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New Features of the Open Source Monte Carlo Software Brick-CFCMC: Thermodynamic Integration and Hybrid Trial Moves
[Image: see text] We present several new major features added to the Monte Carlo (MC) simulation code Brick-CFCMC for phase- and reaction equilibria calculations (https://gitlab.com/ETh_TU_Delft/Brick-CFCMC). The first one is thermodynamic integration for the computation of excess chemical potential...
Autores principales: | , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
American Chemical Society
2021
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Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8385706/ https://www.ncbi.nlm.nih.gov/pubmed/34383501 http://dx.doi.org/10.1021/acs.jcim.1c00652 |
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author | Polat, H. Mert Salehi, Hirad S. Hens, Remco Wasik, Dominika O. Rahbari, Ahmadreza de Meyer, Frédérick Houriez, Céline Coquelet, Christophe Calero, Sofia Dubbeldam, David Moultos, Othonas A. Vlugt, Thijs J. H. |
author_facet | Polat, H. Mert Salehi, Hirad S. Hens, Remco Wasik, Dominika O. Rahbari, Ahmadreza de Meyer, Frédérick Houriez, Céline Coquelet, Christophe Calero, Sofia Dubbeldam, David Moultos, Othonas A. Vlugt, Thijs J. H. |
author_sort | Polat, H. Mert |
collection | PubMed |
description | [Image: see text] We present several new major features added to the Monte Carlo (MC) simulation code Brick-CFCMC for phase- and reaction equilibria calculations (https://gitlab.com/ETh_TU_Delft/Brick-CFCMC). The first one is thermodynamic integration for the computation of excess chemical potentials (μ(ex)). For this purpose, we implemented the computation of the ensemble average of the derivative of the potential energy with respect to the scaling factor for intermolecular interactions ([Image: see text]). Efficient bookkeeping is implemented so that the quantity [Image: see text] is updated after every MC trial move with negligible computational cost. We demonstrate the accuracy and reliability of the calculation of μ(ex) for sodium chloride in water. Second, we implemented hybrid MC/MD translation and rotation trial moves to increase the efficiency of sampling of the configuration space. In these trial moves, short Molecular Dynamics (MD) trajectories are performed to collectively displace or rotate all molecules in the system. These trajectories are accepted or rejected based on the total energy drift. The efficiency of these trial moves can be tuned by changing the time step and the trajectory length. The new trial moves are demonstrated using MC simulations of a viscous fluid (deep eutectic solvent). |
format | Online Article Text |
id | pubmed-8385706 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2021 |
publisher | American Chemical Society |
record_format | MEDLINE/PubMed |
spelling | pubmed-83857062021-08-31 New Features of the Open Source Monte Carlo Software Brick-CFCMC: Thermodynamic Integration and Hybrid Trial Moves Polat, H. Mert Salehi, Hirad S. Hens, Remco Wasik, Dominika O. Rahbari, Ahmadreza de Meyer, Frédérick Houriez, Céline Coquelet, Christophe Calero, Sofia Dubbeldam, David Moultos, Othonas A. Vlugt, Thijs J. H. J Chem Inf Model [Image: see text] We present several new major features added to the Monte Carlo (MC) simulation code Brick-CFCMC for phase- and reaction equilibria calculations (https://gitlab.com/ETh_TU_Delft/Brick-CFCMC). The first one is thermodynamic integration for the computation of excess chemical potentials (μ(ex)). For this purpose, we implemented the computation of the ensemble average of the derivative of the potential energy with respect to the scaling factor for intermolecular interactions ([Image: see text]). Efficient bookkeeping is implemented so that the quantity [Image: see text] is updated after every MC trial move with negligible computational cost. We demonstrate the accuracy and reliability of the calculation of μ(ex) for sodium chloride in water. Second, we implemented hybrid MC/MD translation and rotation trial moves to increase the efficiency of sampling of the configuration space. In these trial moves, short Molecular Dynamics (MD) trajectories are performed to collectively displace or rotate all molecules in the system. These trajectories are accepted or rejected based on the total energy drift. The efficiency of these trial moves can be tuned by changing the time step and the trajectory length. The new trial moves are demonstrated using MC simulations of a viscous fluid (deep eutectic solvent). American Chemical Society 2021-08-12 2021-08-23 /pmc/articles/PMC8385706/ /pubmed/34383501 http://dx.doi.org/10.1021/acs.jcim.1c00652 Text en © 2021 The Authors. Published by American Chemical Society https://creativecommons.org/licenses/by-nc-nd/4.0/Permits non-commercial access and re-use, provided that author attribution and integrity are maintained; but does not permit creation of adaptations or other derivative works (https://creativecommons.org/licenses/by-nc-nd/4.0/). |
spellingShingle | Polat, H. Mert Salehi, Hirad S. Hens, Remco Wasik, Dominika O. Rahbari, Ahmadreza de Meyer, Frédérick Houriez, Céline Coquelet, Christophe Calero, Sofia Dubbeldam, David Moultos, Othonas A. Vlugt, Thijs J. H. New Features of the Open Source Monte Carlo Software Brick-CFCMC: Thermodynamic Integration and Hybrid Trial Moves |
title | New Features of the Open Source Monte Carlo Software
Brick-CFCMC: Thermodynamic Integration and Hybrid Trial Moves |
title_full | New Features of the Open Source Monte Carlo Software
Brick-CFCMC: Thermodynamic Integration and Hybrid Trial Moves |
title_fullStr | New Features of the Open Source Monte Carlo Software
Brick-CFCMC: Thermodynamic Integration and Hybrid Trial Moves |
title_full_unstemmed | New Features of the Open Source Monte Carlo Software
Brick-CFCMC: Thermodynamic Integration and Hybrid Trial Moves |
title_short | New Features of the Open Source Monte Carlo Software
Brick-CFCMC: Thermodynamic Integration and Hybrid Trial Moves |
title_sort | new features of the open source monte carlo software
brick-cfcmc: thermodynamic integration and hybrid trial moves |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8385706/ https://www.ncbi.nlm.nih.gov/pubmed/34383501 http://dx.doi.org/10.1021/acs.jcim.1c00652 |
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