high performance computing on graphics processing units: hgpu.org

The present work has been motivated by the continuous growth of General Purpose Graphic Processor Unit (GPGPU) technologies as well as the necessity of linking usability with multiscale materials processing and design. The inverse problem of determining the phenomenological interparticle Lenard-Jones potential governing the fracture dynamics of a two dimensional structure under tension, is used […]

FEAST (Finite Element Analysis & Solutions Tools) is a Finite Element based solver toolkit for the simulation of PDE problems on parallel HPC systems which implements the concept of “hardware-oriented numerics”, a holistic approach aiming at optimal performance for modern numerics. In this paper, we describe this concept and the modular design which enables applications […]

Fast, robust and efficient multigrid solvers are a key numerical tool in the solution of partial differential equations discretised with finite elements. The vast majority of practical simulation scenarios requires that the underlying grid is unstructured, and that high-order discretisations are used. On the other hand, hardware is quickly evolving towards parallelism and heterogeneity, even […]

We present different kernels based on Lattice-Boltzmann methods for the solution of the two-dimensional Shallow Water and Navier-Stokes equations on fully structured lattices. The functionality ranges from simple scenarios like open-channel flows with planar beds to simulations with complex scene geometries like solid obstacles and non-planar bed topography with dry-states and even interaction of the […]

We present an efficient method for the simulation of laminar fluid flows with free surfaces including their interaction with moving rigid bodies, based on the two-dimensional shallow water equations and the Lattice-Boltzmann method. Our implementation targets multiple fundamentally different architectures such as commodity multicore CPUs with SSE, GPUs, the Cell BE and clusters. We show […]

We present a software approach to hardware-oriented numerics which builds upon an augmented, previously published open-source set of libraries facilitating portable code development and optimisation on a wide range of modern computer architectures. In order to maximise efficiency, we exploit all levels of parallelism, including vectorisation within CPU cores, the Cell BE and GPUs, shared […]

Molecular dynamics simulations are known to run for many days or weeks before completion. In this paper we explore the use of GPUs to accelerate a Lennard-Jones-based molecular dynamics simulation of up to 27000 atoms. We demonstrate speedups that exceed 100x on commodity Nvidia GPUs and discuss the strategies that allow for such exceptional speedups. […]

A fast and accurate method for Generalized Harmonic Analysis is proposed. The proposed method estimates the parameters of a sinusoid and subtracts it from a target signal one by one. The frequency of the sinusoid is estimated around a peak of Fourier spectrum using binary search. The binary search can control the trade-off between the […]

Petascale computing will allow astrophysicists to investigate astrophysical objects, systems, and events that cannot be studied by current observational means and that were previously excluded from computational study by sheer lack of CPU power and appropriate codes. Here we present a pragmatic case study, focussing on the simulation of gamma-ray bursts as a science driver […]

I describe the implementation of a finite-differencing code for solving Einstein’s field equations on a GPU, and measure speed-ups compared to a serial code on a CPU for different parallelization and caching schemes. Using the most efficient scheme, the (single precision) GPU code on an NVIDIA Quadro FX 5600 is shown to be up to […]

Astronomy is entering a new era of discovery, coincident with the establishment of new facilities for observation and simulation that will routinely generate petabytes of data. While an increasing reliance on automated data analysis is anticipated, a critical role will remain for visualization-based knowledge discovery. We have investigated scientific visualization applications in astronomy through an […]

In this paper, we introduce Bothnia, an extension to the Intel production graphics driver to support a shared virtual memory heterogeneous multithreading programming model. With Bothnia, the Intel graphics device driver can support both the traditional 3D graphics rendering software stack and a new class of heterogeneous multithreaded applications, which can use both IA (Intel […]