.org/10.1103/PhysRevLett.120.025701
Mouhat F, Sorella S, Vuilleumier R, Saitta AM, Casula M (2017) Fully quantum description of the zundel ion: combining variational quantum monte carlo with path integral langevin dynamics. J Chem Theory Comput 13(6):2400–2417. pMID: 28441484. https://doi.org/10.1021/acs.jctc.7b00017
Parisi G (1984) Progress in Gauge field theory. NATO ASI series. Springer, Boston
Risken H (1996) The Fokker-Planck equation: methods of solution and applications. Springer, Berlin
Scheraga HA, Khalili M, Liwo A (2007) Protein-folding dynamics: overview of molecular simulation techniques. Annu Rev Phys Chem 58:57–83
Sorella S, Seki K, Brovko OO, Shirakawa T, Miyakoshi S, Yunoki S, Tosatti E (2018) Structural dimerization, electron correlations, and topological gap opening in isotropically strained graphene. ArXiv e-prints 1804.04479
Tassone F, Mauri F, Car R (1994) Acceleration schemes for ab initio molecular-dynamics simulations and electronic structure calculations. Phys Rev B 50:10561
Tsuchida E (2015) Ab initio mass tensor molecular dynamics. J Chem Phys 134:044112
Tuckerman M (2010) Statistical mechanics: theory and molecular simulation. Oxford University Press, Oxford
Tuckerman ME, Berne BJ, Martyna GJ, Klein ML (1993) Efficient molecular dynamics and hybrid monte carlo algorithms for path integrals. J Chem Phys 99(4):2796–2808
Varsano D, Sorella S, Sangalli D, Barborini M, Corni S, Molinari E, Rontani M (2017) Carbon nanotubes as excitonic insulators. arXiv preprint arXiv:170309235
Zen A, Luo Y, Mazzola G, Guidoni L, Sorella S (2015) Ab initio molecular dynamics simulation of liquid water by quantum monte carlo. J Chem Phys 142(14):144111
Acknowledgements
Computational resources were provided by AICS projects hp170308 and hp170328 and PRACE project PRA15 3936.
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Mazzola, G., Sorella, S. (2018). Accelerated Molecular Dynamics for Ab Initio Electronic Simulations. In: Andreoni, W., Yip, S. (eds) Handbook of Materials Modeling . Springer, Cham. https://doi.org/10.1007/978-3-319-42913-7_46-1
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DOI: https://doi.org/10.1007/978-3-319-42913-7_46-1
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Accelerated Molecular Dynamics for Ab Initio Electronic Simulations- Published:
- 19 April 2019
DOI: https://doi.org/10.1007/978-3-319-42913-7_46-2
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Accelerated Molecular Dynamics for Ab Initio Electronic Simulations- Published:
- 10 August 2018
DOI: https://doi.org/10.1007/978-3-319-42913-7_46-1