MoSDeF-GOMC: Python Software for the Creation of Scientific Workflows for the Monte Carlo Simulation Engine GOMC
Brad Crawford, Umesh Timalsina, Co D. Quach, Nicholas C. Craven, Justin Gilmer, Clare McCabe, Peter T. Cummings, Jeffrey J. Potoff
Abstract
MoSDeF-GOMC is a python interface for the Monte Carlo software GOMC to the Molecular Simulation Design Framework (MoSDeF) ecosystem. MoSDeF-GOMC automates the process of generating initial coordinates, assigning force field parameters, and writing coordinate (PDB), connectivity (PSF), force field parameter, and simulation control files. The software lowers entry barriers for novice users while allowing advanced users to create complex workflows that encapsulate simulation setup, execution, and data analysis in a single script. All relevant simulation parameters are encoded within the workflow, ensuring reproducible simulations. MoSDeF-GOMC’s capabilities are illustrated through a number of examples, including prediction of the adsorption isotherm for CO 2 in IRMOF-1, free energies of hydration for neon and radon over a broad temperature range, and the vapor–liquid coexistence curve of a four-component surrogate for the jet fuel S-8. The MoSDeF-GOMC software is available on GitHub at https://github.com/GOMC-WSU/MoSDeF-GOMC .