Round Robin Study: Molecular Simulation of Thermodynamic Properties from Models with Internal Degrees of Freedom

Schappals M, Mecklenfeld A, Kroeger L, Botan V, Koester A, Stephan S, Garcia EJ, Rutkai G, Raabe G, Klein P, Leonhard K, et al. (2017)
JOURNAL OF CHEMICAL THEORY AND COMPUTATION 13(9): 4270-4280.

Zeitschriftenaufsatz | Veröffentlicht | Englisch
 
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Autor*in
Schappals, Michael; Mecklenfeld, Andreas; Kroeger, Leif; Botan, Vitalie; Koester, Andreas; Stephan, Simon; Garcia, Edder J.; Rutkai, Gabor; Raabe, Gabriele; Klein, Peter; Leonhard, Kai; Glass, Colin W.
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Abstract / Bemerkung
Thermodynamic properties are often modeled by classical force fields which describe the interactions on the atomistic scale. Molecular simulations are used for retrieving thermodynamic data from such models, and many simulation techniques and computer codes are available for that purpose. In the present round robin study, the following fundamental question is addressed: Will different user groups working with different simulation codes obtain coinciding results within the statistical uncertainty of their data? A set of 24 simple simulation tasks is defined and solved by five user groups working with eight molecular simulation codes: DL_POLY, GROMACS, IMC, LAMMPS, ms2, NAMD, Tinker, and TOWHEE. Each task consists of the definition of (1) a pure fluid that is described by a force field and (2) the conditions under which that property is to be determined. The fluids are four simple alkanes: ethane, propane, n-butane, and iso-butane. All force fields consider internal degrees of freedom: OPLS, TraPPE, and a modified OPLS version with bond stretching vibrations. Density and potential energy are determined as a function of temperature and pressure on a grid which is specified such that all states are liquid. The user groups worked independently and reported their results to a central instance. The full set of results was disclosed to all user groups only at the end of the study. During the study, the central instance gave only qualitative feedback. The results reveal the challenges of carrying out molecular simulations. Several iterations were needed to eliminate gross errors. For most simulation tasks, the remaining deviations between the results of the different groups are acceptable from a practical standpoint, but they are often outside of the statistical errors of the individual simulation data. However, there are also cases where the deviations are unacceptable. This study highlights similarities between computer experiments and laboratory experiments, which are both subject not only to statistical error but also to systematic error.
Erscheinungsjahr
2017
Zeitschriftentitel
JOURNAL OF CHEMICAL THEORY AND COMPUTATION
Band
13
Ausgabe
9
Seite(n)
4270-4280
ISSN
1549-9618
eISSN
1549-9626
Page URI
https://pub.uni-bielefeld.de/record/2914421

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Schappals M, Mecklenfeld A, Kroeger L, et al. Round Robin Study: Molecular Simulation of Thermodynamic Properties from Models with Internal Degrees of Freedom. JOURNAL OF CHEMICAL THEORY AND COMPUTATION. 2017;13(9):4270-4280.
Schappals, M., Mecklenfeld, A., Kroeger, L., Botan, V., Koester, A., Stephan, S., Garcia, E. J., et al. (2017). Round Robin Study: Molecular Simulation of Thermodynamic Properties from Models with Internal Degrees of Freedom. JOURNAL OF CHEMICAL THEORY AND COMPUTATION, 13(9), 4270-4280. doi:10.1021/acs.jctc.7b00489
Schappals, M., Mecklenfeld, A., Kroeger, L., Botan, V., Koester, A., Stephan, S., Garcia, E. J., Rutkai, G., Raabe, G., Klein, P., et al. (2017). Round Robin Study: Molecular Simulation of Thermodynamic Properties from Models with Internal Degrees of Freedom. JOURNAL OF CHEMICAL THEORY AND COMPUTATION 13, 4270-4280.
Schappals, M., et al., 2017. Round Robin Study: Molecular Simulation of Thermodynamic Properties from Models with Internal Degrees of Freedom. JOURNAL OF CHEMICAL THEORY AND COMPUTATION, 13(9), p 4270-4280.
M. Schappals, et al., “Round Robin Study: Molecular Simulation of Thermodynamic Properties from Models with Internal Degrees of Freedom”, JOURNAL OF CHEMICAL THEORY AND COMPUTATION, vol. 13, 2017, pp. 4270-4280.
Schappals, M., Mecklenfeld, A., Kroeger, L., Botan, V., Koester, A., Stephan, S., Garcia, E.J., Rutkai, G., Raabe, G., Klein, P., Leonhard, K., Glass, C.W., Lenhard, J., Vrabec, J., Hasse, H.: Round Robin Study: Molecular Simulation of Thermodynamic Properties from Models with Internal Degrees of Freedom. JOURNAL OF CHEMICAL THEORY AND COMPUTATION. 13, 4270-4280 (2017).
Schappals, Michael, Mecklenfeld, Andreas, Kroeger, Leif, Botan, Vitalie, Koester, Andreas, Stephan, Simon, Garcia, Edder J., Rutkai, Gabor, Raabe, Gabriele, Klein, Peter, Leonhard, Kai, Glass, Colin W., Lenhard, Johannes, Vrabec, Jadran, and Hasse, Hans. “Round Robin Study: Molecular Simulation of Thermodynamic Properties from Models with Internal Degrees of Freedom”. JOURNAL OF CHEMICAL THEORY AND COMPUTATION 13.9 (2017): 4270-4280.

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Best Practices for Quantification of Uncertainty and Sampling Quality in Molecular Simulations [Article v1.0].
Grossfield A, Patrone PN, Roe DR, Schultz AJ, Siderius DW, Zuckerman DM., Living J Comput Mol Sci 1(1), 2018
PMID: 30533602

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