This section lists peer-reviewed publications related to HAL’s MD package. Please send suggestions for papers that should be included to firstname.lastname@example.org along with a short description and a graphical illustration (if available).
- MD simulation algorithms
The paper describes the essential MD simulation algorithms and their implementation for the GPU. Please refer to it in all publications based on or linked to HAL’s MD package.
P. H. Colberg and F. Höfling, Highly accelerated simulations of glassy dynamics using GPUs: Caveats on limited floating-point precision, Comput. Phys. Commun. 182, 1120 (2011) [arXiv:0912.3824].
- H5MD format of input and output files
The paper introduces and justifies the H5MD file format and contains its detailed specification as of version 1.0.
P. de Buyl, P. H. Colberg, and F. Höfling, H5MD: a structured, efficient, and portable file format for molecular data, Comput. Phys. Commun. 185, 1546 (2014) [arXiv:1308.6382].
- Mesoscopic structure of liquid–vapour interfaces
At the molecular scale, liquid–vapour interfaces are broadened and roughened by thermally excited capillary waves. These fluctuations give rise to a divergence of the interfacial structure factor at small wave-numbers; the latter being accessible to grazing-incidence small-angle X-ray scattering (GISAXS) experiments. The paper discusses deviations from the classical theory and relies on extensive simulations of planar interfaces using up to 445,000 Lennard-Jones particles. GISAXS intensities are computed on the fly of the simulations.
F. Höfling and S. Dietrich, Enhanced wavelength-dependent surface tension of liquid-vapour interfaces, EPL (Europhys. Lett.) 109, 46002 (2015) [arXiv:1412.0568].