Abstract
AbstractThis essay traces the history of early molecular dynamics simulations, specifically exploring the development of SHAKE, a constraint-based technique devised in 1976 by Jean-Paul Ryckaert, Giovanni Ciccotti and the late Herman Berendsen at CECAM (Centre Européen de Calcul Atomique et Moléculaire). The work of the three scientists proved to be instrumental in giving impetus to the MD simulation of complex polymer systems and it currently underpins the work of thousands of researchers worldwide who are engaged in computational physics, chemistry and biology. Despite its impact and its role in bringing different scientific fields together, accurate historical studies on the birth of SHAKE are virtually absent. By collecting and elaborating on the accounts of Ryckaert and Ciccotti, this essay aims to fill this gap, while also commenting on the conceptual and computational difficulties faced by its developers.
Publisher
Springer Science and Business Media LLC
Subject
History and Philosophy of Science,Mathematics (miscellaneous)
Reference84 articles.
1. Alder, Berni J., and Thomas E. Wainwright. 1957. Phase transition for a hard sphere system. Journal of Computational Physics 27 (5): 1208–1209.
2. Alder, Berni J., and Thomas E. Wainwright. 1958. Molecular dynamics by electronic computers. In Proceedings of the international symposium on transport processes in statistical mechanics, held in Brussels, August 27–31, 1956, ed. Ilya Prigogine, 97–131. New York: Interscience Publisher.
3. Allen, Michael P., and Dominic J. Tildesley. 2017 [1987]. Computer simulation of liquids. New York: Oxford University Press.
4. Andersen, Hans C. 1983. Rattle: A “velocity” version of the shake algorithm for molecular dynamics calculations. Journal of Computational Physics 52 (1): 24–34.
5. Barker, John A., and Douglas Henderson. 1967a. Perturbation theory and equation of state for fluids: The square-well potential. The Journal of Chemical Physics 47 (8): 2856–2861.
Cited by
1 articles.
订阅此论文施引文献
订阅此论文施引文献,注册后可以免费订阅5篇论文的施引文献,订阅后可以查看论文全部施引文献