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With tens of petaflops supercomputers already in operation and exaflops machines expected to appear within the next 10 years, efficient parallel computational methods are required to take advantage of such extreme-scale machines. In this paper, we present a three-dimensional domain decomposition scheme for enabling large-scale electronic calculations based(More)
The fast Fourier transform (FFT) is undoubtedly an essential primitive that has been applied in various fields of science and engineering. In this paper, we present a decomposition method for parallelization of multi-dimensional FFTs with smallest communication amount for all ranges of the number of processes compared to previously proposed methods. This is(More)
A numerical method to calculate the four-center electron-repulsion integrals for strictly localized pseudoatomic orbital basis sets has been developed. Compared to the conventional Gaussian expansion method, this method has an advantage in the ease of combination with O(N) density functional calculations. Additional mathematical derivations are also(More)
We present a DFT study for the adsorption of single Pt atom and Pt clusters on graphene surface and carbon nanotube. Adsorption of a Pt atom shows a heavy dependence of binding energy on the graphene curvature. The adsorbed Pt atoms tend to form clusters, than to disperse on the graphene surface. The Pt–Pt bond length and the charge transfer from Pt(More)
The fast Fourier transform (FFT) is a primitive kernel in numerous fields of science and engineering. OpenFFT is an open-source parallel package for 3-D FFTs, built on a communication-optimal domain decomposition method for achieving minimal volume of communication. In this paper, we analyze, model, and tune the performance of OpenFFT, paying a particular(More)
To investigate the electronic structure and magnetic properties of manganese oxide clusters, we carried out first-principles electronic structure calculations for small MnO clusters. Among various structural and magnetic configurations of the clusters, the bulklike [111]-antiferromagnetic ordering is found to be favored energetically, while the surface(More)
An efficient method of calculating the natural bond orbitals (NBOs) based on a truncation of the entire density matrix of a whole system is presented for large-scale density functional theory calculations. The method recovers an orbital picture for O(N) electronic structure methods which directly evaluate the density matrix without using Kohn-Sham orbitals,(More)
The fast Fourier transform (FFT) is a fundamental kernel in a wide variety of science and engineering fields from electronic structure calculations to medical imaging. OpenFFT is an open-source package for parallel 3-D FFTs, built on a domain decomposition method with optimal communication for minimizing the volume of communication. However, OpenFFT version(More)
Changes resulting from the publishing process, including peer review, editing, corrections, structural formatting and other quality control mechanisms, may not be reflected in this document. Changes may have been made to this work since it was submitted for publication. A definitive version was subsequently Abstract We propose a new method for the numerical(More)