Three parallel algorithms for classical molecular dynamics are presented. The first assigns each processor a fixed subset of atoms; the second assigns each a fixed subset of inter-atomic forces to compute; the third assigns each a fixed spatial region. The algorithms are suitable for molecular dynamics models which can be difficult to parallelize efficiently—those with short-range forces where the neighbors of each atom change rapidly. They can be implemented on any distributed-memory parallel machine which allows for message-passing of data between independently executing processors. The algorithms are tested on a standard Lennard-Jones benchmark problem for system sizes ranging from 500 to 100,000,000 atoms on several parallel supercomputers--the nCUBE 2, Intel iPSC/860 and Paragon, and Cray T3D. Comparing the results to the fastest reported vectorized Cray Y-MP and C90 algorithm shows that the current generation of parallel machines is competitive with conventional vector supercomputers even for small problems. For large problems, the spatial algorithm achieves parallel efficiencies of 90% and a 1840-node Intel Paragon performs up to 165 faster than a single Cray C9O processor. Trade-offs between the three algorithms and guidelines for adapting them to more complex molecular dynamics simulations are also discussed.

Fast parallel algorithms for short-range molecular dynamics

Accelerating the discovery of advanced materials is essential for human welfare and sustainable, clean energy. In this paper, we introduce the Materials Project (www.materialsproject.org), a core program of the Materials Genome Initiative that uses high-throughput computing to uncover the properties of all known inorganic materials. This open dataset can be accessed through multiple channels for both interactive exploration and data mining. The Materials Project also seeks to create open-source platforms for developing robust, sophisticated materials analyses. Future efforts will enable users to perform ‘‘rapid-prototyping’’ of new materials in silico, and provide researchers with new avenues for cost-effective, data-driven materials design. © 2013 Author(s). All article content, except where otherwise noted, is licensed under a Creative Commons Attribution 3.0 Unported License.

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Commentary: The Materials Project: A materials genome approach to accelerating materials innovation

Metal–Organic Frameworks for Separations

Kenji Sumida, David L. Rogow, Jarad A. Mason, Thomas M. McDonald, Eric D. Bloch, Zoey R. Herm, Tae-Hyun Bae, Jeffrey R. Long

Carbon Dioxide Capture in Metal–Organic Frameworks

This critical review will be of interest to the experts in porous solids (including catalysis), but also solid state chemists and physicists. It presents the state-of-the-art on hybrid porous solids, their advantages, their new routes of synthesis, the structural concepts useful for their ‘design’, aiming at reaching very large pores. Their dynamic properties and the possibility of predicting their structure are described. The large tunability of the pore size leads to unprecedented properties and applications. They concern adsorption of species, storage and delivery and the physical properties of the dense phases. (323 references)

Hybrid porous solids: past, present, future

We review the existing simulation data and equations of state for the Lennard-Jones (LJ) fluid, and present new simulation results for both the cut and shifted and the full LJ potential. New parameters for the modified Benedict-Webb-Rubin (MBWR) equation of state used by Nicolas, Gubbins, Streett and Tildesley are presented. In contrast to previous equations, the new equation is accurate for calculations of vapour-liquid equilibria. The equation also accurately correlates pressures and internal energies from the triple point to about 4·5 times the critical temperature over the entire fluid range. An equation of state for the cut and shifted LJ fluid is presented and compared with the simulation data of this work, and previously published Gibbs ensemble data. The MBWR equation of state can be extended to mixtures via the van der Waals one-fluid theory mixing rules. Calculations for binary fluid mixtures are found to be accurate when compared with Gibbs ensemble simulations.

The Lennard-Jones equation of state revisited

We report atomistic simulations for both self- and transport diffusivities of light gases in carbon nanotubes and in two zeolites with comparable pore sizes. We find that transport rates in nanotubes are orders of magnitude faster than in the zeolites we have studied or in any microporous material for which experimental data are available. The exceptionally high transport rates in nanotubes are shown to be a result of the inherent smoothness of the nanotubes. We predict that carbon nanotube membranes will have fluxes that are orders of magnitude greater than crystalline zeolite membranes.

Rapid transport of gases in carbon nanotubes.

Advancement in hydrogen storage techniques represents one of the most important areas of today's materials research. While extensive efforts have been made to the existing techniques, there is no viable storage technology capable of meeting the DOE cost and performance targets at the present time. New materials with significantly improved hydrogen adsorption capability are needed. Microporous metal coordination materials (MMOM) are promising candidates for use as sorbents in hydrogen adsorption. These materials possess physical characteristics similar to those of single-walled carbon nanotubes (SWNTs) but also exhibit a number of improved features. Here, we report a novel MMOM structure and its room-temperature hydrogen adsorption properties.

Microporous metal organic materials: promising candidates as sorbents for hydrogen storage.

The adsorption of hydrogen gas into single-walled carbon nanotubes (SWNTs) and idealized carbon slit pores is studied by computer simulation. Hydrogen-hydrogen interactions are modeled with the Silvera-Goldman potential. The Crowell-Brown potential is used to model the hydrogen-carbon interactions. Calculations include adsorption inside the tubes, in the interstitial regions of tube arrays, and on the outside surface of isolated tubes. Quantum effects are included through implementation of the path integral formalism. Comparison with classical simulations gives an indication of the importance of quantum effects for hydrogen adsorption. Quantum effects are important even at 298 K for adsorption in tube interstices. We compare our simulations with experimental data for SWNTs, graphitic nanofibers, and activated carbon. Adsorption isotherms from simulations are in reasonable agreement with experimental data for activated carbon, but do not confirm the large uptake reported for SWNTs and nanofibers. Although ...

Molecular simulation of hydrogen adsorption in single-walled carbon nanotubes and idealized carbon slit pores

Molecular simulations using standard force fields have been carried out to model the adsorption of various light gases on a number of different metal organic framework-type materials. The results have been compared with the available experimental data to test the validity of the model potentials. We observe good agreement between simulations and experiments for a number of different cases and very poor agreement in other cases. Possible reasons for the discrepancy in simulated and measured isotherms are discussed. We predict hydrogen adsorption isotherms at 77 and 298 K in a number of different metal organic framework materials. The importance of quantum diffraction effects and framework charges on the adsorption of hydrogen at 77 K is discussed. Our calculations indicate that at room temperature none of the materials that we have tested is able to meet the requirements for on-board hydrogen storage for fuel cell vehicles. We have calculated the volume available in a given sorbent at a specified adsorption energy (density of states). We discuss how this density of states can be used to assess the effectiveness of a sorbent material for hydrogen storage.

J. Karl Johnson

Papers

The Lennard-Jones equation of state revisited

Rapid transport of gases in carbon nanotubes.

Microporous metal organic materials: promising candidates as sorbents for hydrogen storage.

Molecular simulation of hydrogen adsorption in single-walled carbon nanotubes and idealized carbon slit pores

Adsorption of Gases in Metal Organic Materials: Comparison of Simulations and Experiments